Citrus Sinensis ID: 001613

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Local Sequence Feature Prediction

Residue Number Marker
--------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----
Protein Sequence
MNCSYSSYTAAPSVTDLETTLIINSLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDISGTCEALLSMVDDNSNTERICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQESKHEHQARLGAKIPDERTMEQIISRNAKEEIQTKKITEEMPCRRVTEEATAEKSWAGRLLYGQPKTSSNESQAYLVESFEEKSMPKWLRTFKKWLPRFLKDVYRHPLEGKYALSSLKTDFKAVCGLELDHASLGYSKLSDFLRTLPDLCHVKAGPIGKNGSPNHMVLVPSPPKQKWGALQLSKNGNPSSPVNSASDSNECDRNDSKSPQDLRSVSISSTIERKPTNEVPKGSSSQRDTSTSAISASKKVIDYSTIFSSSKPGLSSSKGNDGGSGGKDNEKGKGLENSKGKNPRPPEDHLVLRWLKGHNNSLFLREYDFSHEYNSCFKQKICFRCKKEEMQWANNPCQHLLWCNVCKRETIEAAAGSEHLCVICDKKVEDIMLISNPEEFPPLSPSDTLQ
Secondary Structure (PSIPRED)
cccccccccccccccccccHHHHHHHHHcccHHHHHHHHHccccccccccccccccccHHHHHHHHcccHHHHHHHHHcccccccccccccccccccHHHHHHHHccHHHHHHHHHccccccccccccccccHHHHHHHcccHHHHHccccccccHHHHHHHcccHHHHHHHHHccccccHHHHHHHHcccHHHHHHHHHHHHccccccccHHccccccccccccHHHHHHHHHHHHcccHHHcHHHHccccHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHccHHHHHHHHHcccccccccccccccccHHHHHHHcccccccccccHHHHHHHHHcccccccccccccHHHHHHHHcccHHHHHHHHHcccccccccccccccHHHHHHHcccHHHHHHHHHccccccccccccccHHHHHHHHcHHHHHHHHHHccccccccccccccHHHHHHHcccccHHHHHHccccccccccccccccHHHHHHHHHHcccHHHHHHHHHccccccccccccccHHHHHHHcccccEEEccccccccccHHHHHHHHcccccEEEEEccccccccccccccEEEEEccHHHHHHHHHHHccccccccEEEEcccccHHHHHHHHccHHHHHHHHHHHHHHcccccccccHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHcccccccccccccccccHHHcccccccHHHHHHHHHHccHHHHHHHcccccccccccccccccHHHcccccccccccccHHHHHHHHccccccccEEcccccccccEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHcccccccEEEccccccccccccccEEEEEccccHHHcccccccEEEccccHHHHHHHHcccccEEEEEcccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHcccccccccccccccHHHHHHHcccHHHHHHHHHccccccccEEcccccccccHHHHHHHcccHHHHHHHHHccccEcccccccccccHHHHHHHcccccEEEccccccHHHHHHHcccHHHHHHHHHccccccHcccccccccccccccHHHHHHHcccHHHHHHHHHccccccccccccccHHHHHHHHHcccHHHHHHHHHccccccHHHHHHHcccHHHHHHHHHHccccccHHHcccccccHHHHHHHcccHHHHHHHHHcccccccccccccccccHHHHHHHcccHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHcccHHHHHHcHHcccccccccccccccHHHHHHHcccHHHHHHHHHccccccccccccccHHHHHHHcccHHHHHHHHHccccccccccccccHHHHHccccHHHHHHHHHccccccHHHHHHcccHHHHHHHcccccccHcccccHHHHHHHcccHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHccccHHHHHHcccccccHHHEEEEEEEEEccHHHHHHHHcccccEEccEEcEEEEcccccccHHHHHHHHHHcccHHHHccccccccccccccHHHHHHHHHHHHHHHHHHHcccEEEEEccccccccEEEccccccccccccHHHHHHcccccccccccHHHHHHHHHcHHHHHHHHHHHcccccccccccHHHHHHHcccccccccccccHHHHHHHcccccEEEEEEcccccccccEEEccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHccccccccccccccEcccccccccccccccccccccccccccEEcccccccccccccccccccccccccccccccccHHHHHHHHHHccHHHHHHcHHHHHHHHHHcccEEEcccHHHHHHccccccEEcccHHHHHHHHHHHHccccEEEEcHHEEEEEEEcccccccccccccccc
Coil and Loop (DISEMBL)
mncsyssytaapsvtdlETTLIINSLLEDDKKQLINVSKRhfidnsldnaDQQTAIVTKLLRVSCIFDSVscatslvngdlgpVALVNEVeessgmtalHLAAESHTARCVELLLKKRArtdirskdgrrllplelslsssrmdviwnpdeysvEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLhdsdlgakekTTIYECVIREALALGRATKLQRavkrnstpttsqsAEKRKLLLLEIELLQLFGAvangsctdkkvgpplilatqagDEDVIEILLKSknidindadadadgnsALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRkepdcinlktimMETPLFFAVKNDHMVCAEVLLRWGANSEVLNlrrerpidfakSQDMRFLLKAANTCHTNLAFLNQekqnaslesdediSGTCEALLSMvddnsntericsgtkiEVCKyyeshsgcirgskcfyalgeeqhrkmnpgmcmihastqefkskifvgglpffldsdslggyfekhfgpiedARVAEFQtekqsvsrgfgfvtfKHEKSAAAAVQARFVTIMGKeveiksavPKEVLFAELQKQSAQQQESKHEHQArlgakipdertMEQIISRNAKEEIqtkkiteempcrrvteEATAEKswagrllygqpktssnesQAYLVESFEEKSMPKWLRTFKKWLPRFLKdvyrhplegkyalssLKTDFKAVCgleldhaslgysKLSDFLRtlpdlchvkagpigkngspnhmvlvpsppkqkwgalqlskngnpsspvnsasdsnecdrndskspqdlrsvsisstierkptnevpkgsssqrdtstsaisaskkvidystifssskpglssskgndggsggkdnekgkglenskgknprppedhLVLRWLKghnnslflreydfsheynscfkqKICFRCKKEemqwannpcqhllwcnvckretieaaagsehLCVICDKKVEDImlisnpeefpplspsdtlq
Flexible Loop (DISEMBL)
mncsyssytaapsvtdLETTLIINSLLEDDKKQLINVSKRhfidnsldnadQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKkrartdirskdgrrllplelslsssrmdviWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILvlhdsdlgakekTTIYECVIREALAlgratklqravkrnstpttsqsaekRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDISGTCEALLsmvddnsnteriCSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQESKHehqarlgakipdertmEQIISrnakeeiqtkkiteempcrrvteeataekswagrllygqpktssnESQAYLVEsfeeksmpkWLRTFKKWLPRFLKDVYRHPLEGKYALSSLKTDFKAVCGLELDHASLGYSKLSDFLRTLPDLCHVKAGPIGKNGSPNHMVLVPSPPKQKWGALQLSKNGNPSSPVNSASdsnecdrndskspqdlrsvsisstierkptnevpkgsssqrdtstsaisaskkvidYSTIfssskpglssskgndggsggkdnekgkglenskgknprppeDHLVLRWLKGHNNSLFLREYDFSHEYNSCFKQKICFRCKKEEMQWANNPCQHLLWCNVCKRETIEAAAGSEHLCVICDKKVEDIMLIsnpeefpplspsdtlq
Low Complexity Region (SEG)
MNCSYSSYTAAPSVTDLETTLIINSLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGrrllplelslsssrMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANavggrivalaallivaaDKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKlllleiellqlFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKnidindadadadGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDISGTCEALLSMVDDNSNTERICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQESKHEHQARLGAKIPDERTMEQIISRNAkeeiqtkkiteeMPCRRVTEEATAEKSWAGRLLYGQPKTSSNESQAYLVESFEEKSMPKWLRTFKKWLPRFLKDVYRHPLEGKYALSSLKTDFKAVCGLELDHASLGYSKLSDFLRTLPDLCHVKAGPIGKNGSPNHMVLVPSPPKQKWGALQLSKNGNPSSPVNSASDSNECDRNDSKSPQDLRSVSISSTIERKPTNEVPKGSSSQRDTSTSAISASKKVIDYSTIFssskpglssskgndggsggkdnekgkgLENSKGKNPRPPEDHLVLRWLKGHNNSLFLREYDFSHEYNSCFKQKICFRCKKEEMQWANNPCQHLLWCNVCKRETIEAAAGSEHLCVICDKKVEDIMLISNPEEFPPLSPSDTLQ
Disordered region (IsUnstruct)
************SVTDLETTLIINSLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDI******RLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKL*******************KLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHTNLAFLN****************TCEALLSMVDDNSNTERICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKEVLFA********************************************************************RLL**************LV**F***SMPKWLRTFKKWLPRFLKDVYRHPLEGKYALSSLKTDFKAVCGLELDHASLGYSKLSDFLRTLPDLCHVKAGPI*********************************************************************************************************************************************HLVLRWLKGHNNSLFLREYDFSHEYNSCFKQKICFRCKKEEMQWANNPCQHLLWCNVCKRETIEAAAGSEHLCVICDKKVEDIMLI****************
Disordered Region (DISOPRED)
*NCSYSSYTAAPSVTDLETTLIINSLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDISGTCEALLSMVDDNSNTERICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTE*QSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKE*****************************************************************************************LVESFEEKSMPKWLRTFKKWLPRFLKDVYRHPLEGKYALSSLKTDFKAVCGLELDHASLGYSKLSDFLRTLPDLCHVKAGPIGKNGSPNHMVLVPS******************************************************************************VIDYSTIFSSS****************************************VLRWLKGHNNSLFLREYDFSHEYNSCFKQKICFRCKKEEMQWANNPCQHLLWCNVCKRETIEAAAGSEHLCVICDKKVEDIMLISNPEEFPPLS******
Disordered Region (DISEMBL)
*********AAPSVTDLETTLIINSLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATK*****************EKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHTNLAFLNQEKQ*********ISGTCEALLSMVDDNSNTERICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKEVLFAE******************LGAKIPDERTMEQIISRNAKEEIQTKKITEEMPCRRVTEEATAEKSWAGRLLYGQ********QAYLVESFEEKSMPKWLRTFKKWLPRFLKDVYRHPLEGKYALSSLKTDFKAVCGLELDHASLGYSKLSDFLRTLPDLCHVKAGPIGKNGSPNHMVLVPSPPKQKWGALQLSKN*****************************VSISSTIER*********************SASKKVIDYSTIFSS********************EKGKG***********PEDHLVLRWLKGHNNSLFLREYDFSHEYNSCFKQKICFRCKKEEMQWANNPCQHLLWCNVCKRETIEAAAGSEHLCVICDKKVEDIMLISNPEEF**********
Disordered Region (DISPRO)
****YSSYTAAPSVTDLETTLIINSLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDISGTCEALLSMVDDNSNTERICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQESKHEHQARLGAKIPDERTMEQIISRNAKEEIQTKKITEEMPCRRVTEEATAEKSWAGRLLYGQPKTSSNESQAYLVESFEEKSMPKWLRTFKKWLPRFLKDVYRHPLEGKYALSSLKTDFKAVCGLELDHASLGYSKLSDFLRTLPDLCHVKAGPIGKNGSPNHMVLVPSPPKQKWGALQL***************************QDLRSVS*****E********************************TIFSSSKPGLSS*******SGGK********ENSKGKNPRPPEDHLVLRWLKGHNNSLFLREYDFSHEYNSCFKQKICFRCKKEEMQWANNPCQHLLWCNVCKRETIEAAAGSEHLCVICDKKVEDIMLISNPEEFPPLSP*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MNCSYSSYTAAPSVTDLETTLIINSLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDISGTCEALLSMVDDNSNTERICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKEVLxxxxxxxxxxxxxxxxxxxxxLGAKIPDERTMEQIISRNAKEEIQTKKITEEMPCRRVTEEATAEKSWAGRLLYGQPKTSSNESQAYLVESFEEKSMPKWLRTFKKWLPRFLKDVYRHPLEGKYALSSLKTDFKAVCGLELDHASLGYSKLSDFLRTLPDLCHVKAGPIGKNGSPNHMVLVPSPPKQKWGALQLSKNGNPSSPVNSASDSNECDRNDSKSPQDLRSVSISSTIERKPTNEVPKGSSSQRDTSTSAISASKKVIDYSTIFSSSKPGLSSSKGNDGGSGGKDNEKGKGLENSKGKNPRPPEDHLVLRWLKGHNNSLFLREYDFSHEYNSCFKQKICFRCKKEEMQWANNPCQHLLWCNVCKRETIEAAAGSEHLCVICDKKVEDIMLISNPEEFPPLSPSDTLQ
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	1044	2.2.26 [Sep-21-2011]
Q9XZC0	1413	Alpha-latrocrustotoxin-Lt	N/A	no	0.292	0.215	0.269	9e-10
Q54KA7	986	Ankyrin repeat, PH and SE	yes	no	0.311	0.329	0.239	3e-09
Q12955	4377	Ankyrin-3 OS=Homo sapiens	yes	no	0.309	0.073	0.258	7e-09
Q54HW1	232	26S proteasome non-ATPase	no	no	0.137	0.620	0.310	1e-08
P16157	1881	Ankyrin-1 OS=Homo sapiens	no	no	0.305	0.169	0.228	1e-08
Q01484	3957	Ankyrin-2 OS=Homo sapiens	no	no	0.294	0.077	0.261	2e-08
G5E8K5	1961	Ankyrin-3 OS=Mus musculus	yes	no	0.309	0.164	0.258	2e-08
Q98SJ2	360	DAZ-associated protein 1	N/A	no	0.076	0.222	0.445	3e-08
P57078	832	Receptor-interacting seri	no	no	0.179	0.224	0.294	3e-08
Q96EP5	407	DAZ-associated protein 1	no	no	0.076	0.196	0.457	3e-08

>sp|Q9XZC0|LCTA_LATTR Alpha-latrocrustotoxin-Lt1a (Fragment) OS=Latrodectus tredecimguttatus PE=2 SV=2

 Score = 66.6 bits (161), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 96/356 (26%), Positives = 153/356 (42%), Gaps = 51/356 (14%)

Query: 90  VEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNP 149
           V + +G T LH+A+E      V+ LL+K A  ++R+     L PL L+            
Sbjct: 524 VPDKNGYTPLHIASERKNNDFVKFLLEKGADVNVRTF-ANELTPLHLA------------ 570

Query: 150 DEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNES 209
              + +D  +I        VK L +K + +D  A   A          L +        +
Sbjct: 571 ---ARQDFTII--------VKTLMEK-RGIDVNAKERA------GFTPLHLSITSNSRAA 612

Query: 210 ILVLHDSDLGAKEK-----TTIYECVIREALALGRA-TKLQRAVKRNSTPTTSQSAEKRK 263
             +++++  G   K     T ++  V++  L+  +   K  + VK N       +     
Sbjct: 613 RTLINETPAGINIKSNSGLTPLHLAVLQNNLSAAKVLVKSNKKVKLNEMDNNGMTPLHYA 672

Query: 264 LLLLEIELLQLFGA---VANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADA 320
            +L  +E ++ F +   +   + T  K   PL LA      DV + LL+ +NIDI+   A
Sbjct: 673 SMLGNLEFVKYFTSEQGIDVNAKTKVKNWTPLHLAILFKKFDVAQSLLQVRNIDIS-TRA 731

Query: 321 DADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQA 380
           D    + LH A  T  G SQ      IV  +L  GA+V Q+   G TALH+A  + N++ 
Sbjct: 732 D-QAITPLHLAAAT--GNSQ------IVKTILNSGAVVDQETANGFTALHLAIMNPNTET 782

Query: 381 LEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPI 436
            + LI K  + IN KT    TPL FA         ++L+  GAN +  NL  + PI
Sbjct: 783 PQFLIAKGAN-INAKTNDGSTPLHFAAALGKTNIFQLLMDKGANIKAENLINQMPI 837

Crustacean-selective presynaptic neurotoxin that induces neurotransmitter exocytosis. Binds to neurexin-1-alpha (NRXN1), latrophilin-1 (LPHN1), and receptor-type tyrosine-protein phosphatase S (PTPRS), and induces neurotransmitter exocytosis through two calcium-dependent mechanisms (membrane pore formation and signaling via latrophilin) and a yet to be defined calcium-independent mechanism.
Latrodectus tredecimguttatus (taxid: 6925)

>sp|Q54KA7|SECG_DICDI Ankyrin repeat, PH and SEC7 domain containing protein secG OS=Dictyostelium discoideum GN=secG PE=2 SV=1

 Score = 65.1 bits (157), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 96/401 (23%), Positives = 155/401 (38%), Gaps = 76/401 (18%)

Query: 61  LRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRAR 120
           L  + +F S  C   L+NG   P A+      ++G T LH A+     +CVELL+K  A 
Sbjct: 140 LHKASLFASAECVLYLLNGKADPRAVT-----TNGETPLHHASAGGNPQCVELLIK--AD 192

Query: 121 TDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELD 180
           + + + D   + PL  +  S                          + V LL +K  ++D
Sbjct: 193 SKVNAVDNDCITPLHQASFSGHS-----------------------SCVSLLLKKGAKVD 229

Query: 181 E------VAYANAVGGRIVALAALLIVAADKVN----ESILVLHDSDLGAKEKTTIYECV 230
                      NA     V     L+   + +N    E +  LH +      + T     
Sbjct: 230 PRDIHGISPLHNAASAGYVDCVEQLVRNGENINCVDIEGVTPLHHTCFNGNLQLT----- 284

Query: 231 IREALALGRATKLQRAVKRNSTPTTSQSAEKRK-----LLLLEIELLQLFGAVANGSCTD 285
            +  + LG   K+    +   TP    +    K     LL L+  ++          C D
Sbjct: 285 -KRLIELG--AKINMVDEMGETPLHKAAFNGHKEVCEYLLYLDPTMID---------CRD 332

Query: 286 KKVGPPLILATQAGDEDVIEILLKSK-NIDINDADADADGNSALHCALKTSMGLSQHILQ 344
            +    L LA   G  D++++L++ K  I+I D +    G + LH A       + H   
Sbjct: 333 SRQSTSLHLAAFNGLLDMVDLLIRYKAQINIKDEE----GATPLHKA-----SFNGH--- 380

Query: 345 NRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLF 404
           +    +L+  GA +   +  G T LH AA +G S+ L  LIR   + + +K     TPL 
Sbjct: 381 SSCAKLLVDKGAPICIVDSQGATPLHKAAFNGRSKCLATLIRSGAE-LEVKDSQGGTPLH 439

Query: 405 FAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMR 445
            A  N H  C  +LL+ GAN   ++     P+  A +   R
Sbjct: 440 NAAYNGHSDCCRILLKKGANVNAVDTHSSTPLHLASAAGAR 480

Dictyostelium discoideum (taxid: 44689)

>sp|Q12955|ANK3_HUMAN Ankyrin-3 OS=Homo sapiens GN=ANK3 PE=1 SV=3

 Score = 63.9 bits (154), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 92/356 (25%), Positives = 157/356 (44%), Gaps = 33/356 (9%)

Query: 95  GMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVI-WNPDEYS 153
           G TALH+A+ +  A  V++L+   A  + +S++G    PL ++   + ++V+ +  D  +
Sbjct: 107 GNTALHIASLAGQAEVVKVLVTNGANVNAQSQNG--FTPLYMAAQENHLEVVKFLLDNGA 164

Query: 154 VEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAA--DKVNESIL 211
            + L    G   L     L Q   ++  +   N   G+ V L AL I A   D    ++L
Sbjct: 165 SQSLATEDGFTPLAVA--LQQGHDQVVSLLLENDTKGK-VRLPALHIAARKDDTKAAALL 221

Query: 212 VLHDSDLGAKEKTTI--------YECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRK 263
           + +D++   + K+          Y  +    L L RA  +    + + TP     A KR 
Sbjct: 222 LQNDNNADVESKSGFTPLHIAAHYGNINVATLLLNRAAAVDFTARNDITPL--HVASKRG 279

Query: 264 LLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADAD 323
              + ++LL   GA  +    D     PL    ++G E V+E+LL      ++      +
Sbjct: 280 NANM-VKLLLDRGAKIDAKTRDGLT--PLHCGARSGHEQVVEMLLDRAAPILSKT---KN 333

Query: 324 GNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALED 383
           G S LH A +       H+     V +LL+H   V       LTALH+AA  G+ +  + 
Sbjct: 334 GLSPLHMATQ-----GDHL---NCVQLLLQHNVPVDDVTNDYLTALHVAAHCGHYKVAKV 385

Query: 384 LIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFA 439
           L+ K+ +  N K +   TPL  A K + +   E+LL+ GA+ + +      PI  A
Sbjct: 386 LLDKKANP-NAKALNGFTPLHIACKKNRIKVMELLLKHGASIQAVTESGLTPIHVA 440

Membrane-cytoskeleton linker. May participate in the maintenance/targeting of ion channels and cell adhesion molecules at the nodes of Ranvier and axonal initial segments.

Homo sapiens (taxid: 9606)

>sp|Q54HW1|PSD10_DICDI 26S proteasome non-ATPase regulatory subunit 10 OS=Dictyostelium discoideum GN=psmD10 PE=2 SV=1

 Score = 63.2 bits (152), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 50/161 (31%), Positives = 86/161 (53%), Gaps = 17/161 (10%)

Query: 291 PLILATQAGDEDVIEILLK--SKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIV 348
           PL  AT AG   ++++LL+  +    +ND+       + LH A  +S G S       IV
Sbjct: 83  PLTSATSAGHTHMVKLLLEFGADPNTVNDSK-----RTPLHYA--SSKGRSD------IV 129

Query: 349 GILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVK 408
            +LL HGA  ++++  G   +H A+ +G+   +E L++ E + IN      +TPL  A +
Sbjct: 130 DLLLTHGA-KNRKDDTGSAPIHRASSNGSVATVERLLKGEAN-INSTNNEGDTPLHIAAE 187

Query: 409 NDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLK 449
            +H    E LL+ GA++ + N   + PID + SQ +++L+K
Sbjct: 188 YNHEDVVECLLKHGADTTIENKDSKTPIDMSSSQTIKYLIK 228

Acts as a chaperone during the assembly of the 26S proteasome, specifically of the 19S regulatory complex (RC).

Dictyostelium discoideum (taxid: 44689)

>sp|P16157|ANK1_HUMAN Ankyrin-1 OS=Homo sapiens GN=ANK1 PE=1 SV=3

 Score = 62.8 bits (151), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 89/390 (22%), Positives = 156/390 (40%), Gaps = 71/390 (18%)

Query: 94  SGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYS 153
           +G T LH+A + +  R +ELLLK  A  D  ++ G  L PL ++     + ++ N     
Sbjct: 370 NGFTPLHIACKKNHVRVMELLLKTGASIDAVTESG--LTPLHVASFMGHLPIVKN----- 422

Query: 154 VEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVL 213
              L+      N++ VK+         E     A       +A  L+    KVN      
Sbjct: 423 ---LLQRGASPNVSNVKV---------ETPLHMAARAGHTEVAKYLLQNKAKVNAK---- 466

Query: 214 HDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIE--- 270
                 AK+  T   C  R    +G    ++  ++ N+ P  + +A    L +   E   
Sbjct: 467 ------AKDDQTPLHCAAR----IGHTNMVKLLLENNANPNLATTAGHTPLHIAAREGHV 516

Query: 271 --LLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSAL 328
             +L L    A+ +C  KK   PL +A + G   V E+LL+    D +   A  +G + L
Sbjct: 517 ETVLALLEKEASQACMTKKGFTPLHVAAKYGKVRVAELLLER---DAHPNAAGKNGLTPL 573

Query: 329 HCALK-------------------------TSMGLSQHILQNRIVGILLKHGAIVSQQNK 363
           H A+                          T + ++    Q  +   LL++G   + ++ 
Sbjct: 574 HVAVHHNNLDIVKLLLPRGGSPHSPAWNGYTPLHIAAKQNQVEVARSLLQYGGSANAESV 633

Query: 364 LGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGA 423
            G+T LH+AA  G+++ +  L+ K+ +  NL      TPL    +  H+  A+VL++ G 
Sbjct: 634 QGVTPLHLAAQEGHAEMVALLLSKQANG-NLGNKSGLTPLHLVAQEGHVPVADVLIKHGV 692

Query: 424 NSEVLNLRRERPIDFAKSQD----MRFLLK 449
             +        P+  A        ++FLL+
Sbjct: 693 MVDATTRMGYTPLHVASHYGNIKLVKFLLQ 722

Isoform Mu17 together with obscurin in skeletal muscle may provide a molecular link between the sarcoplasmic reticulum and myofibrils.

Homo sapiens (taxid: 9606)

>sp|Q01484|ANK2_HUMAN Ankyrin-2 OS=Homo sapiens GN=ANK2 PE=1 SV=4

 Score = 62.4 bits (150), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 90/344 (26%), Positives = 140/344 (40%), Gaps = 37/344 (10%)

Query: 96  MTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDV---------- 145
           +TALH+AA     R  +LLL KRA  + R+ +G    PL ++   +R+ V          
Sbjct: 366 LTALHVAAHCGHYRVTKLLLDKRANPNARALNG--FTPLHIACKKNRIKVMELLVKYGAS 423

Query: 146 IWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADK 205
           I    E  +  + V     +L  V LL Q     D           + A A  + V    
Sbjct: 424 IQAITESGLTPIHVAAFMGHLNIVLLLLQNGASPDVTNIRGETALHMAARAGQVEVVRCL 483

Query: 206 VNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLL 265
           +    LV    D  A+E+ T      R    LG+   +Q  ++  + P  + +     L 
Sbjct: 484 LRNGALV----DARAREEQTPLHIASR----LGKTEIVQLLLQHMAHPDAATTNGYTPLH 535

Query: 266 LL----EIELLQ-LFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADA 320
           +     ++++   L  A A  S   KK   PL +A + G  DV ++LL+ +      A A
Sbjct: 536 ISAREGQVDVASVLLEAGAAHSLATKKGFTPLHVAAKYGSLDVAKLLLQRR------AAA 589

Query: 321 DADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQA 380
           D+ G + L     T + ++ H    ++  +LL+ GA      K G T LHIAA     Q 
Sbjct: 590 DSAGKNGL-----TPLHVAAHYDNQKVALLLLEKGASPHATAKNGYTPLHIAAKKNQMQI 644

Query: 381 LEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
              L+    +  N+ T    TPL  A +  H     +LL  GAN
Sbjct: 645 ASTLLNYGAET-NIVTKQGVTPLHLASQEGHTDMVTLLLDKGAN 687

Attaches integral membrane proteins to cytoskeletal elements. Also binds to cytoskeletal proteins. Required for coordinate assembly of Na/Ca exchanger, Na/K ATPase and InsP3 receptor at sarcoplasmic reticulum sites in cardiomyocytes. Required for the coordinated expression of the Na/K ATPase, Na/Ca exchanger and beta-2-spectrin (SPTBN1) in the inner segment of rod photoreceptors. Required for expression and targeting of SPTBN1 in neonatal cardiomyocytes and for the regulation of neonatal cardiomyocyte contraction rate.

Homo sapiens (taxid: 9606)

>sp|G5E8K5|ANK3_MOUSE Ankyrin-3 OS=Mus musculus GN=Ank3 PE=1 SV=1

 Score = 62.4 bits (150), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 92/356 (25%), Positives = 156/356 (43%), Gaps = 33/356 (9%)

Query: 95  GMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVI-WNPDEYS 153
           G TALH+A+ +  A  V++L+   A  + +S++G    PL ++   + ++V+ +  D  +
Sbjct: 90  GNTALHIASLAGQAEVVKVLVTNGANVNAQSQNG--FTPLYMAAQENHLEVVRFLLDNGA 147

Query: 154 VEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAA--DKVNESIL 211
            + L    G   L     L Q   ++  +   N   G+ V L AL I A   D    ++L
Sbjct: 148 SQSLATEDGFTPLAVA--LQQGHDQVVSLLLENDTKGK-VRLPALHIAARKDDTKAAALL 204

Query: 212 VLHDSDLGAKEKTTI--------YECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRK 263
           + +D++   + K+          Y  +    L L RA  +    + + TP     A KR 
Sbjct: 205 LQNDTNADVESKSGFTPLHIAAHYGNINVATLLLNRAAAVDFTARNDITPL--HVASKRG 262

Query: 264 LLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADAD 323
              + ++LL   GA  +    D     PL    ++G E V+E+LL      ++      +
Sbjct: 263 NANM-VKLLLDRGAKIDAKTRDGLT--PLHCGARSGHEQVVEMLLDRSAPILSKTK---N 316

Query: 324 GNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALED 383
           G S LH A +       H+     V +LL+H   V       LTALH+AA  G+ +  + 
Sbjct: 317 GLSPLHMATQ-----GDHL---NCVQLLLQHNVPVDDVTNDYLTALHVAAHCGHYKVAKV 368

Query: 384 LIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFA 439
           L+ K+    N K +   TPL  A K + +   E+LL+ GA+ + +      PI  A
Sbjct: 369 LLDKKASP-NAKALNGFTPLHIACKKNRIRVMELLLKHGASIQAVTESGLTPIHVA 423

Membrane-cytoskeleton linker. May participate in the maintenance/targeting of ion channels and cell adhesion molecules at the nodes of Ranvier and axonal initial segments (By similarity). In skeletal muscle, required for costamere localization of DMD and betaDAG1.

Mus musculus (taxid: 10090)

>sp|Q98SJ2|DAZP1_XENLA DAZ-associated protein 1 OS=Xenopus laevis GN=dazap1 PE=1 SV=1

 Score = 62.0 bits (149), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 37/83 (44%), Positives = 50/83 (60%), Gaps = 3/83 (3%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           +KIFVGG+P       L  YF + FG + +  V  +  EKQ   RGFGF+TF+ E+S   
Sbjct: 114 NKIFVGGIPHNCGETELKEYFNR-FGVVTEV-VMIYDAEKQR-PRGFGFITFEDEQSVDQ 170

Query: 608 AVQARFVTIMGKEVEIKSAVPKE 630
           AV   F  IMGK+VE+K A P++
Sbjct: 171 AVNMHFHDIMGKKVEVKRAEPRD 193

RNA-binding protein, which is required during gametogenesis. May be involved in the actin-dependent anchoring of Vg1 mRNA in the vegetal cortex of the oocyte.

Xenopus laevis (taxid: 8355)

>sp|P57078|RIPK4_HUMAN Receptor-interacting serine/threonine-protein kinase 4 OS=Homo sapiens GN=RIPK4 PE=1 SV=1

 Score = 62.0 bits (149), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 63/214 (29%), Positives = 97/214 (45%), Gaps = 27/214 (12%)

Query: 248 KRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEIL 307
           +R STP    + E+R   ++E+ L +     A     D+     L  A Q GDE    +L
Sbjct: 517 RRGSTPL-HMAVERRVRGVVELLLARKISVNAK----DEDQWTALHFAAQNGDESSTRLL 571

Query: 308 LKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLT 367
           L+ KN  +N+ D +  G + +H A        QH  +N IV ILL+ G  VS Q K    
Sbjct: 572 LE-KNASVNEVDFE--GRTPMHVA-------CQHGQEN-IVRILLRRGVDVSLQGKDAWL 620

Query: 368 ALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEV 427
            LH AA  G+   ++ L ++    +N +T+   TPL  A +  H   A +L+   ++  V
Sbjct: 621 PLHYAAWQGHLPIVKLLAKQPGVSVNAQTLDGRTPLHLAAQRGHYRVARILIDLCSDVNV 680

Query: 428 LNLRRERPIDFAKSQDMRFLLKAANTCHTNLAFL 461
            +L  + P+             AA T HT+ A L
Sbjct: 681 CSLLAQTPLHV-----------AAETGHTSTARL 703

Involved in stratified epithelial development. It is a direct transcriptional target of TP63. Plays a role in NF-kappa-B activation.

Homo sapiens (taxid: 9606)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

>sp|Q96EP5|DAZP1_HUMAN DAZ-associated protein 1 OS=Homo sapiens GN=DAZAP1 PE=1 SV=1

 Score = 61.6 bits (148), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 38/83 (45%), Positives = 51/83 (61%), Gaps = 3/83 (3%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           +KIFVGG+P       L  YF+K FG + +  V  +  EKQ   RGFGF+TF+ E+S   
Sbjct: 113 NKIFVGGIPHNCGETELREYFKK-FGVVTEV-VMIYDAEKQR-PRGFGFITFEDEQSVDQ 169

Query: 608 AVQARFVTIMGKEVEIKSAVPKE 630
           AV   F  IMGK+VE+K A P++
Sbjct: 170 AVNMHFHDIMGKKVEVKRAEPRD 192

RNA-binding protein, which may be required during spermatogenesis.

Homo sapiens (taxid: 9606)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	1044
147834593	1609	hypothetical protein VITISV_028449 [Viti	0.929	0.602	0.469	0.0
224077602	1097	predicted protein [Populus trichocarpa]	0.867	0.825	0.450	0.0
296082898	849	unnamed protein product [Vitis vinifera]	0.740	0.910	0.454	1e-177
357161973	1374	PREDICTED: uncharacterized protein LOC10	0.695	0.528	0.354	1e-125
242085946	1083	hypothetical protein SORBIDRAFT_08g01889	0.722	0.696	0.350	1e-122
218187168	1371	hypothetical protein OsI_38941 [Oryza sa	0.681	0.519	0.356	1e-120
307684209	1160	MEL2 [Oryza sativa Japonica Group]	0.652	0.587	0.369	1e-120
125537113	1134	hypothetical protein OsI_38823 [Oryza sa	0.652	0.600	0.369	1e-120
77556882	1132	RNA recognition motif family protein [Or	0.652	0.601	0.369	1e-120
328813866	1149	meiosis arrested at leptotene 3 protein	0.652	0.592	0.369	1e-120

>gi|147834593|emb|CAN60905.1| hypothetical protein VITISV_028449 [Vitis vinifera]

 Score =  812 bits (2098), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 501/1066 (46%), Positives = 649/1066 (60%), Gaps = 96/1066 (9%)

Query: 22   IINSLLEDDKKQLINVSKRHFID----NSLDNADQQ-------TAIVTKLLRVSCIFDSV 70
            +I S+  DD+ Q +  SKR F +     SL++ + +        +IV KLL+  C FDSV
Sbjct: 573  LIKSIWRDDRAQFLTQSKRLFQNPENRESLEDDENRDSPELLDRSIVAKLLQWCCRFDSV 632

Query: 71   SCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRR 130
             CAT+L+NG +G + L+NE++E+ G TALH AAE+H ARCVELLL+KRARTD++SKDG  
Sbjct: 633  DCATALLNGAVGMLPLINEMDEN-GRTALHTAAEAHAARCVELLLRKRARTDLKSKDGCS 691

Query: 131  LLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGG 190
             L LELSLSS RMDV+WNPD+ ++EDL+V+L +K+LT VK L++KTK++ EVAY  A+ G
Sbjct: 692  QLALELSLSSRRMDVLWNPDB-AIEDLIVLLREKDLTAVKFLTEKTKDIAEVAYVTAMEG 750

Query: 191  RIVALAALLIVAADKVNESILVLH-DSDLGAKEKTTIYECVIREALALGRATKLQRAVKR 249
            R++ALAALL+VAADKVN SILVL  D DL +KEKT+IYECV++EAL+LGR        K 
Sbjct: 751  RVIALAALLVVAADKVNASILVLQSDGDLSSKEKTSIYECVVKEALSLGRT----ETSKS 806

Query: 250  NSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLK 309
             +    S+  EKR LLL E+ELLQLFGAVA+ SCT++KV  PLI A QAGDE VI +LLK
Sbjct: 807  TTCKWKSEEVEKRALLLCEMELLQLFGAVAHNSCTERKVTSPLIRAAQAGDEAVINLLLK 866

Query: 310  SKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTAL 369
            + +I+++D DA+  GNSAL C+LKTSM       Q RIV +LLKHGA VS +NKLGL A+
Sbjct: 867  T-SIEVDDTDAE--GNSALQCSLKTSMASVAK--QIRIVWLLLKHGARVSHRNKLGLNAI 921

Query: 370  HIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLN 429
            HIAA +GNS+AL  L+ +EPD +N  T M ETPLFFAVKN++M CAE+LLRWGANS+VLN
Sbjct: 922  HIAAANGNSEALHLLLLEEPDGVNATTEMKETPLFFAVKNNYMDCAELLLRWGANSQVLN 981

Query: 430  LRRERPIDFAKSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDISGTCEALLSMVDD 489
            LRR+RPID AKSQ+MRF+L   N    + AF  Q K      + E IS TCE+L +++++
Sbjct: 982  LRRQRPIDLAKSQEMRFMLSPTNIGLRHRAFPMQRKFTTYFHNHEMISETCESLPNVIEE 1041

Query: 490  NSNTE--RICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMCMIHAST-QEF 546
             +  E  R CS  K  +C+Y+ES  GC+RG+KCFYA GE++ R++  G    H+ST +E 
Sbjct: 1042 GTLPESSRTCSIAKTGICRYFESPGGCVRGAKCFYAHGEDELRRLKQGTRTQHSSTIEEL 1101

Query: 547  KSKIFVGGLPFFLDS---------------DSLGGYFEKHFGPIEDARVAEFQTEKQSVS 591
            K KIFVGGLP  LD+               DSL   FE+ FG +E+A V   Q   Q  S
Sbjct: 1102 KRKIFVGGLPSSLDTVTFDECLFLYQSCEADSLAKIFEEQFGSVEEAIVMGDQMGDQIHS 1161

Query: 592  RGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQ--QESKHE 649
            RGFGFV FKHEKSA+ AVQA ++TIMGK+VEIKSAVPK +LFAELQ    QQ  QE    
Sbjct: 1162 RGFGFVIFKHEKSASDAVQAHYITIMGKQVEIKSAVPKCILFAELQTLPPQQEDQEQGQI 1221

Query: 650  HQARLGAKIPDERTMEQIISRNAKEEIQTKKITEEMPCRRVTEEATAEKSWAGRLLYGQP 709
             Q +  A  PDE+  +    R                          + SW  +LL   P
Sbjct: 1222 IQFQPQAATPDEKNTDDGEPR--------------------------QMSWVDKLLQNPP 1255

Query: 710  KTSSNESQAYLVESFEEKSMPKWLRTFKKWLPRFLKDVYRHPLEGK-YALSSLKTDFKAV 768
             T  +E Q  L  +   +SMPKW+R FK+WLP FL DV +   EG+ Y LSSLK DF+A 
Sbjct: 1256 NTCFSEPQILLNSTTPNQSMPKWVRIFKRWLPSFLNDVSKRLKEGEWYPLSSLKADFRAT 1315

Query: 769  CGLELDHASLGYSKLSDFLRTLPDLCHVKAGPIGKNGSPNHMVLVPSPPKQKWGALQLSK 828
            CG ELDH SLGY KLSDF+R+ P LC +K  P+G  G   HMVL P+  +Q+   L +  
Sbjct: 1316 CGQELDHTSLGYPKLSDFMRSFPGLCRMKIVPVGGRGPATHMVLQPN-HQQQTQPLPMRC 1374

Query: 829  NGNPSSPVNSASDSNECDRNDSKSPQDLRSVSISSTIERKPTNEVPKGSSSQRDTSTSAI 888
                 SP++   D    D    KS  +   VS  +      + E         + S +  
Sbjct: 1375 FSPTPSPLDDYDDDGSIDL---KSLGEFLPVSYDNAGSLGGSFEDGDSLHGTLEESPAHK 1431

Query: 889  SASKKVIDYSTIFSSSKPGLSSSKGNDGGSGGKDNEKGKGLENSKGKNPRPPEDHLVLRW 948
             A   V  +   F      L        G     NE     ++ K K  R  + HLVL  
Sbjct: 1432 DAKHGVHPWFLEFLKPDTLL--------GQPWFRNENAAAGDDYKSKELRQQKRHLVLEA 1483

Query: 949  L---KGHNNSLFLREYDFSHEYNSCFKQKICFRCKKEEMQWANNPCQHLLWCNVCKRETI 1005
            L   K + +  FLRE+DF   Y S   Q  CF C + EM WAN PC+HLLWC  CK   I
Sbjct: 1484 LAREKNNTSVFFLREFDFYENYKSSVAQGKCFACNRSEMFWANFPCKHLLWCGNCKIHAI 1543

Query: 1006 EAAAGSEHLCVICDKKVEDIMLISNPE-----------EFPPLSPS 1040
            +AA+  EH CV+CD +V++I  +   E           +FPP  P+
Sbjct: 1544 QAASILEHKCVVCDAQVQNIGPLPWTEKYQQICDVPNNDFPPFDPN 1589

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224077602|ref|XP_002305323.1| predicted protein [Populus trichocarpa] gi|222848287|gb|EEE85834.1| predicted protein [Populus trichocarpa]

 Score =  756 bits (1953), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 468/1038 (45%), Positives = 632/1038 (60%), Gaps = 132/1038 (12%)

Query: 12   PSVTDLETTLIINSLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIFDSVS 71
            P+   LET+ +I S+LED+K QL+++SK+   + +         I+TKLL + C FDSV 
Sbjct: 29   PNAEVLETS-VIKSVLEDNKLQLLSLSKKVVTERT---------IITKLLHLCCTFDSVD 78

Query: 72   CATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRL 131
            CATSL+NG+ G V ++NE  +S+G++ LH AA ++ ARCVE+LL+K ARTD+ S+DGRRL
Sbjct: 79   CATSLLNGEFGSVPVINE-PDSTGLSPLHAAATANAARCVEMLLEKHARTDLESRDGRRL 137

Query: 132  LPLELSLSSSRMDVIWNPDEYS-VEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGG 190
            LPLELSL ++R D++W+ D+ S +EDLVV + +K+LTT+KLL+ KT+E+ +VAY  A  G
Sbjct: 138  LPLELSLCNTRKDLLWDLDDNSTIEDLVVQISEKDLTTLKLLADKTEEIGDVAYRMAEAG 197

Query: 191  RIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRN 250
            R+V LAALL+VAADK+NESIL + D+ L  KEKTTIYE VIREALALG  T   RA KR 
Sbjct: 198  RVVDLAALLVVAADKINESILPVRDAVLDCKEKTTIYEAVIREALALGGPTPSLRAAKRV 257

Query: 251  STPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQ------------- 297
            +  + S+ AEKRKLLL EIELLQLFGAV  G CTD+K+  PLI A Q             
Sbjct: 258  TVLSESERAEKRKLLLYEIELLQLFGAVGLGCCTDRKLPSPLIHAAQGVHKEESPCTLIR 317

Query: 298  ------------------------------AGDEDVIEILLKSKNIDINDADADADGNSA 327
                                          AGDE VIE+LLK+ NID+ND DAD  G+SA
Sbjct: 318  YFVTYGLRHLGLLPQSGHHKFVYFKLMSNEAGDETVIELLLKT-NIDLNDVDAD--GHSA 374

Query: 328  LHCALKT----------SMGLSQ------------HILQNRIVGILLKHGAIVSQQNKLG 365
            LH  LK           S+ L++            H L   I+ +LLKHGA V+Q+NKLG
Sbjct: 375  LHWCLKAYKQSCPQQMKSLSLTRTAQAQAHAHARTHALW--IMWLLLKHGARVNQKNKLG 432

Query: 366  LTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANS 425
            LTA+HIAA +GNSQAL+ L+ ++PDCIN  T M ETPLFFAVKN +  C EVLL WGA++
Sbjct: 433  LTAVHIAASNGNSQALQALLLEDPDCINSNTEMEETPLFFAVKNGYKDCVEVLLHWGAST 492

Query: 426  EVLNLRRERPIDFAKSQDMRFLLKAANTCHTNLAFLN--QEKQNASLESDEDISGTCEAL 483
             V NLR++RP+D A+SQDMRF+L   N    NL      Q+K  A L+  + I GTC+ L
Sbjct: 493  GVFNLRKQRPVDLAESQDMRFML---NNADVNLTVNRPIQQKYTAWLQGGDVIQGTCKEL 549

Query: 484  LSMVDDNSNTERICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMCMIHA-S 542
             ++ D+ + T R CS T  E+CKY+ S  GC+RG+KCFYA  EE+ +++  G  MIH+ +
Sbjct: 550  FTLTDERNPTNRTCSSTNKEICKYFHSPRGCVRGTKCFYAHSEEERQQVKQGKYMIHSPA 609

Query: 543  TQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHE 602
              + + KIFVGGLP  +DSDSL    E+ FG +++A V   QT  +  SRGFGFVTFK +
Sbjct: 610  AGQLERKIFVGGLPASVDSDSLRKILEEKFGSVDNAAVLGVQTADKMQSRGFGFVTFKDK 669

Query: 603  KSAAAAVQARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQESKHEHQARLGAKIPDER 662
            KS +AAV+A  V IMGK+VEIKSAVPK +L AE QK S QQ+E     +    A+ P E+
Sbjct: 670  KSVSAAVEAHHVIIMGKQVEIKSAVPKFLLLAEFQK-STQQRERNQIDEKLPQAQTPKEK 728

Query: 663  TMEQ-----IISRNAKEEIQTKKITEEMPCRRVTEEATAEKSWAGRLLYGQPKTSSNESQ 717
            T  +     +++R    E +T+K+   + C    E  +  ++WA  L++GQ K  S+ESQ
Sbjct: 729  TETEKAKTDVLNRQTSSE-KTEKVI--LSCNSTEEIKSEPRTWADTLIHGQTKACSSESQ 785

Query: 718  AYLVESFEEKSMPKWLRTFKKWLPRFLKDVYRHPLEGKYALSSLKTDFKAVCGLELDHAS 777
             +      E+ MPKW RT ++WLP FL+   +    G+YALSS+K DF+A+ GLELDHAS
Sbjct: 786  TH------ERCMPKWFRTLRRWLPSFLQQASKR--GGQYALSSVKADFRALFGLELDHAS 837

Query: 778  LGYSKLSDFLRTLPDLCHVKAGPIGKNGSPNHMVLVPSPPKQKWGALQLSKNGNPSSPVN 837
            LG+SKLSDF++++P+LCHV       +   NHM+L+PS P      LQ     +PSS   
Sbjct: 838  LGFSKLSDFMKSIPELCHVTY-----HTPANHMILLPSLPIPCQQPLQDVTIDSPSSHST 892

Query: 838  SASDSNECDRNDSKSPQDLRSVSI---------SSTIERKPTNEVPKGSSSQRDTSTSAI 888
            S  DS   + + S   Q+   VSI         S+ +  + T++ P       D      
Sbjct: 893  SIGDSGNGNSDGSICSQEPLLVSIENDDLNDSSSTRVSFQITDDNPA------DKLPCVN 946

Query: 889  SASKKVIDYSTIFSSSKPGLSSSKGNDGGSGGKDNEKGKGLENSKGKNPRPPEDHLVLRW 948
            S   + +    IF  ++P ++S   +DGG      E+G G    +   P P   HLVL  
Sbjct: 947  SRFLQFLKPDPIF-HARPWVNSD--SDGGKESTVGERGSG-NGFQEMKPWPQGRHLVLEA 1002

Query: 949  LKGHNNS---LFLREYDF 963
            L    NS    FLRE+DF
Sbjct: 1003 LARKKNSSSVYFLREFDF 1020

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296082898|emb|CBI22199.3| unnamed protein product [Vitis vinifera]

 Score =  629 bits (1623), Expect = e-177,   Method: Compositional matrix adjust.
 Identities = 395/870 (45%), Positives = 508/870 (58%), Gaps = 97/870 (11%)

Query: 190  GRIVALAALLIVAADKVNESILVLH-DSDLGAKEKTTIYECVIREALALGRATKLQRAVK 248
            GR++ALAALL+VAADKVN SILVL  D DL +KEKT+IYECV++EAL+LGR        K
Sbjct: 3    GRVIALAALLVVAADKVNASILVLQSDGDLSSKEKTSIYECVVKEALSLGRT----ETSK 58

Query: 249  RNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILL 308
              +    S+  EKR LLL E+ELLQLFGAVA+ SCT++KV  PLI A QAGDE VI +LL
Sbjct: 59   STTCKWKSEEVEKRALLLCEMELLQLFGAVAHNSCTERKVTSPLIRAAQAGDEAVINLLL 118

Query: 309  KSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTA 368
            K+ +I+++D DA+  GNSAL C+LKT+   +     +RIV +LLKHGA VS +NKLGL A
Sbjct: 119  KT-SIEVDDTDAE--GNSALQCSLKTN---ADRTCISRIVWLLLKHGARVSHRNKLGLNA 172

Query: 369  LHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVL 428
            +HIAA +GNS+AL  L+ +EPD +N  T M ETPLFFAVKN++M CAE+LLRWGANS+VL
Sbjct: 173  IHIAAANGNSEALHLLLLEEPDGVNATTEMKETPLFFAVKNNYMDCAELLLRWGANSQVL 232

Query: 429  NLRRERPIDFAKSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDISGTCEALLSMVD 488
            NLRR+RPID AKSQ+MRF+L   N    + AF  Q K      + E IS TCE+L ++++
Sbjct: 233  NLRRQRPIDLAKSQEMRFMLSPTNIGLRHRAFPMQRKFTTYFHNHEMISETCESLPNVIE 292

Query: 489  DNSNTERICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMCMIHAST-QEFK 547
            + +  ER CS  K  +C+Y+ES  GC+RG+KCFYA GE++ R++  G    H+ST +E K
Sbjct: 293  EGTLPERTCSIAKTGICRYFESPGGCVRGAKCFYAHGEDELRRLKQGTRTQHSSTIEELK 352

Query: 548  SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
             KIFVGGLP  LD+DSL   FE+ FG +E+A V   Q   Q  SRGFGFV FKHEKSA+ 
Sbjct: 353  RKIFVGGLPSSLDTDSLAKIFEEQFGSVEEAIVMGDQMGDQIHSRGFGFVIFKHEKSASD 412

Query: 608  AVQARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQ--QESKHEHQARLGAKIPDERTME 665
            AVQA ++TIMGK+VEIKSAVPK +LFAELQ    QQ  QE     Q +  A  PDE+  +
Sbjct: 413  AVQAHYITIMGKQVEIKSAVPKCILFAELQTLPPQQEDQEQGQIIQFQPQAATPDEKNTD 472

Query: 666  QIISRNAKEEIQTKKITEEMPCRRVTEEATAEKSWAGRLLYGQPKTSSNESQAYLVESFE 725
                                                     G+P+               
Sbjct: 473  D----------------------------------------GEPR--------------- 477

Query: 726  EKSMPKWLRTFKKWLPRFLKDVYRHPLEGK-YALSSLKTDFKAVCGLELDHASLGYSKLS 784
             + MPKW+R FK+WLP FL DV +   EG+ Y LSSLK DF+A CG ELDH SLGY KLS
Sbjct: 478  -QIMPKWVRIFKRWLPSFLNDVSKRLKEGEWYPLSSLKADFRATCGQELDHTSLGYPKLS 536

Query: 785  DFLRTLPDLCHVKAGPIGKNGSPNHMVLVPSPPKQKWGALQLSKNGNPSSPVNSASDSNE 844
            DF+R+ P LC +K  P+G  G   HMVL P+  +Q+   L +       SP++   D   
Sbjct: 537  DFMRSFPGLCRMKIVPVGGRGPATHMVLQPN-HQQQTQPLPMRCFSPTPSPLDDYDDDGS 595

Query: 845  CDRNDSKSPQDLRSVSISSTIERKPTNEVPKGSSSQRDTSTSAISASKKVIDYSTIFSSS 904
             D    KS  +   VS  +      + E         + S +   A   V  +   F   
Sbjct: 596  IDL---KSLGEFLPVSYDNAGSLGGSFEDGDSLHGTLEESPAHKDAKHGVHPWFLEFLKP 652

Query: 905  KPGLSSSKGNDGGSGGKDNEKGKGLENSKGKNPRPPEDHLVLRWL---KGHNNSLFLREY 961
               L        G     NE     ++ K K  R  + HLVL  L   K + +  FLRE+
Sbjct: 653  DTLL--------GQPWFRNENAAAGDDYKSKELRQQKRHLVLEALAREKNNTSVFFLREF 704

Query: 962  DFSHEYNSCFKQKICFRCKKEEMQWANNPCQHLLWCNVCKRETIEAAAGSEHLCVICDKK 1021
            DF   Y S   Q  CF C + EM WAN PC+HLLWC  CK   I+AA+  EH CV+CD +
Sbjct: 705  DFYENYKSSVAQGKCFACNRSEMFWANFPCKHLLWCGNCKIHAIQAASILEHKCVVCDAQ 764

Query: 1022 VEDIMLISNPE-----------EFPPLSPS 1040
            V++I  +   E           +FPP  P+
Sbjct: 765  VQNIGPLPWTEKYQQICDVPNNDFPPFDPN 794

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357161973|ref|XP_003579266.1| PREDICTED: uncharacterized protein LOC100836820 [Brachypodium distachyon]

 Score =  454 bits (1169), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 303/855 (35%), Positives = 448/855 (52%), Gaps = 129/855 (15%)

Query: 51   DQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARC 110
            DQ+ +  T+LL ++C  D+V CA  L++G  G  A   +  +    T LH+AAE+H+ARC
Sbjct: 360  DQEMS--TRLLHLACKHDAVECARLLLDGGRGITACPVDARDQLTRTPLHVAAETHSARC 417

Query: 111  VELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVK 170
            ++LLL + ARTD+R  DGR L+ LE++L S R+ V W+PD   VEDL+  L Q +L  VK
Sbjct: 418  IQLLLSRNARTDVRLVDGRHLIALEIALMSRRVQVEWSPDN-PVEDLLACLEQMDLNAVK 476

Query: 171  LLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECV 230
            LL+QKT+E+ EVAY  A+ GR+ ALA LL+V  DK++ ++ V+ D   G + K +IY  V
Sbjct: 477  LLAQKTREVGEVAYRYAMEGRVAALAMLLLVVEDKISSTVSVVID---GVRTKRSIYNSV 533

Query: 231  IREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVA-NGSCTDKKVG 289
            + E L++G A+                  ++RK LL EI+LL  FGA +      D+++ 
Sbjct: 534  VDEVLSMGDAS-------------ARDGNDRRKALLCEIQLLNQFGASSWRDRNADRRIL 580

Query: 290  PPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVG 349
            PPL+ A + GD +V ++LL   ++D+N+ D +  GN+ALH  L  S    +     RIV 
Sbjct: 581  PPLLRAAKVGDMNVTKMLLMG-DVDVNETDPE--GNTALHWCLSGSSSTQE----PRIVW 633

Query: 350  ILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKN 409
            +LLK+GA V Q NKLGLT +H AA  GN +AL+ L+    DC++  +   ETPLF AVKN
Sbjct: 634  LLLKNGARVFQGNKLGLTPVHTAAAKGNYKALQSLLLHAQDCVDTPSKTKETPLFLAVKN 693

Query: 410  DHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHTNLAFLNQEKQNAS 469
              + C ++LLR+GAN +  NLR++RP+D A SQDMRF+L +AN    N + L +      
Sbjct: 694  GSVHCVKLLLRFGANPKAQNLRKQRPVDVATSQDMRFILNSANVVPLNHSSLQKNHVTKK 753

Query: 470  LESDEDISGTCEALLSMVDDNSNTERICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQH 529
                E +    +  ++   D S TER  S       + + S +   +G+K       +Q 
Sbjct: 754  ERRKELLDDDFDDYVNDDFDESYTERQASVGH----RDFRSSNYSTQGTKSKSQNAPKQS 809

Query: 530  RKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS 589
             K +      +    ++  KIFVGGLP  +D+  LG +F   FGP+E+A V   + +   
Sbjct: 810  PKFS--RHNDYWEKHDYTRKIFVGGLPPSVDNVYLGKFFAAEFGPVEEAMVIMLKIDNHI 867

Query: 590  VSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQESKHE 649
             SR FGFV F+ EK   +A +A++V ++GK VEIK AV      A       ++    H 
Sbjct: 868  QSRCFGFVKFQREKDMLSAKEAQYVYVLGKRVEIKDAV------ARPYSPEPRRAIPHHI 921

Query: 650  HQARLGAKIPDERTMEQIISRNAKEEIQTKKITEEMPCRRVTEEATAEKSWAGRLLYGQP 709
            H                          ++ ++T  +P    TE+            YG+ 
Sbjct: 922  H--------------------------ESPRVTHSVPESEPTEQH-----------YGKR 944

Query: 710  KTSSNESQAYLVESFEEKSMPKWLRTFKKWLPRFLKDVY-RHPLEGKYALSSLKTDFKAV 768
            +               EKS+P W   F+KWLP FL D   RH   G+Y LSS+K+DF++ 
Sbjct: 945  R------------PLPEKSLPSWFFIFRKWLPGFLVDATERH--GGRYPLSSVKSDFRSS 990

Query: 769  CGLELDHASLGYSKLSDFLRTLPDLCHVKAGPIGKNGSPNHMVLVPSPPKQKWGAL---- 824
            C +ELDH +LGY KLSDF+R+LP +C +   P+G  G   HMVL+P   + K+  L    
Sbjct: 991  CRMELDHGTLGYPKLSDFMRSLPGICRMCVVPVG-TGPATHMVLLPPLSRPKYVPLLEPY 1049

Query: 825  -------------------QLSKNGNPSSPVN-------SASDSN-------ECDRNDSK 851
                                L+ N    SP N       + S+SN       EC R+++ 
Sbjct: 1050 SFDHDELPESVSDDHSPRSALTANNTEDSPHNIDSQHGDACSESNVQSPHDDECSRSNAD 1109

Query: 852  SPQDLRSVSISSTIE 866
            SP+D  S S  S ++
Sbjct: 1110 SPRDGDSTSNGSLLD 1124

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242085946|ref|XP_002443398.1| hypothetical protein SORBIDRAFT_08g018890 [Sorghum bicolor] gi|241944091|gb|EES17236.1| hypothetical protein SORBIDRAFT_08g018890 [Sorghum bicolor]

 Score =  445 bits (1145), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 301/859 (35%), Positives = 453/859 (52%), Gaps = 105/859 (12%)

Query: 13  SVTDLETTLIINSLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIFDSVSC 72
           +V +  T L+++++    K+ +  + K       LD       + T+LL ++C  D+V C
Sbjct: 12  AVAEDNTALLLSAVGNFRKEAMCRIRKGSDASRVLDKE-----MSTRLLHLACKHDAVEC 66

Query: 73  ATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLL 132
           A  L+ G  G +A   +  +    T LH+AAE+H+ARC++LLL K ARTD+R  DGR LL
Sbjct: 67  ARLLLEGGSGIMAAPIDARDQLTRTPLHVAAETHSARCIQLLLSKNARTDLRVVDGRPLL 126

Query: 133 PLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRI 192
           PLE++L S R+   W+  E  +EDL+  L Q++L  V+LL++KT+ + E+AY  A+ G I
Sbjct: 127 PLEIALMSRRVQTNWSV-ENPIEDLLSFLKQRDLDAVRLLAEKTRVVGELAYRYAMEGSI 185

Query: 193 VALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNST 252
            ALA LL+V  +K++  + V+ +   G + K +IY  ++ EAL++G A+           
Sbjct: 186 PALAMLLLVVEEKISSHVSVVIE---GVRTKRSIYNSIVDEALSMGDAS----------- 231

Query: 253 PTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKN 312
                  E++K LL EI+LL  FG+ +     D++  PPL+ A + GD DVI++LL   N
Sbjct: 232 --ARDGNERKKALLCEIQLLNQFGSASWRDHNDRRTLPPLLRAAKVGDMDVIKMLLMG-N 288

Query: 313 IDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIA 372
           +D+N+AD++  GN+ALH  L  +    +     RIV +LLK+GA V Q NKLGLT +H A
Sbjct: 289 VDVNEADSE--GNTALHWCLSGASCTKE----PRIVWLLLKNGARVFQGNKLGLTPVHSA 342

Query: 373 AGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRR 432
           A  GN +AL+ L+    DC+++ T   ETPLFFAVKN  + C ++LLR+GA+++  NLR+
Sbjct: 343 AAKGNYKALQSLLLHAQDCVDIPTKTKETPLFFAVKNGSVDCVKLLLRFGADTKARNLRK 402

Query: 433 ERPIDFAKSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDISGTCEALLSMVDDNSN 492
           +RPID A SQDMRF+L +AN    N +   + +        E +    + L     D S 
Sbjct: 403 QRPIDVATSQDMRFILSSANVLPWNHSSPQKNRVMRKEIYKELLGDEFDDLDKDYCDESY 462

Query: 493 TERICSGTKIEVCKY-YESHSGCIRG--SKCFYALGEEQHRKMNPGMCMIHASTQEFKSK 549
           T     G K  V +  + S +   +G  SK  Y   + Q  K  P     H    ++  K
Sbjct: 463 T-----GLKTSVGQRDFRSSNRSAQGPKSKSQYVPKQAQGSKFVPR--NNHWPKHDYTRK 515

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           IFVGGLP  +DSD L  +F   FGP+E+A V       +  SRGFGFV F+ E+   +A 
Sbjct: 516 IFVGGLPPSVDSDYLIEFFNAEFGPVEEAVVIGIPIGNRVQSRGFGFVKFEREEDMISAK 575

Query: 610 QARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQESKHEHQARLGAKIPDERTMEQIIS 669
           +A  V ++GK VE+K AV +  L  E Q+ ++ ++                         
Sbjct: 576 EAHHVYMLGKRVEVKDAVARAYLPLEDQRYTSLRE------------------------- 610

Query: 670 RNAKEEIQTKKITEEMPCRRVTEEATAEKSWAGRLLYGQPKTSSNESQAYLVESFEEKSM 729
              KE  +  ++ +      +TEE   +K         QP                EK +
Sbjct: 611 -CIKERPKVHRVLDG----ELTEEHNLQKR--------QP--------------LPEKCL 643

Query: 730 PKWLRTFKKWLPRFLKDVYRHPLEGKYALSSLKTDFKAVCGLELDHASLGYSKLSDFLRT 789
           P W   F+KWLP FL+D        +Y LSSLK DF+A C +ELDH +LGY KLSDF+R+
Sbjct: 644 PSWFFIFRKWLPGFLEDETARLGGERYPLSSLKGDFRATCRMELDHTALGYPKLSDFMRS 703

Query: 790 LPDLCHVKAGPIGKNGSPNHMVLVPSPPKQKWGAL-------------QLSKNGNPSSPV 836
           LP +C +   P+G +G   HMVL+P   + K+  L              +S + +P SP+
Sbjct: 704 LPGICRMCVVPVG-SGPATHMVLLPPLSRPKYVPLLEPCSFDRDELAESVSDHHSPRSPL 762

Query: 837 NSASDSNECDRNDSKSPQD 855
           N+    +     DS+   D
Sbjct: 763 NANIADDSPHNTDSQQGDD 781

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|218187168|gb|EEC69595.1| hypothetical protein OsI_38941 [Oryza sativa Indica Group]

 Score =  441 bits (1134), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 292/819 (35%), Positives = 438/819 (53%), Gaps = 107/819 (13%)

Query: 51  DQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARC 110
           DQ+ +  T+LL ++C  D+V CA  L+ G  G  A   +  +    T L +AAE+H+ARC
Sbjct: 52  DQEMS--TRLLHLACKHDAVQCARLLLEGGHGITASPVDARDQLTRTPLQVAAEAHSARC 109

Query: 111 VELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVK 170
           +ELLL K ARTD++  DGR LL LE++L S R  V W+ D  S+EDL+  L +K+L  V+
Sbjct: 110 IELLLSKNARTDLKLVDGRPLLALEIALLSRRAQVKWSLDN-SIEDLLSSLQEKDLNVVR 168

Query: 171 LLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECV 230
           LL++KT+E+ EVAY  A+ GR+  LA LL+VA +K++  + V+ +   G + K +IY  +
Sbjct: 169 LLAEKTREVGEVAYRYAMEGRVTVLAMLLLVAEEKISAPVSVVIE---GVRTKKSIYYSI 225

Query: 231 IREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGA-VANGSCTDKKVG 289
           + EAL++G A                 S E+RK LL EI+LL  FGA +      DK+  
Sbjct: 226 VDEALSIGDAP-------------ARDSNERRKALLSEIQLLNQFGAALWRDRNIDKRSL 272

Query: 290 PPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVG 349
           PPL+ A + GD +V ++LL   ++D+N+AD +  GN+ALH  L  S    +     RIV 
Sbjct: 273 PPLLKAAKVGDVNVTKMLLMG-DVDVNEADPE--GNTALHWCLSGSSSTQE----PRIVW 325

Query: 350 ILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKN 409
           +LLK+GA V Q NKLGLT +H AA  GN +AL+ L+    DC++  +   ETPLF AVKN
Sbjct: 326 LLLKNGARVFQGNKLGLTPVHSAAAKGNYKALQSLLLHAQDCVDTPSKTKETPLFLAVKN 385

Query: 410 DHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHTNLAFLNQEKQNAS 469
             + C ++LLR GA+++V NLR++RPID A SQDM F+L +A     N+   N+      
Sbjct: 386 GSLDCVKLLLRSGASTKVQNLRKQRPIDVATSQDMHFILTSA-----NVVPWNRSSHPKK 440

Query: 470 LESDEDISGTCEALL--SMVD-DNSNTERICSGTKIEVC-KYYESHSGCIRGSKCFYALG 525
           + ++++   +C+  L  + VD D+ +     +G K     + + S +G  +G K      
Sbjct: 441 IVTNKE---SCKEFLDDNFVDYDSDDLNESFTGLKTSASHRDFRSSNGSAQGGKSKNHCA 497

Query: 526 EEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQT 585
            +Q  K  P     H    ++  KIFVGGLP  + ++ L  +F   FGP+E+A V   + 
Sbjct: 498 PKQGSKFVPRPN--HWLKHDYTRKIFVGGLPLSVGAEYLTEFFTAEFGPVEEAVVIGIRM 555

Query: 586 EKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQE 645
             +  SRGFGFV FK E+   +A +   V ++GK VE+K AV +  L AE+QK ++ +  
Sbjct: 556 GDRVQSRGFGFVKFKREEDVISAKETHHVYMLGKRVEVKDAVARGFLPAEIQKTASFRHH 615

Query: 646 SKHEHQARLGAKIPDERTMEQIISRNAKEEIQTKKITEEMPCRRVTEEATAEKSWAGRLL 705
           S+         ++P  +    ++    KEE   +K                   W     
Sbjct: 616 SQ---------EVP--KVAHHMLDGELKEEHYIRK-------------------W----- 640

Query: 706 YGQPKTSSNESQAYLVESFEEKSMPKWLRTFKKWLPRFLKDVYRHPLEGKYALSSLKTDF 765
                               EK +P W   F+KWLP FL D     L  +Y LSSLK DF
Sbjct: 641 ----------------RPLPEKCLPSWFFIFRKWLPGFLADATER-LGDRYPLSSLKGDF 683

Query: 766 KAVCGLELDHASLGYSKLSDFLRTLPDLCHVKAGPIGKNGSPNHMVLVPSPPKQKWGAL- 824
           +A+C +ELDH + GY KLSDF+R+LP +C +   P+G +G   HMVL+P   + K+  L 
Sbjct: 684 RAICRMELDHGTFGYPKLSDFMRSLPGICRMCVVPVG-SGPATHMVLLPPVSRPKYVPLL 742

Query: 825 ------------QLSKNGNPSSPVNSASDSNECDRNDSK 851
                        +S + +P SP+ +    +     DS+
Sbjct: 743 EPFSFDHDELPESVSDHQSPRSPLTTNITEDSLRNTDSQ 781

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|307684209|dbj|BAJ20165.1| MEL2 [Oryza sativa Japonica Group]

 Score =  441 bits (1133), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 289/782 (36%), Positives = 421/782 (53%), Gaps = 101/782 (12%)

Query: 51  DQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARC 110
           DQ+ +  T+LL ++C  D+V CA  L+ G  G  A   +  +    T L +AAE+H+ARC
Sbjct: 73  DQEMS--TRLLHLACKHDAVQCARLLLEGGHGITASPVDARDQLTRTPLQVAAEAHSARC 130

Query: 111 VELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVK 170
           +ELLL K ARTD++  DGR L+ LE++L S R  V W+ D  S+EDL+  L +K+L  V+
Sbjct: 131 IELLLSKNARTDLKLVDGRPLVALEIALLSRRAQVKWSLDN-SIEDLLSSLQEKDLNAVR 189

Query: 171 LLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECV 230
           LL++KT+E+ EVAY  A+ GR+  LA LL+VA +K++  + V+ +   G + K +IY  +
Sbjct: 190 LLAEKTREVGEVAYRYAMEGRVTVLAMLLLVAEEKISAPVSVVIE---GVRTKKSIYYSI 246

Query: 231 IREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGA-VANGSCTDKKVG 289
           + EAL++G A                 S E+RK LL EI+LL  FGA +      DK+  
Sbjct: 247 VDEALSIGDAP-------------ARDSNERRKALLSEIQLLNQFGAALWRDRNIDKRSL 293

Query: 290 PPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVG 349
           PPL+ A + GD +V ++LL   ++D+N+AD +  GN+ALH  L  S    +     RIV 
Sbjct: 294 PPLLKAAKVGDVNVTKMLLMG-DVDVNEADPE--GNTALHWCLSGSSSTQE----PRIVW 346

Query: 350 ILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKN 409
           +LLK+GA V Q NKLGLT +H AA  GN +AL+ L+    DC++  +   ETPLF AVKN
Sbjct: 347 LLLKNGARVFQGNKLGLTPVHSAAAKGNYKALQSLLLHAQDCVDTPSKTKETPLFLAVKN 406

Query: 410 DHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAAN------TCHTNLAFLNQ 463
             + C ++LLR GA+++V NLR++RPID A SQDMRF+L +AN      + H   +  N+
Sbjct: 407 GSLDCVKLLLRSGASTKVQNLRKQRPIDVATSQDMRFILTSANVAPWNRSSHPKKSVTNK 466

Query: 464 EKQNASLESDEDISGTCEALLSMVDDNSNTERICSGTKIEVC-KYYESHSGCIRGSKCFY 522
           E     LE   D             D+ +     +G K     + + S +G  +G K   
Sbjct: 467 ESCKEFLEDFGDY------------DSDDLNESFTGLKTSASHRDFRSSNGSAQGGKSKN 514

Query: 523 ALGEEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAE 582
               +Q  K  P     H    ++  KIFVGGLP  + ++ L  +F   FGP+E+A V  
Sbjct: 515 HCAPKQGSKFVPR--PNHWPKHDYTRKIFVGGLPPSVGAEYLTEFFTAEFGPVEEAVVIG 572

Query: 583 FQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQ 642
            +   +  SRGFGFV FK E+   +A +   V ++GK VE+K AV +  L AE+QK +  
Sbjct: 573 IRMGDRVQSRGFGFVKFKREEDVISAKETHHVYMLGKRVEVKDAVARGSLPAEIQKIAPF 632

Query: 643 QQESKHEHQARLGAKIPDERTMEQIISRNAKEEIQTKKITEEMPCRRVTEEATAEKSWAG 702
           +  S+         ++P  +    ++    KEE   +K       RR             
Sbjct: 633 RHHSQ---------EVP--KVTHHLLDGELKEEHYIRK-------RR------------- 661

Query: 703 RLLYGQPKTSSNESQAYLVESFEEKSMPKWLRTFKKWLPRFLKDVYRHPLEGKYALSSLK 762
                                  EK +P W   F+KWLP FL D     L  +Y LSSLK
Sbjct: 662 --------------------PLPEKCLPSWFFIFRKWLPGFLADATER-LGDRYPLSSLK 700

Query: 763 TDFKAVCGLELDHASLGYSKLSDFLRTLPDLCHVKAGPIGKNGSPNHMVLVPSPPKQKWG 822
            DF+A+C +ELDH +LGY KLSDF+R+LP +C +   P+G +G   HMVL+P   + K+ 
Sbjct: 701 GDFRAICRMELDHGTLGYPKLSDFMRSLPGICRMCVVPVG-SGPATHMVLLPPVSRPKYV 759

Query: 823 AL 824
            L
Sbjct: 760 PL 761

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125537113|gb|EAY83601.1| hypothetical protein OsI_38823 [Oryza sativa Indica Group]

 Score =  441 bits (1133), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 289/782 (36%), Positives = 421/782 (53%), Gaps = 101/782 (12%)

Query: 51  DQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARC 110
           DQ+ +  T+LL ++C  D+V CA  L+ G  G  A   +  +    T L +AAE+H+ARC
Sbjct: 64  DQEMS--TRLLHLACKHDAVQCARLLLEGGHGITASPVDARDQLTRTPLQVAAEAHSARC 121

Query: 111 VELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVK 170
           +ELLL K ARTD++  DGR L+ LE++L S R  V W+ D  S+EDL+  L +K+L  V+
Sbjct: 122 IELLLSKNARTDLKLVDGRPLVALEIALLSRRAQVKWSLDN-SIEDLLSSLQEKDLNAVR 180

Query: 171 LLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECV 230
           LL++KT+E+ EVAY  A+ GR+  LA LL+VA +K++  + V+ +   G + K +IY  +
Sbjct: 181 LLAEKTREVGEVAYRYAMEGRVTVLAMLLLVAEEKISAPVSVVIE---GVRTKKSIYYSI 237

Query: 231 IREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGA-VANGSCTDKKVG 289
           + EAL++G A                 S E+RK LL EI+LL  FGA +      DK+  
Sbjct: 238 VDEALSIGDAP-------------ARDSNERRKALLSEIQLLNQFGAALWRDRNIDKRSL 284

Query: 290 PPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVG 349
           PPL+ A + GD +V ++LL   ++D+N+AD +  GN+ALH  L  S    +     RIV 
Sbjct: 285 PPLLKAAKVGDVNVTKMLLMG-DVDVNEADPE--GNTALHWCLSGSSSTQE----PRIVW 337

Query: 350 ILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKN 409
           +LLK+GA V Q NKLGLT +H AA  GN +AL+ L+    DC++  +   ETPLF AVKN
Sbjct: 338 LLLKNGARVFQGNKLGLTPVHSAAAKGNYKALQSLLLHAQDCVDTPSKTKETPLFLAVKN 397

Query: 410 DHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAAN------TCHTNLAFLNQ 463
             + C ++LLR GA+++V NLR++RPID A SQDMRF+L +AN      + H   +  N+
Sbjct: 398 GSLDCVKLLLRSGASTKVQNLRKQRPIDVATSQDMRFILTSANVAPWNRSSHPKKSVTNK 457

Query: 464 EKQNASLESDEDISGTCEALLSMVDDNSNTERICSGTKIEVC-KYYESHSGCIRGSKCFY 522
           E     LE   D             D+ +     +G K     + + S +G  +G K   
Sbjct: 458 ESCKEFLEDFGDY------------DSDDLNESFTGLKTSASHRDFRSSNGSAQGGKSKN 505

Query: 523 ALGEEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAE 582
               +Q  K  P     H    ++  KIFVGGLP  + ++ L  +F   FGP+E+A V  
Sbjct: 506 HCAPKQGSKFVPR--PNHWPKHDYTRKIFVGGLPPSVGAEYLTEFFTAEFGPVEEAVVIG 563

Query: 583 FQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQ 642
            +   +  SRGFGFV FK E+   +A +   V ++GK VE+K AV +  L AE+QK +  
Sbjct: 564 IRMGDRVQSRGFGFVKFKREEDVISAKETHHVYMLGKRVEVKDAVARGSLPAEIQKIAPF 623

Query: 643 QQESKHEHQARLGAKIPDERTMEQIISRNAKEEIQTKKITEEMPCRRVTEEATAEKSWAG 702
           +  S+         ++P  +    ++    KEE   +K       RR             
Sbjct: 624 RHHSQ---------EVP--KVTHHLLDGELKEEHYIRK-------RR------------- 652

Query: 703 RLLYGQPKTSSNESQAYLVESFEEKSMPKWLRTFKKWLPRFLKDVYRHPLEGKYALSSLK 762
                                  EK +P W   F+KWLP FL D     L  +Y LSSLK
Sbjct: 653 --------------------PLPEKCLPSWFFIFRKWLPGFLADATER-LGDRYPLSSLK 691

Query: 763 TDFKAVCGLELDHASLGYSKLSDFLRTLPDLCHVKAGPIGKNGSPNHMVLVPSPPKQKWG 822
            DF+A+C +ELDH +LGY KLSDF+R+LP +C +   P+G +G   HMVL+P   + K+ 
Sbjct: 692 GDFRAICRMELDHGTLGYPKLSDFMRSLPGICRMCVVPVG-SGPATHMVLLPPVSRPKYV 750

Query: 823 AL 824
            L
Sbjct: 751 PL 752

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|77556882|gb|ABA99678.1| RNA recognition motif family protein [Oryza sativa Japonica Group] gi|125579802|gb|EAZ20948.1| hypothetical protein OsJ_36599 [Oryza sativa Japonica Group]

 Score =  440 bits (1132), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 289/782 (36%), Positives = 421/782 (53%), Gaps = 101/782 (12%)

Query: 51  DQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARC 110
           DQ+ +  T+LL ++C  D+V CA  L+ G  G  A   +  +    T L +AAE+H+ARC
Sbjct: 62  DQEMS--TRLLHLACKHDAVQCARLLLEGGHGITASPVDARDQLTRTPLQVAAEAHSARC 119

Query: 111 VELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVK 170
           +ELLL K ARTD++  DGR L+ LE++L S R  V W+ D  S+EDL+  L +K+L  V+
Sbjct: 120 IELLLSKNARTDLKLVDGRPLVALEIALLSRRAQVKWSLDN-SIEDLLSSLQEKDLNAVR 178

Query: 171 LLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECV 230
           LL++KT+E+ EVAY  A+ GR+  LA LL+VA +K++  + V+ +   G + K +IY  +
Sbjct: 179 LLAEKTREVGEVAYRYAMEGRVTVLAMLLLVAEEKISAPVSVVIE---GVRTKKSIYYSI 235

Query: 231 IREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGA-VANGSCTDKKVG 289
           + EAL++G A                 S E+RK LL EI+LL  FGA +      DK+  
Sbjct: 236 VDEALSIGDAP-------------ARDSNERRKALLSEIQLLNQFGAALWRDRNIDKRSL 282

Query: 290 PPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVG 349
           PPL+ A + GD +V ++LL   ++D+N+AD +  GN+ALH  L  S    +     RIV 
Sbjct: 283 PPLLKAAKVGDVNVTKMLLMG-DVDVNEADPE--GNTALHWCLSGSSSTQE----PRIVW 335

Query: 350 ILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKN 409
           +LLK+GA V Q NKLGLT +H AA  GN +AL+ L+    DC++  +   ETPLF AVKN
Sbjct: 336 LLLKNGARVFQGNKLGLTPVHSAAAKGNYKALQSLLLHAQDCVDTPSKTKETPLFLAVKN 395

Query: 410 DHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAAN------TCHTNLAFLNQ 463
             + C ++LLR GA+++V NLR++RPID A SQDMRF+L +AN      + H   +  N+
Sbjct: 396 GSLDCVKLLLRSGASTKVQNLRKQRPIDVATSQDMRFILTSANVAPWNRSSHPKKSVTNK 455

Query: 464 EKQNASLESDEDISGTCEALLSMVDDNSNTERICSGTKIEVC-KYYESHSGCIRGSKCFY 522
           E     LE   D             D+ +     +G K     + + S +G  +G K   
Sbjct: 456 ESCKEFLEDFGDY------------DSDDLNESFTGLKTSASHRDFRSSNGSAQGGKSKN 503

Query: 523 ALGEEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAE 582
               +Q  K  P     H    ++  KIFVGGLP  + ++ L  +F   FGP+E+A V  
Sbjct: 504 HCAPKQGSKFVPR--PNHWPKHDYTRKIFVGGLPPSVGAEYLTEFFTAEFGPVEEAVVIG 561

Query: 583 FQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQ 642
            +   +  SRGFGFV FK E+   +A +   V ++GK VE+K AV +  L AE+QK +  
Sbjct: 562 IRMGDRVQSRGFGFVKFKREEDVISAKETHHVYMLGKRVEVKDAVARGSLPAEIQKIAPF 621

Query: 643 QQESKHEHQARLGAKIPDERTMEQIISRNAKEEIQTKKITEEMPCRRVTEEATAEKSWAG 702
           +  S+         ++P  +    ++    KEE   +K       RR             
Sbjct: 622 RHHSQ---------EVP--KVTHHLLDGELKEEHYIRK-------RR------------- 650

Query: 703 RLLYGQPKTSSNESQAYLVESFEEKSMPKWLRTFKKWLPRFLKDVYRHPLEGKYALSSLK 762
                                  EK +P W   F+KWLP FL D     L  +Y LSSLK
Sbjct: 651 --------------------PLPEKCLPSWFFIFRKWLPGFLADATER-LGDRYPLSSLK 689

Query: 763 TDFKAVCGLELDHASLGYSKLSDFLRTLPDLCHVKAGPIGKNGSPNHMVLVPSPPKQKWG 822
            DF+A+C +ELDH +LGY KLSDF+R+LP +C +   P+G +G   HMVL+P   + K+ 
Sbjct: 690 GDFRAICRMELDHGTLGYPKLSDFMRSLPGICRMCVVPVG-SGPATHMVLLPPVSRPKYV 748

Query: 823 AL 824
            L
Sbjct: 749 PL 750

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|328813866|gb|AEB52064.1| meiosis arrested at leptotene 3 protein [Oryza sativa Japonica Group]

 Score =  440 bits (1132), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 289/782 (36%), Positives = 421/782 (53%), Gaps = 101/782 (12%)

Query: 51  DQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARC 110
           DQ+ +  T+LL ++C  D+V CA  L+ G  G  A   +  +    T L +AAE+H+ARC
Sbjct: 62  DQEMS--TRLLHLACKHDAVQCARLLLEGGHGITASPVDARDQLTRTPLQVAAEAHSARC 119

Query: 111 VELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVK 170
           +ELLL K ARTD++  DGR L+ LE++L S R  V W+ D  S+EDL+  L +K+L  V+
Sbjct: 120 IELLLSKNARTDLKLVDGRPLVALEIALLSRRAQVKWSLDN-SIEDLLSSLQEKDLNAVR 178

Query: 171 LLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECV 230
           LL++KT+E+ EVAY  A+ GR+  LA LL+VA +K++  + V+ +   G + K +IY  +
Sbjct: 179 LLAEKTREVGEVAYRYAMEGRVTVLAMLLLVAEEKISAPVSVVIE---GVRTKKSIYYSI 235

Query: 231 IREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGA-VANGSCTDKKVG 289
           + EAL++G A                 S E+RK LL EI+LL  FGA +      DK+  
Sbjct: 236 VDEALSIGDAP-------------ARDSNERRKALLSEIQLLNQFGAALWRDRNIDKRSL 282

Query: 290 PPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVG 349
           PPL+ A + GD +V ++LL   ++D+N+AD +  GN+ALH  L  S    +     RIV 
Sbjct: 283 PPLLKAAKVGDVNVTKMLLMG-DVDVNEADPE--GNTALHWCLSGSSSTQE----PRIVW 335

Query: 350 ILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKN 409
           +LLK+GA V Q NKLGLT +H AA  GN +AL+ L+    DC++  +   ETPLF AVKN
Sbjct: 336 LLLKNGARVFQGNKLGLTPVHSAAAKGNYKALQSLLLHAQDCVDTPSKTKETPLFLAVKN 395

Query: 410 DHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAAN------TCHTNLAFLNQ 463
             + C ++LLR GA+++V NLR++RPID A SQDMRF+L +AN      + H   +  N+
Sbjct: 396 GSLDCVKLLLRSGASTKVQNLRKQRPIDVATSQDMRFILTSANVAPWNRSSHPKKSVTNK 455

Query: 464 EKQNASLESDEDISGTCEALLSMVDDNSNTERICSGTKIEVC-KYYESHSGCIRGSKCFY 522
           E     LE   D             D+ +     +G K     + + S +G  +G K   
Sbjct: 456 ESCKEFLEDFGDY------------DSDDLNESFTGLKTSASHRDFRSSNGSAQGGKSKN 503

Query: 523 ALGEEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAE 582
               +Q  K  P     H    ++  KIFVGGLP  + ++ L  +F   FGP+E+A V  
Sbjct: 504 HCAPKQGSKFVPRPN--HWPKHDYTRKIFVGGLPPSVGAEYLTEFFTAEFGPVEEAVVIG 561

Query: 583 FQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQ 642
            +   +  SRGFGFV FK E+   +A +   V ++GK VE+K AV +  L AE+QK +  
Sbjct: 562 IRMGDRVQSRGFGFVKFKREEDVISAKETHHVYMLGKRVEVKDAVARGSLPAEIQKIAPF 621

Query: 643 QQESKHEHQARLGAKIPDERTMEQIISRNAKEEIQTKKITEEMPCRRVTEEATAEKSWAG 702
           +  S+         ++P  +    ++    KEE   +K       RR             
Sbjct: 622 RHHSQ---------EVP--KVTHHLLDGELKEEHYIRK-------RR------------- 650

Query: 703 RLLYGQPKTSSNESQAYLVESFEEKSMPKWLRTFKKWLPRFLKDVYRHPLEGKYALSSLK 762
                                  EK +P W   F+KWLP FL D     L  +Y LSSLK
Sbjct: 651 --------------------PLPEKCLPSWFFIFRKWLPGFLADATER-LGDRYPLSSLK 689

Query: 763 TDFKAVCGLELDHASLGYSKLSDFLRTLPDLCHVKAGPIGKNGSPNHMVLVPSPPKQKWG 822
            DF+A+C +ELDH +LGY KLSDF+R+LP +C +   P+G +G   HMVL+P   + K+ 
Sbjct: 690 GDFRAICRMELDHGTLGYPKLSDFMRSLPGICRMCVVPVG-SGPATHMVLLPPVSRPKYV 748

Query: 823 AL 824
            L
Sbjct: 749 PL 750

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	1044
TAIR|locus:2090749	772	AT3G28880 "AT3G28880" [Arabido	0.265	0.358	0.395	4.1e-61
UNIPROTKB|K7EQ02	225	DAZAP1 "DAZ-associated protein	0.076	0.355	0.457	5.3e-11
ZFIN|ZDB-GENE-060621-2	3888	ank3b "ankyrin 3b" [Danio reri	0.226	0.060	0.260	5e-10
UNIPROTKB|J9P972	258	DAZAP1 "Uncharacterized protei	0.076	0.310	0.457	1.8e-09
UNIPROTKB|K7EJ88	321	DAZAP1 "DAZ-associated protein	0.076	0.249	0.457	5.1e-09
ASPGD|ASPL0000075867	855	AN8767 [Emericella nidulans (t	0.139	0.170	0.297	8.9e-09
UNIPROTKB|E1BAK6	396	DAZAP1 "Uncharacterized protei	0.076	0.202	0.457	9.1e-09
UNIPROTKB|F1NTG9	398	DAZAP1 "Uncharacterized protei	0.076	0.201	0.457	9.2e-09
RGD|1305280	405	Dazap1 "DAZ associated protein	0.076	0.197	0.457	9.5e-09
MGI|MGI:1917498	406	Dazap1 "DAZ associated protein	0.076	0.197	0.457	9.6e-09

TAIR|locus:2090749 AT3G28880 "AT3G28880" [Arabidopsis thaliana (taxid:3702)]

 Score = 467 (169.5 bits), Expect = 4.1e-61, Sum P(2) = 4.1e-61
 Identities = 117/296 (39%), Positives = 165/296 (55%)

Query:   149 PDEYSVED--LVVILGQKNLTTVKLLSQKTKELDEVAYANXXXXXXXXXXXXXXXXXDKV 206
             P E S+ +  L+V+LG K+LT VKLL++KTKE+D VAYA                   K+
Sbjct:   174 PLELSLSNVRLIVLLGDKDLTVVKLLAEKTKEVDVVAYAYAKAGEIVSLTALLIVASGKI 233

Query:   207 NESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKXXX 266
              E+ + L D D    +  ++ +   RE   +  A  +Q A++ NS  T S  +EKR    
Sbjct:   234 REATVALRDDD----DDDSVAK---RERKTIYEAV-IQEALRSNSL-TQSVCSEKRMVLL 284

Query:   267 XXXXXXXXFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNS 326
                     FGA       DK+  P LI   QAGDE V+E+ + +             GN+
Sbjct:   285 REIELLQLFGAAVFSESVDKQTSP-LISIVQAGDEAVLELFINTNFDVNEKNIE---GNT 340

Query:   327 ALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIR 386
              L C+LK S     H  Q RI+ +L+ HGA V+Q+NKLGL+A+H AA +GN   LE L+ 
Sbjct:   341 VLQCSLKGSS--VPHNQQTRIMNLLIAHGARVNQKNKLGLSAVHFAAANGNLSTLEILLA 398

Query:   387 KEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQ 442
               PD +N+KT++ ETPLFFAVKN+H+ C E+LLR GA +E+ NLR+E   + A+SQ
Sbjct:   399 ANPDLVNMKTVIKETPLFFAVKNNHLDCVELLLRCGAITEIHNLRKET--ELAQSQ 452

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|K7EQ02 DAZAP1 "DAZ-associated protein 1" [Homo sapiens (taxid:9606)]

 Score = 165 (63.1 bits), Expect = 5.3e-11, P = 5.3e-11
 Identities = 38/83 (45%), Positives = 51/83 (61%)

Query:   548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
             +KIFVGG+P       L  YF+K FG + +  V  +  EKQ   RGFGF+TF+ E+S   
Sbjct:    91 NKIFVGGIPHNCGETELREYFKK-FGVVTEV-VMIYDAEKQR-PRGFGFITFEDEQSVDQ 147

Query:   608 AVQARFVTIMGKEVEIKSAVPKE 630
             AV   F  IMGK+VE+K A P++
Sbjct:   148 AVNMHFHDIMGKKVEVKRAEPRD 170

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

ZFIN|ZDB-GENE-060621-2 ank3b "ankyrin 3b" [Danio rerio (taxid:7955)]

 Score = 150 (57.9 bits), Expect = 5.0e-10, Sum P(3) = 5.0e-10
 Identities = 69/265 (26%), Positives = 106/265 (40%)

Query:   235 LALGRATKLQRAVKRNSTPTTSQSAEKRKXXXXXXXXXXXFGAVANGSCTDKKVGPPLIL 294
             L L +      A K   TP     A K K           +GA  N + T + + P L L
Sbjct:   579 LLLDQGASPHAAAKNGYTPL--HIAAK-KNQMEIATTLLEYGADTNAA-TRQGISP-LHL 633

Query:   295 ATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRIVGILLKH 354
             A Q G+ D++ +LL  +            G + +H A       +Q    N +  +L+ H
Sbjct:   634 AAQEGNVDMVTLLLAREAAVSLGNKS---GLTPIHLA-------AQEDRVN-VSEVLVNH 682

Query:   355 GAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVC 414
             GA V  + K+G T LH+A   GN + +  L++ +   +N KT    TPL  A +  H   
Sbjct:   683 GATVDPETKMGYTPLHVACHYGNVKMVHFLLKNQAK-VNAKTKNGYTPLHQAAQQGHTHI 741

Query:   415 AEVLLRWGANSEVLNLRRERPIDFAKSQDMRFL---LKAANT-CHTNLAFLNQEKQNASL 470
               +LL+ GA+   L +     +  A+      +   LKA     HT +    + K N   
Sbjct:   742 INLLLQHGASPNELTVNGNTALAIARRLGYISVVDTLKAVTEETHTTVTVTEKHKMN--- 798

Query:   471 ESDEDISGTCEALLSMVDDNSNTER 495
                  +  T   +L M DD   T R
Sbjct:   799 -----VPETMNEVLDMSDDEDYTVR 818

GO:0007165 "signal transduction" evidence=IEA

UNIPROTKB|J9P972 DAZAP1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 165 (63.1 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 38/83 (45%), Positives = 51/83 (61%)

Query:   548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
             +KIFVGG+P       L  YF+K FG + +  V  +  EKQ   RGFGF+TF+ E+S   
Sbjct:   140 NKIFVGGIPHNCGETELREYFKK-FGVVTEV-VMIYDAEKQR-PRGFGFITFEDEQSVDQ 196

Query:   608 AVQARFVTIMGKEVEIKSAVPKE 630
             AV   F  IMGK+VE+K A P++
Sbjct:   197 AVNMHFHDIMGKKVEVKRAEPRD 219

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|K7EJ88 DAZAP1 "DAZ-associated protein 1" [Homo sapiens (taxid:9606)]

 Score = 165 (63.1 bits), Expect = 5.1e-09, P = 5.1e-09
 Identities = 38/83 (45%), Positives = 51/83 (61%)

Query:   548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
             +KIFVGG+P       L  YF+K FG + +  V  +  EKQ   RGFGF+TF+ E+S   
Sbjct:    56 NKIFVGGIPHNCGETELREYFKK-FGVVTEV-VMIYDAEKQR-PRGFGFITFEDEQSVDQ 112

Query:   608 AVQARFVTIMGKEVEIKSAVPKE 630
             AV   F  IMGK+VE+K A P++
Sbjct:   113 AVNMHFHDIMGKKVEVKRAEPRD 135

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

ASPGD|ASPL0000075867 AN8767 [Emericella nidulans (taxid:162425)]

 Score = 142 (55.0 bits), Expect = 8.9e-09, Sum P(2) = 8.9e-09
 Identities = 47/158 (29%), Positives = 74/158 (46%)

Query:   279 ANGSCTDKKVGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGL 338
             A+ +  DK    PL +AT+  D +++ +L++              G + LH A+     +
Sbjct:   616 ADVNAADKSGQTPLDIATKQNDLELMNVLMEH---GAEIDSVTEEGATPLHQAI-----I 667

Query:   339 SQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIM 398
             ++   +  I  +LL+HGA    Q+  G   LH AA SG  +  E L+ K  D I++    
Sbjct:   668 NE---REDIAEVLLEHGADPEAQDSHGDAPLHFAAASGRRKMAELLLDKGVD-IDITNYT 723

Query:   399 METPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPI 436
              +TPL  A  N H    E LL  GA  E+ N  R+ P+
Sbjct:   724 GDTPLHKAASNGHRKMVEFLLSRGATLEIRNDYRQTPL 761

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

UNIPROTKB|E1BAK6 DAZAP1 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 165 (63.1 bits), Expect = 9.1e-09, P = 9.1e-09
 Identities = 38/83 (45%), Positives = 51/83 (61%)

Query:   548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
             +KIFVGG+P       L  YF+K FG + +  V  +  EKQ   RGFGF+TF+ E+S   
Sbjct:   103 NKIFVGGIPHNCGETELREYFKK-FGVVTEV-VMIYDAEKQR-PRGFGFITFEDEQSVDQ 159

Query:   608 AVQARFVTIMGKEVEIKSAVPKE 630
             AV   F  IMGK+VE+K A P++
Sbjct:   160 AVNMHFHDIMGKKVEVKRAEPRD 182

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|F1NTG9 DAZAP1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 165 (63.1 bits), Expect = 9.2e-09, P = 9.2e-09
 Identities = 38/83 (45%), Positives = 51/83 (61%)

Query:   548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
             +KIFVGG+P       L  YF+K FG + +  V  +  EKQ   RGFGF+TF+ E+S   
Sbjct:   103 NKIFVGGIPHNCGETELREYFKK-FGVVTEV-VMIYDAEKQR-PRGFGFITFEDEQSVDQ 159

Query:   608 AVQARFVTIMGKEVEIKSAVPKE 630
             AV   F  IMGK+VE+K A P++
Sbjct:   160 AVNMHFHDIMGKKVEVKRAEPRD 182

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

RGD|1305280 Dazap1 "DAZ associated protein 1" [Rattus norvegicus (taxid:10116)]

 Score = 165 (63.1 bits), Expect = 9.5e-09, P = 9.5e-09
 Identities = 38/83 (45%), Positives = 51/83 (61%)

Query:   548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
             +KIFVGG+P       L  YF+K FG + +  V  +  EKQ   RGFGF+TF+ E+S   
Sbjct:   112 NKIFVGGIPHNCGETELREYFKK-FGVVTEV-VMIYDAEKQR-PRGFGFITFEDEQSVDQ 168

Query:   608 AVQARFVTIMGKEVEIKSAVPKE 630
             AV   F  IMGK+VE+K A P++
Sbjct:   169 AVNMHFHDIMGKKVEVKRAEPRD 191

GO:0001893 "maternal placenta development" evidence=ISO

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0007283 "spermatogenesis" evidence=ISO

GO:0008283 "cell proliferation" evidence=ISO

GO:0035613 "RNA stem-loop binding" evidence=ISO

GO:0005730 "nucleolus" evidence=ISO

GO:0005844 "polysome" evidence=ISO

MGI|MGI:1917498 Dazap1 "DAZ associated protein 1" [Mus musculus (taxid:10090)]

 Score = 165 (63.1 bits), Expect = 9.6e-09, P = 9.6e-09
 Identities = 38/83 (45%), Positives = 51/83 (61%)

Query:   548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
             +KIFVGG+P       L  YF+K FG + +  V  +  EKQ   RGFGF+TF+ E+S   
Sbjct:   113 NKIFVGGIPHNCGETELREYFKK-FGVVTEV-VMIYDAEKQR-PRGFGFITFEDEQSVDQ 169

Query:   608 AVQARFVTIMGKEVEIKSAVPKE 630
             AV   F  IMGK+VE+K A P++
Sbjct:   170 AVNMHFHDIMGKKVEVKRAEPRD 192

GO:0000166 "nucleotide binding" evidence=IEA

GO:0001893 "maternal placenta development" evidence=IMP

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=ISA

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005844 "polysome" evidence=IDA

GO:0007275 "multicellular organismal development" evidence=IEA

GO:0007283 "spermatogenesis" evidence=IMP

GO:0008283 "cell proliferation" evidence=IMP

GO:0030154 "cell differentiation" evidence=IEA

GO:0035613 "RNA stem-loop binding" evidence=IDA

---

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	Length	Definition	E-value
Query	1044
cd00204	126	cd00204, ANK, ankyrin repeats; ankyrin repeats med	3e-22
cd00204	126	cd00204, ANK, ankyrin repeats; ankyrin repeats med	8e-20
cd12327	80	cd12327, RRM2_DAZAP1, RNA recognition motif 2 in D	2e-19
cd12578	78	cd12578, RRM1_hnRNPA_like, RNA recognition motif 1	1e-16
cd12384	76	cd12384, RRM_RBM24_RBM38_like, RNA recognition mot	2e-14
cd12330	75	cd12330, RRM2_Hrp1p, RNA recognition motif 2 in ye	5e-14
cd12325	72	cd12325, RRM1_hnRNPA_hnRNPD_like, RNA recognition	3e-13
pfam12796	91	pfam12796, Ank_2, Ankyrin repeats (3 copies)	5e-13
smart00360	73	smart00360, RRM, RNA recognition motif	6e-13
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	1e-12
pfam12796	91	pfam12796, Ank_2, Ankyrin repeats (3 copies)	2e-12
cd12328	73	cd12328, RRM2_hnRNPA_like, RNA recognition motif 2	2e-12
cd12579	80	cd12579, RRM2_hnRNPA0, RNA recognition motif 2 in	7e-12
cd12323	74	cd12323, RRM2_MSI, RNA recognition motif 2 in RNA-	1e-11
cd12329	75	cd12329, RRM2_hnRNPD_like, RNA recognition motif 2	4e-11
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	7e-11
cd12399	78	cd12399, RRM_HP0827_like, RNA recognition motif in	1e-10
cd00204	126	cd00204, ANK, ankyrin repeats; ankyrin repeats med	2e-10
cd12412	80	cd12412, RRM_DAZL_BOULE, RNA recognition motif in	3e-10
cd12447	76	cd12447, RRM1_gar2, RNA recognition motif 1 in yea	2e-09
cd12762	81	cd12762, RRM1_hnRNPA2B1, RNA recognition motif 1 i	4e-09
cd12382	80	cd12382, RRM_RBMX_like, RNA recognition motif in h	6e-09
PHA02878	477	PHA02878, PHA02878, ankyrin repeat protein; Provis	9e-09
cd12450	77	cd12450, RRM1_NUCLs, RNA recognition motif 1 found	1e-08
COG0666	235	COG0666, Arp, FOG: Ankyrin repeat [General functio	1e-08
pfam12872	74	pfam12872, OST-HTH, OST-HTH/LOTUS domain	2e-08
cd12574	82	cd12574, RRM1_DAZAP1, RNA recognition motif 1 in D	3e-08
cd12395	73	cd12395, RRM2_RBM34, RNA recognition motif 2 in RN	3e-08
cd12565	76	cd12565, RRM1_MRD1, RNA recognition motif 1 in yea	3e-08
cd12449	80	cd12449, RRM_CIRBP_RBM3, RNA recognition motif in	5e-08
cd12298	78	cd12298, RRM3_Prp24, RNA recognition motif 3 in fu	5e-08
cd12761	81	cd12761, RRM1_hnRNPA1, RNA recognition motif 1 in	9e-08
PLN03134	144	PLN03134, PLN03134, glycine-rich RNA-binding prote	1e-07
cd12763	81	cd12763, RRM1_hnRNPA3, RNA recognition motif 1 in	1e-07
cd12326	79	cd12326, RRM1_hnRNPA0, RNA recognition motif 1 fou	1e-07
cd12576	75	cd12576, RRM1_MSI, RNA recognition motif 1 in RNA-	2e-07
cd12582	80	cd12582, RRM2_hnRNPA3, RNA recognition motif 2 in	4e-07
pfam12796	91	pfam12796, Ank_2, Ankyrin repeats (3 copies)	6e-07
cd12577	76	cd12577, RRM1_Hrp1p, RNA recognition motif 1 in ye	6e-07
cd12321	77	cd12321, RRM1_TDP43, RNA recognition motif 1 in TA	7e-07
COG0724	306	COG0724, COG0724, RNA-binding proteins (RRM domain	9e-07
cd12413	79	cd12413, RRM1_RBM28_like, RNA recognition motif 1	1e-06
pfam12796	91	pfam12796, Ank_2, Ankyrin repeats (3 copies)	2e-06
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	2e-06
cd12572	74	cd12572, RRM2_MSI1, RNA recognition motif 2 in RNA	2e-06
cd12580	77	cd12580, RRM2_hnRNPA1, RNA recognition motif 2 in	2e-06
COG0666	235	COG0666, Arp, FOG: Ankyrin repeat [General functio	3e-06
cd12573	79	cd12573, RRM2_MSI2, RNA recognition motif 2 in RNA	3e-06
cd12392	81	cd12392, RRM2_SART3, RNA recognition motif 2 in sq	4e-06
cd12236	91	cd12236, RRM_snRNP70, RNA recognition motif in U1	4e-06
cd12353	75	cd12353, RRM2_TIA1_like, RNA recognition motif 2 i	4e-06
cd12315	77	cd12315, RRM1_RBM19_MRD1, RNA recognition motif 1	8e-06
cd12672	82	cd12672, RRM_DAZL, RNA recognition motif in verteb	8e-06
cd12674	79	cd12674, RRM1_Nop4p, RNA recognition motif 1 in ye	8e-06
cd12760	76	cd12760, RRM1_MSI2, RNA recognition motif 1 in RNA	9e-06
cd00204	126	cd00204, ANK, ankyrin repeats; ankyrin repeats med	1e-05
PHA03100	422	PHA03100, PHA03100, ankyrin repeat protein; Provis	1e-05
cd12362	73	cd12362, RRM3_CELF1-6, RNA recognition motif 3 in	1e-05
cd12347	73	cd12347, RRM_PPIE, RNA recognition motif in cyclop	1e-05
PHA02875	413	PHA02875, PHA02875, ankyrin repeat protein; Provis	2e-05
cd12380	80	cd12380, RRM3_I_PABPs, RNA recognition motif 3 fou	2e-05
cd12584	80	cd12584, RRM2_hnRNPAB, RNA recognition motif 2 in	2e-05
cd12361	77	cd12361, RRM1_2_CELF1-6_like, RNA recognition moti	2e-05
cd12284	73	cd12284, RRM2_RBM23_RBM39, RNA recognition motif 2	2e-05
pfam13637	54	pfam13637, Ank_4, Ankyrin repeats (many copies)	3e-05
cd12581	80	cd12581, RRM2_hnRNPA2B1, RNA recognition motif 2 i	3e-05
PHA03095	471	PHA03095, PHA03095, ankyrin-like protein; Provisio	3e-05
pfam13857	56	pfam13857, Ank_5, Ankyrin repeats (many copies)	4e-05
pfam13637	54	pfam13637, Ank_4, Ankyrin repeats (many copies)	5e-05
cd12336	75	cd12336, RRM_RBM7_like, RNA recognition motif in R	6e-05
cd12407	76	cd12407, RRM_FOX1_like, RNA recognition motif in v	6e-05
cd12673	81	cd12673, RRM_BOULE, RNA recognition motif in prote	8e-05
cd12316	74	cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition mot	9e-05
PHA03095	471	PHA03095, PHA03095, ankyrin-like protein; Provisio	1e-04
cd12379	77	cd12379, RRM2_I_PABPs, RNA recognition motif 2 fou	1e-04
cd12375	77	cd12375, RRM1_Hu_like, RNA recognition motif 1 in	1e-04
pfam00023	33	pfam00023, Ank, Ankyrin repeat	1e-04
cd12448	73	cd12448, RRM2_gar2, RNA recognition motif 2 in yea	2e-04
cd12726	81	cd12726, RRM2_CPEB2_like, RNA recognition motif 2	2e-04
cd12322	71	cd12322, RRM2_TDP43, RNA recognition motif 2 in TA	2e-04
cd12346	72	cd12346, RRM3_NGR1_NAM8_like, RNA recognition moti	2e-04
cd12612	82	cd12612, RRM2_SECp43, RNA recognition motif 2 in t	3e-04
cd09972	87	cd09972, LOTUS_TDRD_OSKAR, The first LOTUS domain	3e-04
cd12725	86	cd12725, RRM2_CPEB1, RNA recognition motif 2 in cy	3e-04
cd00204	126	cd00204, ANK, ankyrin repeats; ankyrin repeats med	4e-04
pfam13857	56	pfam13857, Ank_5, Ankyrin repeats (many copies)	4e-04
cd12354	73	cd12354, RRM3_TIA1_like, RNA recognition motif 2 i	4e-04
cd08824	70	cd08824, LOTUS, LOTUS is an uncharacterized small	4e-04
cd12415	82	cd12415, RRM3_RBM28_like, RNA recognition motif 3	5e-04
cd12373	73	cd12373, RRM_SRSF3_like, RNA recognition motif in	5e-04
cd12585	75	cd12585, RRM2_hnRPDL, RNA recognition motif 2 in h	6e-04
cd12759	77	cd12759, RRM1_MSI1, RNA recognition motif 1 in RNA	6e-04
TIGR01628	562	TIGR01628, PABP-1234, polyadenylate binding protei	6e-04
cd12271	72	cd12271, RRM1_PHIP1, RNA recognition motif 1 in Ar	8e-04
cd12482	79	cd12482, RRM1_hnRNPR, RNA recognition motif 1 in v	8e-04
cd12631	84	cd12631, RRM1_CELF1_2_Bruno, RNA recognition motif	8e-04
PHA02878	477	PHA02878, PHA02878, ankyrin repeat protein; Provis	0.001
cd12757	75	cd12757, RRM1_hnRNPAB, RNA recognition motif 1 in	0.001
cd12307	74	cd12307, RRM_NIFK_like, RNA recognition motif in n	0.001
cd12552	77	cd12552, RRM_Nop15p, RNA recognition motif in yeas	0.001
cd12397	73	cd12397, RRM2_Nop13p_fungi, RNA recognition motif	0.001
PHA03100	422	PHA03100, PHA03100, ankyrin repeat protein; Provis	0.002
TIGR01628	562	TIGR01628, PABP-1234, polyadenylate binding protei	0.002
cd12483	79	cd12483, RRM1_hnRNPQ, RNA recognition motif 1 in v	0.002
cd12341	68	cd12341, RRM_hnRNPC_like, RNA recognition motif in	0.002
cd12619	75	cd12619, RRM2_PUB1, RNA recognition motif 2 in yea	0.002
TIGR01622	457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	0.002
cd12575	74	cd12575, RRM1_hnRNPD_like, RNA recognition motif 1	0.002
cd12398	75	cd12398, RRM_CSTF2_RNA15_like, RNA recognition mot	0.002
cd12414	76	cd12414, RRM2_RBM28_like, RNA recognition motif 2	0.003
cd12381	79	cd12381, RRM4_I_PABPs, RNA recognition motif 4 in	0.003
cd12583	75	cd12583, RRM2_hnRNPD, RNA recognition motif 2 in h	0.003
cd12225	77	cd12225, RRM1_2_CID8_like, RNA recognition motif 1	0.004
cd12618	80	cd12618, RRM2_TIA1, RNA recognition motif 2 in nuc	0.004
cd12445	81	cd12445, RRM2_CPEBs, RNA recognition motif 2 in cy	0.004

>gnl|CDD|238125 cd00204, ANK, ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins

 Score = 92.8 bits (231), Expect = 3e-22
 Identities = 45/129 (34%), Positives = 68/129 (52%), Gaps = 12/129 (9%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL LA   G  +V+++LL+    D+N  D D  G + LH A K             IV +
Sbjct: 10  PLHLAASNGHLEVVKLLLE-NGADVNAKDND--GRTPLHLAAKNG--------HLEIVKL 58

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LL+ GA V+ ++K G T LH+AA +GN   ++ L++   D +N +     TPL  A KN 
Sbjct: 59  LLEKGADVNARDKDGNTPLHLAARNGNLDVVKLLLKHGAD-VNARDKDGRTPLHLAAKNG 117

Query: 411 HMVCAEVLL 419
           H+   ++LL
Sbjct: 118 HLEVVKLLL 126

The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other types of domains. The structural repeat unit contains two antiparallel helices and a beta-hairpin, repeats are stacked in a superhelical arrangement; this alignment contains 4 consecutive repeats. Length = 126

>gnl|CDD|238125 cd00204, ANK, ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins

 Score = 85.9 bits (213), Expect = 8e-20
 Identities = 34/119 (28%), Positives = 60/119 (50%), Gaps = 9/119 (7%)

Query: 321 DADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQA 380
           D DG + LH A               +V +LL++GA V+ ++  G T LH+AA +G+ + 
Sbjct: 4   DEDGRTPLHLAASNG--------HLEVVKLLLENGADVNAKDNDGRTPLHLAAKNGHLEI 55

Query: 381 LEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFA 439
           ++ L+ K  D +N +     TPL  A +N ++   ++LL+ GA+    +     P+  A
Sbjct: 56  VKLLLEKGAD-VNARDKDGNTPLHLAARNGNLDVVKLLLKHGADVNARDKDGRTPLHLA 113

The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other types of domains. The structural repeat unit contains two antiparallel helices and a beta-hairpin, repeats are stacked in a superhelical arrangement; this alignment contains 4 consecutive repeats. Length = 126

>gnl|CDD|240773 cd12327, RRM2_DAZAP1, RNA recognition motif 2 in Deleted in azoospermia-associated protein 1 (DAZAP1) and similar proteins

 Score = 82.8 bits (205), Expect = 2e-19
 Identities = 35/80 (43%), Positives = 45/80 (56%), Gaps = 3/80 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           KIFVGGLP  +    L  YF + FG + +  V  +  EK+   RGFGF+TF+ E S    
Sbjct: 4   KIFVGGLPPNVTETDLRKYFSQ-FGTVTEV-VVMYDHEKKR-PRGFGFITFESEDSVDQV 60

Query: 609 VQARFVTIMGKEVEIKSAVP 628
           V   F  I GK+VE+K A P
Sbjct: 61  VNEHFHDINGKKVEVKRAEP 80

This subfamily corresponds to the RRM2 of DAZAP1 or DAZ-associated protein 1, also termed proline-rich RNA binding protein (Prrp), a multi-functional ubiquitous RNA-binding protein expressed most abundantly in the testis and essential for normal cell growth, development, and spermatogenesis. DAZAP1 is a shuttling protein whose acetylated is predominantly nuclear and the nonacetylated form is in cytoplasm. DAZAP1 also functions as a translational regulator that activates translation in an mRNA-specific manner. DAZAP1 was initially identified as a binding partner of Deleted in Azoospermia (DAZ). It also interacts with numerous hnRNPs, including hnRNP U, hnRNP U like-1, hnRNPA1, hnRNPA/B, and hnRNP D, suggesting DAZAP1 might associate and cooperate with hnRNP particles to regulate adenylate-uridylate-rich elements (AU-rich element or ARE)-containing mRNAs. DAZAP1 contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal proline-rich domain. . Length = 80

>gnl|CDD|241022 cd12578, RRM1_hnRNPA_like, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein A subfamily

 Score = 75.1 bits (185), Expect = 1e-16
 Identities = 36/81 (44%), Positives = 47/81 (58%), Gaps = 3/81 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+F+GGL +    DSL  YF + +G I D  V +    K+S  RGFGFVTF       AA
Sbjct: 1   KLFIGGLSYETTDDSLKNYFSQ-WGEITDCVVMKDPNTKRS--RGFGFVTFASASEVDAA 57

Query: 609 VQARFVTIMGKEVEIKSAVPK 629
           + AR   + G+EVE K AVP+
Sbjct: 58  MNARPHKVDGREVEPKRAVPR 78

This subfamily corresponds to the RRM1 in hnRNP A0, hnRNP A1, hnRNP A2/B1, hnRNP A3 and similar proteins. hnRNP A0 is a low abundance hnRNP protein that has been implicated in mRNA stability in mammalian cells. It has been identified as the substrate for MAPKAP-K2 and may be involved in the lipopolysaccharide (LPS)-induced post-transcriptional regulation of tumor necrosis factor-alpha (TNF-alpha), cyclooxygenase 2 (COX-2) and macrophage inflammatory protein 2 (MIP-2). hnRNP A1 is an abundant eukaryotic nuclear RNA-binding protein that may modulate splice site selection in pre-mRNA splicing. hnRNP A2/B1 is an RNA trafficking response element-binding protein that interacts with the hnRNP A2 response element (A2RE). Many mRNAs, such as myelin basic protein (MBP), myelin-associated oligodendrocytic basic protein (MOBP), carboxyanhydrase II (CAII), microtubule-associated protein tau, and amyloid precursor protein (APP) are trafficked by hnRNP A2/B1. hnRNP A3 is also a RNA trafficking response element-binding protein that participates in the trafficking of A2RE-containing RNA. The hnRNP A subfamily is characterized by two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long glycine-rich region at the C-terminus. . Length = 78

>gnl|CDD|240830 cd12384, RRM_RBM24_RBM38_like, RNA recognition motif in eukaryotic RNA-binding protein RBM24, RBM38 and similar proteins

 Score = 68.8 bits (169), Expect = 2e-14
 Identities = 35/73 (47%), Positives = 46/73 (63%), Gaps = 5/73 (6%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQ-SVSRGFGFVTFKHEKSAA 606
           +KIFVGGLP+    DSL  YF + FG IE+A V    T++Q   SRG+GFVTFK ++SA 
Sbjct: 1   TKIFVGGLPYHTTDDSLRKYFSQ-FGEIEEAVVI---TDRQTGKSRGYGFVTFKDKESAE 56

Query: 607 AAVQARFVTIMGK 619
            A +     I G+
Sbjct: 57  RACKDPNPIIDGR 69

This subfamily corresponds to the RRM of RBM24 and RBM38 from vertebrate, SUPpressor family member SUP-12 from Caenorhabditis elegans and similar proteins. Both, RBM24 and RBM38, are preferentially expressed in cardiac and skeletal muscle tissues. They regulate myogenic differentiation by controlling the cell cycle in a p21-dependent or -independent manner. RBM24, also termed RNA-binding region-containing protein 6, interacts with the 3'-untranslated region (UTR) of myogenin mRNA and regulates its stability in C2C12 cells. RBM38, also termed CLL-associated antigen KW-5, or HSRNASEB, or RNA-binding region-containing protein 1(RNPC1), or ssDNA-binding protein SEB4, is a direct target of the p53 family. It is required for maintaining the stability of the basal and stress-induced p21 mRNA by binding to their 3'-UTRs. It also binds the AU-/U-rich elements in p63 3'-UTR and regulates p63 mRNA stability and activity. SUP-12 is a novel tissue-specific splicing factor that controls muscle-specific splicing of the ADF/cofilin pre-mRNA in C. elegans. All family members contain a conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 76

>gnl|CDD|240776 cd12330, RRM2_Hrp1p, RNA recognition motif 2 in yeast nuclear polyadenylated RNA-binding protein 4 (Hrp1p or Nab4p) and similar proteins

 Score = 67.4 bits (165), Expect = 5e-14
 Identities = 32/78 (41%), Positives = 43/78 (55%), Gaps = 3/78 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           KIFVGGLP  +  +    YF + FG + DA++   Q      SRGFGFVTF  E +    
Sbjct: 1   KIFVGGLPPDVTEEEFKEYFSQ-FGKVVDAQL--MQDHDTGRSRGFGFVTFDSESAVERV 57

Query: 609 VQARFVTIMGKEVEIKSA 626
             A  + + GK+VE+K A
Sbjct: 58  FSAGMLELGGKQVEVKRA 75

This subfamily corresponds to the RRM1 of Hrp1p and similar proteins. Hrp1p or Nab4p, also termed cleavage factor IB (CFIB), is a sequence-specific trans-acting factor that is essential for mRNA 3'-end formation in yeast Saccharomyces cerevisiae. It can be UV cross-linked to RNA and specifically recognizes the (UA)6 RNA element required for both, the cleavage and poly(A) addition steps. Moreover, Hrp1p can shuttle between the nucleus and the cytoplasm, and play an additional role in the export of mRNAs to the cytoplasm. Hrp1p also interacts with Rna15p and Rna14p, two components of CF1A. In addition, Hrp1p functions as a factor directly involved in modulating the activity of the nonsense-mediated mRNA decay (NMD) pathway; it binds specifically to a downstream sequence element (DSE)-containing RNA and interacts with Upf1p, a component of the surveillance complex, further triggering the NMD pathway. Hrp1p contains two central RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an arginine-glycine-rich region harboring repeats of the sequence RGGF/Y. . Length = 75

>gnl|CDD|240771 cd12325, RRM1_hnRNPA_hnRNPD_like, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP A and hnRNP D subfamilies and similar proteins

 Score = 65.3 bits (160), Expect = 3e-13
 Identities = 25/76 (32%), Positives = 40/76 (52%), Gaps = 5/76 (6%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAAAA 608
           +F+GGL +    +SL  YF K +G + D  +     +  +  SRGFGFVTF    S    
Sbjct: 1   LFIGGLSWDTTEESLREYFSK-YGEVVDCVI---MKDPITGRSRGFGFVTFADPSSVDKV 56

Query: 609 VQARFVTIMGKEVEIK 624
           + A+   + G+E++ K
Sbjct: 57  LAAKPHVLDGREIDPK 72

This subfamily corresponds to the RRM1 in the hnRNP A subfamily which includes hnRNP A0, hnRNP A1, hnRNP A2/B1, hnRNP A3 and similar proteins. hnRNP A0 is a low abundance hnRNP protein that has been implicated in mRNA stability in mammalian cells. hnRNP A1 is an abundant eukaryotic nuclear RNA-binding protein that may modulate splice site selection in pre-mRNA splicing. hnRNP A2/B1 is an RNA trafficking response element-binding protein that interacts with the hnRNP A2 response element (A2RE). hnRNP A3 is also a RNA trafficking response element-binding protein that participates in the trafficking of A2RE-containing RNA. The hnRNP A subfamily is characterized by two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long glycine-rich region at the C-terminus. The hnRNP D subfamily includes hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins. hnRNP D0 is a UUAG-specific nuclear RNA binding protein that may be involved in pre-mRNA splicing and telomere elongation. hnRNP A/B is an RNA unwinding protein with a high affinity for G- followed by U-rich regions. hnRNP A/B has also been identified as an APOBEC1-binding protein that interacts with apolipoprotein B (apoB) mRNA transcripts around the editing site and thus, plays an important role in apoB mRNA editing. hnRNP DL (or hnRNP D-like) is a dual functional protein that possesses DNA- and RNA-binding properties. It has been implicated in mRNA biogenesis at the transcriptional and post-transcriptional levels. All members in this subfamily contain two putative RRMs and a glycine- and tyrosine-rich C-terminus. The family also contains DAZAP1 (Deleted in azoospermia-associated protein 1), RNA-binding protein Musashi homolog Musashi-1, Musashi-2 and similar proteins. They all harbor two RRMs. . Length = 72

>gnl|CDD|205076 pfam12796, Ank_2, Ankyrin repeats (3 copies)

 Score = 65.4 bits (160), Expect = 5e-13
 Identities = 39/104 (37%), Positives = 64/104 (61%), Gaps = 14/104 (13%)

Query: 292 LILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGIL 351
           L LA + G+ +++++LL+ K  D+N  D D    +ALH A +     + ++    IV +L
Sbjct: 1   LHLAAKNGNLELVKLLLE-KGADVNLGDTD----TALHLAAR-----NGNL---EIVKLL 47

Query: 352 LKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLK 395
           L+HGA V+ ++K G TALH+AA +GN + ++ L+    D INLK
Sbjct: 48  LEHGADVNAKDKDGNTALHLAARNGNLEIVKLLLEHGAD-INLK 90

Length = 91

>gnl|CDD|214636 smart00360, RRM, RNA recognition motif

 Score = 64.5 bits (158), Expect = 6e-13
 Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 4/76 (5%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            +FVG LP     + L   F K FG +E  R+   +   +S  +GF FV F+ E+ A  A
Sbjct: 1   TLFVGNLPPDTTEEELRELFSK-FGKVESVRLVRDKETGKS--KGFAFVEFESEEDAEKA 57

Query: 609 VQA-RFVTIMGKEVEI 623
           ++A     + G+ +++
Sbjct: 58  LEALNGKELDGRPLKV 73

Length = 73

>gnl|CDD|215696 pfam00076, RRM_1, RNA recognition motif

 Score = 63.4 bits (155), Expect = 1e-12
 Identities = 27/74 (36%), Positives = 40/74 (54%), Gaps = 5/74 (6%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           +FVG LP     + L   F K FGPIE  R+   +T +   S+GF FV F+ E+ A  A+
Sbjct: 1   LFVGNLPPDTTEEDLKDLFSK-FGPIESIRIVRDETGR---SKGFAFVEFEDEEDAEKAL 56

Query: 610 QA-RFVTIMGKEVE 622
           +A     + G+E+ 
Sbjct: 57  EALNGKELGGRELR 70

(a.k.a. RRM, RBD, or RNP domain). The RRM motif is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich, with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteristic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease. Length = 70

>gnl|CDD|205076 pfam12796, Ank_2, Ankyrin repeats (3 copies)

 Score = 63.8 bits (156), Expect = 2e-12
 Identities = 26/78 (33%), Positives = 44/78 (56%), Gaps = 3/78 (3%)

Query: 347 IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFA 406
           +V +LL+ GA V+  +    TALH+AA +GN + ++ L+    D +N K     T L  A
Sbjct: 12  LVKLLLEKGADVNLGDTD--TALHLAARNGNLEIVKLLLEHGAD-VNAKDKDGNTALHLA 68

Query: 407 VKNDHMVCAEVLLRWGAN 424
            +N ++   ++LL  GA+
Sbjct: 69  ARNGNLEIVKLLLEHGAD 86

Length = 91

>gnl|CDD|240774 cd12328, RRM2_hnRNPA_like, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein A subfamily

 Score = 63.0 bits (154), Expect = 2e-12
 Identities = 27/77 (35%), Positives = 40/77 (51%), Gaps = 5/77 (6%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAAA 607
           K+FVGGL   +  + L  YF + +G +E   +    T+K++   RGF FVTF        
Sbjct: 1   KLFVGGLKEDVTEEDLREYFSQ-YGNVESVEIV---TDKETGKKRGFAFVTFDDYDPVDK 56

Query: 608 AVQARFVTIMGKEVEIK 624
            V  ++ TI G  VE+K
Sbjct: 57  IVLQKYHTINGHRVEVK 73

This subfamily corresponds to the RRM2 of hnRNP A0, hnRNP A1, hnRNP A2/B1, hnRNP A3 and similar proteins. hnRNP A0 is a low abundance hnRNP protein that has been implicated in mRNA stability in mammalian cells. It has been identified as the substrate for MAPKAP-K2 and may be involved in the lipopolysaccharide (LPS)-induced post-transcriptional regulation of tumor necrosis factor-alpha (TNF-alpha), cyclooxygenase 2 (COX-2) and macrophage inflammatory protein 2 (MIP-2). hnRNP A1 is an abundant eukaryotic nuclear RNA-binding protein that may modulate splice site selection in pre-mRNA splicing. hnRNP A2/B1 is an RNA trafficking response element-binding protein that interacts with the hnRNP A2 response element (A2RE). Many mRNAs, such as myelin basic protein (MBP), myelin-associated oligodendrocytic basic protein (MOBP), carboxyanhydrase II (CAII), microtubule-associated protein tau, and amyloid precursor protein (APP) are trafficked by hnRNP A2/B1. hnRNP A3 is also a RNA trafficking response element-binding protein that participates in the trafficking of A2RE-containing RNA. The hnRNP A subfamily is characterized by two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long glycine-rich region at the C-terminus. . Length = 73

>gnl|CDD|241023 cd12579, RRM2_hnRNPA0, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein A0 (hnRNP A0) and similar proteins

 Score = 61.8 bits (150), Expect = 7e-12
 Identities = 39/83 (46%), Positives = 50/83 (60%), Gaps = 5/83 (6%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARV-AEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           K+FVGGL   +    L  +F + FGP+E A V A+ QT K+   RGFGFV F++  SA  
Sbjct: 1   KLFVGGLKGDVGEGDLTEHFSQ-FGPVEKAEVIADKQTGKK---RGFGFVYFQNHDSADK 56

Query: 608 AVQARFVTIMGKEVEIKSAVPKE 630
           A   +F  I G  VE+K AVPKE
Sbjct: 57  AAVVKFHPINGHRVEVKKAVPKE 79

This subgroup corresponds to the RRM2 of hnRNP A0, a low abundance hnRNP protein that has been implicated in mRNA stability in mammalian cells. It has been identified as the substrate for MAPKAP-K2 and may be involved in the lipopolysaccharide (LPS)-induced post-transcriptional regulation of tumor necrosis factor-alpha (TNF-alpha), cyclooxygenase 2 (COX-2) and macrophage inflammatory protein 2 (MIP-2). hnRNP A0 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long glycine-rich region at the C-terminus. . Length = 80

>gnl|CDD|240769 cd12323, RRM2_MSI, RNA recognition motif 2 in RNA-binding protein Musashi homologs Musashi-1, Musashi-2 and similar proteins

 Score = 60.9 bits (148), Expect = 1e-11
 Identities = 32/77 (41%), Positives = 40/77 (51%), Gaps = 5/77 (6%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA-EFQTEKQSVSRGFGFVTFKHEKSAAA 607
           KIFVGGL      D +  YF + FG +EDA +  + QT +    RGFGFVTF+ E     
Sbjct: 1   KIFVGGLSANTTEDDVKKYFSQ-FGKVEDAMLMFDKQTNRH---RGFGFVTFESEDVVDK 56

Query: 608 AVQARFVTIMGKEVEIK 624
             +  F  I  K VE K
Sbjct: 57  VCEIHFHEINNKMVECK 73

This subfamily corresponds to the RRM2.in Musashi-1 (also termed Msi1), a neural RNA-binding protein putatively expressed in central nervous system (CNS) stem cells and neural progenitor cells, and associated with asymmetric divisions in neural progenitor cells. It is evolutionarily conserved from invertebrates to vertebrates. Musashi-1 is a homolog of Drosophila Musashi and Xenopus laevis nervous system-specific RNP protein-1 (Nrp-1). It has been implicated in the maintenance of the stem-cell state, differentiation, and tumorigenesis. It translationally regulates the expression of a mammalian numb gene by binding to the 3'-untranslated region of mRNA of Numb, encoding a membrane-associated inhibitor of Notch signaling, and further influences neural development. Moreover, Musashi-1 represses translation by interacting with the poly(A)-binding protein and competes for binding of the eukaryotic initiation factor-4G (eIF-4G). Musashi-2 (also termed Msi2) has been identified as a regulator of the hematopoietic stem cell (HSC) compartment and of leukemic stem cells after transplantation of cells with loss and gain of function of the gene. It influences proliferation and differentiation of HSCs and myeloid progenitors, and further modulates normal hematopoiesis and promotes aggressive myeloid leukemia. Both, Musashi-1 and Musashi-2, contain two conserved N-terminal tandem RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), along with other domains of unknown function. . Length = 74

>gnl|CDD|240775 cd12329, RRM2_hnRNPD_like, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins

 Score = 59.3 bits (144), Expect = 4e-11
 Identities = 30/79 (37%), Positives = 43/79 (54%), Gaps = 5/79 (6%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSR-GFGFVTFKHEKSAAA 607
           KIFVGGL      + +  YF K FG I +    E   +K++  R GF F+TF  E+    
Sbjct: 1   KIFVGGLSPETTEEKIREYFGK-FGNIVEI---ELPMDKKTNKRRGFCFITFDSEEPVKK 56

Query: 608 AVQARFVTIMGKEVEIKSA 626
            ++ +F  I GK+VE+K A
Sbjct: 57  ILETQFHVIGGKKVEVKKA 75

This subfamily corresponds to the RRM2 of hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins. hnRNP D0, a UUAG-specific nuclear RNA binding protein that may be involved in pre-mRNA splicing and telomere elongation. hnRNP A/B is an RNA unwinding protein with a high affinity for G- followed by U-rich regions. It has also been identified as an APOBEC1-binding protein that interacts with apolipoprotein B (apoB) mRNA transcripts around the editing site and thus plays an important role in apoB mRNA editing. hnRNP DL (or hnRNP D-like) is a dual functional protein that possesses DNA- and RNA-binding properties. It has been implicated in mRNA biogenesis at the transcriptional and post-transcriptional levels. All memembers in this family contain two putative RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glycine- and tyrosine-rich C-terminus. . Length = 75

>gnl|CDD|240668 cd00590, RRM_SF, RNA recognition motif (RRM) superfamily

 Score = 58.9 bits (143), Expect = 7e-11
 Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 5/76 (6%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           +FVG LP     + L   F K FG IE  R+     +K   S+GF FV F+  + A  A+
Sbjct: 1   LFVGNLPPDTTEEDLRELFSK-FGEIESVRIV---RDKDGKSKGFAFVEFESPEDAEKAL 56

Query: 610 QA-RFVTIMGKEVEIK 624
           +A     + G+++++ 
Sbjct: 57  EALNGKELDGRKLKVS 72

RRM, also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs). Length = 72

>gnl|CDD|240845 cd12399, RRM_HP0827_like, RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins

 Score = 58.0 bits (141), Expect = 1e-10
 Identities = 25/82 (30%), Positives = 43/82 (52%), Gaps = 6/82 (7%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAAA 607
            ++VG LP+ +  + L   F +  G +  ARV    T++++  SRGFGFV  +  + A A
Sbjct: 1   NLYVGNLPYNVTEEDLKDLFGQF-GEVTSARVI---TDRETGRSRGFGFVEMETAEEANA 56

Query: 608 AVQARFVT-IMGKEVEIKSAVP 628
           A++    T   G+ + +  A P
Sbjct: 57  AIEKLNGTDFGGRTLTVNEARP 78

This subfamily corresponds to the RRM of H. pylori HP0827, a putative ssDNA-binding protein 12rnp2 precursor, containing one RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). The ssDNA binding may be important in activation of HP0827. . Length = 78

>gnl|CDD|238125 cd00204, ANK, ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins

 Score = 59.3 bits (144), Expect = 2e-10
 Identities = 28/103 (27%), Positives = 49/103 (47%), Gaps = 6/103 (5%)

Query: 360 QQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLL 419
            +++ G T LH+AA +G+ + ++ L+    D +N K     TPL  A KN H+   ++LL
Sbjct: 2   ARDEDGRTPLHLAASNGHLEVVKLLLENGAD-VNAKDNDGRTPLHLAAKNGHLEIVKLLL 60

Query: 420 RWGANSEVLNLRRERPIDFA----KSQDMRFLLKA-ANTCHTN 457
             GA+    +     P+  A        ++ LLK  A+    +
Sbjct: 61  EKGADVNARDKDGNTPLHLAARNGNLDVVKLLLKHGADVNARD 103

The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other types of domains. The structural repeat unit contains two antiparallel helices and a beta-hairpin, repeats are stacked in a superhelical arrangement; this alignment contains 4 consecutive repeats. Length = 126

>gnl|CDD|240858 cd12412, RRM_DAZL_BOULE, RNA recognition motif in AZoospermia (DAZ) autosomal homologs, DAZL (DAZ-like) and BOULE

 Score = 56.9 bits (138), Expect = 3e-10
 Identities = 26/84 (30%), Positives = 47/84 (55%), Gaps = 4/84 (4%)

Query: 546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSA 605
             ++IFVGG+P     + L  +F   FG ++D ++    T++  VS+G+GFVTF+ ++ A
Sbjct: 1   IPNRIFVGGIPPDTTEEELRDFFS-RFGSVKDVKII---TDRAGVSKGYGFVTFETQEDA 56

Query: 606 AAAVQARFVTIMGKEVEIKSAVPK 629
              +    +   GK++ I  A+ K
Sbjct: 57  EKILAMGNLNFRGKKLNIGPAIRK 80

This subfamily corresponds to the RRM domain of two Deleted in AZoospermia (DAZ) autosomal homologs, DAZL (DAZ-like) and BOULE. BOULE is the founder member of the family and DAZL arose from BOULE in an ancestor of vertebrates. The DAZ gene subsequently originated from a duplication transposition of the DAZL gene. Invertebrates contain a single DAZ homolog, BOULE, while vertebrates, other than catarrhine primates, possess both BOULE and DAZL genes. The catarrhine primates possess BOULE, DAZL, and DAZ genes. The family members encode closely related RNA-binding proteins that are required for fertility in numerous organisms. These proteins contain an RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a varying number of copies of a DAZ motif, believed to mediate protein-protein interactions. DAZL and BOULE contain a single copy of the DAZ motif, while DAZ proteins can contain 8-24 copies of this repeat. Although their specific biochemical functions remain to be investigated, DAZL proteins may interact with poly(A)-binding proteins (PABPs), and act as translational activators of specific mRNAs during gametogenesis. . Length = 80

>gnl|CDD|240893 cd12447, RRM1_gar2, RNA recognition motif 1 in yeast protein gar2 and similar proteins

 Score = 54.3 bits (131), Expect = 2e-09
 Identities = 24/64 (37%), Positives = 38/64 (59%), Gaps = 5/64 (7%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAAA 607
            +FVG L + +D + L   FE  FG +  ARV    T++++  SRGFG+V F+  + A  
Sbjct: 1   TLFVGNLSWSVDDEWLKAEFE-KFGTVVGARVI---TDRETGRSRGFGYVDFESPEDAKK 56

Query: 608 AVQA 611
           A++A
Sbjct: 57  AIEA 60

This subfamily corresponds to the RRM1 of yeast protein gar2, a novel nucleolar protein required for 18S rRNA and 40S ribosomal subunit accumulation. It shares similar domain architecture with nucleolin from vertebrates and NSR1 from Saccharomyces cerevisiae. The highly phosphorylated N-terminal domain of gar2 is made up of highly acidic regions separated from each other by basic sequences, and contains multiple phosphorylation sites. The central domain of gar2 contains two closely adjacent N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The C-terminal RGG (or GAR) domain of gar2 is rich in glycine, arginine and phenylalanine residues. . Length = 76

>gnl|CDD|241206 cd12762, RRM1_hnRNPA2B1, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein A2/B1 (hnRNP A2/B1) and similar proteins

 Score = 54.0 bits (129), Expect = 4e-09
 Identities = 35/81 (43%), Positives = 46/81 (56%), Gaps = 3/81 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+F+GGL F    +SL  Y+E+ +G + D  V      K+S  RGFGFVTF       AA
Sbjct: 4   KLFIGGLSFETTEESLRNYYEQ-WGKLTDCVVMRDPASKRS--RGFGFVTFSCMNEVDAA 60

Query: 609 VQARFVTIMGKEVEIKSAVPK 629
           + AR  TI G+ VE K AV +
Sbjct: 61  MAARPHTIDGRVVEPKRAVAR 81

This subgroup corresponds to the RRM1 of hnRNP A2/B1 which is an RNA trafficking response element-binding protein that interacts with the hnRNP A2 response element (A2RE). Many mRNAs, such as myelin basic protein (MBP), myelin-associated oligodendrocytic basic protein (MOBP), carboxyanhydrase II (CAII), microtubule-associated protein tau, and amyloid precursor protein (APP) are trafficked by hnRNP A2/B1. hnRNP A2/B1 also functions as a splicing factor that regulates alternative splicing of the tumor suppressors, such as BIN1, WWOX, the antiapoptotic proteins c-FLIP and caspase-9B, the insulin receptor (IR), and the RON proto-oncogene among others. Moreover, the overexpression of hnRNP A2/B1 has been described in many cancers. It functions as a nuclear matrix protein involving in RNA synthesis and the regulation of cellular migration through alternatively splicing pre-mRNA. It may play a role in tumor cell differentiation. hnRNP A2/B1 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long glycine-rich region at the C-terminus. . Length = 81

>gnl|CDD|240828 cd12382, RRM_RBMX_like, RNA recognition motif in heterogeneous nuclear ribonucleoprotein G (hnRNP G), Y chromosome RNA recognition motif 1 (hRBMY), testis-specific heterogeneous nuclear ribonucleoprotein G-T (hnRNP G-T) and similar proteins

 Score = 53.4 bits (129), Expect = 6e-09
 Identities = 23/63 (36%), Positives = 34/63 (53%), Gaps = 3/63 (4%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           +K+FV GL        L   F K FG +E+  + +     +S  RGFGFVTF+  + A A
Sbjct: 2   NKLFVSGLSTRTTEKELEALFSK-FGRVEEVLLMKDPETGES--RGFGFVTFESVEDADA 58

Query: 608 AVQ 610
           A++
Sbjct: 59  AIR 61

This subfamily corresponds to the RRM domain of hnRNP G, also termed glycoprotein p43 or RBMX, an RNA-binding motif protein located on the X chromosome. It is expressed ubiquitously and has been implicated in the splicing control of several pre-mRNAs. Moreover, hnRNP G may function as a regulator of transcription for SREBP-1c and GnRH1. Research has shown that hnRNP G may also act as a tumor-suppressor since it upregulates the Txnip gene and promotes the fidelity of DNA end-joining activity. In addition, hnRNP G appears to play a critical role in proper neural development of zebrafish and frog embryos. The family also includes several paralogs of hnRNP G, such as hRBMY and hnRNP G-T (also termed RNA-binding motif protein, X-linked-like-2). Both, hRBMY and hnRNP G-T, are exclusively expressed in testis and critical for male fertility. Like hnRNP G, hRBMY and hnRNP G-T interact with factors implicated in the regulation of pre-mRNA splicing, such as hTra2-beta1 and T-STAR. Although members in this family share a high conserved N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), they appear to recognize different RNA targets. For instance, hRBMY interacts specifically with a stem-loop structure in which the loop is formed by the sequence CA/UCAA. In contrast, hnRNP G associates with single stranded RNA sequences containing a CCA/C motif. In addition to the RRM, hnRNP G contains a nascent transcripts targeting domain (NTD) in the middle region and a novel auxiliary RNA-binding domain (RBD) in its C-terminal region. The C-terminal RBD exhibits distinct RNA binding specificity, and would play a critical role in the regulation of alternative splicing by hnRNP G. . Length = 80

>gnl|CDD|222939 PHA02878, PHA02878, ankyrin repeat protein; Provisional

 Score = 58.7 bits (142), Expect = 9e-09
 Identities = 56/197 (28%), Positives = 90/197 (45%), Gaps = 20/197 (10%)

Query: 248 KRNSTPTTSQSAEKRKLLLLEIELLQL---FGAVANGSCTDKKVGPPLILATQAGDEDVI 304
           K   T       +K K  ++E E+ +L   +GA  N      K    L  AT+  D+ + 
Sbjct: 126 KNIQTIDLVYIDKKSKDDIIEAEITKLLLSYGADINMK-DRHKGNTALHYATENKDQRLT 184

Query: 305 EILL-KSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNK 363
           E+LL    N++I     D   NS LH A+K             IV ILL++GA    ++K
Sbjct: 185 ELLLSYGANVNI----PDKTNNSPLHHAVKHY--------NKPIVHILLENGASTDARDK 232

Query: 364 LGLTALHIAAGSGNSQALEDLIRKEPDCINLK-TIMMETPLFFAVKNDHMVCAEVLLRWG 422
            G T LHI+ G      +  L+ +    +N K  I+  T L  ++K++  +  ++LL +G
Sbjct: 233 CGNTPLHISVGYCKDYDILKLLLEHGVDVNAKSYILGLTALHSSIKSERKL--KLLLEYG 290

Query: 423 ANSEVLNLRRERPIDFA 439
           A+   LN  +  P+  A
Sbjct: 291 ADINSLNSYKLTPLSSA 307

Length = 477

>gnl|CDD|240896 cd12450, RRM1_NUCLs, RNA recognition motif 1 found in nucleolin-like proteins mainly from plants

 Score = 52.3 bits (126), Expect = 1e-08
 Identities = 24/80 (30%), Positives = 42/80 (52%), Gaps = 4/80 (5%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           +FVG L +  + D L  +F K  G + D R+A+    +   S+GFG V F  E+ A  A+
Sbjct: 2   LFVGNLSWSAEQDDLEEFF-KECGEVVDVRIAQDDDGR---SKGFGHVEFATEEGAQKAL 57

Query: 610 QARFVTIMGKEVEIKSAVPK 629
           +     ++G+E+ +  A  +
Sbjct: 58  EKSGEELLGREIRVDLATER 77

This subfamily corresponds to the RRM1 of a group of plant nucleolin-like proteins, including nucleolin 1 (also termed protein nucleolin like 1) and nucleolin 2 (also termed protein nucleolin like 2, or protein parallel like 1). They play roles in the regulation of ribosome synthesis and in the growth and development of plants. Like yeast nucleolin, nucleolin-like proteins possess two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 77

>gnl|CDD|223738 COG0666, Arp, FOG: Ankyrin repeat [General function prediction only]

 Score = 56.4 bits (135), Expect = 1e-08
 Identities = 45/169 (26%), Positives = 65/169 (38%), Gaps = 19/169 (11%)

Query: 305 EILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKL 364
             LL    +D + A  D DG   LH A             ++IV +LL  GA V+ ++  
Sbjct: 54  SELLLKLIVDRHLAARDLDGRLPLHSAASK--------GDDKIVKLLLASGADVNAKDAD 105

Query: 365 GLTALHIAAGSGNSQ-----ALEDLIRK--EPDCINLKTIMMETPLFFAVKNDHMVCAEV 417
           G T LH+AA +GN         + L+    + D  NL+     TPL +A  N      E+
Sbjct: 106 GDTPLHLAALNGNPPEGNIEVAKLLLEAGADLDVNNLRDEDGNTPLHWAALNGDADIVEL 165

Query: 418 LLRWGANSEVLNLRRERPIDFAKSQD----MRFLLKAANTCHTNLAFLN 462
           LL  GA+    N      +D A        ++ LL            L 
Sbjct: 166 LLEAGADPNSRNSYGVTALDPAAKNGRIELVKLLLDKGLHLSLLKFNLE 214

Length = 235

>gnl|CDD|221822 pfam12872, OST-HTH, OST-HTH/LOTUS domain

 Score = 51.9 bits (125), Expect = 2e-08
 Identities = 25/82 (30%), Positives = 43/82 (52%), Gaps = 8/82 (9%)

Query: 731 KWLRTFKKWLPRFLKDVYRHPLEGKYALSSLKTDFKAVCGLELDHASLGYSKLSDFLRTL 790
           K L+  KK L + L+       +G  +LS L ++++ +   + D  + GYSKLSD L  +
Sbjct: 1   KSLKKLKKLLRKALESS--SDEDGWASLSELGSEYRKLFP-DFDPRNYGYSKLSDLLEAI 57

Query: 791 PDLCHVKAGPIGKNGSPNHMVL 812
           PDL  V+     + GS   +++
Sbjct: 58  PDLFEVE-----ERGSGGQVLV 74

A predicted RNA-binding domain found in insect Oskar and vertebrate TDRD5/TDRD7 proteins that nucleate or organize structurally related ribonucleoprotein (RNP) complexes, the polar granule and nuage, is poorly understood. The domain adopts the winged helix-turn- helix fold and bind RNA with a potential specificity for dsRNA.In eukaryotes this domain is often combined in the same polypeptide with protein-protein- or lipid- interaction domains that might play a role in anchoring these proteins to specific cytoskeletal structures. Thus, proteins with this domain might have a key role in the recognition and localization of dsRNA, including miRNAs, rasiRNAs and piRNAs hybridized to their targets. In other cases, this domain is fused to ubiquitin-binding, E3 ligase and ubiquitin-like domains indicating a previously under-appreciated role for ubiquitination in regulating the assembly and stability of nuage-like RNP complexes. Both bacteria and eukaryotes encode a conserved family of proteins that combines this predicted RNA-binding domain with a previously uncharacterized RNAse domain belonging to the superfamily that includes the 5'->3' nucleases, PIN and NYN domains. Length = 74

>gnl|CDD|241018 cd12574, RRM1_DAZAP1, RNA recognition motif 1 in Deleted in azoospermia-associated protein 1 (DAZAP1) and similar proteins

 Score = 51.4 bits (123), Expect = 3e-08
 Identities = 25/81 (30%), Positives = 42/81 (51%), Gaps = 3/81 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+FVGGL +    ++L  YF + +G + D  + + +T  +S  RGFGFV FK        
Sbjct: 1   KLFVGGLSWETTQETLRRYFSQ-YGEVVDCVIMKDKTTNRS--RGFGFVKFKDPNCVGTV 57

Query: 609 VQARFVTIMGKEVEIKSAVPK 629
           +     T+ G+ ++ K   P+
Sbjct: 58  LAGGPHTLDGRTIDPKPCTPR 78

This subfamily corresponds to the RRM1 of DAZAP1 or DAZ-associated protein 1, also termed proline-rich RNA binding protein (Prrp), a multi-functional ubiquitous RNA-binding protein expressed most abundantly in the testis and essential for normal cell growth, development, and spermatogenesis. DAZAP1 is a shuttling protein whose acetylated form is predominantly nuclear and the nonacetylated form is in cytoplasm. It also functions as a translational regulator that activates translation in an mRNA-specific manner. DAZAP1 was initially identified as a binding partner of Deleted in Azoospermia (DAZ). It also interacts with numerous hnRNPs, including hnRNP U, hnRNP U like-1, hnRNPA1, hnRNPA/B, and hnRNP D, suggesting DAZAP1 might associate and cooperate with hnRNP particles to regulate adenylate-uridylate-rich elements (AU-rich element or ARE)-containing mRNAs. DAZAP1 contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal proline-rich domain. . Length = 82

>gnl|CDD|240841 cd12395, RRM2_RBM34, RNA recognition motif 2 in RNA-binding protein 34 (RBM34) and similar proteins

 Score = 51.0 bits (123), Expect = 3e-08
 Identities = 24/75 (32%), Positives = 44/75 (58%), Gaps = 3/75 (4%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           +FVG LPF ++ + L  +FE   G +E  R+   +  K  + +GFG+V FK + S A A+
Sbjct: 2   VFVGNLPFDIEEEELRKHFEDC-GDVEAVRI--VRDRKTGIGKGFGYVLFKTKDSVALAL 58

Query: 610 QARFVTIMGKEVEIK 624
           +   + + G+++ +K
Sbjct: 59  KLNGIKLKGRKIRVK 73

This subfamily corresponds to the RRM2 of RBM34, a putative RNA-binding protein containing two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). Although the function of RBM34 remains unclear currently, its RRM domains may participate in mRNA processing. RBM34 may act as an mRNA processing-related protein. . Length = 73

>gnl|CDD|241009 cd12565, RRM1_MRD1, RNA recognition motif 1 in yeast multiple RNA-binding domain-containing protein 1 (MRD1) and similar proteins

 Score = 51.1 bits (123), Expect = 3e-08
 Identities = 24/62 (38%), Positives = 32/62 (51%), Gaps = 4/62 (6%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           S+I V  LP ++  D L  +FE   G + D +V      +   SR FGFV FK E+ A  
Sbjct: 1   SRIIVKNLPKYVTEDRLREHFES-KGEVTDVKVMR---TRDGKSRRFGFVGFKSEEDAQQ 56

Query: 608 AV 609
           AV
Sbjct: 57  AV 58

This subgroup corresponds to the RRM1 of MRD1 which is encoded by a novel yeast gene MRD1 (multiple RNA-binding domain). It is well-conserved in yeast and its homologs exist in all eukaryotes. MRD1 is present in the nucleolus and the nucleoplasm. It interacts with the 35 S precursor rRNA (pre-rRNA) and U3 small nucleolar RNAs (snoRNAs). MRD1 is essential for the initial processing at the A0-A2 cleavage sites in the 35 S pre-rRNA. It contains 5 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which may play an important structural role in organizing specific rRNA processing events. . Length = 76

>gnl|CDD|240895 cd12449, RRM_CIRBP_RBM3, RNA recognition motif in cold inducible RNA binding protein (CIRBP), RNA binding motif protein 3 (RBM3) and similar proteins

 Score = 51.0 bits (122), Expect = 5e-08
 Identities = 25/63 (39%), Positives = 37/63 (58%), Gaps = 3/63 (4%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+F+GGL F  +  SL   F K +G I +  V + +  ++S  RGFGFVTF++   A  A
Sbjct: 2   KLFIGGLSFDTNEQSLEQVFSK-YGQISEVVVVKDRETQRS--RGFGFVTFENPDDAKDA 58

Query: 609 VQA 611
           + A
Sbjct: 59  MMA 61

This subfamily corresponds to the RRM domain of two structurally related heterogenous nuclear ribonucleoproteins, CIRBP (also termed CIRP or A18 hnRNP) and RBM3 (also termed RNPL), both of which belong to a highly conserved cold shock proteins family. The cold shock proteins can be induced after exposure to a moderate cold-shock and other cellular stresses such as UV radiation and hypoxia. CIRBP and RBM3 may function in posttranscriptional regulation of gene expression by binding to different transcripts, thus allowing the cell to response rapidly to environmental signals. However, the kinetics and degree of cold induction are different between CIRBP and RBM3. Tissue distribution of their expression is different. CIRBP and RBM3 may be differentially regulated under physiological and stress conditions and may play distinct roles in cold responses of cells. CIRBP, also termed glycine-rich RNA-binding protein CIRP, is localized in the nucleus and mediates the cold-induced suppression of cell cycle progression. CIRBP also binds DNA and possibly serves as a chaperone that assists in the folding/unfolding, assembly/disassembly and transport of various proteins. RBM3 may enhance global protein synthesis and the formation of active polysomes while reducing the levels of ribonucleoprotein complexes containing microRNAs. RBM3 may also serve to prevent the loss of muscle mass by its ability to decrease cell death. Furthermore, RBM3 may be essential for cell proliferation and mitosis. Both, CIRBP and RBM3, contain an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), that is involved in RNA binding, and C-terminal glycine-rich domain (RGG motif) that probably enhances RNA-binding via protein-protein and/or protein-RNA interactions. Like CIRBP, RBM3 can also bind to both RNA and DNA via its RRM domain. . Length = 80

>gnl|CDD|240744 cd12298, RRM3_Prp24, RNA recognition motif 3 in fungal pre-messenger RNA splicing protein 24 (Prp24) and similar proteins

 Score = 50.7 bits (122), Expect = 5e-08
 Identities = 31/76 (40%), Positives = 42/76 (55%), Gaps = 2/76 (2%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSR-GFGFVTFKHEKSAAA 607
           +I+V  L F LD D L G F K FG +E  R+ + Q EKQ     GF FVTFK   SA  
Sbjct: 2   EIYVRNLDFKLDEDDLRGIFSK-FGEVESIRIPKKQDEKQGRLNNGFAFVTFKDASSAEN 60

Query: 608 AVQARFVTIMGKEVEI 623
           A+Q     + G+++ +
Sbjct: 61  ALQLNGTELGGRKISV 76

This subfamily corresponds to the RRM3 of Prp24, also termed U4/U6 snRNA-associated-splicing factor PRP24 (U4/U6 snRNP), an RNA-binding protein with four well conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). It facilitates U6 RNA base-pairing with U4 RNA during spliceosome assembly. Prp24 specifically binds free U6 RNA primarily with RRMs 1 and 2 and facilitates pairing of U6 RNA bases with U4 RNA bases. Additionally, it may also be involved in dissociation of the U4/U6 complex during spliceosome activation. . Length = 78

>gnl|CDD|241205 cd12761, RRM1_hnRNPA1, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein A1 (hnRNP A1) and similar proteins

 Score = 50.1 bits (119), Expect = 9e-08
 Identities = 32/81 (39%), Positives = 46/81 (56%), Gaps = 3/81 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+F+GGL F    +SL  +FE+ +G + D  V      K+S  RGFGFVT+   +   AA
Sbjct: 4   KLFIGGLSFETTDESLRSHFEQ-WGTLTDCVVMRDPNTKRS--RGFGFVTYSSVEEVDAA 60

Query: 609 VQARFVTIMGKEVEIKSAVPK 629
           + AR   + G+ VE K AV +
Sbjct: 61  MNARPHKVDGRVVEPKRAVSR 81

This subgroup corresponds to the RRM1 of hnRNP A1, also termed helix-destabilizing protein, or single-strand RNA-binding protein, or hnRNP core protein A1, and is an abundant eukaryotic nuclear RNA-binding protein that may modulate splice site selection in pre-mRNA splicing. hnRNP A1 has been characterized as a splicing silencer, often acting in opposition to an activating hnRNP H. It silences exons when bound to exonic elements in the alternatively spliced transcripts of c-src, HIV, GRIN1, and beta-tropomyosin. hnRNP A1 can shuttle between the nucleus and the cytoplasm. Thus, it may be involved in transport of cellular RNAs, including the packaging of pre-mRNA into hnRNP particles and transport of poly A+ mRNA from the nucleus to the cytoplasm. The cytoplasmic hnRNP A1 has high affinity with AU-rich elements, whereas the nuclear hnRNP A1 has high affinity with a polypyrimidine stretch bordered by AG at the 3' ends of introns. hnRNP A1 is also involved in the replication of an RNA virus, such as mouse hepatitis virus (MHV), through an interaction with the transcription-regulatory region of viral RNA. hnRNP A1, together with the scaffold protein septin 6, serves as host protein to form a complex with NS5b and viral RNA, and further plays important roles in the replication of Hepatitis C virus (HCV). hnRNP A1 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long glycine-rich region at the C-terminus. The RRMs of hnRNP A1 play an important role in silencing the exon and the glycine-rich domain is responsible for protein-protein interactions. . Length = 81

>gnl|CDD|178680 PLN03134, PLN03134, glycine-rich RNA-binding protein 4; Provisional

 Score = 52.0 bits (124), Expect = 1e-07
 Identities = 29/70 (41%), Positives = 41/70 (58%), Gaps = 5/70 (7%)

Query: 542 STQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARV-AEFQTEKQSVSRGFGFVTFK 600
           S +   +K+F+GGL +  D  SL   F  HFG + DA+V  + +T +   SRGFGFV F 
Sbjct: 29  SLRLMSTKLFIGGLSWGTDDASLRDAF-AHFGDVVDAKVIVDRETGR---SRGFGFVNFN 84

Query: 601 HEKSAAAAVQ 610
            E +A AA+ 
Sbjct: 85  DEGAATAAIS 94

Length = 144

>gnl|CDD|241207 cd12763, RRM1_hnRNPA3, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein A3 (hnRNP A3) and similar proteins

 Score = 50.1 bits (119), Expect = 1e-07
 Identities = 34/81 (41%), Positives = 46/81 (56%), Gaps = 3/81 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+F+GGL F    DSL  +FEK +G + D  V      K+S  RGFGFVT+   +   AA
Sbjct: 4   KLFIGGLSFETTDDSLREHFEK-WGTLTDCVVMRDPQTKRS--RGFGFVTYSCVEEVDAA 60

Query: 609 VQARFVTIMGKEVEIKSAVPK 629
           + AR   + G+ VE K AV +
Sbjct: 61  MSARPHKVDGRVVEPKRAVSR 81

This subgroup corresponds to the RRM1 of hnRNP A3 which is a novel RNA trafficking response element-binding protein that interacts with the hnRNP A2 response element (A2RE) independently of hnRNP A2 and participates in the trafficking of A2RE-containing RNA. hnRNP A3 can shuttle between the nucleus and the cytoplasm. It contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long glycine-rich region at the C-terminus. . Length = 81

>gnl|CDD|240772 cd12326, RRM1_hnRNPA0, RNA recognition motif 1 found in heterogeneous nuclear ribonucleoprotein A0 (hnRNP A0) and similar proteins

 Score = 49.8 bits (119), Expect = 1e-07
 Identities = 27/79 (34%), Positives = 42/79 (53%), Gaps = 3/79 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+FVGGL        L  +F + +G + +  V      K+S  RGFGF+TF     A  A
Sbjct: 4   KLFVGGLNLKTSDSGLRRHFTR-YGKLTECVVMVDPNTKRS--RGFGFITFSSADEADEA 60

Query: 609 VQARFVTIMGKEVEIKSAV 627
           ++A+  +I G ++E+K A 
Sbjct: 61  MEAQPHSIDGNQIELKRAK 79

This subfamily corresponds to the RRM1 of hnRNP A0 which is a low abundance hnRNP protein that has been implicated in mRNA stability in mammalian cells. It has been identified as the substrate for MAPKAP-K2 and may be involved in the lipopolysaccharide (LPS)-induced post-transcriptional regulation of tumor necrosis factor-alpha (TNF-alpha), cyclooxygenase 2 (COX-2) and macrophage inflammatory protein 2 (MIP-2). hnRNP A0 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long glycine-rich region at the C-terminus. . Length = 79

>gnl|CDD|241020 cd12576, RRM1_MSI, RNA recognition motif 1 in RNA-binding protein Musashi homolog Musashi-1, Musashi-2 and similar proteins

 Score = 49.0 bits (117), Expect = 2e-07
 Identities = 28/78 (35%), Positives = 41/78 (52%), Gaps = 3/78 (3%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           +F+GGL +   ++ L  YF K FG I++  V    T K+S  RGFGFVTF    S    +
Sbjct: 1   MFIGGLSWQTTAEGLREYFSK-FGEIKECMVMRDPTTKRS--RGFGFVTFSDPASVDKVL 57

Query: 610 QARFVTIMGKEVEIKSAV 627
                 + GK+++ K A 
Sbjct: 58  AQGPHELDGKKIDPKVAF 75

This subfamily corresponds to the RRM1 in Musashi-1 and Musashi-2. Musashi-1 (also termed Msi1) is a neural RNA-binding protein putatively expressed in central nervous system (CNS) stem cells and neural progenitor cells, and associated with asymmetric divisions in neural progenitor cells. It is evolutionarily conserved from invertebrates to vertebrates. Musashi-1 is a homolog of Drosophila Musashi and Xenopus laevis nervous system-specific RNP protein-1 (Nrp-1). It has been implicated in the maintenance of the stem-cell state, differentiation, and tumorigenesis. It translationally regulates the expression of a mammalian numb gene by binding to the 3'-untranslated region of mRNA of Numb, encoding a membrane-associated inhibitor of Notch signaling, and further influences neural development. Moreover, Musashi-1 represses translation by interacting with the poly(A)-binding protein and competes for binding of the eukaryotic initiation factor-4G (eIF-4G). Musashi-2 (also termed Msi2) has been identified as a regulator of the hematopoietic stem cell (HSC) compartment and of leukemic stem cells after transplantation of cells with loss and gain of function of the gene. It influences proliferation and differentiation of HSCs and myeloid progenitors, and further modulates normal hematopoiesis and promotes aggressive myeloid leukemia. Both, Musashi-1 and Musashi-2, contain two conserved N-terminal tandem RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), along with other domains of unknown function. . Length = 75

>gnl|CDD|241026 cd12582, RRM2_hnRNPA3, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein A3 (hnRNP A3) and similar proteins

 Score = 48.4 bits (115), Expect = 4e-07
 Identities = 33/83 (39%), Positives = 44/83 (53%), Gaps = 5/83 (6%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAAA 607
           KIFVGG+    +   L  YFEK +G IE   V E   ++QS   RGF FVTF    +   
Sbjct: 2   KIFVGGIKEDTEEYHLRDYFEK-YGKIETIEVME---DRQSGKKRGFAFVTFDDHDTVDK 57

Query: 608 AVQARFVTIMGKEVEIKSAVPKE 630
            V  ++ TI G   E+K A+ K+
Sbjct: 58  IVVQKYHTINGHNCEVKKALSKQ 80

This subgroup corresponds to the RRM2 of hnRNP A3, a novel RNA trafficking response element-binding protein that interacts with the hnRNP A2 response element (A2RE) independently of hnRNP A2 and participates in the trafficking of A2RE-containing RNA. hnRNP A3 can shuttle between the nucleus and the cytoplasm. It contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long glycine-rich region at the C-terminus. . Length = 80

>gnl|CDD|205076 pfam12796, Ank_2, Ankyrin repeats (3 copies)

 Score = 48.0 bits (115), Expect = 6e-07
 Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 3/71 (4%)

Query: 369 LHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVL 428
           LH+AA +GN + ++ L+ K  D     T   +T L  A +N ++   ++LL  GA+    
Sbjct: 1   LHLAAKNGNLELVKLLLEKGADVNLGDT---DTALHLAARNGNLEIVKLLLEHGADVNAK 57

Query: 429 NLRRERPIDFA 439
           +      +  A
Sbjct: 58  DKDGNTALHLA 68

Length = 91

>gnl|CDD|241021 cd12577, RRM1_Hrp1p, RNA recognition motif 1 in yeast nuclear polyadenylated RNA-binding protein 4 (Hrp1p or Nab4p) and similar proteins

 Score = 47.6 bits (113), Expect = 6e-07
 Identities = 29/80 (36%), Positives = 44/80 (55%), Gaps = 4/80 (5%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           +F+GGL +    DSL  YF + FG + D  V       +S  RGFGF+TFK  KS    +
Sbjct: 1   MFIGGLNWETTDDSLREYFGQ-FGEVTDCTVMRDSATGRS--RGFGFLTFKKPKSVNEVM 57

Query: 610 QARFVTIMGKEVEIKSAVPK 629
           +   + + GK ++ K A+P+
Sbjct: 58  KKEHI-LDGKIIDPKRAIPR 76

This subfamily corresponds to the RRM1 of Hrp1p and similar proteins. Hrp1p or Nab4p, also termed cleavage factor IB (CFIB), is a sequence-specific trans-acting factor that is essential for mRNA 3'-end formation in yeast Saccharomyces cerevisiae. It can be UV cross-linked to RNA and specifically recognizes the (UA)6 RNA element required for both, the cleavage and poly(A) addition, steps. Moreover, Hrp1p can shuttle between the nucleus and the cytoplasm, and play an additional role in the export of mRNAs to the cytoplasm. Hrp1p also interacts with Rna15p and Rna14p, two components of CF1A. In addition, Hrp1p functions as a factor directly involved in modulating the activity of the nonsense-mediated mRNA decay (NMD) pathway. It binds specifically to a downstream sequence element (DSE)-containing RNA and interacts with Upf1p, a component of the surveillance complex, further triggering the NMD pathway. Hrp1p contains two central RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an arginine-glycine-rich region harboring repeats of the sequence RGGF/Y. . Length = 76

>gnl|CDD|240767 cd12321, RRM1_TDP43, RNA recognition motif 1 in TAR DNA-binding protein 43 (TDP-43) and similar proteins

 Score = 47.4 bits (113), Expect = 7e-07
 Identities = 23/81 (28%), Positives = 34/81 (41%), Gaps = 4/81 (4%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            + V GLP+      L  YF   FG +   +V   +  K   S+GFGFV F   +     
Sbjct: 1   DLIVLGLPWKTTEQDLKDYFS-TFGELLMVQVK--KDPKTGQSKGFGFVRFADYEDQVKV 57

Query: 609 VQARFVTIMGKEVEIKSAVPK 629
           +  R   I G+  ++K    K
Sbjct: 58  LSQRH-MIDGRWCDVKIPNSK 77

This subfamily corresponds to the RRM1 of TDP-43 (also termed TARDBP), a ubiquitously expressed pathogenic protein whose normal function and abnormal aggregation are directly linked to the genetic disease cystic fibrosis, and two neurodegenerative disorders: frontotemporal lobar degeneration (FTLD) and amyotrophic lateral sclerosis (ALS). TDP-43 binds both DNA and RNA, and has been implicated in transcriptional repression, pre-mRNA splicing and translational regulation. TDP-43 is a dimeric protein with two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal glycine-rich domain. The RRMs are responsible for DNA and RNA binding; they bind to TAR DNA and RNA sequences with UG-repeats. The glycine-rich domain can interact with the hnRNP family proteins to form the hnRNP-rich complex involved in splicing inhibition. It is also essential for the cystic fibrosis transmembrane conductance regulator (CFTR) exon 9-skipping activity. . Length = 77

>gnl|CDD|223796 COG0724, COG0724, RNA-binding proteins (RRM domain) [General function prediction only]

 Score = 51.5 bits (122), Expect = 9e-07
 Identities = 30/104 (28%), Positives = 50/104 (48%), Gaps = 4/104 (3%)

Query: 545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKS 604
           E  + +FVG LP+ +  + L   F K FGP++  R+   +   +S  RGF FV F+ E+S
Sbjct: 113 EENNTLFVGNLPYDVTEEDLRELF-KKFGPVKRVRLVRDRETGKS--RGFAFVEFESEES 169

Query: 605 AAAAVQA-RFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQESK 647
           A  A++      + G+ + ++ A P     +EL          K
Sbjct: 170 AEKAIEELNGKELEGRPLRVQKAQPASQPRSELSNNLDASFAKK 213

Length = 306

>gnl|CDD|240859 cd12413, RRM1_RBM28_like, RNA recognition motif 1 in RNA-binding protein 28 (RBM28) and similar proteins

 Score = 46.8 bits (112), Expect = 1e-06
 Identities = 25/82 (30%), Positives = 42/82 (51%), Gaps = 6/82 (7%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEK-QSVSRGFGFVTFKHEKSAAAA 608
           +FV  LP+    + L  +F +  GPI+   V     +K     RGFG+VTF  E+ A  A
Sbjct: 2   LFVRNLPYDTTDEQLEEFFSEV-GPIKRCFVV---KDKGSKKCRGFGYVTFALEEDAKRA 57

Query: 609 VQARFVTIM-GKEVEIKSAVPK 629
           ++ +  T   G+++ ++ A  K
Sbjct: 58  LEEKKKTKFGGRKIHVEFAKKK 79

This subfamily corresponds to the RRM1 of RBM28 and Nop4p. RBM28 is a specific nucleolar component of the spliceosomal small nuclear ribonucleoproteins (snRNPs), possibly coordinating their transition through the nucleolus. It specifically associates with U1, U2, U4, U5, and U6 small nuclear RNAs (snRNAs), and may play a role in the maturation of both small nuclear and ribosomal RNAs. RBM28 has four RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an extremely acidic region between RRM2 and RRM3. The family also includes nucleolar protein 4 (Nop4p or Nop77p) encoded by YPL043W from Saccharomyces cerevisiae. It is an essential nucleolar protein involved in processing and maturation of 27S pre-rRNA and biogenesis of 60S ribosomal subunits. Nop4p also contains four RRMs. . Length = 79

>gnl|CDD|205076 pfam12796, Ank_2, Ankyrin repeats (3 copies)

 Score = 46.9 bits (112), Expect = 2e-06
 Identities = 23/72 (31%), Positives = 40/72 (55%), Gaps = 11/72 (15%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            L LA + G+ +++++LL+    D+N    D DGN+ALH A +             IV +
Sbjct: 31  ALHLAARNGNLEIVKLLLE-HGADVN--AKDKDGNTALHLAARNG--------NLEIVKL 79

Query: 351 LLKHGAIVSQQN 362
           LL+HGA ++ ++
Sbjct: 80  LLEHGADINLKD 91

Length = 91

>gnl|CDD|222631 pfam14259, RRM_6, RNA recognition motif (a

 Score = 46.0 bits (110), Expect = 2e-06
 Identities = 18/74 (24%), Positives = 34/74 (45%), Gaps = 6/74 (8%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           ++V  LP  +  + L  +F   +G +E  R+       +   RGF FV F   + A AA+
Sbjct: 1   LYVRNLPPSVTEEDLREFFSP-YGKVEGVRLVR----NKDRPRGFAFVEFASPEDAEAAL 55

Query: 610 QA-RFVTIMGKEVE 622
           +    + + G+ + 
Sbjct: 56  KKLNGLVLDGRTLR 69

k.a. RRM, RBD, or RNP domain). Length = 69

>gnl|CDD|241016 cd12572, RRM2_MSI1, RNA recognition motif 2 in RNA-binding protein Musashi homolog 1 (Musashi-1) and similar proteins

 Score = 46.2 bits (109), Expect = 2e-06
 Identities = 30/76 (39%), Positives = 40/76 (52%), Gaps = 3/76 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           KIFVGGL      + +  YFE+ FG ++DA +   +T  +   RGFGFVTF+ E      
Sbjct: 1   KIFVGGLSVNTTVEDVKQYFEQ-FGKVDDAMLMFDKTTNRH--RGFGFVTFESEDIVEKV 57

Query: 609 VQARFVTIMGKEVEIK 624
            +  F  I  K VE K
Sbjct: 58  CEIHFHEINNKMVECK 73

This subgroup corresponds to the RRM2 of Musashi-1. The mammalian MSI1 gene encoding Musashi-1 (also termed Msi1) is a neural RNA-binding protein putatively expressed in central nervous system (CNS) stem cells and neural progenitor cells, and associated with asymmetric divisions in neural progenitor cells. Musashi-1 is evolutionarily conserved from invertebrates to vertebrates. It is a homolog of Drosophila Musashi and Xenopus laevis nervous system-specific RNP protein-1 (Nrp-1) and has been implicated in the maintenance of the stem-cell state, differentiation, and tumorigenesis. It translationally regulates the expression of a mammalian numb gene by binding to the 3'-untranslated region of mRNA of Numb, encoding a membrane-associated inhibitor of Notch signaling, and further influences neural development. It represses translation by interacting with the poly(A)-binding protein and competes for binding of the eukaryotic initiation factor-4G (eIF-4G). Musashi-1 contains two conserved N-terminal tandem RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), along with other domains of unknown function. . Length = 74

>gnl|CDD|241024 cd12580, RRM2_hnRNPA1, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein A1 (hnRNP A1) and similar proteins

 Score = 46.1 bits (109), Expect = 2e-06
 Identities = 30/80 (37%), Positives = 42/80 (52%), Gaps = 5/80 (6%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAAA 607
           KIFVGG+    +   L  YFE+ +G IE   V E  T++ S   RGF FVTF    S   
Sbjct: 2   KIFVGGIKEDTEEHHLRDYFEQ-YGKIE---VIEIMTDRGSGKKRGFAFVTFDDHDSVDK 57

Query: 608 AVQARFVTIMGKEVEIKSAV 627
            V  ++ T+ G   E++ A+
Sbjct: 58  IVIQKYHTVNGHNCEVRKAL 77

This subgroup corresponds to the RRM2 of hnRNP A1, also termed helix-destabilizing protein, or single-strand RNA-binding protein, or hnRNP core protein A1, an abundant eukaryotic nuclear RNA-binding protein that may modulate splice site selection in pre-mRNA splicing. hnRNP A1 has been characterized as a splicing silencer, often acting in opposition to an activating hnRNP H. It silences exons when bound to exonic elements in the alternatively spliced transcripts of c-src, HIV, GRIN1, and beta-tropomyosin. hnRNP A1 can shuttle between the nucleus and the cytoplasm. Thus, it may be involved in transport of cellular RNAs, including the packaging of pre-mRNA into hnRNP particles and transport of poly A+ mRNA from the nucleus to the cytoplasm. The cytoplasmic hnRNP A1 has high affinity with AU-rich elements, whereas the nuclear hnRNP A1 has high affinity with a polypyrimidine stretch bordered by AG at the 3' ends of introns. hnRNP A1 is also involved in the replication of an RNA virus, such as mouse hepatitis virus (MHV), through an interaction with the transcription-regulatory region of viral RNA. Moreover, hnRNP A1, together with the scaffold protein septin 6, serves as host proteins to form a complex with NS5b and viral RNA, and further play important roles in the replication of Hepatitis C virus (HCV). hnRNP A1 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long glycine-rich region at the C-terminus. The RRMs of hnRNP A1 play an important role in silencing the exon and the glycine-rich domain is responsible for protein-protein interactions. . Length = 77

>gnl|CDD|223738 COG0666, Arp, FOG: Ankyrin repeat [General function prediction only]

 Score = 49.1 bits (116), Expect = 3e-06
 Identities = 34/126 (26%), Positives = 54/126 (42%), Gaps = 13/126 (10%)

Query: 291 PLILATQAGDE-----DVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQN 345
           PL LA   G+      +V ++LL++      +   D DGN+ LH A              
Sbjct: 109 PLHLAALNGNPPEGNIEVAKLLLEAGADLDVNNLRDEDGNTPLHWAALNG--------DA 160

Query: 346 RIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFF 405
            IV +LL+ GA  + +N  G+TAL  AA +G  + ++ L+ K      LK  +       
Sbjct: 161 DIVELLLEAGADPNSRNSYGVTALDPAAKNGRIELVKLLLDKGLHLSLLKFNLEGVANAN 220

Query: 406 AVKNDH 411
             K + 
Sbjct: 221 VSKRNI 226

Length = 235

>gnl|CDD|241017 cd12573, RRM2_MSI2, RNA recognition motif 2 in RNA-binding protein Musashi homolog 2 (Musashi-2) and similar proteins

 Score = 45.4 bits (107), Expect = 3e-06
 Identities = 32/78 (41%), Positives = 42/78 (53%), Gaps = 3/78 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           KIFVGGL      + +  YFE+ FG +EDA +   +T  +   RGFGFVTF++E      
Sbjct: 5   KIFVGGLSANTVVEDVKQYFEQ-FGKVEDAMLMFDKTTNRH--RGFGFVTFENEDVVEKV 61

Query: 609 VQARFVTIMGKEVEIKSA 626
            +  F  I  K VE K A
Sbjct: 62  CEIHFHEINNKMVECKKA 79

This subgroup corresponds to the RRM2 of Musashi-2 (also termed Msi2) which has been identified as a regulator of the hematopoietic stem cell (HSC) compartment and of leukemic stem cells after transplantation of cells with loss and gain of function of the gene. It influences proliferation and differentiation of HSCs and myeloid progenitors, and further modulates normal hematopoiesis and promotes aggressive myeloid leukemia. Musashi-2 contains two conserved N-terminal tandem RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), along with other domains of unknown function. . Length = 79

>gnl|CDD|240838 cd12392, RRM2_SART3, RNA recognition motif 2 in squamous cell carcinoma antigen recognized by T-cells 3 (SART3) and similar proteins

 Score = 45.5 bits (108), Expect = 4e-06
 Identities = 22/63 (34%), Positives = 36/63 (57%), Gaps = 4/63 (6%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
           K K+FV GLPF +  + L   F+KH G ++  R+    T +    +G  +V +++E SA+
Sbjct: 2   KHKLFVSGLPFSVTKEELEKLFKKH-GVVKSVRLV---TNRSGKPKGLAYVEYENESSAS 57

Query: 607 AAV 609
            AV
Sbjct: 58  QAV 60

This subfamily corresponds to the RRM2 of SART3, also termed Tat-interacting protein of 110 kDa (Tip110), is an RNA-binding protein expressed in the nucleus of the majority of proliferating cells, including normal cells and malignant cells, but not in normal tissues except for the testes and fetal liver. It is involved in the regulation of mRNA splicing probably via its complex formation with RNA-binding protein with a serine-rich domain (RNPS1), a pre-mRNA-splicing factor. SART3 has also been identified as a nuclear Tat-interacting protein that regulates Tat transactivation activity through direct interaction and functions as an important cellular factor for HIV-1 gene expression and viral replication. In addition, SART3 is required for U6 snRNP targeting to Cajal bodies. It binds specifically and directly to the U6 snRNA, interacts transiently with the U6 and U4/U6 snRNPs, and promotes the reassembly of U4/U6 snRNPs after splicing in vitro. SART3 contains an N-terminal half-a-tetratricopeptide repeat (HAT)-rich domain, a nuclearlocalization signal (NLS) domain, and two C-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 81

>gnl|CDD|240682 cd12236, RRM_snRNP70, RNA recognition motif in U1 small nuclear ribonucleoprotein 70 kDa (U1-70K) and similar proteins

 Score = 45.7 bits (109), Expect = 4e-06
 Identities = 23/64 (35%), Positives = 35/64 (54%), Gaps = 6/64 (9%)

Query: 546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDAR-VAEFQTEKQSVSRGFGFVTFKHEKS 604
           FK+ +FV  L +      L   FE+ +GPI+  R V + +T K    RG+ F+ F+HE+ 
Sbjct: 1   FKT-LFVARLNYDTTESKLRREFEE-YGPIKRIRLVRDKKTGK---PRGYAFIEFEHERD 55

Query: 605 AAAA 608
             AA
Sbjct: 56  MKAA 59

This subfamily corresponds to the RRM of U1-70K, also termed snRNP70, a key component of the U1 snRNP complex, which is one of the key factors facilitating the splicing of pre-mRNA via interaction at the 5' splice site, and is involved in regulation of polyadenylation of some viral and cellular genes, enhancing or inhibiting efficient poly(A) site usage. U1-70K plays an essential role in targeting the U1 snRNP to the 5' splice site through protein-protein interactions with regulatory RNA-binding splicing factors, such as the RS protein ASF/SF2. Moreover, U1-70K protein can specifically bind to stem-loop I of the U1 small nuclear RNA (U1 snRNA) contained in the U1 snRNP complex. It also mediates the binding of U1C, another U1-specific protein, to the U1 snRNP complex. U1-70K contains a conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), followed by an adjacent glycine-rich region at the N-terminal half, and two serine/arginine-rich (SR) domains at the C-terminal half. The RRM is responsible for the binding of stem-loop I of U1 snRNA molecule. Additionally, the most prominent immunodominant region that can be recognized by auto-antibodies from autoimmune patients may be located within the RRM. The SR domains are involved in protein-protein interaction with SR proteins that mediate 5' splice site recognition. For instance, the first SR domain is necessary and sufficient for ASF/SF2 Binding. The family also includes Drosophila U1-70K that is an essential splicing factor required for viability in flies, but its SR domain is dispensable. The yeast U1-70k doesn't contain easily recognizable SR domains and shows low sequence similarity in the RRM region with other U1-70k proteins and therefore not included in this family. The RRM domain is dispensable for yeast U1-70K function. Length = 91

>gnl|CDD|240799 cd12353, RRM2_TIA1_like, RNA recognition motif 2 in granule-associated RNA binding proteins p40-TIA-1 and TIAR

 Score = 45.1 bits (107), Expect = 4e-06
 Identities = 27/63 (42%), Positives = 39/63 (61%), Gaps = 5/63 (7%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA-EFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           IFVG L   +D+++L   F   FG I DARV  + QT K   S+G+GFV+F  ++ A  A
Sbjct: 2   IFVGDLSPEIDTETLRAAFAP-FGEISDARVVKDMQTGK---SKGYGFVSFVKKEDAENA 57

Query: 609 VQA 611
           +Q+
Sbjct: 58  IQS 60

This subfamily corresponds to the RRM2 of nucleolysin TIA-1 isoform p40 (p40-TIA-1 or TIA-1) and nucleolysin TIA-1-related protein (TIAR), both of which are granule-associated RNA binding proteins involved in inducing apoptosis in cytotoxic lymphocyte (CTL) target cells. TIA-1 and TIAR share high sequence similarity. They are expressed in a wide variety of cell types. TIA-1 can be phosphorylated by a serine/threonine kinase that is activated during Fas-mediated apoptosis. TIAR is mainly localized in the nucleus of hematopoietic and nonhematopoietic cells. It is translocated from the nucleus to the cytoplasm in response to exogenous triggers of apoptosis. Both, TIA-1 and TIAR, bind specifically to poly(A) but not to poly(C) homopolymers. They are composed of three N-terminal highly homologous RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glutamine-rich C-terminal auxiliary domain containing a lysosome-targeting motif. TIA-1 and TIAR interact with RNAs containing short stretches of uridylates and their RRM2 can mediate the specific binding to uridylate-rich RNAs. The C-terminal auxiliary domain may be responsible for interacting with other proteins. In addition, TIA-1 and TIAR share a potential serine protease-cleavage site (Phe-Val-Arg) localized at the junction between their RNA binding domains and their C-terminal auxiliary domains. Length = 75

>gnl|CDD|240761 cd12315, RRM1_RBM19_MRD1, RNA recognition motif 1 in RNA-binding protein 19 (RBM19), yeast multiple RNA-binding domain-containing protein 1 (MRD1) and similar proteins

 Score = 44.6 bits (106), Expect = 8e-06
 Identities = 19/62 (30%), Positives = 28/62 (45%), Gaps = 3/62 (4%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           S++ V  LP  L    L  +F KH G I D ++      +   SR   F+ +K E+ A  
Sbjct: 1   SRLIVKNLPASLTEAELKEHFSKHGGEITDVKLL---RTEDGKSRRIAFIGYKTEEEAQK 57

Query: 608 AV 609
           A 
Sbjct: 58  AK 59

This subfamily corresponds to the RRM1 of RBM19 and MRD1. RBM19, also termed RNA-binding domain-1 (RBD-1), is a nucleolar protein conserved in eukaryotes. It is involved in ribosome biogenesis by processing rRNA and is essential for preimplantation development. It has a unique domain organization containing 6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). MRD1 is encoded by a novel yeast gene MRD1 (multiple RNA-binding domain). It is well-conserved in yeast and its homologs exist in all eukaryotes. MRD1 is present in the nucleolus and the nucleoplasm. It interacts with the 35 S precursor rRNA (pre-rRNA) and U3 small nucleolar RNAs (snoRNAs). It is essential for the initial processing at the A0-A2 cleavage sites in the 35 S pre-rRNA. MRD1 contains 5 conserved RRMs, which may play an important structural role in organizing specific rRNA processing events. . Length = 77

>gnl|CDD|241116 cd12672, RRM_DAZL, RNA recognition motif in vertebrate deleted in azoospermia-like (DAZL) proteins

 Score = 44.8 bits (106), Expect = 8e-06
 Identities = 21/80 (26%), Positives = 47/80 (58%), Gaps = 5/80 (6%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           +FVGG+   +D   +  +F K +G +++ ++    T++  VS+G+GFV+F  +      V
Sbjct: 8   VFVGGIDIRMDETEIRSFFAK-YGSVKEVKII---TDRTGVSKGYGFVSFYDDVDVQKIV 63

Query: 610 QARFVTIMGKEVEIKSAVPK 629
           +++ +   GK++++  A+ K
Sbjct: 64  ESQ-INFHGKKLKLGPAIRK 82

This subgroup corresponds to the RRM of DAZL, also termed SPGY-like-autosomal, encoded by the autosomal homolog of DAZ gene, DAZL. It is ancestral to the deleted in azoospermia (DAZ) protein. DAZL is germ-cell-specific RNA-binding protein that contains a RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a DAZ motif, a protein-protein interaction domain. Although their specific biochemical functions remain to be investigated, DAZL proteins may interact with poly(A)-binding proteins (PABPs), and act as translational activators of specific mRNAs during gametogenesis. . Length = 82

>gnl|CDD|241118 cd12674, RRM1_Nop4p, RNA recognition motif 1 in yeast nucleolar protein 4 (Nop4p) and similar proteins

 Score = 44.4 bits (105), Expect = 8e-06
 Identities = 22/81 (27%), Positives = 37/81 (45%), Gaps = 4/81 (4%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFK-HEKSAAAA 608
           +FV  L F +  + L  +F     PI+ A V       +S  RG+GFVTF   E +  A 
Sbjct: 2   LFVRNLAFSVTQEDLTDFFSDVA-PIKHAVVVTDPETGES--RGYGFVTFAMLEDAQEAL 58

Query: 609 VQARFVTIMGKEVEIKSAVPK 629
            + +   + G+ + +  A  +
Sbjct: 59  AKLKNKKLHGRILRLDIAERR 79

This subgroup corresponds to the RRM1 of Nop4p (also known as Nop77p), encoded by YPL043W from Saccharomyces cerevisiae. It is an essential nucleolar protein involved in processing and maturation of 27S pre-rRNA and biogenesis of 60S ribosomal subunits. Nop4p has four RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 79

>gnl|CDD|241204 cd12760, RRM1_MSI2, RNA recognition motif 1 in RNA-binding protein Musashi homolog 2 (Musashi-2 ) and similar proteins

 Score = 44.3 bits (104), Expect = 9e-06
 Identities = 27/56 (48%), Positives = 32/56 (57%), Gaps = 3/56 (5%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKS 604
           K+F+GGL +    DSL  YF K FG I +  V    T K+  SRGFGFVTF    S
Sbjct: 1   KMFIGGLSWQTSPDSLRDYFSK-FGEIRECMVMRDPTTKR--SRGFGFVTFADPAS 53

This subgroup corresponds to the RRM2 of Musashi-2 (also termed Msi2) which has been identified as a regulator of the hematopoietic stem cell (HSC) compartment and of leukemic stem cells after transplantation of cells with loss and gain of function of the gene. It influences proliferation and differentiation of HSCs and myeloid progenitors, and further modulates normal hematopoiesis and promotes aggressive myeloid leukemia. Musashi-2 contains two conserved N-terminal tandem RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), along with other domains of unknown function. . Length = 76

>gnl|CDD|238125 cd00204, ANK, ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins

 Score = 45.5 bits (108), Expect = 1e-05
 Identities = 30/107 (28%), Positives = 48/107 (44%), Gaps = 12/107 (11%)

Query: 40  RHFIDNSLDNADQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTAL 99
            +  D +  + D +T      L ++     +     L+       A VN  ++  G T L
Sbjct: 28  ENGADVNAKDNDGRTP-----LHLAAKNGHLEIVKLLLEKG----ADVNARDKD-GNTPL 77

Query: 100 HLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVI 146
           HLAA +     V+LLLK  A  + R KDGR   PL L+  +  ++V+
Sbjct: 78  HLAARNGNLDVVKLLLKHGADVNARDKDGRT--PLHLAAKNGHLEVV 122

The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other types of domains. The structural repeat unit contains two antiparallel helices and a beta-hairpin, repeats are stacked in a superhelical arrangement; this alignment contains 4 consecutive repeats. Length = 126

>gnl|CDD|222984 PHA03100, PHA03100, ankyrin repeat protein; Provisional

 Score = 48.9 bits (117), Expect = 1e-05
 Identities = 48/215 (22%), Positives = 95/215 (44%), Gaps = 22/215 (10%)

Query: 247 VKRNSTPTTSQSAEKRKLL-LLEI-ELLQLFGAVANGSCTDKKVGPPLILATQ-AGDEDV 303
            K NSTP    S  K  L  + EI +LL  +GA  N +  +  + P L   ++ +    +
Sbjct: 65  TKNNSTPLHYLSNIKYNLTDVKEIVKLLLEYGANVN-APDNNGITPLLYAISKKSNSYSI 123

Query: 304 IEILLKSKNIDINDADADADGNSALHCALK---TSMGLSQHILQNRI-------VGILLK 353
           +E  L     ++N  ++D  G + LH  L+     + + + ++   +       V  LL 
Sbjct: 124 VE-YLLDNGANVNIKNSD--GENLLHLYLESNKIDLKILKLLIDKGVDINAKNRVNYLLS 180

Query: 354 HGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMV 413
           +G  ++ ++  G T LH A  + N + ++ L+    +  NL     +TPL  A+ N++  
Sbjct: 181 YGVPINIKDVYGFTPLHYAVYNNNPEFVKYLLDLGAN-PNLVNKYGDTPLHIAILNNNKE 239

Query: 414 CAEVLLRWGANSEV----LNLRRERPIDFAKSQDM 444
             ++LL  G + +     L   +++ ++      M
Sbjct: 240 IFKLLLNNGPSIKTIIETLLYFKDKDLNTITKIKM 274

Length = 422

>gnl|CDD|240808 cd12362, RRM3_CELF1-6, RNA recognition motif 3 in CELF/Bruno-like family of RNA binding proteins CELF1, CELF2, CELF3, CELF4, CELF5, CELF6 and similar proteins

 Score = 43.8 bits (104), Expect = 1e-05
 Identities = 23/64 (35%), Positives = 36/64 (56%), Gaps = 7/64 (10%)

Query: 550 IFVGGLPF-FLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAAA 607
           +F+  LP  F D D L   F   FG +  A+V     +K +  S+ FGFV++ + +SA A
Sbjct: 1   LFIYHLPNEFTDQD-LYQLFA-PFGNVISAKV---FVDKNTGQSKCFGFVSYDNPESAQA 55

Query: 608 AVQA 611
           A++A
Sbjct: 56  AIKA 59

This subgroup corresponds to the RRM3 of the CUGBP1 and ETR-3-like factors (CELF) or BRUNOL (Bruno-like) proteins, a family of structurally related RNA-binding proteins involved in the regulation of pre-mRNA splicing in the nucleus and in the control of mRNA translation and deadenylation in the cytoplasm. The family contains six members: CELF-1 (also termed BRUNOL-2, or CUG-BP1, or NAPOR, or EDEN-BP), CELF-2 (also termed BRUNOL-3, or ETR-3, or CUG-BP2, or NAPOR-2), CELF-3 (also termed BRUNOL-1, or TNRC4, or ETR-1, or CAGH4, or ER DA4), CELF-4 (also termed BRUNOL-4), CELF-5 (also termed BRUNOL-5), CELF-6 (also termed BRUNOL-6). They all contain three highly conserved RNA recognition motifs (RRMs), also known as RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains): two consecutive RRMs (RRM1 and RRM2) situated in the N-terminal region followed by a linker region and the third RRM (RRM3) close to the C-terminus of the protein. The low sequence conservation of the linker region is highly suggestive of a large variety in the co-factors that associate with the various CELF family members. Based on both sequence similarity and function, the CELF family can be divided into two subfamilies, the first containing CELFs 1 and 2, and the second containing CELFs 3, 4, 5, and 6. The different CELF proteins may act through different sites on at least some substrates. Furthermore, CELF proteins may interact with each other in varying combinations to influence alternative splicing in different contexts. . Length = 73

>gnl|CDD|240793 cd12347, RRM_PPIE, RNA recognition motif in cyclophilin-33 (Cyp33) and similar proteins

 Score = 43.8 bits (104), Expect = 1e-05
 Identities = 23/61 (37%), Positives = 36/61 (59%), Gaps = 5/61 (8%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARV-AEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           ++VGGL   +D   L   F   FG I+D ++  +++T+K    RGF FV F+  + AAAA
Sbjct: 1   LYVGGLAEEVDEKVLHAAFIP-FGDIKDIQIPLDYETQKH---RGFAFVEFEEPEDAAAA 56

Query: 609 V 609
           +
Sbjct: 57  I 57

This subfamily corresponds to the RRM of Cyp33, also termed peptidyl-prolyl cis-trans isomerase E (PPIase E), or cyclophilin E, or rotamase E. Cyp33 is a nuclear RNA-binding cyclophilin with an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal PPIase domain. Cyp33 possesses RNA-binding activity and preferentially binds to polyribonucleotide polyA and polyU, but hardly to polyG and polyC. It binds specifically to mRNA, which can stimulate its PPIase activity. Moreover, Cyp33 interacts with the third plant homeodomain (PHD3) zinc finger cassette of the mixed lineage leukemia (MLL) proto-oncoprotein and a poly-A RNA sequence through its RRM domain. It further mediates downregulation of the expression of MLL target genes HOXC8, HOXA9, CDKN1B, and C-MYC, in a proline isomerase-dependent manner. Cyp33 also possesses a PPIase activity that catalyzes cis-trans isomerization of the peptide bond preceding a proline, which has been implicated in the stimulation of folding and conformational changes in folded and unfolded proteins. The PPIase activity can be inhibited by the immunosuppressive drug cyclosporin A. . Length = 73

>gnl|CDD|165206 PHA02875, PHA02875, ankyrin repeat protein; Provisional

 Score = 48.1 bits (114), Expect = 2e-05
 Identities = 45/158 (28%), Positives = 70/158 (44%), Gaps = 17/158 (10%)

Query: 269 IELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSAL 328
           I+LL   GA+ +    D  +   L  A + GD   +E LL       +D     DG + L
Sbjct: 51  IKLLMKHGAIPDVKYPD--IESELHDAVEEGDVKAVEELLDL-GKFADDV-FYKDGMTPL 106

Query: 329 HCALKTSMGLSQHILQN-RIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRK 387
           H A           L+   I+ +L+  GA     N    + LH+A   G+ + +E LI  
Sbjct: 107 HLATI---------LKKLDIMKLLIARGADPDIPNTDKFSPLHLAVMMGDIKGIELLI-D 156

Query: 388 EPDCINLKTIMMETPLFFAV-KNDHMVCAEVLLRWGAN 424
              C++++     TPL  A+ K D  +C ++LL  GAN
Sbjct: 157 HKACLDIEDCCGCTPLIIAMAKGDIAIC-KMLLDSGAN 193

Length = 413

>gnl|CDD|240826 cd12380, RRM3_I_PABPs, RNA recognition motif 3 found in type I polyadenylate-binding proteins

 Score = 43.3 bits (103), Expect = 2e-05
 Identities = 26/76 (34%), Positives = 40/76 (52%), Gaps = 8/76 (10%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           ++V  L   +D + L   F K +G I  A+V +    K   S+GFGFV F++ ++A  AV
Sbjct: 4   VYVKNLGEDMDDEKLKELFGK-YGKITSAKVMKDDEGK---SKGFGFVNFENHEAAQKAV 59

Query: 610 QARFVTIMGKEVEIKS 625
           +     + GKEV  K 
Sbjct: 60  EE----LNGKEVNGKK 71

This subfamily corresponds to the RRM3 of type I poly(A)-binding proteins (PABPs), highly conserved proteins that bind to the poly(A) tail present at the 3' ends of most eukaryotic mRNAs. They have been implicated in the regulation of poly(A) tail length during the polyadenylation reaction, translation initiation, mRNA stabilization by influencing the rate of deadenylation and inhibition of mRNA decapping. The family represents type I polyadenylate-binding proteins (PABPs), including polyadenylate-binding protein 1 (PABP-1 or PABPC1), polyadenylate-binding protein 3 (PABP-3 or PABPC3), polyadenylate-binding protein 4 (PABP-4 or APP-1 or iPABP), polyadenylate-binding protein 5 (PABP-5 or PABPC5), polyadenylate-binding protein 1-like (PABP-1-like or PABPC1L), polyadenylate-binding protein 1-like 2 (PABPC1L2 or RBM32), polyadenylate-binding protein 4-like (PABP-4-like or PABPC4L), yeast polyadenylate-binding protein, cytoplasmic and nuclear (PABP or ACBP-67), and similar proteins. PABP-1 is an ubiquitously expressed multifunctional protein that may play a role in 3' end formation of mRNA, translation initiation, mRNA stabilization, protection of poly(A) from nuclease activity, mRNA deadenylation, inhibition of mRNA decapping, and mRNP maturation. Although PABP-1 is thought to be a cytoplasmic protein, it is also found in the nucleus. PABP-1 may be involved in nucleocytoplasmic trafficking and utilization of mRNP particles. PABP-1 contains four copies of RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), a less well conserved linker region, and a proline-rich C-terminal conserved domain (CTD). PABP-3 is a testis-specific poly(A)-binding protein specifically expressed in round spermatids. It is mainly found in mammalian and may play an important role in the testis-specific regulation of mRNA homeostasis. PABP-3 shows significant sequence similarity to PABP-1. However, it binds to poly(A) with a lower affinity than PABP-1. PABP-1 possesses an A-rich sequence in its 5'-UTR and allows binding of PABP and blockage of translation of its own mRNA. In contrast, PABP-3 lacks the A-rich sequence in its 5'-UTR. PABP-4 is an inducible poly(A)-binding protein (iPABP) that is primarily localized to the cytoplasm. It shows significant sequence similarity to PABP-1 as well. The RNA binding properties of PABP-1 and PABP-4 appear to be identical. PABP-5 is encoded by PABPC5 gene within the X-specific subinterval, and expressed in fetal brain and in a range of adult tissues in mammalian, such as ovary and testis. It may play an important role in germ cell development. Moreover, unlike other PABPs, PABP-5 contains only four RRMs, but lacks both the linker region and the CTD. PABP-1-like and PABP-1-like 2 are the orthologs of PABP-1. PABP-4-like is the ortholog of PABP-5. Their cellular functions remain unclear. The family also includes the yeast PABP, a conserved poly(A) binding protein containing poly(A) tails that can be attached to the 3'-ends of mRNAs. The yeast PABP and its homologs may play important roles in the initiation of translation and in mRNA decay. Like vertebrate PABP-1, the yeast PABP contains four RRMs, a linker region, and a proline-rich CTD as well. The first two RRMs are mainly responsible for specific binding to poly(A). The proline-rich region may be involved in protein-protein interactions. . Length = 80

>gnl|CDD|241028 cd12584, RRM2_hnRNPAB, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein A/B (hnRNP A/B) and similar proteins

 Score = 43.4 bits (102), Expect = 2e-05
 Identities = 28/78 (35%), Positives = 39/78 (50%), Gaps = 3/78 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           KIFVGGL      + +  YF + FG IE   +      K +  RGF F+TFK E      
Sbjct: 6   KIFVGGLNPEATEEKIREYFGE-FGEIEAIELP--MDPKTNKRRGFVFITFKEEDPVKKV 62

Query: 609 VQARFVTIMGKEVEIKSA 626
           ++ +F  + G + EIK A
Sbjct: 63  LEKKFHNVSGSKCEIKVA 80

This subgroup corresponds to the RRM2 of hnRNP A/B, also termed APOBEC1-binding protein 1 (ABBP-1), an RNA unwinding protein with a high affinity for G- followed by U-rich regions. hnRNP A/B has also been identified as an APOBEC1-binding protein that interacts with apolipoprotein B (apoB) mRNA transcripts around the editing site and thus plays an important role in apoB mRNA editing. hnRNP A/B contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long C-terminal glycine-rich domain that contains a potential ATP/GTP binding loop. . Length = 80

>gnl|CDD|240807 cd12361, RRM1_2_CELF1-6_like, RNA recognition motif 1 and 2 in CELF/Bruno-like family of RNA binding proteins and plant flowering time control protein FCA

 Score = 42.9 bits (102), Expect = 2e-05
 Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 3/63 (4%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+FVG LP     + +   FE+ +G IE+  +   +   QS  +G  FV F   + A  A
Sbjct: 1   KLFVGQLPKTATEEDVRALFEE-YGNIEEVTIIRDKDTGQS--KGCAFVKFSSREEAQKA 57

Query: 609 VQA 611
           ++A
Sbjct: 58  IEA 60

This subfamily corresponds to the RRM1 and RRM2 domains of the CUGBP1 and ETR-3-like factors (CELF) as well as plant flowering time control protein FCA. CELF, also termed BRUNOL (Bruno-like) proteins, is a family of structurally related RNA-binding proteins involved in regulation of pre-mRNA splicing in the nucleus, and control of mRNA translation and deadenylation in the cytoplasm. The family contains six members: CELF-1 (also known as BRUNOL-2, CUG-BP1, NAPOR, EDEN-BP), CELF-2 (also known as BRUNOL-3, ETR-3, CUG-BP2, NAPOR-2), CELF-3 (also known as BRUNOL-1, TNRC4, ETR-1, CAGH4, ER DA4), CELF-4 (BRUNOL-4), CELF-5 (BRUNOL-5) and CELF-6 (BRUNOL-6). They all contain three highly conserved RNA recognition motifs (RRMs), also known as RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains): two consecutive RRMs (RRM1 and RRM2) situated in the N-terminal region followed by a linker region and the third RRM (RRM3) close to the C-terminus of the protein. The low sequence conservation of the linker region is highly suggestive of a large variety in the co-factors that associate with the various CELF family members. Based on both, sequence similarity and function, the CELF family can be divided into two subfamilies, the first containing CELFs 1 and 2, and the second containing CELFs 3, 4, 5, and 6. The different CELF proteins may act through different sites on at least some substrates. Furthermore, CELF proteins may interact with each other in varying combinations to influence alternative splicing in different contexts. This subfamily also includes plant flowering time control protein FCA that functions in the posttranscriptional regulation of transcripts involved in the flowering process. FCA contains two RRMs, and a WW protein interaction domain. . Length = 77

>gnl|CDD|240730 cd12284, RRM2_RBM23_RBM39, RNA recognition motif 2 in vertebrate RNA-binding protein RBM23, RBM39 and similar proteins

 Score = 43.0 bits (102), Expect = 2e-05
 Identities = 20/61 (32%), Positives = 33/61 (54%), Gaps = 3/61 (4%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           ++VG L F +  D L G FE  FG IE  ++   +  +   S+G+GF+ F   + A  A+
Sbjct: 1   LYVGNLHFNITEDDLRGIFEP-FGEIEFVQLQ--RDPETGRSKGYGFIQFADAEDAKKAL 57

Query: 610 Q 610
           +
Sbjct: 58  E 58

This subfamily corresponds to the RRM2 of RBM39 (also termed HCC1), a nuclear autoantigen that contains an N-terminal arginine/serine rich (RS) motif and three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). An octapeptide sequence called the RS-ERK motif is repeated six times in the RS region of RBM39. Although the cellular function of RBM23 remains unclear, it shows high sequence homology to RBM39 and contains two RRMs. It may possibly function as a pre-mRNA splicing factor. . Length = 73

>gnl|CDD|222277 pfam13637, Ank_4, Ankyrin repeats (many copies)

 Score = 42.2 bits (100), Expect = 3e-05
 Identities = 22/62 (35%), Positives = 35/62 (56%), Gaps = 8/62 (12%)

Query: 324 GNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALED 383
           G +ALH A       S  +    +V  LL+ G  +++ ++ G TALHIAA +GN + L+ 
Sbjct: 1   GRTALHKAAI-----SGRL---ELVKYLLEKGVDINRTDEDGNTALHIAAENGNLEVLKL 52

Query: 384 LI 385
           L+
Sbjct: 53  LL 54

Length = 54

>gnl|CDD|241025 cd12581, RRM2_hnRNPA2B1, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein A2/B1 (hnRNP A2/B1) and similar proteins

 Score = 43.1 bits (101), Expect = 3e-05
 Identities = 29/83 (34%), Positives = 44/83 (53%), Gaps = 5/83 (6%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAAA 607
           K+FVGG+    +   L  YFE+ +G I+     E  T++QS   RGFGFVTF        
Sbjct: 2   KLFVGGIKEDTEEHHLRDYFEE-YGKIDTI---EIITDRQSGKKRGFGFVTFDDHDPVDK 57

Query: 608 AVQARFVTIMGKEVEIKSAVPKE 630
            V  ++ TI G   E++ A+ ++
Sbjct: 58  IVLQKYHTINGHNAEVRKALSRQ 80

This subgroup corresponds to the RRM2 of hnRNP A2/B1, an RNA trafficking response element-binding protein that interacts with the hnRNP A2 response element (A2RE). Many mRNAs, such as myelin basic protein (MBP), myelin-associated oligodendrocytic basic protein (MOBP), carboxyanhydrase II (CAII), microtubule-associated protein tau, and amyloid precursor protein (APP) are trafficked by hnRNP A2/B1. hnRNP A2/B1 also functions as a splicing factor that regulates alternative splicing of the tumor suppressors, such as BIN1, WWOX, the antiapoptotic proteins c-FLIP and caspase-9B, the insulin receptor (IR), and the RON proto-oncogene among others. Overexpression of hnRNP A2/B1 has been described in many cancers. It functions as a nuclear matrix protein involving in RNA synthesis and the regulation of cellular migration through alternatively splicing pre-mRNA. It may play a role in tumor cell differentiation. hnRNP A2/B1 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long glycine-rich region at the C-terminus. . Length = 80

>gnl|CDD|222980 PHA03095, PHA03095, ankyrin-like protein; Provisional

 Score = 47.3 bits (113), Expect = 3e-05
 Identities = 31/103 (30%), Positives = 42/103 (40%), Gaps = 7/103 (6%)

Query: 318 ADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGN 377
           A  D  GN+ LH     S      +L       LL  G  ++ +N+ G T LH AA   N
Sbjct: 216 AATDMLGNTPLHSMATGSSCKRSLVLP------LLIAGISINARNRYGQTPLHYAAVFNN 269

Query: 378 SQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLR 420
            +A   LI    D IN  +    TPL   V+N++       L 
Sbjct: 270 PRACRRLIALGAD-INAVSSDGNTPLSLMVRNNNGRAVRAALA 311

Length = 471

>gnl|CDD|206028 pfam13857, Ank_5, Ankyrin repeats (many copies)

 Score = 41.6 bits (98), Expect = 4e-05
 Identities = 19/57 (33%), Positives = 28/57 (49%), Gaps = 2/57 (3%)

Query: 351 LLKHGAIVS-QQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFA 406
           LL+HG I     +  G T LH+AA  G  + ++ L++   D  NL+     T L  A
Sbjct: 1   LLEHGPIDLNATDGNGNTPLHLAAKYGALELVQWLLKPGVDL-NLRDSDGLTALDLA 56

Length = 56

>gnl|CDD|222277 pfam13637, Ank_4, Ankyrin repeats (many copies)

 Score = 41.5 bits (98), Expect = 5e-05
 Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 1/55 (1%)

Query: 365 GLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLL 419
           G TALH AA SG  + ++ L+ K  D IN       T L  A +N ++   ++LL
Sbjct: 1   GRTALHKAAISGRLELVKYLLEKGVD-INRTDEDGNTALHIAAENGNLEVLKLLL 54

Length = 54

>gnl|CDD|240782 cd12336, RRM_RBM7_like, RNA recognition motif in RNA-binding protein 7 (RBM7) and similar proteins

 Score = 41.9 bits (99), Expect = 6e-05
 Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)

Query: 573 GPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK 624
           GP+E  ++     +     + F FVTFKHE S   A+Q    + + G+E+ IK
Sbjct: 26  GPLEGVKIP---KDPNGKPKSFAFVTFKHEVSVPYAIQLLNGIRLFGRELRIK 75

This subfamily corresponds to the RRM of RBM7, RBM11 and their eukaryotic homologous. RBM7 is an ubiquitously expressed pre-mRNA splicing factor that enhances messenger RNA (mRNA) splicing in a cell-specific manner or in a certain developmental process, such as spermatogenesis. It interacts with splicing factors SAP145 (the spliceosomal splicing factor 3b subunit 2) and SRp20, and may play a more specific role in meiosis entry and progression. Together with additional testis-specific RNA-binding proteins, RBM7 may regulate the splicing of specific pre-mRNA species that are important in the meiotic cell cycle. RBM11 is a novel tissue-specific splicing regulator that is selectively expressed in brain, cerebellum and testis, and to a lower extent in kidney. It is localized in the nucleoplasm and enriched in SRSF2-containing splicing speckles. It may play a role in the modulation of alternative splicing during neuron and germ cell differentiation. Both, RBM7 and RBM11, contain an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a region lacking known homology at the C-terminus. The RRM is responsible for RNA binding, whereas the C-terminal region permits nuclear localization and homodimerization. . Length = 75

>gnl|CDD|240853 cd12407, RRM_FOX1_like, RNA recognition motif in vertebrate RNA binding protein fox-1 homologs and similar proteins

 Score = 42.0 bits (99), Expect = 6e-05
 Identities = 28/80 (35%), Positives = 43/80 (53%), Gaps = 8/80 (10%)

Query: 549 KIFVGGLPF-FLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           ++ V  +PF F D D L   F + FGPI D    E    ++  S+GFGFVTF +   A  
Sbjct: 2   RLHVSNIPFRFRDPD-LRQMFGQ-FGPILDV---EIIFNERG-SKGFGFVTFANSADADR 55

Query: 608 AVQARFVT-IMGKEVEIKSA 626
           A +    T + G+++E+ +A
Sbjct: 56  AREKLHGTVVEGRKIEVNNA 75

This subfamily corresponds to the RRM of several tissue-specific alternative splicing isoforms of vertebrate RNA binding protein Fox-1 homologs, which show high sequence similarity to the Caenorhabditis elegans feminizing locus on X (Fox-1) gene encoding Fox-1 protein. RNA binding protein Fox-1 homolog 1 (RBFOX1), also termed ataxin-2-binding protein 1 (A2BP1), or Fox-1 homolog A, or hexaribonucleotide-binding protein 1 (HRNBP1), is predominantly expressed in neurons, skeletal muscle and heart. It regulates alternative splicing of tissue-specific exons by binding to UGCAUG elements. Moreover, RBFOX1 binds to the C-terminus of ataxin-2 and forms an ataxin-2/A2BP1 complex involved in RNA processing. RNA binding protein fox-1 homolog 2 (RBFOX2), also termed Fox-1 homolog B, or hexaribonucleotide-binding protein 2 (HRNBP2), or RNA-binding motif protein 9 (RBM9), or repressor of tamoxifen transcriptional activity, is expressed in ovary, whole embryo, and human embryonic cell lines in addition to neurons and muscle. RBFOX2 activates splicing of neuron-specific exons through binding to downstream UGCAUG elements. RBFOX2 also functions as a repressor of tamoxifen activation of the estrogen receptor. RNA binding protein Fox-1 homolog 3 (RBFOX3 or NeuN or HRNBP3), also termed Fox-1 homolog C, is a nuclear RNA-binding protein that regulates alternative splicing of the RBFOX2 pre-mRNA, producing a message encoding a dominant negative form of the RBFOX2 protein. Its message is detected exclusively in post-mitotic regions of embryonic brain. Like RBFOX1, both RBFOX2 and RBFOX3 bind to the hexanucleotide UGCAUG elements and modulate brain and muscle-specific splicing of exon EIIIB of fibronectin, exon N1 of c-src, and calcitonin/CGRP. Members in this family also harbor one RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 76

>gnl|CDD|241117 cd12673, RRM_BOULE, RNA recognition motif in protein BOULE

 Score = 41.7 bits (98), Expect = 8e-05
 Identities = 24/83 (28%), Positives = 48/83 (57%), Gaps = 5/83 (6%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           ++IFVGG+ F  + + L  +F   +G +++ ++     ++  VS+G+GFVTF+ ++ A  
Sbjct: 3   NRIFVGGIDFKTNENDLRKFFS-QYGTVKEVKIV---NDRAGVSKGYGFVTFETQEDAQK 58

Query: 608 AVQ-ARFVTIMGKEVEIKSAVPK 629
            +Q A  +    K++ I  A+ K
Sbjct: 59  ILQEANRLCFRDKKLNIGQAIRK 81

This subgroup corresponds to the RRM of BOULE, the founder member of the human DAZ gene family. Invertebrates contain a single BOULE, while vertebrates, other than catarrhine primates, possess both BOULE and DAZL genes. The catarrhine primates possess BOULE, DAZL, and DAZ genes. BOULE encodes an RNA-binding protein containing an RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a single copy of the DAZ motif. Although its specific biochemical functions remains to be investigated, BOULE protein may interact with poly(A)-binding proteins (PABPs), and act as translational activators of specific mRNAs during gametogenesis. . Length = 81

>gnl|CDD|240762 cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition motif 3 in RNA-binding protein 19 (RBM19) and RNA recognition motif 2 found in multiple RNA-binding domain-containing protein 1 (MRD1)

 Score = 41.5 bits (98), Expect = 9e-05
 Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 3/63 (4%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           ++FV  LPF    + L   FE  FG I +  +   +  K+S  +GF FV+F   + A  A
Sbjct: 1   RLFVRNLPFTTTEEELRELFEA-FGEISEVHLPLDKETKRS--KGFAFVSFMFPEHAVKA 57

Query: 609 VQA 611
              
Sbjct: 58  YSE 60

This subfamily corresponds to the RRM3 of RBM19 and RRM2 of MRD1. RBM19, also termed RNA-binding domain-1 (RBD-1), is a nucleolar protein conserved in eukaryotes involved in ribosome biogenesis by processing rRNA and is essential for preimplantation development. It has a unique domain organization containing 6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). MRD1 is encoded by a novel yeast gene MRD1 (multiple RNA-binding domain). It is well conserved in yeast and its homologs exist in all eukaryotes. MRD1 is present in the nucleolus and the nucleoplasm. It interacts with the 35 S precursor rRNA (pre-rRNA) and U3 small nucleolar RNAs (snoRNAs). It is essential for the initial processing at the A0-A2 cleavage sites in the 35 S pre-rRNA. MRD1 contains 5 conserved RRMs, which may play an important structural role in organizing specific rRNA processing events. . Length = 74

>gnl|CDD|222980 PHA03095, PHA03095, ankyrin-like protein; Provisional

 Score = 45.4 bits (108), Expect = 1e-04
 Identities = 41/178 (23%), Positives = 66/178 (37%), Gaps = 37/178 (20%)

Query: 294 LATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTS------------------ 335
           L+    +  VI +LL+ K  D+N  D    G + L   LK+                   
Sbjct: 125 LSGFNINPKVIRLLLR-KGADVNALDLY--GMTPLAVLLKSRNANVELLRLLIDAGADVY 181

Query: 336 ------MGLSQHILQN-----RIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQA--LE 382
                   L  H LQ+     RIV  L++ G   +  + LG T LH  A   + +   + 
Sbjct: 182 AVDDRFRSLLHHHLQSFKPRARIVRELIRAGCDPAATDMLGNTPLHSMATGSSCKRSLVL 241

Query: 383 DLIRKEPDCINLKTIMMETPLFFAVK-NDHMVCAEVLLRWGANSEVLNLRRERPIDFA 439
            L+      IN +    +TPL +A   N+   C   L+  GA+   ++     P+   
Sbjct: 242 PLLIAGIS-INARNRYGQTPLHYAAVFNNPRACRR-LIALGADINAVSSDGNTPLSLM 297

Length = 471

>gnl|CDD|240825 cd12379, RRM2_I_PABPs, RNA recognition motif 2 found in type I polyadenylate-binding proteins

 Score = 41.0 bits (97), Expect = 1e-04
 Identities = 21/62 (33%), Positives = 35/62 (56%), Gaps = 4/62 (6%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           IF+  L   +D+ +L   F   FG I   +VA   T++   S+G+GFV F+ E++A  A+
Sbjct: 5   IFIKNLDKSIDNKALYDTFSA-FGNILSCKVA---TDENGGSKGYGFVHFETEEAAVRAI 60

Query: 610 QA 611
           + 
Sbjct: 61  EK 62

This subfamily corresponds to the RRM2 of type I poly(A)-binding proteins (PABPs), highly conserved proteins that bind to the poly(A) tail present at the 3' ends of most eukaryotic mRNAs. They have been implicated in the regulation of poly(A) tail length during the polyadenylation reaction, translation initiation, mRNA stabilization by influencing the rate of deadenylation and inhibition of mRNA decapping. The family represents type I polyadenylate-binding proteins (PABPs), including polyadenylate-binding protein 1 (PABP-1 or PABPC1), polyadenylate-binding protein 3 (PABP-3 or PABPC3), polyadenylate-binding protein 4 (PABP-4 or APP-1 or iPABP), polyadenylate-binding protein 5 (PABP-5 or PABPC5), polyadenylate-binding protein 1-like (PABP-1-like or PABPC1L), polyadenylate-binding protein 1-like 2 (PABPC1L2 or RBM32), polyadenylate-binding protein 4-like (PABP-4-like or PABPC4L), yeast polyadenylate-binding protein, cytoplasmic and nuclear (PABP or ACBP-67), and similar proteins. PABP-1 is a ubiquitously expressed multifunctional protein that may play a role in 3' end formation of mRNA, translation initiation, mRNA stabilization, protection of poly(A) from nuclease activity, mRNA deadenylation, inhibition of mRNA decapping, and mRNP maturation. Although PABP-1 is thought to be a cytoplasmic protein, it is also found in the nucleus. PABP-1 may be involved in nucleocytoplasmic trafficking and utilization of mRNP particles. PABP-1 contains four copies of RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), a less well conserved linker region, and a proline-rich C-terminal conserved domain (CTD). PABP-3 is a testis-specific poly(A)-binding protein specifically expressed in round spermatids. It is mainly found in mammalian and may play an important role in the testis-specific regulation of mRNA homeostasis. PABP-3 shows significant sequence similarity to PABP-1. However, it binds to poly(A) with a lower affinity than PABP-1. Moreover, PABP-1 possesses an A-rich sequence in its 5'-UTR and allows binding of PABP and blockage of translation of its own mRNA. In contrast, PABP-3 lacks the A-rich sequence in its 5'-UTR. PABP-4 is an inducible poly(A)-binding protein (iPABP) that is primarily localized to the cytoplasm. It shows significant sequence similarity to PABP-1 as well. The RNA binding properties of PABP-1 and PABP-4 appear to be identical. PABP-5 is encoded by PABPC5 gene within the X-specific subinterval, and expressed in fetal brain and in a range of adult tissues in mammalian, such as ovary and testis. It may play an important role in germ cell development. Unlike other PABPs, PABP-5 contains only four RRMs, but lacks both the linker region and the CTD. PABP-1-like and PABP-1-like 2 are the orthologs of PABP-1. PABP-4-like is the ortholog of PABP-5. Their cellular functions remain unclear. The family also includes the yeast PABP, a conserved poly(A) binding protein containing poly(A) tails that can be attached to the 3'-ends of mRNAs. The yeast PABP and its homologs may play important roles in the initiation of translation and in mRNA decay. Like vertebrate PABP-1, the yeast PABP contains four RRMs, a linker region, and a proline-rich CTD as well. The first two RRMs are mainly responsible for specific binding to poly(A). The proline-rich region may be involved in protein-protein interactions. . Length = 77

>gnl|CDD|240821 cd12375, RRM1_Hu_like, RNA recognition motif 1 in the Hu proteins family, Drosophila sex-lethal (SXL), and similar proteins

 Score = 40.8 bits (96), Expect = 1e-04
 Identities = 21/70 (30%), Positives = 31/70 (44%), Gaps = 7/70 (10%)

Query: 555 LPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFV 614
           LP  +  + L   FE   GPIE  ++   +      S G+GFV +  E  A  A+     
Sbjct: 8   LPQDMTQEELRSLFEA-IGPIESCKI--VRDRITGQSLGYGFVDYVDENDAQKAIN---- 60

Query: 615 TIMGKEVEIK 624
           T+ G E+  K
Sbjct: 61  TLNGFEIRNK 70

This subfamily corresponds to the RRM1 of Hu proteins and SXL. The Hu proteins family represents a group of RNA-binding proteins involved in diverse biological processes. Since the Hu proteins share high homology with the Drosophila embryonic lethal abnormal vision (ELAV) protein, the Hu family is sometimes referred to as the ELAV family. Drosophila ELAV is exclusively expressed in neurons and is required for the correct differentiation and survival of neurons in flies. The neuronal members of the Hu family include Hu-antigen B (HuB or ELAV-2 or Hel-N1), Hu-antigen C (HuC or ELAV-3 or PLE21), and Hu-antigen D (HuD or ELAV-4), which play important roles in neuronal differentiation, plasticity and memory. HuB is also expressed in gonads. Hu-antigen R (HuR or ELAV-1 or HuA) is ubiquitously expressed Hu family member. It has a variety of biological functions mostly related to the regulation of cellular response to DNA damage and other types of stress. Hu proteins perform their cytoplasmic and nuclear molecular functions by coordinately regulating functionally related mRNAs. In the cytoplasm, Hu proteins recognize and bind to AU-rich RNA elements (AREs) in the 3' untranslated regions (UTRs) of certain target mRNAs, such as GAP-43, vascular epithelial growth factor (VEGF), the glucose transporter GLUT1, eotaxin and c-fos, and stabilize those ARE-containing mRNAs. They also bind and regulate the translation of some target mRNAs, such as neurofilament M, GLUT1, and p27. In the nucleus, Hu proteins function as regulators of polyadenylation and alternative splicing. Each Hu protein contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 may cooperate in binding to an ARE. RRM3 may help to maintain the stability of the RNA-protein complex, and might also bind to poly(A) tails or be involved in protein-protein interactions. This family also includes the sex-lethal protein (SXL) from Drosophila melanogaster. SXL governs sexual differentiation and X chromosome dosage compensation in flies. It induces female-specific alternative splicing of the transformer (tra) pre-mRNA by binding to the tra uridine-rich polypyrimidine tract at the non-sex-specific 3' splice site during the sex-determination process. SXL binds to its own pre-mRNA and promotes female-specific alternative splicing. It contains an N-terminal Gly/Asn-rich domain that may be responsible for the protein-protein interaction, and tandem RRMs that show high preference to bind single-stranded, uridine-rich target RNA transcripts. . Length = 77

>gnl|CDD|200936 pfam00023, Ank, Ankyrin repeat

 Score = 39.5 bits (93), Expect = 1e-04
 Identities = 14/32 (43%), Positives = 18/32 (56%)

Query: 95  GMTALHLAAESHTARCVELLLKKRARTDIRSK 126
           G T LHLAA +     V+LLL+  A  + R K
Sbjct: 2   GNTPLHLAARNGHLEVVKLLLEAGADVNARDK 33

Ankyrins are multifunctional adaptors that link specific proteins to the membrane-associated, spectrin- actin cytoskeleton. This repeat-domain is a 'membrane-binding' domain of up to 24 repeated units, and it mediates most of the protein's binding activities. Repeats 13-24 are especially active, with known sites of interaction for the Na/K ATPase, Cl/HCO(3) anion exchanger, voltage-gated sodium channel, clathrin heavy chain and L1 family cell adhesion molecules. The ANK repeats are found to form a contiguous spiral stack such that ion transporters like the anion exchanger associate in a large central cavity formed by the ANK repeat spiral, while clathrin and cell adhesion molecules associate with specific regions outside this cavity. Length = 33

>gnl|CDD|240894 cd12448, RRM2_gar2, RNA recognition motif 2 in yeast protein gar2 and similar proteins

 Score = 40.4 bits (95), Expect = 2e-04
 Identities = 23/63 (36%), Positives = 35/63 (55%), Gaps = 5/63 (7%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVS-RGFGFVTFKHEKSAAAA 608
           +FVG L F  D DS+   F ++ G I   R+    T+  S   +GFG+V F  +++A AA
Sbjct: 1   LFVGNLSFDADEDSIYEAFGEY-GEISSVRLP---TDPDSGRPKGFGYVEFSSQEAAQAA 56

Query: 609 VQA 611
           + A
Sbjct: 57  LDA 59

This subfamily corresponds to the RRM2 of yeast protein gar2, a novel nucleolar protein required for 18S rRNA and 40S ribosomal subunit accumulation. It shares similar domain architecture with nucleolin from vertebrates and NSR1 from Saccharomyces cerevisiae. The highly phosphorylated N-terminal domain of gar2 is made up of highly acidic regions separated from each other by basic sequences, and contains multiple phosphorylation sites. The central domain of gar2 contains two closely adjacent N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The C-terminal RGG (or GAR) domain of gar2 is rich in glycine, arginine and phenylalanine residues. . Length = 73

>gnl|CDD|241170 cd12726, RRM2_CPEB2_like, RNA recognition motif 2 found in cytoplasmic polyadenylation element-binding protein CPEB-2, CPEB-3, CPEB-4 and similar protiens

 Score = 40.5 bits (95), Expect = 2e-04
 Identities = 27/82 (32%), Positives = 42/82 (51%), Gaps = 12/82 (14%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARV---AEFQTEKQSVSRGFGFVTFKHEKSAA 606
           IFVGG+P  L +  L    ++ +G +  A +    E +  K     G G V F +++S  
Sbjct: 3   IFVGGVPRPLRAVELAMIMDRLYGGVCYAGIDTDPELKYPK-----GAGRVAFSNQQSYI 57

Query: 607 AAVQARFVTI----MGKEVEIK 624
           AA+ ARFV +    + K VE+K
Sbjct: 58  AAISARFVQLQHGDIDKRVEVK 79

This subgroup corresponds to the RRM2 of the paralog proteins CPEB-2, CPEB-3 and CPEB-4, all well conserved in both, vertebrates and invertebrates. Due to the high sequence similarity, members in this family may share similar expression patterns and functions. CPEB-2 is an RNA-binding protein that is abundantly expressed in testis and localized in cytoplasm in transfected HeLa cells. It preferentially binds to poly(U) RNA oligomers and may regulate the translation of stored mRNAs during spermiogenesis. Moreover, CPEB-2 impedes target RNA translation at elongation; it directly interacts with the elongation factor, eEF2, to reduce eEF2/ribosome-activated GTP hydrolysis in vitro and inhibit peptide elongation of CPEB2-bound RNA in vivo. CPEB-3 is a sequence-specific translational regulatory protein that regulates translation in a polyadenylation-independent manner. It functions as a translational repressor that governs the synthesis of the AMPA receptor GluR2 through binding GluR2 mRNA. It also represses translation of a reporter RNA in transfected neurons and stimulates translation in response to NMDA. CPEB-4 is an RNA-binding protein that mediates meiotic mRNA cytoplasmic polyadenylation and translation. It is essential for neuron survival and present on the endoplasmic reticulum (ER). It is accumulated in the nucleus upon ischemia or the depletion of ER calcium. CPEB-4 is overexpressed in a large variety of tumors and is associated with many mRNAs in cancer cells. All family members contain an N-terminal unstructured region, two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a Zn-finger motif. In addition, they do have conserved nuclear export signals that are not present in CPEB-1. . Length = 81

>gnl|CDD|240768 cd12322, RRM2_TDP43, RNA recognition motif 2 in TAR DNA-binding protein 43 (TDP-43) and similar proteins

 Score = 39.9 bits (94), Expect = 2e-04
 Identities = 23/80 (28%), Positives = 35/80 (43%), Gaps = 11/80 (13%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAE-FQTEKQSVSRGFGFVTFKHEKSAA 606
            K+FVG L   +  + L  YF + FG + D  + + F        R F FVTF   +  A
Sbjct: 1   RKVFVGRLTEDMTEEDLRQYFSQ-FGEVTDVYIPKPF--------RAFAFVTFADPEV-A 50

Query: 607 AAVQARFVTIMGKEVEIKSA 626
            ++      I G  V + +A
Sbjct: 51  QSLCGEDHIIKGVSVHVSNA 70

This subfamily corresponds to the RRM2 of TDP-43 (also termed TARDBP), a ubiquitously expressed pathogenic protein whose normal function and abnormal aggregation are directly linked to the genetic disease cystic fibrosis, and two neurodegenerative disorders: frontotemporal lobar degeneration (FTLD) and amyotrophic lateral sclerosis (ALS). TDP-43 binds both DNA and RNA, and has been implicated in transcriptional repression, pre-mRNA splicing and translational regulation. TDP-43 is a dimeric protein with two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal glycine-rich domain. The RRMs are responsible for DNA and RNA binding; they bind to TAR DNA and RNA sequences with UG-repeats. The glycine-rich domain can interact with the hnRNP family proteins to form the hnRNP-rich complex involved in splicing inhibition. It is also essential for the cystic fibrosis transmembrane conductance regulator (CFTR) exon 9-skipping activity. . Length = 71

>gnl|CDD|240792 cd12346, RRM3_NGR1_NAM8_like, RNA recognition motif 3 in yeast negative growth regulatory protein NGR1 (RBP1), yeast protein NAM8 and similar proteins

 Score = 40.0 bits (94), Expect = 2e-04
 Identities = 24/70 (34%), Positives = 32/70 (45%), Gaps = 9/70 (12%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           +FVGGL   +  D L   F   FG I   ++           +G GFV F H  +A AA+
Sbjct: 4   VFVGGLDPAVTEDELRSLFGP-FGEIVYVKIP--------PGKGCGFVQFVHRAAAEAAI 54

Query: 610 QARFVTIMGK 619
           Q    TI+G 
Sbjct: 55  QQLQGTIIGG 64

This subfamily corresponds to the RRM3 of NGR1 and NAM8. NGR1, also termed RNA-binding protein RBP1, is a putative glucose-repressible protein that binds both RNA and single-stranded DNA (ssDNA) in yeast. It may function in regulating cell growth in early log phase, possibly through its participation in RNA metabolism. NGR1 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a glutamine-rich stretch that may be involved in transcriptional activity. In addition, NGR1 has an asparagine-rich region near the carboxyl terminus which also harbors a methionine-rich region. The family also includes protein NAM8, which is a putative RNA-binding protein that acts as a suppressor of mitochondrial splicing deficiencies when overexpressed in yeast. It may be a non-essential component of the mitochondrial splicing machinery. Like NGR1, NAM8 contains two RRMs. . Length = 72

>gnl|CDD|241056 cd12612, RRM2_SECp43, RNA recognition motif 2 in tRNA selenocysteine-associated protein 1 (SECp43)

 Score = 40.4 bits (95), Expect = 3e-04
 Identities = 26/83 (31%), Positives = 40/83 (48%), Gaps = 7/83 (8%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHE---KSAA 606
           +FVG L   +D   L  +F K +   + A+V     ++   SRG+GFV F  E   K A 
Sbjct: 4   LFVGDLTPDVDDYQLYEFFSKRYPSCKGAKVV---LDQNGNSRGYGFVRFSDESEQKRAL 60

Query: 607 AAVQARFVTIMGKEVEIKSAVPK 629
             +Q     + GK + +  A+PK
Sbjct: 61  TEMQG-ASGLGGKPIRVSLAIPK 82

This subgroup corresponds to the RRM2 of SECp43, an RNA-binding protein associated specifically with eukaryotic selenocysteine tRNA [tRNA(Sec)]. It may play an adaptor role in the mechanism of selenocysteine insertion. SECp43 is located primarily in the nucleus and contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal polar/acidic region. . Length = 82

>gnl|CDD|193586 cd09972, LOTUS_TDRD_OSKAR, The first LOTUS domain in Oskar and Tudor-containing proteins 5 and 7

 Score = 40.6 bits (96), Expect = 3e-04
 Identities = 17/40 (42%), Positives = 27/40 (67%)

Query: 758 LSSLKTDFKAVCGLELDHASLGYSKLSDFLRTLPDLCHVK 797
           LS L+ D++ + G  + +  LGYS L DFLR++PD+  V+
Sbjct: 21  LSELERDYRELEGEPIPYRKLGYSSLEDFLRSIPDVVTVR 60

The first LOTUS domain in Oskar and Tudor-containing proteins 5 and 7: The LOTUS containing proteins are germline-specific and are found in the nuage/polar granules of germ cells. Tudor-containing protein 5 and 7 belong to the evolutionary conserved Tudor domain-containing protein (TDRD) family involved in germ cell development. In mice, TDRD5 and TDRD7 are components of the intermitochondrial cements (IMCs) and the chromatoid bodies (CBs), which are cytoplasmic ribonucleoprotein granules involved in RNA processing for spermatogenesis. Oskar protein is a critical component of the pole plasm in the Drosophila oocyte, which is required for germ cell formation.The exact molecular function of LOTUS domain remains to be identified. Its occurrence in proteins associated with RNA metabolism suggests that it might be involved in RNA binding function. The presence of several basic residues and RNA fold recognition motifs support this hypothesis. The RNA binding function might be the first step of regulating mRNA translation or localization. Length = 87

>gnl|CDD|241169 cd12725, RRM2_CPEB1, RNA recognition motif 2 in cytoplasmic polyadenylation element-binding protein 1 (CPEB-1) and similar proteins

 Score = 40.1 bits (94), Expect = 3e-04
 Identities = 23/67 (34%), Positives = 34/67 (50%), Gaps = 3/67 (4%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           +FVG L   L++++L       FG +     A   T+K     G G VTF +++S   AV
Sbjct: 6   VFVGALHGMLNAEALAHIMNDLFGGVV---YAGIDTDKYKYPIGSGRVTFNNQRSYMKAV 62

Query: 610 QARFVTI 616
           +A FV I
Sbjct: 63  KAAFVEI 69

This subgroup corresponds to the RRM2 of CPEB-1 (also termed CPE-BP1 or CEBP), an RNA-binding protein that interacts with the cytoplasmic polyadenylation element (CPE), a short U-rich motif in the 3' untranslated regions (UTRs) of certain mRNAs. It functions as a translational regulator that plays a major role in the control of maternal CPE-containing mRNA in oocytes, as well as of subsynaptic CPE-containing mRNA in neurons. Once phosphorylated and recruiting the polyadenylation complex, CPEB-1 may function as a translational activator stimulating polyadenylation and translation. Otherwise, it may function as a translational inhibitor when dephosphorylated and bound to a protein such as maskin or neuroguidin, which blocks translation initiation through interfering with the assembly of eIF-4E and eIF-4G. Although CPEB-1 is mainly located in cytoplasm, it can shuttle between nucleus and cytoplasm. CPEB-1 contains an N-terminal unstructured region, two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a Zn-finger motif. Both of the RRMs and the Zn finger are required for CPEB-1 to bind CPE. The N-terminal regulatory region may be responsible for CPEB-1 interacting with other proteins. . Length = 86

>gnl|CDD|238125 cd00204, ANK, ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins

 Score = 41.2 bits (97), Expect = 4e-04
 Identities = 16/38 (42%), Positives = 21/38 (55%)

Query: 95  GMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLL 132
           G T LHLAA +     V+LLL+  A  + +  DGR  L
Sbjct: 7   GRTPLHLAASNGHLEVVKLLLENGADVNAKDNDGRTPL 44

The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other types of domains. The structural repeat unit contains two antiparallel helices and a beta-hairpin, repeats are stacked in a superhelical arrangement; this alignment contains 4 consecutive repeats. Length = 126

>gnl|CDD|206028 pfam13857, Ank_5, Ankyrin repeats (many copies)

 Score = 38.9 bits (91), Expect = 4e-04
 Identities = 15/48 (31%), Positives = 22/48 (45%)

Query: 85  ALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLL 132
            +     + +G T LHLAA+      V+ LLK     ++R  DG   L
Sbjct: 6   PIDLNATDGNGNTPLHLAAKYGALELVQWLLKPGVDLNLRDSDGLTAL 53

Length = 56

>gnl|CDD|240800 cd12354, RRM3_TIA1_like, RNA recognition motif 2 in granule-associated RNA binding proteins (p40-TIA-1 and TIAR), and yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1

 Score = 39.5 bits (93), Expect = 4e-04
 Identities = 26/73 (35%), Positives = 35/73 (47%), Gaps = 10/73 (13%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTF-KHEKSAAAA 608
           ++VG LP  L  + L   F   FG IE+ RV     +K     G+ FV F  HE +A A 
Sbjct: 3   VYVGNLPHGLTEEELQRTFS-PFGAIEEVRV---FKDK-----GYAFVRFDTHEAAATAI 53

Query: 609 VQARFVTIMGKEV 621
           V     +I G+ V
Sbjct: 54  VAVNGTSINGQTV 66

This subfamily corresponds to the RRM3 of TIA-1, TIAR, and PUB1. Nucleolysin TIA-1 isoform p40 (p40-TIA-1 or TIA-1) and nucleolysin TIA-1-related protein (TIAR) are granule-associated RNA binding proteins involved in inducing apoptosis in cytotoxic lymphocyte (CTL) target cells. They share high sequence similarity and are expressed in a wide variety of cell types. TIA-1 can be phosphorylated by a serine/threonine kinase that is activated during Fas-mediated apoptosis.TIAR is mainly localized in the nucleus of hematopoietic and nonhematopoietic cells. It is translocated from the nucleus to the cytoplasm in response to exogenous triggers of apoptosis. Both TIA-1 and TIAR bind specifically to poly(A) but not to poly(C) homopolymers. They are composed of three N-terminal highly homologous RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glutamine-rich C-terminal auxiliary domain containing a lysosome-targeting motif. TIA-1 and TIAR interact with RNAs containing short stretches of uridylates and their RRM2 can mediate the specific binding to uridylate-rich RNAs. The C-terminal auxiliary domain may be responsible for interacting with other proteins. In addition, TIA-1 and TIAR share a potential serine protease-cleavage site (Phe-Val-Arg) localized at the junction between their RNA binding domains and their C-terminal auxiliary domains. This subfamily also includes a yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1, termed ARS consensus-binding protein ACBP-60, or poly uridylate-binding protein, or poly(U)-binding protein, which has been identified as both a heterogeneous nuclear RNA-binding protein (hnRNP) and a cytoplasmic mRNA-binding protein (mRNP). It may be stably bound to a translationally inactive subpopulation of mRNAs within the cytoplasm. PUB1 is distributed in both, the nucleus and the cytoplasm, and binds to poly(A)+ RNA (mRNA or pre-mRNA). Although it is one of the major cellular proteins cross-linked by UV light to polyadenylated RNAs in vivo, PUB1 is nonessential for cell growth in yeast. PUB1 also binds to T-rich single stranded DNA (ssDNA); however, there is no strong evidence implicating PUB1 in the mechanism of DNA replication. PUB1 contains three RRMs, and a GAR motif (glycine and arginine rich stretch) that is located between RRM2 and RRM3. . Length = 73

>gnl|CDD|193585 cd08824, LOTUS, LOTUS is an uncharacterized small globular domain found in Limkain b1, Oskar and Tudor-containing proteins 5 and 7

 Score = 39.5 bits (93), Expect = 4e-04
 Identities = 20/57 (35%), Positives = 28/57 (49%), Gaps = 1/57 (1%)

Query: 738 KWLPRFLKDVYRHPLEGKYALSSLKTDFKAVCGLELDHASLGYSKLSDFLRTLPDLC 794
           K L + L+ + +    G   LS L   +K   G  LD +  G+SKLSD L  LP + 
Sbjct: 2   KQLAKQLRSLLQSYPGG-LPLSKLPQLYKKKFGKPLDLSEYGFSKLSDLLEALPGVV 57

LOTUS is an uncharacterized small globular domain found in Limkain b1, Oskar and Tudor-containing proteins 5 and 7. The LOTUS containing proteins are germline-specific and are found in the nuage/polar granules of germ cells. Tudor-containing protein 5 and 7 belong to the evolutionary conserved Tudor domain-containing protein (TDRD) family involved in germ cell development. In mice, TDRD5 and TDRD7 are components of the intermitochondrial cements (IMCs) and the chromatoid bodies (CBs), which are cytoplasmic ribonucleoprotein granules involved in RNA processing for spermatogenesis. Oskar protein is a critical component of the pole plasm in the Drosophila oocyte, which is required for germ cell formation. Limkain b1 is a novel human autoantigen, localized to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures. Limkain b1 contains multiple copies of LOTUS domains and a conserved RNA recognition motif. The exact molecular function of LOTUS domain remains to be characterized. Its occurrence in proteins associated with RNA metabolism suggests that it might be involved in RNA binding function. The presence of several basic residues and RNA fold recognition motifs support this hypothesis. The RNA binding function might be the first step of regulating mRNA translation or localization. Length = 70

>gnl|CDD|240861 cd12415, RRM3_RBM28_like, RNA recognition motif 3 in RNA-binding protein 28 (RBM28) and similar proteins

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 21/63 (33%), Positives = 33/63 (52%), Gaps = 5/63 (7%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDAR-VAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           +F+  LPF    + L   F + FG ++ AR V +  T     S+G  FV FK ++SA   
Sbjct: 3   VFIRNLPFDATEEELKELFSQ-FGEVKYARIVKDKLTGH---SKGTAFVKFKTKESAQKC 58

Query: 609 VQA 611
           ++A
Sbjct: 59  LEA 61

This subfamily corresponds to the RRM3 of RBM28 and Nop4p. RBM28 is a specific nucleolar component of the spliceosomal small nuclear ribonucleoproteins (snRNPs), possibly coordinating their transition through the nucleolus. It specifically associates with U1, U2, U4, U5, and U6 small nuclear RNAs (snRNAs), and may play a role in the maturation of both small nuclear and ribosomal RNAs. RBM28 has four RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an extremely acidic region between RRM2 and RRM3. The family also includes nucleolar protein 4 (Nop4p or Nop77p) encoded by YPL043W from Saccharomyces cerevisiae. It is an essential nucleolar protein involved in processing and maturation of 27S pre-rRNA and biogenesis of 60S ribosomal subunits. Nop4p also contains four RRMs. . Length = 82

>gnl|CDD|240819 cd12373, RRM_SRSF3_like, RNA recognition motif in serine/arginine-rich splicing factor 3 (SRSF3) and similar proteins

 Score = 39.1 bits (92), Expect = 5e-04
 Identities = 22/66 (33%), Positives = 29/66 (43%), Gaps = 14/66 (21%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSR---GFGFVTFKHEKSA 605
           K++VG L        L   FEK +GP+    VA          R   GF FV F+  + A
Sbjct: 1   KVYVGNLGPRATKRELEDEFEK-YGPLRSVWVA----------RNPPGFAFVEFEDPRDA 49

Query: 606 AAAVQA 611
             AV+A
Sbjct: 50  EDAVRA 55

This subfamily corresponds to the RRM of two serine/arginine (SR) proteins, serine/arginine-rich splicing factor 3 (SRSF3) and serine/arginine-rich splicing factor 7 (SRSF7). SRSF3, also termed pre-mRNA-splicing factor SRp20, modulates alternative splicing by interacting with RNA cis-elements in a concentration- and cell differentiation-dependent manner. It is also involved in termination of transcription, alternative RNA polyadenylation, RNA export, and protein translation. SRSF3 is critical for cell proliferation, and tumor induction and maintenance. It can shuttle between the nucleus and cytoplasm. SRSF7, also termed splicing factor 9G8, plays a crucial role in both constitutive splicing and alternative splicing of many pre-mRNAs. Its localization and functions are tightly regulated by phosphorylation. SRSF7 is predominantly present in the nuclear and can shuttle between nucleus and cytoplasm. It cooperates with the export protein, Tap/NXF1, helps mRNA export to the cytoplasm, and enhances the expression of unspliced mRNA. Moreover, SRSF7 inhibits tau E10 inclusion through directly interacting with the proximal downstream intron of E10, a clustering region for frontotemporal dementia with Parkinsonism (FTDP) mutations. Both SRSF3 and SRSF7 contain a single N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal RS domain rich in serine-arginine dipeptides. The RRM domain is involved in RNA binding, and the RS domain has been implicated in protein shuttling and protein-protein interactions. . Length = 73

>gnl|CDD|241029 cd12585, RRM2_hnRPDL, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein D-like (hnRNP DL) and similar proteins

 Score = 39.2 bits (91), Expect = 6e-04
 Identities = 26/78 (33%), Positives = 39/78 (50%), Gaps = 3/78 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+FVGGL      + +  YF   FG IE+  +      K +  RGF FVT+  E+     
Sbjct: 1   KVFVGGLSPDTTEEQIKEYFGA-FGEIENIELP--MDTKTNERRGFCFVTYTDEEPVQKL 57

Query: 609 VQARFVTIMGKEVEIKSA 626
           +++R+  I   + EIK A
Sbjct: 58  LESRYHQIGSGKCEIKVA 75

This subgroup corresponds to the RRM2 of hnRNP DL (or hnRNP D-like), also termed AU-rich element RNA-binding factor, or JKT41-binding protein (protein laAUF1 or JKTBP), is a dual functional protein that possesses DNA- and RNA-binding properties. It has been implicated in mRNA biogenesis at the transcriptional and post-transcriptional levels. hnRNP DL binds single-stranded DNA (ssDNA) or double-stranded DNA (dsDNA) in a non-sequencespecific manner, and interacts with poly(G) and poly(A) tenaciously. It contains two putative two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glycine- and tyrosine-rich C-terminus. . Length = 75

>gnl|CDD|241203 cd12759, RRM1_MSI1, RNA recognition motif 1 in RNA-binding protein Musashi homolog 1 (Musashi-1) and similar proteins

 Score = 39.2 bits (91), Expect = 6e-04
 Identities = 21/51 (41%), Positives = 29/51 (56%), Gaps = 3/51 (5%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTF 599
           K+F+GGL +    + L  YF   FG +++  V      K+S  RGFGFVTF
Sbjct: 2   KMFIGGLSWQTTQEGLREYF-GQFGEVKECLVMRDPLTKRS--RGFGFVTF 49

This subgroup corresponds to the RRM1 of Musashi-1. The mammalian MSI1 gene encoding Musashi-1 (also termed Msi1) is a neural RNA-binding protein putatively expressed in central nervous system (CNS) stem cells and neural progenitor cells and associated with asymmetric divisions in neural progenitor cells. Musashi-1 is evolutionarily conserved from invertebrates to vertebrates. It is a homolog of Drosophila Musashi and Xenopus laevis nervous system-specific RNP protein-1 (Nrp-1). Musashi-1 has been implicated in the maintenance of the stem-cell state, differentiation, and tumorigenesis. It translationally regulates the expression of a mammalian numb gene by binding to the 3'-untranslated region of mRNA of Numb, encoding a membrane-associated inhibitor of Notch signaling, and further influences neural development. Moreover, it represses translation by interacting with the poly(A)-binding protein and competes for binding of the eukaryotic initiation factor-4G (eIF-4G). Musashi-1 contains two conserved N-terminal tandem RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), along with other domains of unknown function. . Length = 77

>gnl|CDD|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1, 2, 3, 4 family

 Score = 43.3 bits (102), Expect = 6e-04
 Identities = 27/61 (44%), Positives = 36/61 (59%), Gaps = 4/61 (6%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           IFV  L   +D+ +L   F K FG I   +VA  +  K   SRG+GFV F+ E+SA AA+
Sbjct: 91  IFVKNLDKSVDNKALFDTFSK-FGNILSCKVATDENGK---SRGYGFVHFEKEESAKAAI 146

Query: 610 Q 610
           Q
Sbjct: 147 Q 147

These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis (GP:11610605_PABP3 ), platelets (SP:Q13310_PABP4 ), broadly expressed (SP:P11940_PABP1) and of unknown tissue range (SP:Q15097_PABP2). Length = 562

>gnl|CDD|240717 cd12271, RRM1_PHIP1, RNA recognition motif 1 in Arabidopsis thaliana phragmoplastin interacting protein 1 (PHIP1) and similar proteins

 Score = 38.5 bits (90), Expect = 8e-04
 Identities = 21/75 (28%), Positives = 41/75 (54%), Gaps = 3/75 (4%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           ++VGG+P++   D +  YF  + G IE+  +  F    +   RG  F+TFK E++A  A+
Sbjct: 1   VYVGGIPYYSTEDEIRSYFS-YCGEIEELDLMTFPDTGR--FRGIAFITFKTEEAAKRAL 57

Query: 610 QARFVTIMGKEVEIK 624
                 + G+ ++++
Sbjct: 58  ALDGEDMGGRFLKVE 72

This subfamily corresponds to the RRM1 of PHIP1. A. thaliana PHIP1 and its homologs represent a novel class of plant-specific RNA-binding proteins that may play a unique role in the polarized mRNA transport to the vicinity of the cell plate. The family members consist of multiple functional domains, including a lysine-rich domain (KRD domain) that contains three nuclear localization motifs (KKKR/NK), two RNA recognition motifs (RRMs), and three CCHC-type zinc fingers. PHIP1 is a peripheral membrane protein and is localized at the cell plate during cytokinesis in plants. In addition to phragmoplastin, PHIP1 interacts with two Arabidopsis small GTP-binding proteins, Rop1 and Ran2. However, PHIP1 interacted only with the GTP-bound form of Rop1 but not the GDP-bound form. It also binds specifically to Ran2 mRNA. . Length = 72

>gnl|CDD|240926 cd12482, RRM1_hnRNPR, RNA recognition motif 1 in vertebrate heterogeneous nuclear ribonucleoprotein R (hnRNP R)

 Score = 38.8 bits (90), Expect = 8e-04
 Identities = 24/63 (38%), Positives = 36/63 (57%), Gaps = 3/63 (4%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           +++FVG +P  L  D L   FEK  GPI D R+       Q+  RG+ F+TF  +++A  
Sbjct: 2   TEVFVGKIPRDLYEDELVPLFEKA-GPIWDLRLMMDPLSGQN--RGYAFITFCGKEAAQE 58

Query: 608 AVQ 610
           AV+
Sbjct: 59  AVK 61

This subgroup corresponds to the RRM1 of hnRNP R, which is a ubiquitously expressed nuclear RNA-binding protein that specifically binds mRNAs with a preference for poly(U) stretches. Upon binding of RNA, hnRNP R forms oligomers, most probably dimers. hnRNP R has been implicated in mRNA processing and mRNA transport, and also acts as a regulator to modify binding to ribosomes and RNA translation. It is predominantly located in axons of motor neurons and to a much lower degree in sensory axons. In axons of motor neurons, it also functions as a cytosolic protein and interacts with wild type of survival motor neuron (SMN) proteins directly, further providing a molecular link between SMN and the spliceosome. Moreover, hnRNP R plays an important role in neural differentiation and development, and in retinal development and light-elicited cellular activities. hnRNP R contains an acidic auxiliary N-terminal region, followed by two well defined and one degenerated RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal RGG motif; it binds RNA through its RRM domains. . Length = 79

>gnl|CDD|241075 cd12631, RRM1_CELF1_2_Bruno, RNA recognition motif 1 in CUGBP Elav-like family member CELF-1, CELF-2, Drosophila melanogaster Bruno protein and similar proteins

 Score = 39.0 bits (91), Expect = 8e-04
 Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 1/63 (1%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+FVG +P       L   FE+ +G +    V   +++    S+G  FVTF   K+A  A
Sbjct: 3   KMFVGQIPRSWSEKDLRELFEQ-YGAVYQINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 61

Query: 609 VQA 611
             A
Sbjct: 62  QNA 64

This subgroup corresponds to the RRM1 of CELF-1, CELF-2 and Bruno protein. CELF-1 (also termed BRUNOL-2, or CUG-BP1, or EDEN-BP) and CELF-2 (also termed BRUNOL-3, or ETR-3, or CUG-BP2, or NAPOR) belong to the CUGBP1 and ETR-3-like factors (CELF) or BRUNOL (Bruno-like) family of RNA-binding proteins that have been implicated in regulation of pre-mRNA splicing, and control of mRNA translation and deadenylation. CELF-1 is strongly expressed in all adult and fetal tissues tested. The human CELF-1 is a nuclear and cytoplasmic RNA-binding protein that regulates multiple aspects of nuclear and cytoplasmic mRNA processing, with implications for onset of type 1 myotonic dystrophy (DM1), a neuromuscular disease associated with an unstable CUG triplet expansion in the 3'-UTR (3'-untranslated region) of the DMPK (myotonic dystrophy protein kinase) gene; it preferentially targets UGU-rich mRNA elements. It has been shown to bind to a Bruno response element, a cis-element involved in translational control of oskar mRNA in Drosophila, and share sequence similarity to Bruno, the Drosophila protein that mediates this process. The Xenopus homolog embryo deadenylation element-binding protein (EDEN-BP) mediates sequence-specific deadenylation of Eg5 mRNA. It binds specifically to the EDEN motif in the 3'-untranslated regions of maternal mRNAs and targets these mRNAs for deadenylation and translational repression. CELF-1 contain three highly conserved RNA recognition motifs (RRMs), also known as RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains): two consecutive RRMs (RRM1 and RRM2) situated in the N-terminal region followed by a linker region and the third RRM (RRM3) close to the C-terminus of the protein. The two N-terminal RRMs of EDEN-BP are necessary for the interaction with EDEN as well as a part of the linker region (between RRM2 and RRM3). Oligomerization of EDEN-BP is required for specific mRNA deadenylation and binding. CELF-2 is expressed in all tissues at some level, but highest in brain, heart, and thymus. It has been implicated in the regulation of nuclear and cytoplasmic RNA processing events, including alternative splicing, RNA editing, stability and translation. CELF-2 shares high sequence identity with CELF-1, but shows different binding specificity; it binds preferentially to sequences with UG repeats and UGUU motifs. It has been shown to bind to a Bruno response element, a cis-element involved in translational control of oskar mRNA in Drosophila, and share sequence similarity to Bruno, the Drosophila protein that mediates this process. It also binds to the 3'-UTR of cyclooxygenase-2 messages, affecting both translation and mRNA stability, and binds to apoB mRNA, regulating its C to U editing. CELF-2 also contains three highly conserved RRMs. It binds to RNA via the first two RRMs, which are also important for localization in the cytoplasm. The splicing activation or repression activity of CELF-2 on some specific substrates is mediated by RRM1/RRM2. Both, RRM1 and RRM2 of CELF-2, can activate cardiac troponin T (cTNT) exon 5 inclusion. In addition, CELF-2 possesses a typical arginine and lysine-rich nuclear localization signal (NLS) in the C-terminus, within RRM3. This subgroup also includes Drosophila melanogaster Bruno protein, which plays a central role in regulation of Oskar (Osk) expression in flies. It mediates repression by binding to regulatory Bruno response elements (BREs) in the Osk mRNA 3' UTR. The full-length Bruno protein contains three RRMs, two located in the N-terminal half of the protein and the third near the C-terminus, separated by a linker region. . Length = 84

>gnl|CDD|222939 PHA02878, PHA02878, ankyrin repeat protein; Provisional

 Score = 42.2 bits (99), Expect = 0.001
 Identities = 25/101 (24%), Positives = 51/101 (50%), Gaps = 2/101 (1%)

Query: 342 ILQNRIVGILLKHGAIVSQQNK-LGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMME 400
           I++  I  +LL +GA ++ +++  G TALH A  + + +  E L+    + +N+      
Sbjct: 144 IIEAEITKLLLSYGADINMKDRHKGNTALHYATENKDQRLTELLLSYGAN-VNIPDKTNN 202

Query: 401 TPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKS 441
           +PL  AVK+ +     +LL  GA+++  +     P+  +  
Sbjct: 203 SPLHHAVKHYNKPIVHILLENGASTDARDKCGNTPLHISVG 243

Length = 477

>gnl|CDD|241201 cd12757, RRM1_hnRNPAB, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein A/B (hnRNP A/B) and similar proteins

 Score = 38.4 bits (89), Expect = 0.001
 Identities = 25/78 (32%), Positives = 37/78 (47%), Gaps = 3/78 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+FVGGL +      L  YF K FG + D  +          SRGFGF+ FK   S    
Sbjct: 1   KMFVGGLSWDTSKKDLKDYFTK-FGEVTDCTIK--MDPNTGRSRGFGFILFKDASSVEKV 57

Query: 609 VQARFVTIMGKEVEIKSA 626
           ++ +   + G+ ++ K A
Sbjct: 58  LEQKEHRLDGRLIDPKKA 75

This subgroup corresponds to the RRM1 of hnRNP A/B, also termed APOBEC1-binding protein 1 (ABBP-1), which is an RNA unwinding protein with a high affinity for G- followed by U-rich regions. hnRNP A/B has also been identified as an APOBEC1-binding protein that interacts with apolipoprotein B (apoB) mRNA transcripts around the editing site and thus plays an important role in apoB mRNA editing. hnRNP A/B contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long C-terminal glycine-rich domain that contains a potential ATP/GTP binding loop. . Length = 75

>gnl|CDD|240753 cd12307, RRM_NIFK_like, RNA recognition motif in nucleolar protein interacting with the FHA domain of pKI-67 (NIFK) and similar proteins

 Score = 38.3 bits (90), Expect = 0.001
 Identities = 16/62 (25%), Positives = 31/62 (50%), Gaps = 3/62 (4%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           +++G LP       L  YF + FG +   R++  +++K   S+G+ FV F+  + A    
Sbjct: 2   VYIGHLPHGFYEPELRKYFSQ-FGTVTRLRLS--RSKKTGKSKGYAFVEFESPEVAKIVA 58

Query: 610 QA 611
           + 
Sbjct: 59  ET 60

This subgroup corresponds to the RRM of NIFK and Nop15p. NIFK, also termed MKI67 FHA domain-interacting nucleolar phosphoprotein, or nucleolar phosphoprotein Nopp34, is a putative RNA-binding protein interacting with the forkhead associated (FHA) domain of pKi-67 antigen in a mitosis-specific and phosphorylation-dependent manner. It is nucleolar in interphase but associates with condensed mitotic chromosomes. This family also includes Saccharomyces cerevisiae YNL110C gene encoding ribosome biogenesis protein 15 (Nop15p), also termed nucleolar protein 15. Both, NIFK and Nop15p, contain an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 74

>gnl|CDD|240996 cd12552, RRM_Nop15p, RNA recognition motif in yeast ribosome biogenesis protein 15 (Nop15p) and similar proteins

 Score = 38.2 bits (89), Expect = 0.001
 Identities = 23/76 (30%), Positives = 43/76 (56%), Gaps = 4/76 (5%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           I++G LP       L  YF + FG +++ RVA  +++K   S+ +GF+ F + + AA A 
Sbjct: 2   IYIGHLPHGFLEKELKKYFSQ-FGTVKNVRVA--RSKKTGNSKHYGFIQFLNPEVAAIAA 58

Query: 610 QA-RFVTIMGKEVEIK 624
           ++     +MGK +++ 
Sbjct: 59  KSMNNYLLMGKVLQVH 74

This subgroup corresponds to the RRM of Nop15p, also termed nucleolar protein 15, which is encoded by YNL110C from Saccharomyces cerevisiae, and localizes to the nucleoplasm and nucleolus. Nop15p has been identified as a component of a pre-60S particle. It interacts with RNA components of the early pre-60S particles. Furthermore, Nop15p binds directly to a pre-rRNA transcript in vitro and is required for pre-rRNA processing. It functions as a ribosome synthesis factor required for the 5' to 3' exonuclease digestion that generates the 5' end of the major, short form of the 5.8S rRNA as well as for processing of 27SB to 7S pre-rRNA. Nop15p also play a specific role in cell cycle progression. Nop15p contains an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 77

>gnl|CDD|240843 cd12397, RRM2_Nop13p_fungi, RNA recognition motif 2 in yeast nucleolar protein 13 (Nop13p) and similar proteins

 Score = 38.2 bits (89), Expect = 0.001
 Identities = 20/61 (32%), Positives = 26/61 (42%), Gaps = 5/61 (8%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQT-EKQSVSRGFGFVTFKHEKSAAAA 608
           +FVG L F    D L      HFG +   R     T E     +GF FV F+  + A  A
Sbjct: 1   LFVGNLSFETTEDEL----RAHFGRVGRIRRVRMMTFEDSGKCKGFAFVDFEEIEFATNA 56

Query: 609 V 609
           +
Sbjct: 57  L 57

This subfamily corresponds to the RRM2 of Nop13p encoded by YNL175c from Saccharomyces cerevisiae. It shares high sequence similarity with nucleolar protein 12 (Nop12p). Both Nop12p and Nop13p are not essential for growth. However, unlike Nop12p that is localized to the nucleolus, Nop13p localizes primarily to the nucleolus but is also present in the nucleoplasm to a lesser extent. Nop13p contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 73

>gnl|CDD|222984 PHA03100, PHA03100, ankyrin repeat protein; Provisional

 Score = 41.2 bits (97), Expect = 0.002
 Identities = 36/131 (27%), Positives = 58/131 (44%), Gaps = 9/131 (6%)

Query: 281 GSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQ 340
              + KK   PL LA +A + DV++ILL     DIN +      NS     L        
Sbjct: 28  NDYSYKKPVLPLYLAKEARNIDVVKILLD-NGADINSST---KNNSTPLHYLSNIKYNLT 83

Query: 341 HILQNRIVGILLKHGAIVSQQNKLGLTALHIAAG--SGNSQALEDLIRKEPDCINLKTIM 398
            +    IV +LL++GA V+  +  G+T L  A    S +   +E L+    + +N+K   
Sbjct: 84  DVK--EIVKLLLEYGANVNAPDNNGITPLLYAISKKSNSYSIVEYLLDNGAN-VNIKNSD 140

Query: 399 METPLFFAVKN 409
            E  L   +++
Sbjct: 141 GENLLHLYLES 151

Length = 422

>gnl|CDD|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1, 2, 3, 4 family

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 31/119 (26%), Positives = 48/119 (40%), Gaps = 6/119 (5%)

Query: 538 MIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFV 597
                 +     ++V  L   +  + L   F +  G I  A+V     +++ VSRGFGFV
Sbjct: 276 QQERKMKAQGVNLYVKNLDDTVTDEKLRELFSE-CGEITSAKV---MLDEKGVSRGFGFV 331

Query: 598 TFKHEKSAAAAVQARFVTIM-GKEVEIKSAVPKEVLFAELQKQSAQQQ-ESKHEHQARL 654
            F + + A  AV      ++ GK + +  A  KE   A LQ Q  Q Q   +       
Sbjct: 332 CFSNPEEANRAVTEMHGRMLGGKPLYVALAQRKEQRRAHLQDQFMQLQPRMRQLPMGSP 390

These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis (GP:11610605_PABP3 ), platelets (SP:Q13310_PABP4 ), broadly expressed (SP:P11940_PABP1) and of unknown tissue range (SP:Q15097_PABP2). Length = 562

>gnl|CDD|240927 cd12483, RRM1_hnRNPQ, RNA recognition motif 1 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)

 Score = 38.1 bits (88), Expect = 0.002
 Identities = 25/63 (39%), Positives = 36/63 (57%), Gaps = 3/63 (4%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           ++IFVG +P  L  D L   FEK  GPI D R+         ++RG+ FVTF  +++A  
Sbjct: 2   TEIFVGKIPRDLFEDELVPLFEKA-GPIWDLRL--MMDPLTGLNRGYAFVTFCTKEAAQE 58

Query: 608 AVQ 610
           AV+
Sbjct: 59  AVK 61

This subgroup corresponds to the RRM1 of hnRNP Q, also termed glycine- and tyrosine-rich RNA-binding protein (GRY-RBP), or NS1-associated protein 1 (NASP1), or synaptotagmin-binding, cytoplasmic RNA-interacting protein (SYNCRIP). It is a ubiquitously expressed nuclear RNA-binding protein identified as a component of the spliceosome complex, as well as a component of the apobec-1 editosome. As an alternatively spliced version of NSAP, it acts as an interaction partner of a multifunctional protein required for viral replication, and is implicated in the regulation of specific mRNA transport. hnRNP Q has also been identified as SYNCRIP, a dual functional protein participating in both viral RNA replication and translation. As a synaptotagmin-binding protein, hnRNP Q plays a putative role in organelle-based mRNA transport along the cytoskeleton. Moreover, hnRNP Q has been found in protein complexes involved in translationally coupled mRNA turnover and mRNA splicing. It functions as a wild-type survival motor neuron (SMN)-binding protein that may participate in pre-mRNA splicing and modulate mRNA transport along microtubuli. hnRNP Q contains an acidic auxiliary N-terminal region, followed by two well-defined and one degenerated RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal RGG motif; hnRNP Q binds RNA through its RRM domains. Length = 79

>gnl|CDD|240787 cd12341, RRM_hnRNPC_like, RNA recognition motif in heterogeneous nuclear ribonucleoprotein C (hnRNP C)-related proteins

 Score = 37.6 bits (88), Expect = 0.002
 Identities = 19/63 (30%), Positives = 31/63 (49%), Gaps = 12/63 (19%)

Query: 548 SKIFVGGLP-FFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
           S++FVG L    +  + L   F K+       ++        S+ +G+GFV F +E+ A 
Sbjct: 1   SRVFVGNLNTDKVSKEDLEEIFSKY------GKILGI-----SLHKGYGFVQFDNEEDAR 49

Query: 607 AAV 609
           AAV
Sbjct: 50  AAV 52

This subfamily corresponds to the RRM in the hnRNP C-related protein family, including hnRNP C proteins, Raly, and Raly-like protein (RALYL). hnRNP C proteins, C1 and C2, are produced by a single coding sequence. They are the major constituents of the heterogeneous nuclear RNA (hnRNA) ribonucleoprotein (hnRNP) complex in vertebrates. They bind hnRNA tightly, suggesting a central role in the formation of the ubiquitous hnRNP complex; they are involved in the packaging of the hnRNA in the nucleus and in processing of pre-mRNA such as splicing and 3'-end formation. Raly, also termed autoantigen p542, is an RNA-binding protein that may play a critical role in embryonic development. The biological role of RALYL remains unclear. It shows high sequence homology with hnRNP C proteins and Raly. Members of this family are characterized by an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal auxiliary domain. The Raly proteins contain a glycine/serine-rich stretch within the C-terminal regions, which is absent in the hnRNP C proteins. Thus, the Raly proteins represent a newly identified class of evolutionarily conserved autoepitopes. . Length = 68

>gnl|CDD|241063 cd12619, RRM2_PUB1, RNA recognition motif 2 in yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1 and similar proteins

 Score = 37.9 bits (88), Expect = 0.002
 Identities = 22/60 (36%), Positives = 30/60 (50%), Gaps = 3/60 (5%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           IFVG L   +   +L   F   F    DARV      K   SRG+GFV+F+ ++ A  A+
Sbjct: 2   IFVGDLSPEVTDATLFAAF-SAFPSCSDARVMWDM--KSGRSRGYGFVSFRSQQDAENAI 58

This subgroup corresponds to the RRM2 of yeast protein PUB1, also termed ARS consensus-binding protein ACBP-60, or poly uridylate-binding protein, or poly(U)-binding protein. PUB1 has been identified as both, a heterogeneous nuclear RNA-binding protein (hnRNP) and a cytoplasmic mRNA-binding protein (mRNP), which may be stably bound to a translationally inactive subpopulation of mRNAs within the cytoplasm. It is distributed in both, the nucleus and the cytoplasm, and binds to poly(A)+ RNA (mRNA or pre-mRNA). Although it is one of the major cellular proteins cross-linked by UV light to polyadenylated RNAs in vivo, PUB1 is nonessential for cell growth in yeast. PUB1 also binds to T-rich single stranded DNA (ssDNA). However, there is no strong evidence implicating PUB1 in the mechanism of DNA replication. PUB1 contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a GAR motif (glycine and arginine rich stretch) that is located between RRM2 and RRM3. . Length = 75

>gnl|CDD|233496 TIGR01622, SF-CC1, splicing factor, CC1-like family

 Score = 41.8 bits (98), Expect = 0.002
 Identities = 24/96 (25%), Positives = 39/96 (40%), Gaps = 4/96 (4%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTF-KHEKSAAA 607
           K++VG L F +    L   FE  FG IED ++       +S  +GFGF+ F   E++  A
Sbjct: 188 KLYVGNLHFNITEQELRQIFEP-FGDIEDVQLHRDPETGRS--KGFGFIQFHDAEEAKEA 244

Query: 608 AVQARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQ 643
                   + G+ +++  A     L           
Sbjct: 245 LEVMNGFELAGRPIKVGYAQDSTYLLDAANTFEDID 280

This model represents a subfamily of RNA splicing factors including the Pad-1 protein (N. crassa), CAPER (M. musculus) and CC1.3 (H.sapiens). These proteins are characterized by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 H. sapiens paralogs, two) RNA recognition domains (rrm: pfam00706). These splicing factors are closely related to the U2AF splicing factor family (TIGR01642). A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the seed. Length = 457

>gnl|CDD|241019 cd12575, RRM1_hnRNPD_like, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins

 Score = 37.5 bits (87), Expect = 0.002
 Identities = 25/77 (32%), Positives = 36/77 (46%), Gaps = 3/77 (3%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           +FVGGL +      L  YF K FG + D  +       +S  RGFGFV FK   S    +
Sbjct: 1   MFVGGLSWDTTKKDLKEYFSK-FGEVVDCTIKIDPVTGRS--RGFGFVLFKDAASVEKVL 57

Query: 610 QARFVTIMGKEVEIKSA 626
             +   + G+ ++ K A
Sbjct: 58  DQKEHKLDGRVIDPKRA 74

This subfamily corresponds to the RRM1 in hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins. hnRNP D0 is a UUAG-specific nuclear RNA binding protein that may be involved in pre-mRNA splicing and telomere elongation. hnRNP A/B is an RNA unwinding protein with a high affinity for G- followed by U-rich regions. hnRNP A/B has also been identified as an APOBEC1-binding protein that interacts with apolipoprotein B (apoB) mRNA transcripts around the editing site and thus plays an important role in apoB mRNA editing. hnRNP DL (or hnRNP D-like) is a dual functional protein that possesses DNA- and RNA-binding properties. It has been implicated in mRNA biogenesis at the transcriptional and post-transcriptional levels. All members in this family contain two putative RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glycine- and tyrosine-rich C-terminus. . Length = 74

>gnl|CDD|240844 cd12398, RRM_CSTF2_RNA15_like, RNA recognition motif in cleavage stimulation factor subunit 2 (CSTF2), yeast ortholog mRNA 3'-end-processing protein RNA15 and similar proteins

 Score = 37.6 bits (88), Expect = 0.002
 Identities = 19/61 (31%), Positives = 33/61 (54%), Gaps = 5/61 (8%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDAR-VAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           +FVG +P+    + L   F +  GP+   R V +  T K    +G+GF  F+  ++AA+A
Sbjct: 1   VFVGNIPYDATEEQLIEIFSEV-GPVVSFRLVTDRDTGK---PKGYGFCEFEDIETAASA 56

Query: 609 V 609
           +
Sbjct: 57  I 57

This subfamily corresponds to the RRM domain of CSTF2, its tau variant and eukaryotic homologs. CSTF2, also termed cleavage stimulation factor 64 kDa subunit (CstF64), is the vertebrate conterpart of yeast mRNA 3'-end-processing protein RNA15. It is expressed in all somatic tissues and is one of three cleavage stimulatory factor (CstF) subunits required for polyadenylation. CstF64 contains an N-terminal RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a CstF77-binding domain, a repeated MEARA helical region and a conserved C-terminal domain reported to bind the transcription factor PC-4. During polyadenylation, CstF interacts with the pre-mRNA through the RRM of CstF64 at U- or GU-rich sequences within 10 to 30 nucleotides downstream of the cleavage site. CSTF2T, also termed tauCstF64, is a paralog of the X-linked cleavage stimulation factor CstF64 protein that supports polyadenylation in most somatic cells. It is expressed during meiosis and subsequent haploid differentiation in a more limited set of tissues and cell types, largely in meiotic and postmeiotic male germ cells, and to a lesser extent in brain. The loss of CSTF2T will cause male infertility, as it is necessary for spermatogenesis and fertilization. Moreover, CSTF2T is required for expression of genes involved in morphological differentiation of spermatids, as well as for genes having products that function during interaction of motile spermatozoa with eggs. It promotes germ cell-specific patterns of polyadenylation by using its RRM to bind to different sequence elements downstream of polyadenylation sites than does CstF64. The family also includes yeast ortholog mRNA 3'-end-processing protein RNA15 and similar proteins. RNA15 is a core subunit of cleavage factor IA (CFIA), an essential transcriptional 3'-end processing factor from Saccharomyces cerevisiae. RNA recognition by CFIA is mediated by an N-terminal RRM, which is contained in the RNA15 subunit of the complex. The RRM of RNA15 has a strong preference for GU-rich RNAs, mediated by a binding pocket that is entirely conserved in both yeast and vertebrate RNA15 orthologs. Length = 75

>gnl|CDD|240860 cd12414, RRM2_RBM28_like, RNA recognition motif 2 in RNA-binding protein 28 (RBM28) and similar proteins

 Score = 37.2 bits (87), Expect = 0.003
 Identities = 20/80 (25%), Positives = 30/80 (37%), Gaps = 5/80 (6%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           ++ V  LPF      L    +K F P           +     +GF FV F  +  A  A
Sbjct: 1   RLIVRNLPFKCTEADL----KKLFSPFGFVWEVTIPRKPDGKKKGFAFVQFTSKADAEKA 56

Query: 609 VQA-RFVTIMGKEVEIKSAV 627
           ++      I G+ V +  AV
Sbjct: 57  IKGVNGKKIKGRPVAVDWAV 76

This subfamily corresponds to the RRM2 of RBM28 and Nop4p. RBM28 is a specific nucleolar component of the spliceosomal small nuclear ribonucleoproteins (snRNPs), possibly coordinating their transition through the nucleolus. It specifically associates with U1, U2, U4, U5, and U6 small nuclear RNAs (snRNAs), and may play a role in the maturation of both small nuclear and ribosomal RNAs. RBM28 has four RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an extremely acidic region between RRM2 and RRM3. The family also includes nucleolar protein 4 (Nop4p or Nop77p) encoded by YPL043W from Saccharomyces cerevisiae. It is an essential nucleolar protein involved in processing and maturation of 27S pre-rRNA and biogenesis of 60S ribosomal subunits. Nop4p also contains four RRMs. . Length = 76

>gnl|CDD|240827 cd12381, RRM4_I_PABPs, RNA recognition motif 4 in type I polyadenylate-binding proteins

 Score = 37.2 bits (87), Expect = 0.003
 Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 4/63 (6%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
             ++V  L   +D + L   F   FG I  A+V    T+++  S+GFGFV F   + A  
Sbjct: 2   VNLYVKNLDDSIDDERLREEFSP-FGTITSAKV---MTDEKGRSKGFGFVCFSSPEEATK 57

Query: 608 AVQ 610
           AV 
Sbjct: 58  AVT 60

This subfamily corresponds to the RRM4 of type I poly(A)-binding proteins (PABPs), highly conserved proteins that bind to the poly(A) tail present at the 3' ends of most eukaryotic mRNAs. They have been implicated in theThe CD corresponds to the RRM. regulation of poly(A) tail length during the polyadenylation reaction, translation initiation, mRNA stabilization by influencing the rate of deadenylation and inhibition of mRNA decapping. The family represents type I polyadenylate-binding proteins (PABPs), including polyadenylate-binding protein 1 (PABP-1 or PABPC1), polyadenylate-binding protein 3 (PABP-3 or PABPC3), polyadenylate-binding protein 4 (PABP-4 or APP-1 or iPABP), polyadenylate-binding protein 5 (PABP-5 or PABPC5), polyadenylate-binding protein 1-like (PABP-1-like or PABPC1L), polyadenylate-binding protein 1-like 2 (PABPC1L2 or RBM32), polyadenylate-binding protein 4-like (PABP-4-like or PABPC4L), yeast polyadenylate-binding protein, cytoplasmic and nuclear (PABP or ACBP-67), and similar proteins. PABP-1 is an ubiquitously expressed multifunctional protein that may play a role in 3' end formation of mRNA, translation initiation, mRNA stabilization, protection of poly(A) from nuclease activity, mRNA deadenylation, inhibition of mRNA decapping, and mRNP maturation. Although PABP-1 is thought to be a cytoplasmic protein, it is also found in the nucleus. PABP-1 may be involved in nucleocytoplasmic trafficking and utilization of mRNP particles. PABP-1 contains four copies of RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), a less well conserved linker region, and a proline-rich C-terminal conserved domain (CTD). PABP-3 is a testis-specific poly(A)-binding protein specifically expressed in round spermatids. It is mainly found in mammalian and may play an important role in the testis-specific regulation of mRNA homeostasis. PABP-3 shows significant sequence similarity to PABP-1. However, it binds to poly(A) with a lower affinity than PABP-1. Moreover, PABP-1 possesses an A-rich sequence in its 5'-UTR and allows binding of PABP and blockage of translation of its own mRNA. In contrast, PABP-3 lacks the A-rich sequence in its 5'-UTR. PABP-4 is an inducible poly(A)-binding protein (iPABP) that is primarily localized to the cytoplasm. It shows significant sequence similarity to PABP-1 as well. The RNA binding properties of PABP-1 and PABP-4 appear to be identical. PABP-5 is encoded by PABPC5 gene within the X-specific subinterval, and expressed in fetal brain and in a range of adult tissues in mammalian, such as ovary and testis. It may play an important role in germ cell development. Moreover, unlike other PABPs, PABP-5 contains only four RRMs, but lacks both the linker region and the CTD. PABP-1-like and PABP-1-like 2 are the orthologs of PABP-1. PABP-4-like is the ortholog of PABP-5. Their cellular functions remain unclear. The family also includes the yeast PABP, a conserved poly(A) binding protein containing poly(A) tails that can be attached to the 3'-ends of mRNAs. The yeast PABP and its homologs may play important roles in the initiation of translation and in mRNA decay. Like vertebrate PABP-1, the yeast PABP contains four RRMs, a linker region, and a proline-rich CTD as well. The first two RRMs are mainly responsible for specific binding to poly(A). The proline-rich region may be involved in protein-protein interactions. . Length = 79

>gnl|CDD|241027 cd12583, RRM2_hnRNPD, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) and similar proteins

 Score = 36.9 bits (85), Expect = 0.003
 Identities = 25/78 (32%), Positives = 38/78 (48%), Gaps = 3/78 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           KIFVGGL      + +  YF   FG +E   +      K +  RGF F+TFK E+     
Sbjct: 1   KIFVGGLSPDTPEEKIREYFGA-FGEVESIELP--MDNKTNKRRGFCFITFKEEEPVKKI 57

Query: 609 VQARFVTIMGKEVEIKSA 626
           ++ ++  +   + EIK A
Sbjct: 58  MEKKYHNVGLSKCEIKVA 75

This subgroup corresponds to the RRM2 of hnRNP D0, also termed AU-rich element RNA-binding protein 1, a UUAG-specific nuclear RNA binding protein that may be involved in pre-mRNA splicing and telomere elongation. hnRNP D0 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), in the middle and an RGG box rich in glycine and arginine residues in the C-terminal part. Each of RRMs can bind solely to the UUAG sequence specifically. . Length = 75

>gnl|CDD|240671 cd12225, RRM1_2_CID8_like, RNA recognition motif 1 and 2 (RRM1, RRM2) in Arabidopsis thaliana CTC-interacting domain protein CID8, CID9, CID10, CID11, CID12, CID 13 and similar proteins

 Score = 36.9 bits (86), Expect = 0.004
 Identities = 18/59 (30%), Positives = 25/59 (42%), Gaps = 5/59 (8%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           I VGG+   L  D L  +F    G +   R+       +  S  F FV F   +SA +A
Sbjct: 3   IHVGGIDGSLSEDDLKEFFSN-CGEVTRVRLC----GDRQHSARFAFVEFADAESALSA 56

This subgroup corresponds to the RRM domains found in A. thaliana CID8, CID9, CID10, CID11, CID12, CID 13 and mainly their plant homologs. These highly related RNA-binding proteins contain an N-terminal PAM2 domain (PABP-interacting motif 2), two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a basic region that resembles a bipartite nuclear localization signal. The biological role of this family remains unclear. Length = 77

>gnl|CDD|241062 cd12618, RRM2_TIA1, RNA recognition motif 2 in nucleolysin TIA-1 isoform p40 (p40-TIA-1) and similar proteins

 Score = 37.0 bits (85), Expect = 0.004
 Identities = 22/61 (36%), Positives = 34/61 (55%), Gaps = 3/61 (4%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           +FVG L   + +D +   F   FG I DARV +     +S  +G+GFV+F ++  A  A+
Sbjct: 4   VFVGDLSPEITTDDIKAAFAP-FGRISDARVVKDMATGKS--KGYGFVSFFNKWDAENAI 60

Query: 610 Q 610
           Q
Sbjct: 61  Q 61

This subgroup corresponds to the RRM2 of p40-TIA-1, the 40-kDa isoform of T-cell-restricted intracellular antigen-1 (TIA-1), and a cytotoxic granule-associated RNA-binding protein mainly found in the granules of cytotoxic lymphocytes. TIA-1 can be phosphorylated by a serine/threonine kinase that is activated during Fas-mediated apoptosis, and function as the granule component responsible for inducing apoptosis in cytolytic lymphocyte (CTL) targets. It is composed of three N-terminal highly homologous RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glutamine-rich C-terminal auxiliary domain containing a lysosome-targeting motif. TIA-1 interacts with RNAs containing short stretches of uridylates and its RRM2 can mediate the specific binding to uridylate-rich RNAs. . Length = 80

>gnl|CDD|240891 cd12445, RRM2_CPEBs, RNA recognition motif 2 in cytoplasmic polyadenylation element-binding protein CPEB-1, CPEB-2, CPEB-3, CPEB-4 and similar protiens

 Score = 37.0 bits (86), Expect = 0.004
 Identities = 26/80 (32%), Positives = 36/80 (45%), Gaps = 8/80 (10%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQT-EKQSVSRGFGFVTFKHEKSAAAA 608
           +FVGGLP  L +  L    E+ +G +      E  T E      G   VTF +E+S   A
Sbjct: 3   VFVGGLPLPLTAAELAAILERLYGGVC---YVEIDTDEFYLYPTGCARVTFNNEQSYIKA 59

Query: 609 VQARFVTI----MGKEVEIK 624
           V   FV +    + K V I+
Sbjct: 60  VSEVFVELPFNDINKRVRIR 79

This subfamily corresponds to the RRM2 of CPEB family of proteins that bind to defined groups of mRNAs and act as either translational repressors or activators to regulate their translation. CPEB proteins are well conserved in both, vertebrates and invertebrates. Based on sequence similarity, RNA-binding specificity, and functional regulation of translation, the CPEB proteins has been classified into two subfamilies. The first subfamily includes CPEB-1 and related proteins. CPEB-1 is an RNA-binding protein that interacts with the cytoplasmic polyadenylation element (CPE), a short U-rich motif in the 3' untranslated regions (UTRs) of certain mRNAs. It functions as a translational regulator that plays a major role in the control of maternal CPE-containing mRNA in oocytes, as well as of subsynaptic CPE-containing mRNA in neurons. Once phosphorylated and recruiting the polyadenylation complex, CPEB-1 may function as a translational activator stimulating polyadenylation and translation. Otherwise, it may function as a translational inhibitor when dephosphorylated and bound to a protein such as maskin or neuroguidin, which blocks translation initiation through interfering with the assembly of eIF-4E and eIF-4G. Although CPEB-1 is mainly located in cytoplasm, it can shuttle between nucleus and cytoplasm. The second subfamily includes CPEB-2, CPEB-3, CPEB-4, and related protiens. Due to the high sequence similarity, members in this subfamily may share similar expression patterns and functions. CPEB-2 is an RNA-binding protein that is abundantly expressed in testis and localized in cytoplasm in transfected HeLa cells. It preferentially binds to poly(U) RNA oligomers and may regulate the translation of stored mRNAs during spermiogenesis. Moreover, CPEB-2 impedes target RNA translation at elongation. It directly interacts with the elongation factor, eEF2, to reduce eEF2/ribosome-activated GTP hydrolysis in vitro and inhibit peptide elongation of CPEB2-bound RNA in vivo. CPEB-3 is a sequence-specific translational regulatory protein that regulates translation in a polyadenylation-independent manner. It functions as a translational repressor that governs the synthesis of the AMPA receptor GluR2 through binding GluR2 mRNA. It also represses translation of a reporter RNA in transfected neurons and stimulates translation in response to NMDA. CPEB-4 is an RNA-binding protein that mediates meiotic mRNA cytoplasmic polyadenylation and translation. It is essential for neuron survival and present on the endoplasmic reticulum (ER). It is accumulated in the nucleus upon ischemia or the depletion of ER calcium. CPEB-4 is overexpressed in a large variety of tumors and is associated with many mRNAs in cancer cells. All CPEB proteins are nucleus-cytoplasm shuttling proteins. They contain an N-terminal unstructured region, followed by two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a Zn-finger motif. CPEB-2, -3, and -4 have conserved nuclear export signals that are not present in CPEB-1. . Length = 81

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	1044
PHA02876	682	ankyrin repeat protein; Provisional	100.0
PHA02876	682	ankyrin repeat protein; Provisional	100.0
PHA02946	446	ankyin-like protein; Provisional	100.0
PHA02874	434	ankyrin repeat protein; Provisional	100.0
PHA02730	672	ankyrin-like protein; Provisional	100.0
PHA02946	446	ankyin-like protein; Provisional	100.0
PHA02716	764	CPXV016; CPX019; EVM010; Provisional	100.0
KOG0510	929	consensus Ankyrin repeat protein [General function	100.0
PHA03095	471	ankyrin-like protein; Provisional	100.0
PHA02730	672	ankyrin-like protein; Provisional	100.0
PHA02716	764	CPXV016; CPX019; EVM010; Provisional	100.0
KOG4177	1143	consensus Ankyrin [Cell wall/membrane/envelope bio	100.0
PHA02878	477	ankyrin repeat protein; Provisional	100.0
PHA02917	661	ankyrin-like protein; Provisional	100.0
PHA02874	434	ankyrin repeat protein; Provisional	100.0
PHA03095	471	ankyrin-like protein; Provisional	100.0
PHA02917	661	ankyrin-like protein; Provisional	100.0
KOG4177	1143	consensus Ankyrin [Cell wall/membrane/envelope bio	100.0
PHA03100	480	ankyrin repeat protein; Provisional	100.0
PHA03100	480	ankyrin repeat protein; Provisional	100.0
PHA02989	494	ankyrin repeat protein; Provisional	100.0
PHA02875	413	ankyrin repeat protein; Provisional	100.0
KOG0510	929	consensus Ankyrin repeat protein [General function	100.0
PHA02878	477	ankyrin repeat protein; Provisional	100.0
PHA02791	284	ankyrin-like protein; Provisional	100.0
PHA02989	494	ankyrin repeat protein; Provisional	100.0
PHA02798	489	ankyrin-like protein; Provisional	100.0
PHA02875	413	ankyrin repeat protein; Provisional	100.0
PHA02798	489	ankyrin-like protein; Provisional	100.0
PHA02791	284	ankyrin-like protein; Provisional	100.0
KOG4412	226	consensus 26S proteasome regulatory complex, subun	99.98
KOG4412	226	consensus 26S proteasome regulatory complex, subun	99.97
KOG0508	615	consensus Ankyrin repeat protein [General function	99.97
KOG0508	615	consensus Ankyrin repeat protein [General function	99.97
PHA02792	631	ankyrin-like protein; Provisional	99.97
PHA02792	631	ankyrin-like protein; Provisional	99.97
KOG0509	600	consensus Ankyrin repeat and DHHC-type Zn-finger d	99.96
KOG0509	600	consensus Ankyrin repeat and DHHC-type Zn-finger d	99.95
PHA02859	209	ankyrin repeat protein; Provisional	99.95
PHA02795	437	ankyrin-like protein; Provisional	99.95
PHA02795	437	ankyrin-like protein; Provisional	99.94
PHA02859	209	ankyrin repeat protein; Provisional	99.93
KOG4369	2131	consensus RTK signaling protein MASK/UNC-44 [Signa	99.93
KOG4369	2131	consensus RTK signaling protein MASK/UNC-44 [Signa	99.92
TIGR00870	743	trp transient-receptor-potential calcium channel p	99.91
KOG0502	296	consensus Integral membrane ankyrin-repeat protein	99.89
KOG0507	854	consensus CASK-interacting adaptor protein (caskin	99.89
PLN03192	823	Voltage-dependent potassium channel; Provisional	99.88
KOG0502	296	consensus Integral membrane ankyrin-repeat protein	99.88
TIGR00870	743	trp transient-receptor-potential calcium channel p	99.87
PLN03192	823	Voltage-dependent potassium channel; Provisional	99.87
KOG0507	854	consensus CASK-interacting adaptor protein (caskin	99.86
PHA02743	166	Viral ankyrin protein; Provisional	99.85
KOG0505	527	consensus Myosin phosphatase, regulatory subunit [	99.84
KOG0514	452	consensus Ankyrin repeat protein [General function	99.82
KOG0514	452	consensus Ankyrin repeat protein [General function	99.82
PHA02741	169	hypothetical protein; Provisional	99.81
PHA02736	154	Viral ankyrin protein; Provisional	99.8
KOG0505	527	consensus Myosin phosphatase, regulatory subunit [	99.79
PHA02741	169	hypothetical protein; Provisional	99.78
KOG0512	228	consensus Fetal globin-inducing factor (contains a	99.78
PHA02743	166	Viral ankyrin protein; Provisional	99.77
PHA02884	300	ankyrin repeat protein; Provisional	99.76
PHA02884	300	ankyrin repeat protein; Provisional	99.76
KOG0195	448	consensus Integrin-linked kinase [Signal transduct	99.72
PHA02736	154	Viral ankyrin protein; Provisional	99.71
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.68
KOG0512	228	consensus Fetal globin-inducing factor (contains a	99.67
KOG0195	448	consensus Integrin-linked kinase [Signal transduct	99.67
PF12796	89	Ank_2: Ankyrin repeats (3 copies); InterPro: IPR02	99.65
cd00204	126	ANK ankyrin repeats; ankyrin repeats mediate prote	99.63
KOG3676	782	consensus Ca2+-permeable cation channel OSM-9 and	99.61
cd00204	126	ANK ankyrin repeats; ankyrin repeats mediate prote	99.61
PF12796	89	Ank_2: Ankyrin repeats (3 copies); InterPro: IPR02	99.6
KOG3676	782	consensus Ca2+-permeable cation channel OSM-9 and	99.55
COG0666	235	Arp FOG: Ankyrin repeat [General function predicti	99.51
COG0666	235	Arp FOG: Ankyrin repeat [General function predicti	99.49
KOG4214	117	consensus Myotrophin and similar proteins [Transcr	99.49
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	99.41
KOG4214	117	consensus Myotrophin and similar proteins [Transcr	99.38
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.36
PTZ00322	664	6-phosphofructo-2-kinase/fructose-2,6-biphosphatas	99.32
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	99.29
PF13857	56	Ank_5: Ankyrin repeats (many copies); PDB: 1SW6_A	99.26
KOG0515	752	consensus p53-interacting protein 53BP/ASPP, conta	99.26
PTZ00322	664	6-phosphofructo-2-kinase/fructose-2,6-biphosphatas	99.24
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.24
KOG1710	396	consensus MYND Zn-finger and ankyrin repeat protei	99.19
PF13857	56	Ank_5: Ankyrin repeats (many copies); PDB: 1SW6_A	99.18
PF13637	54	Ank_4: Ankyrin repeats (many copies); PDB: 3B95_A	99.17
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.17
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.16
PF13637	54	Ank_4: Ankyrin repeats (many copies); PDB: 3B95_A	99.15
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.14
KOG1710	396	consensus MYND Zn-finger and ankyrin repeat protei	99.07
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.05
KOG0515	752	consensus p53-interacting protein 53BP/ASPP, conta	99.04
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	99.03
KOG0122	270	consensus Translation initiation factor 3, subunit	98.99
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	98.98
PLN03120	260	nucleic acid binding protein; Provisional	98.97
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	98.96
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	98.96
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	98.95
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	98.94
PLN03213	759	repressor of silencing 3; Provisional	98.94
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	98.93
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	98.93
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	98.92
KOG4207	256	consensus Predicted splicing factor, SR protein su	98.91
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	98.89
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	98.86
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	98.86
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	98.8
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	98.79
smart00361	70	RRM_1 RNA recognition motif.	98.76
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	98.76
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	98.75
smart00362	72	RRM_2 RNA recognition motif.	98.74
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	98.74
PLN03121	243	nucleic acid binding protein; Provisional	98.72
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	98.7
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	98.69
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	98.69
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	98.67
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	98.67
smart00360	71	RRM RNA recognition motif.	98.67
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	98.66
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	98.65
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	98.64
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	98.63
COG0724	306	RNA-binding proteins (RRM domain) [General functio	98.6
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	98.59
KOG0783	1267	consensus Uncharacterized conserved protein, conta	98.58
PF13606	30	Ank_3: Ankyrin repeat	98.56
KOG0783	1267	consensus Uncharacterized conserved protein, conta	98.54
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	98.54
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	98.51
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	98.51
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	98.48
PF00023	33	Ank: Ankyrin repeat Hereditary spherocytosis; Inte	98.47
KOG0506	622	consensus Glutaminase (contains ankyrin repeat) [A	98.43
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	98.42
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	98.41
PF13606	30	Ank_3: Ankyrin repeat	98.41
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	98.41
KOG0782	1004	consensus Predicted diacylglycerol kinase [Signal	98.39
PF00023	33	Ank: Ankyrin repeat Hereditary spherocytosis; Inte	98.38
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	98.37
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	98.37
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	98.36
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	98.34
KOG0506	622	consensus Glutaminase (contains ankyrin repeat) [A	98.33
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	98.31
KOG0818	669	consensus GTPase-activating proteins of the GIT fa	98.3
KOG3609	822	consensus Receptor-activated Ca2+-permeable cation	98.29
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	98.29
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	98.28
KOG0782	1004	consensus Predicted diacylglycerol kinase [Signal	98.27
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	98.26
KOG0818	669	consensus GTPase-activating proteins of the GIT fa	98.25
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	98.23
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	98.16
KOG0522	560	consensus Ankyrin repeat protein [General function	98.16
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	98.1
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	98.09
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	98.09
KOG0522	560	consensus Ankyrin repeat protein [General function	98.02
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	98.01
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	97.98
KOG0226	290	consensus RNA-binding proteins [General function p	97.94
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	97.91
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	97.9
KOG3609	822	consensus Receptor-activated Ca2+-permeable cation	97.89
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	97.88
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	97.87
KOG0521	785	consensus Putative GTPase activating proteins (GAP	97.87
KOG0520	975	consensus Uncharacterized conserved protein, conta	97.81
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	97.8
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	97.74
KOG2384	223	consensus Major histocompatibility complex protein	97.72
KOG0520	975	consensus Uncharacterized conserved protein, conta	97.72
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	97.69
KOG0521	785	consensus Putative GTPase activating proteins (GAP	97.68
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	97.62
KOG0511	516	consensus Ankyrin repeat protein [General function	97.58
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	97.55
KOG2384	223	consensus Major histocompatibility complex protein	97.51
KOG0511	516	consensus Ankyrin repeat protein [General function	97.48
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	97.4
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	97.28
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	97.23
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	97.01
KOG0151	877	consensus Predicted splicing regulator, contains R	96.98
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	96.86
KOG0533	243	consensus RRM motif-containing protein [RNA proces	96.81
KOG1457	284	consensus RNA binding protein (contains RRM repeat	96.63
PF12872	74	OST-HTH: OST-HTH/LOTUS domain; PDB: 2KPM_A 3S93_B	96.58
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	96.56
smart00248	30	ANK ankyrin repeats. Ankyrin repeats are about 33	96.32
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	96.07
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	96.04
KOG2505	591	consensus Ankyrin repeat protein [General function	95.88
smart00248	30	ANK ankyrin repeats. Ankyrin repeats are about 33	95.87
KOG1548	382	consensus Transcription elongation factor TAT-SF1	95.79
COG5175	480	MOT2 Transcriptional repressor [Transcription]	95.71
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	95.55
KOG4660	549	consensus Protein Mei2, essential for commitment t	95.32
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	95.3
KOG2505	591	consensus Ankyrin repeat protein [General function	95.2
KOG4210	285	consensus Nuclear localization sequence binding pr	94.96
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	94.76
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	93.42
KOG4849	498	consensus mRNA cleavage factor I subunit/CPSF subu	92.77
PF06128	284	Shigella_OspC: Shigella flexneri OspC protein; Int	92.6
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	92.49
KOG1457	284	consensus RNA binding protein (contains RRM repeat	92.26
PF06128	284	Shigella_OspC: Shigella flexneri OspC protein; Int	91.92
PF03158	192	DUF249: Multigene family 530 protein; InterPro: IP	91.87
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	91.55
KOG1995	351	consensus Conserved Zn-finger protein [General fun	91.47
KOG2068	327	consensus MOT2 transcription factor [Transcription	90.62
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	90.31
KOG3152	278	consensus TBP-binding protein, activator of basal	88.54
KOG2314	698	consensus Translation initiation factor 3, subunit	88.15
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	87.94
KOG2193	584	consensus IGF-II mRNA-binding protein IMP, contain	86.92
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	86.91
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	86.46
PF03158	192	DUF249: Multigene family 530 protein; InterPro: IP	85.69
PF11929	76	DUF3447: Domain of unknown function (DUF3447); Int	85.63
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	85.62
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	85.44
KOG1855	484	consensus Predicted RNA-binding protein [General f	85.41
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	84.5
KOG1548	382	consensus Transcription elongation factor TAT-SF1	84.41
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	84.37
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	82.52
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	82.15
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	80.49

>PHA02876 ankyrin repeat protein; Provisional

Probab=100.00  E-value=6.3e-46  Score=462.19  Aligned_cols=364  Identities=18%  Similarity=0.210  Sum_probs=231.0

Q ss_pred             HHHHHHHhcCHHHHHHHHHhhccccccccccccccccchHHHHHHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHH
Q 001613           21 LIINSLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALH  100 (1044)
Q Consensus        21 ~ll~AIl~dD~~~L~~li~~~~~~~~l~~~~~~~~~~~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH  100 (1044)
                      .+.+++..++.+.++..+.+.-....=.+....+..+.||||+||.+|+.|+|+.|++.++.   .++..|. .|.||||
T Consensus         5 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~LH~A~~~g~~e~V~~ll~~~~~---~~~~~~~-~~~tpLh   80 (682)
T PHA02876          5 DLYRIMCRGNCIDILSAIDNYDLHKHGANQCENESIPFTAIHQALQLRQIDIVEEIIQQNPE---LIYITDH-KCHSTLH   80 (682)
T ss_pred             HHHHHHhcCchHHHHHHHHHHHHhhhhhhhcccccccchHHHHHHHHHhhhHHHHHHHhCcc---cchhhch-hhccccc
Confidence            56777888777776666654311100001122245679999999999999999999998722   2567777 8999999


Q ss_pred             HHH----------------------------------------------------------------------HcCCHHH
Q 001613          101 LAA----------------------------------------------------------------------ESHTARC  110 (1044)
Q Consensus       101 ~Aa----------------------------------------------------------------------~~G~~ei  110 (1044)
                      +|+                                                                      ..|+.++
T Consensus        81 ~a~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~i  160 (682)
T PHA02876         81 TICIIPNVMDIVISLTLDCDIILDIKYASIILNKHKLDEACIHILKEAISGNDIHYDKINESIEYMKLIKERIQQDELLI  160 (682)
T ss_pred             cccCCCCccccccccccchhhcccccHHHHHHHHHHHHHHHHHHHHHHhcCCcccHHhhccchhhhHHHHHHHHCCcHHH
Confidence            766                                                                      5578899


Q ss_pred             HHHHHHcCCCCCcccCCCCCchHHHHHHhCCCcceec----------CCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcc
Q 001613          111 VELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIW----------NPDEYSVEDLVVILGQKNLTTVKLLSQKTKELD  180 (1044)
Q Consensus       111 VklLL~~GAdvn~~d~~G~T~lpLh~Aa~~g~~eIv~----------~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~  180 (1044)
                      +++|+++|+++|.+|..|+|  |||+|+..|+.++++          ..+..+.++|+.|+..++.+++++|++.+.++.
T Consensus       161 ~k~Ll~~Gadvn~~d~~G~T--pLh~Aa~~G~~~iv~~LL~~Gad~n~~~~~g~t~L~~A~~~~~~~ivk~Ll~~~~~~~  238 (682)
T PHA02876        161 AEMLLEGGADVNAKDIYCIT--PIHYAAERGNAKMVNLLLSYGADVNIIALDDLSVLECAVDSKNIDTIKAIIDNRSNIN  238 (682)
T ss_pred             HHHHHhCCCCCCCCCCCCCC--HHHHHHHCCCHHHHHHHHHCCCCcCccCCCCCCHHHHHHHcCCHHHHHHHHhcCCCCC
Confidence            99999999999999999998  999999999988774          223446788888888888888888888776654


Q ss_pred             hHHHHhhhcCcHHHHHHHHHHH--hhhhhhHHHHhccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcCCC-CCcch
Q 001613          181 EVAYANAVGGRIVALAALLIVA--ADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNST-PTTSQ  257 (1044)
Q Consensus       181 ~~~~~~a~~g~~~~l~~ll~~a--~~~~~~~~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~-~~~~~  257 (1044)
                      ..        ..    .++.+.  .......+++..+++++..+..              |.||||+|+..++. .+   
T Consensus       239 ~~--------~~----~L~~ai~~~~~~~~~~Ll~~g~~vn~~d~~--------------g~TpLh~Aa~~~~~~~i---  289 (682)
T PHA02876        239 KN--------DL----SLLKAIRNEDLETSLLLYDAGFSVNSIDDC--------------KNTPLHHASQAPSLSRL---  289 (682)
T ss_pred             CC--------cH----HHHHHHHcCCHHHHHHHHHCCCCCCCCCCC--------------CCCHHHHHHhCCCHHHH---
Confidence            21        00    111111  1111123344445555554444              56666666655543 12   


Q ss_pred             hHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHcC-CHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCC
Q 001613          258 SAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAG-DEDVIEILLKSKNIDINDADADADGNSALHCALKTSM  336 (1044)
Q Consensus       258 ~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~G-~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~  336 (1044)
                                 +++|++.|++++..  |..|.||||+|+..| +.+++++|+.. |+++  +..|..|.||||+|+..+ 
T Consensus       290 -----------v~lLl~~gadin~~--d~~g~TpLh~Aa~~g~~~~~v~~Ll~~-gadi--n~~d~~g~TpLh~A~~~~-  352 (682)
T PHA02876        290 -----------VPKLLERGADVNAK--NIKGETPLYLMAKNGYDTENIRTLIML-GADV--NAADRLYITPLHQASTLD-  352 (682)
T ss_pred             -----------HHHHHHCCCCCCCc--CCCCCCHHHHHHHhCCCHHHHHHHHHc-CCCC--CCcccCCCcHHHHHHHhC-
Confidence                       55566666665543  556666666666665 35666666665 6665  555666666666665543 


Q ss_pred             CcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCC-HHHH
Q 001613          337 GLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDH-MVCA  415 (1044)
Q Consensus       337 ~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~-~~iV  415 (1044)
                            .+.+++++|+++|+++|.+|..|+||||+|+..|+.+++++|+++|++ ++..+..|.||||+|+..++ ..++
T Consensus       353 ------~~~~iv~lLl~~gadin~~d~~G~TpLh~Aa~~~~~~iv~~Ll~~gad-~~~~~~~g~T~Lh~A~~~~~~~~~v  425 (682)
T PHA02876        353 ------RNKDIVITLLELGANVNARDYCDKTPIHYAAVRNNVVIINTLLDYGAD-IEALSQKIGTALHFALCGTNPYMSV  425 (682)
T ss_pred             ------CcHHHHHHHHHcCCCCccCCCCCCCHHHHHHHcCCHHHHHHHHHCCCC-ccccCCCCCchHHHHHHcCCHHHHH
Confidence                  145566666666666666666666666666666666666666666665 66666666666666655443 3455


Q ss_pred             HHHHHCCCCcccccCCCCcHHHHHHHcC
Q 001613          416 EVLLRWGANSEVLNLRRERPIDFAKSQD  443 (1044)
Q Consensus       416 klLL~~GAdin~~d~~G~TpLh~Aa~~g  443 (1044)
                      ++|+++|+++|.+|..|+||||+|+..+
T Consensus       426 k~Ll~~gadin~~d~~G~TpLh~Aa~~~  453 (682)
T PHA02876        426 KTLIDRGANVNSKNKDLSTPLHYACKKN  453 (682)
T ss_pred             HHHHhCCCCCCcCCCCCChHHHHHHHhC
Confidence            6666666666666666666666665543

>PHA02876 ankyrin repeat protein; Provisional

Probab=100.00  E-value=3.5e-43  Score=437.57  Aligned_cols=328  Identities=26%  Similarity=0.287  Sum_probs=285.7

Q ss_pred             hHHHHHHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCchHHHHHH
Q 001613           59 KLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSL  138 (1044)
Q Consensus        59 T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa  138 (1044)
                      ++|+.|+..|+.+++++|++.|    +++|.+|. .|.||||+||..|+.++|++|+++||+++..+.+|.|  |||+|+
T Consensus       147 ~~l~~~i~~~~~~i~k~Ll~~G----advn~~d~-~G~TpLh~Aa~~G~~~iv~~LL~~Gad~n~~~~~g~t--~L~~A~  219 (682)
T PHA02876        147 KLIKERIQQDELLIAEMLLEGG----ADVNAKDI-YCITPIHYAAERGNAKMVNLLLSYGADVNIIALDDLS--VLECAV  219 (682)
T ss_pred             HHHHHHHHCCcHHHHHHHHhCC----CCCCCCCC-CCCCHHHHHHHCCCHHHHHHHHHCCCCcCccCCCCCC--HHHHHH
Confidence            3444555778999999999999    99999999 9999999999999999999999999999999999998  999999


Q ss_pred             hCCCcceecC------CCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhh---hhhH
Q 001613          139 SSSRMDVIWN------PDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADK---VNES  209 (1044)
Q Consensus       139 ~~g~~eIv~~------~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~---~~~~  209 (1044)
                      ..++.++++.      ......++|+.|+..++.+++++|++.|++++...    ..|.    +.++.++...   ....
T Consensus       220 ~~~~~~ivk~Ll~~~~~~~~~~~~L~~ai~~~~~~~~~~Ll~~g~~vn~~d----~~g~----TpLh~Aa~~~~~~~iv~  291 (682)
T PHA02876        220 DSKNIDTIKAIIDNRSNINKNDLSLLKAIRNEDLETSLLLYDAGFSVNSID----DCKN----TPLHHASQAPSLSRLVP  291 (682)
T ss_pred             HcCCHHHHHHHHhcCCCCCCCcHHHHHHHHcCCHHHHHHHHHCCCCCCCCC----CCCC----CHHHHHHhCCCHHHHHH
Confidence            9999988742      12235678999999999999999999999886431    1122    2333333322   1245


Q ss_pred             HHHhccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcCC-CCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCC
Q 001613          210 ILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNS-TPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKV  288 (1044)
Q Consensus       210 ~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~-~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G  288 (1044)
                      +++..+++++..+..              |.||||+|+..|. .+.              +++|+..|++++..  |..|
T Consensus       292 lLl~~gadin~~d~~--------------g~TpLh~Aa~~g~~~~~--------------v~~Ll~~gadin~~--d~~g  341 (682)
T PHA02876        292 KLLERGADVNAKNIK--------------GETPLYLMAKNGYDTEN--------------IRTLIMLGADVNAA--DRLY  341 (682)
T ss_pred             HHHHCCCCCCCcCCC--------------CCCHHHHHHHhCCCHHH--------------HHHHHHcCCCCCCc--ccCC
Confidence            667789999988877              9999999999984 555              99999999999976  9999


Q ss_pred             CcHHHHHHHc-CCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCc
Q 001613          289 GPPLILATQA-GDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLT  367 (1044)
Q Consensus       289 ~TpLh~Aa~~-G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~T  367 (1044)
                      .||||+|+.. ++.+++++|++. |+++  +.+|..|.||||+|+..|        +.+++++|+++|++++..+..|.|
T Consensus       342 ~TpLh~A~~~~~~~~iv~lLl~~-gadi--n~~d~~G~TpLh~Aa~~~--------~~~iv~~Ll~~gad~~~~~~~g~T  410 (682)
T PHA02876        342 ITPLHQASTLDRNKDIVITLLEL-GANV--NARDYCDKTPIHYAAVRN--------NVVIINTLLDYGADIEALSQKIGT  410 (682)
T ss_pred             CcHHHHHHHhCCcHHHHHHHHHc-CCCC--ccCCCCCCCHHHHHHHcC--------CHHHHHHHHHCCCCccccCCCCCc
Confidence            9999999985 578999999998 9999  899999999999999999        999999999999999999999999


Q ss_pred             HHHHHHHcCC-HHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcC-CHHHHHHHHHCCCCcccccCCCCcHHHHHHHcC
Q 001613          368 ALHIAAGSGN-SQALEDLIRKEPDCINLKTIMMETPLFFAVKND-HMVCAEVLLRWGANSEVLNLRRERPIDFAKSQD  443 (1044)
Q Consensus       368 pLh~Aa~~g~-~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g-~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g  443 (1044)
                      |||+|+..++ ..++++|+++|++ +|.+|..|+||||+|+..| +.+++++|+++|||+|.+|..|.|||++|+.++
T Consensus       411 ~Lh~A~~~~~~~~~vk~Ll~~gad-in~~d~~G~TpLh~Aa~~~~~~~iv~lLl~~Gad~n~~d~~g~tpl~~a~~~~  487 (682)
T PHA02876        411 ALHFALCGTNPYMSVKTLIDRGAN-VNSKNKDLSTPLHYACKKNCKLDVIEMLLDNGADVNAINIQNQYPLLIALEYH  487 (682)
T ss_pred             hHHHHHHcCCHHHHHHHHHhCCCC-CCcCCCCCChHHHHHHHhCCcHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHhC
Confidence            9999998766 5679999999999 9999999999999999976 789999999999999999999999999998754

>PHA02946 ankyin-like protein; Provisional

Probab=100.00  E-value=7.9e-41  Score=394.32  Aligned_cols=346  Identities=15%  Similarity=0.198  Sum_probs=277.3

Q ss_pred             hHHHHHHHHHhcCHHHHHHHHHhhccccccccccccccccchHHHHHHH--cCCHHHHHHHHhCCCCCccccccccCCCC
Q 001613           18 ETTLIINSLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCI--FDSVSCATSLVNGDLGPVALVNEVEESSG   95 (1044)
Q Consensus        18 e~~~ll~AIl~dD~~~L~~li~~~~~~~~l~~~~~~~~~~~T~Lh~AA~--~G~~eivk~LL~~g~~~~adiN~~d~~~G   95 (1044)
                      .+..+..++...+.+.+..++....           .....++||.++.  .++.++|++|++.|    +++|.+|. .|
T Consensus         9 ~~~sl~~~~~~~n~~~~~~~l~~~~-----------~~g~~~~Lh~~~~~~~~~~~iv~~Ll~~G----advn~~d~-~G   72 (446)
T PHA02946          9 YYLSLYAKYNSKNLDVFRNMLQAIE-----------PSGNYHILHAYCGIKGLDERFVEELLHRG----YSPNETDD-DG   72 (446)
T ss_pred             HHHHHHHHHccCcHHHHHHHHhccC-----------CCCCChHHHHHHHhcCCCHHHHHHHHHCc----CCCCccCC-CC
Confidence            3455666777778787766664321           1123789998774  34678999999998    99999999 99


Q ss_pred             ChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCchHHHHHHhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHc
Q 001613           96 MTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQK  175 (1044)
Q Consensus        96 ~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~  175 (1044)
                      .||||+||..|+.++|++||++|||+|.+|.+|+|  |||+|+..++                     +..+++++|+++
T Consensus        73 ~TpLh~Aa~~g~~eiv~lLL~~GAdin~~d~~g~T--pLh~A~~~~~---------------------~~~e~v~lLl~~  129 (446)
T PHA02946         73 NYPLHIASKINNNRIVAMLLTHGADPNACDKQHKT--PLYYLSGTDD---------------------EVIERINLLVQY  129 (446)
T ss_pred             CCHHHHHHHcCCHHHHHHHHHCcCCCCCCCCCCCC--HHHHHHHcCC---------------------chHHHHHHHHHc
Confidence            99999999999999999999999999999999999  9999876543                     246778888988


Q ss_pred             CCCcchHHHHhhhcCcHHHHHHHHHH-HhhhhhhHHHHhccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcCCCCC
Q 001613          176 TKELDEVAYANAVGGRIVALAALLIV-AADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPT  254 (1044)
Q Consensus       176 gadi~~~~~~~a~~g~~~~l~~ll~~-a~~~~~~~~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~  254 (1044)
                      |++++...   ...+..    .++.+ .......++++.++++++.++..              |.||||+|+..++...
T Consensus       130 Gadin~~~---d~~g~t----pL~aa~~~~~~vv~~Ll~~gad~~~~d~~--------------G~t~Lh~A~~~~~~~~  188 (446)
T PHA02946        130 GAKINNSV---DEEGCG----PLLACTDPSERVFKKIMSIGFEARIVDKF--------------GKNHIHRHLMSDNPKA  188 (446)
T ss_pred             CCCccccc---CCCCCc----HHHHHHCCChHHHHHHHhccccccccCCC--------------CCCHHHHHHHhcCCCH
Confidence            88876310   111221    11111 11222345666778888888777              9999999998776532


Q ss_pred             cchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHcC--CHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHH
Q 001613          255 TSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAG--DEDVIEILLKSKNIDINDADADADGNSALHCAL  332 (1044)
Q Consensus       255 ~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~G--~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa  332 (1044)
                                  ..+++|++.|++++..  |..|.||||+|+..|  +.+++++|+.  |+++  |.+|..|.||||+|+
T Consensus       189 ------------~~v~~Ll~~Gadin~~--d~~G~TpLH~Aa~~~~~~~~iv~lLl~--gadi--n~~d~~G~TpLh~A~  250 (446)
T PHA02946        189 ------------STISWMMKLGISPSKP--DHDGNTPLHIVCSKTVKNVDIINLLLP--STDV--NKQNKFGDSPLTLLI  250 (446)
T ss_pred             ------------HHHHHHHHcCCCCccc--CCCCCCHHHHHHHcCCCcHHHHHHHHc--CCCC--CCCCCCCCCHHHHHH
Confidence                        1289999999999976  999999999999986  8899999984  8888  899999999999999


Q ss_pred             hcCCCcccccch-HHHHHHHHhcCCeee--------------------ec-CCCCCcHHHHHHHcCCHHHHHHHHhcCCC
Q 001613          333 KTSMGLSQHILQ-NRIVGILLKHGAIVS--------------------QQ-NKLGLTALHIAAGSGNSQALEDLIRKEPD  390 (1044)
Q Consensus       333 ~~g~~~~~~~~~-~~iVklLLe~GAdvn--------------------~~-d~~G~TpLh~Aa~~g~~eiVklLL~~gad  390 (1044)
                      ..+        + .+++++|+++|++++                    .. +..|.||||+|+..|+.++|++||++++ 
T Consensus       251 ~~~--------~~~~~~~~Ll~~g~~~~~~~~~~a~~~~~~~~~e~l~~~g~~~~~TpLh~Aa~~g~~eivk~Ll~~~~-  321 (446)
T PHA02946        251 KTL--------SPAHLINKLLSTSNVITDQTVNICIFYDRDDVLEIINDKGKQYDSTDFKMAVEVGSIRCVKYLLDNDI-  321 (446)
T ss_pred             HhC--------ChHHHHHHHHhCCCCCCCcHHHHHHHcCchHHHHHHHHcCcccCCCHHHHHHHcCCHHHHHHHHHCCC-
Confidence            987        5 589999999987532                    11 2357899999999999999999999875 


Q ss_pred             CcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHHcChHHHHHHhhhcCccc
Q 001613          391 CINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHTNL  458 (1044)
Q Consensus       391 ~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~Ll~~~~~n~~d~  458 (1044)
                             .|+||||+|+.+++.++|++|+.+||++|.. ..|.||||+|+.++..++++.+.....+.
T Consensus       322 -------~~~t~L~~A~~~~~~~~v~~Ll~~ga~~n~~-~~G~t~l~~a~~~~~~~~~~~ll~~~~~~  381 (446)
T PHA02946        322 -------ICEDAMYYAVLSEYETMVDYLLFNHFSVDSV-VNGHTCMSECVRLNNPVILSKLMLHNPTS  381 (446)
T ss_pred             -------ccccHHHHHHHhCHHHHHHHHHHCCCCCCCc-cccccHHHHHHHcCCHHHHHHHHhcCccH
Confidence                   3799999999999999999999999999996 58999999999999999999776655543

>PHA02874 ankyrin repeat protein; Provisional

Probab=100.00  E-value=1.2e-39  Score=385.16  Aligned_cols=302  Identities=24%  Similarity=0.264  Sum_probs=262.9

Q ss_pred             hHHHHHHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCchHHHHHH
Q 001613           59 KLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSL  138 (1044)
Q Consensus        59 T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa  138 (1044)
                      ..|+.|+..|+++.|+.|++.+   ...+|..+. .|.||||+|+..|+.++|++|+++|++++..+..|.|  |||+|+
T Consensus         3 ~~l~~ai~~gd~~~v~~ll~~~---~~~~n~~~~-~~~tpL~~A~~~g~~~iv~~Ll~~Ga~~n~~~~~~~t--~L~~A~   76 (434)
T PHA02874          3 QDLRMCIYSGDIEAIEKIIKNK---GNCINISVD-ETTTPLIDAIRSGDAKIVELFIKHGADINHINTKIPH--PLLTAI   76 (434)
T ss_pred             HHHHHHHhcCCHHHHHHHHHcC---CCCCCCcCC-CCCCHHHHHHHcCCHHHHHHHHHCCCCCCCCCCCCCC--HHHHHH
Confidence            3589999999999999999765   256888888 9999999999999999999999999999999888877  777776


Q ss_pred             hCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCCC
Q 001613          139 SSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDL  218 (1044)
Q Consensus       139 ~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~adi  218 (1044)
                      ..|                       +.+++++|+++|++.......                .........++..++++
T Consensus        77 ~~~-----------------------~~~iv~~Ll~~g~~~~~~~~~----------------~~~~~~i~~ll~~g~d~  117 (434)
T PHA02874         77 KIG-----------------------AHDIIKLLIDNGVDTSILPIP----------------CIEKDMIKTILDCGIDV  117 (434)
T ss_pred             HcC-----------------------CHHHHHHHHHCCCCCCcchhc----------------cCCHHHHHHHHHCcCCC
Confidence            655                       467799999999887532110                01112234566778888


Q ss_pred             cccccchhhHHHHHHHHhcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHc
Q 001613          219 GAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQA  298 (1044)
Q Consensus       219 n~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~  298 (1044)
                      +..+..              |.||||+|+..|+.++              +++|++.|++++..  |..|.||||+|+..
T Consensus       118 n~~~~~--------------g~T~Lh~A~~~~~~~~--------------v~~Ll~~gad~n~~--d~~g~tpLh~A~~~  167 (434)
T PHA02874        118 NIKDAE--------------LKTFLHYAIKKGDLES--------------IKMLFEYGADVNIE--DDNGCYPIHIAIKH  167 (434)
T ss_pred             CCCCCC--------------CccHHHHHHHCCCHHH--------------HHHHHhCCCCCCCc--CCCCCCHHHHHHHC
Confidence            887776              9999999999999988              99999999999876  89999999999999


Q ss_pred             CCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCH
Q 001613          299 GDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNS  378 (1044)
Q Consensus       299 G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~  378 (1044)
                      |+.+++++|++. |+++  +..+..|.||||+|+..|        +.+++++|+++|++++.++..|.||||+|+..+. 
T Consensus       168 ~~~~iv~~Ll~~-g~~~--n~~~~~g~tpL~~A~~~g--------~~~iv~~Ll~~g~~i~~~~~~g~TpL~~A~~~~~-  235 (434)
T PHA02874        168 NFFDIIKLLLEK-GAYA--NVKDNNGESPLHNAAEYG--------DYACIKLLIDHGNHIMNKCKNGFTPLHNAIIHNR-  235 (434)
T ss_pred             CcHHHHHHHHHC-CCCC--CCCCCCCCCHHHHHHHcC--------CHHHHHHHHhCCCCCcCCCCCCCCHHHHHHHCCh-
Confidence            999999999999 9999  889999999999999999        9999999999999999999999999999999865 


Q ss_pred             HHHHHHHhcCCCCcccCCCCCCcHHHHHHHcC-CHHHHHHHHHCCCCcccccCCCCcHHHHHHHcC-hHHHHH
Q 001613          379 QALEDLIRKEPDCINLKTIMMETPLFFAVKND-HMVCAEVLLRWGANSEVLNLRRERPIDFAKSQD-MRFLLK  449 (1044)
Q Consensus       379 eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g-~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g-~~~Ll~  449 (1044)
                      +++++|+ .+++ +|.+|..|+||||+|+..+ +.+++++|+++|||++.+|..|.||||+|+..+ ...+++
T Consensus       236 ~~i~~Ll-~~~~-in~~d~~G~TpLh~A~~~~~~~~iv~~Ll~~gad~n~~d~~g~TpL~~A~~~~~~~~~ik  306 (434)
T PHA02874        236 SAIELLI-NNAS-INDQDIDGSTPLHHAINPPCDIDIIDILLYHKADISIKDNKGENPIDTAFKYINKDPVIK  306 (434)
T ss_pred             HHHHHHH-cCCC-CCCcCCCCCCHHHHHHhcCCcHHHHHHHHHCcCCCCCCCCCCCCHHHHHHHhCCccHHHH
Confidence            5677776 5777 9999999999999999976 899999999999999999999999999999887 333433

>PHA02730 ankyrin-like protein; Provisional

Probab=100.00  E-value=3e-40  Score=393.82  Aligned_cols=363  Identities=13%  Similarity=0.114  Sum_probs=280.5

Q ss_pred             cccccchHHHHHHHcC---CHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHcC--CHHHHHHHHHcCC--CCCccc
Q 001613           53 QTAIVTKLLRVSCIFD---SVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESH--TARCVELLLKKRA--RTDIRS  125 (1044)
Q Consensus        53 ~~~~~~T~Lh~AA~~G---~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G--~~eiVklLL~~GA--dvn~~d  125 (1044)
                      .+..|.||||+|+..|   +.++|++||++|    |++|++|. .|+||||+|+..|  +.+||++||++|+  +++..+
T Consensus        37 kd~~G~TaLh~A~~~~~~~~~eivklLLs~G----Adin~kD~-~G~TPLh~Aa~~~~~~~eIv~~Ll~~~~~~~~~~~~  111 (672)
T PHA02730         37 IDRRGNNALHCYVSNKCDTDIKIVRLLLSRG----VERLCRNN-EGLTPLGVYSKRKYVKSQIVHLLISSYSNASNELTS  111 (672)
T ss_pred             cCCCCCcHHHHHHHcCCcCcHHHHHHHHhCC----CCCcccCC-CCCChHHHHHHcCCCcHHHHHHHHhcCCCCCccccc
Confidence            4456899999999997   599999999999    99999999 9999999999977  7999999999965  457777


Q ss_pred             CCCCCchHHHHHHhCCCcceecC------------CC----CCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHH---h
Q 001613          126 KDGRRLLPLELSLSSSRMDVIWN------------PD----EYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYA---N  186 (1044)
Q Consensus       126 ~~G~T~lpLh~Aa~~g~~eIv~~------------~~----~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~---~  186 (1044)
                      ..+.+++++..+..+++.++++.            .+    ..+.++++.+...++.++|++|+++|++++-..+.   .
T Consensus       112 ~~~d~~l~~y~~s~n~~~~~vk~Li~~~~~~~~~~~~~~~~~~~~~~~yl~~~~~~~eIvklLi~~g~~v~g~~~~~~~~  191 (672)
T PHA02730        112 NINDFDLYSYMSSDNIDLRLLKYLIVDKRIRPSKNTNYYIHCLGLVDIYVTTPNPRPEVLLWLLKSECYSTGYVFRSCMY  191 (672)
T ss_pred             ccCCchHHHHHHhcCCcHHHHHHHHHhcCCChhhhhhhhccccchhhhhHhcCCCchHHHHHHHHcCCcccccccccccc
Confidence            77888444444444888875531            11    14789999999999999999999999998533211   1


Q ss_pred             hhcCcHHHHH-HHHH----HHhhhhhhHHHHhccCCCcccccchhhHHHHHHHHhcCCchHHHH--HHHcCCCCCcchhH
Q 001613          187 AVGGRIVALA-ALLI----VAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQR--AVKRNSTPTTSQSA  259 (1044)
Q Consensus       187 a~~g~~~~l~-~ll~----~a~~~~~~~~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~--A~~~g~~~~~~~~~  259 (1044)
                      ......+.+. .++.    ........++|+.+|+++|.++..              |.||||+  +...++.++     
T Consensus       192 ~~~~c~~~l~~~il~~~~~~~n~~eiv~lLIs~GadIN~kd~~--------------G~TpLh~~~~~~~~~~ei-----  252 (672)
T PHA02730        192 DSDRCKNSLHYYILSHRESESLSKDVIKCLIDNNVSIHGRDEG--------------GSLPIQYYWSCSTIDIEI-----  252 (672)
T ss_pred             cCCccchhHHHHHHhhhhhhccCHHHHHHHHHCCCCCCCCCCC--------------CCCHHHHHHHcCcccHHH-----
Confidence            1112222222 2222    111223368899999999999988              9999996  444455666     


Q ss_pred             HHHHhhHHHHHHHHH--------------------------------cCCCCCC--------------c----cCCCCCC
Q 001613          260 EKRKLLLLEIELLQL--------------------------------FGAVANG--------------S----CTDKKVG  289 (1044)
Q Consensus       260 ~~~~~l~~~velLl~--------------------------------~GAdin~--------------~----~~d~~G~  289 (1044)
                               +++|++                                +|+|+..              .    ..+..|.
T Consensus       253 ---------v~~Li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~i~~~~~~~~~~~~~~~~~~~~~~~~~~  323 (672)
T PHA02730        253 ---------VKLLIKDVDTCSVYDDISQPYIRGVLADYLNKRFRVTPYNVDMEIVNLLIEGRHTLIDVMRSITSYDSREY  323 (672)
T ss_pred             ---------HHHHHhccccccccccccchhhhhhHHHhhhhhhhcccCCcchHHHHHHhhccCcchhhhhcccccccccc
Confidence                     777777                                6776644              0    1355665


Q ss_pred             c---------------------HHHHHHHcC---CHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchH
Q 001613          290 P---------------------PLILATQAG---DEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQN  345 (1044)
Q Consensus       290 T---------------------pLh~Aa~~G---~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~  345 (1044)
                      +                     .||.-...+   +.++|++||++ ||++  |.. ..|.||||+|+..+..    ..+.
T Consensus       324 n~~~~~~i~~~~~~~~~~~~q~~l~~Y~~~~~~v~ieIvelLIs~-GAdI--N~k-~~G~TpLH~Aa~~nnn----~i~~  395 (672)
T PHA02730        324 NHYIIDNILKRFRQQDESIVQAMLINYLHYGDMVSIPILRCMLDN-GATM--DKT-TDNNYPLHDYFVNNNN----IVDV  395 (672)
T ss_pred             chhHHHHHHHhhhccchhHHHHHHHHHHhcCCcCcHHHHHHHHHC-CCCC--CcC-CCCCcHHHHHHHHcCC----cchH
Confidence            4                     788888766   58999999999 9999  654 7999999999987610    0028


Q ss_pred             HHHHHHHhcCC--eeeecCCCCCcHHHH---HHHcC---------CHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCC
Q 001613          346 RIVGILLKHGA--IVSQQNKLGLTALHI---AAGSG---------NSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDH  411 (1044)
Q Consensus       346 ~iVklLLe~GA--dvn~~d~~G~TpLh~---Aa~~g---------~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~  411 (1044)
                      +++++|+++|+  ++|.+|..|.||||.   |...+         ..+++++|+++|++ +|.+|..|+||||+|+..++
T Consensus       396 eIvelLIs~Ga~~dIN~kd~~G~T~Lh~~i~a~~~n~~~~~~e~~~~~ivk~LIs~GAD-INakD~~G~TPLh~Aa~~~~  474 (672)
T PHA02730        396 NVVRFIVENNGHMAINHVSNNGRLCMYGLILSRFNNCGYHCYETILIDVFDILSKYMDD-IDMIDNENKTLLYYAVDVNN  474 (672)
T ss_pred             HHHHHHHHcCCCccccccccCCCchHhHHHHHHhccccccccchhHHHHHHHHHhcccc-hhccCCCCCCHHHHHHHhCC
Confidence            99999999998  699999999999994   33232         23579999999999 99999999999999999999


Q ss_pred             HHHHHHHHHCCCCcccccC-CCCcHHHHHHHc--ChHHHHHHhhhcCcc
Q 001613          412 MVCAEVLLRWGANSEVLNL-RRERPIDFAKSQ--DMRFLLKAANTCHTN  457 (1044)
Q Consensus       412 ~~iVklLL~~GAdin~~d~-~G~TpLh~Aa~~--g~~~Ll~~~~~n~~d  457 (1044)
                      .+++++|+++||++|.+|. .|.||||+|+..  +..++++.+-....+
T Consensus       475 ~eive~LI~~GAdIN~~d~~~g~TaL~~Aa~~~~~~~eIv~~LLs~ga~  523 (672)
T PHA02730        475 IQFARRLLEYGASVNTTSRSIINTAIQKSSYRRENKTKLVDLLLSYHPT  523 (672)
T ss_pred             HHHHHHHHHCCCCCCCCCCcCCcCHHHHHHHhhcCcHHHHHHHHHcCCC
Confidence            9999999999999999997 599999999984  677777755444443

>PHA02946 ankyin-like protein; Provisional

Probab=100.00  E-value=2.8e-39  Score=381.09  Aligned_cols=347  Identities=18%  Similarity=0.167  Sum_probs=285.8

Q ss_pred             hHHHHHHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHH--cCCHHHHHHHHHcCCCCCcccCCCCCchHHHH
Q 001613           59 KLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAE--SHTARCVELLLKKRARTDIRSKDGRRLLPLEL  136 (1044)
Q Consensus        59 T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~--~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~  136 (1044)
                      -+|..++..++.+.++.++...          ....+.++||.++.  .++.++|++||++|+++|.+|.+|+|  |||+
T Consensus        11 ~sl~~~~~~~n~~~~~~~l~~~----------~~~g~~~~Lh~~~~~~~~~~~iv~~Ll~~Gadvn~~d~~G~T--pLh~   78 (446)
T PHA02946         11 LSLYAKYNSKNLDVFRNMLQAI----------EPSGNYHILHAYCGIKGLDERFVEELLHRGYSPNETDDDGNY--PLHI   78 (446)
T ss_pred             HHHHHHHccCcHHHHHHHHhcc----------CCCCCChHHHHHHHhcCCCHHHHHHHHHCcCCCCccCCCCCC--HHHH
Confidence            3467888889999999999753          11134699998774  45789999999999999999999999  8888


Q ss_pred             HHhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccC
Q 001613          137 SLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDS  216 (1044)
Q Consensus       137 Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~a  216 (1044)
                      |+..|+                       .+++++|+++|++++.                                   
T Consensus        79 Aa~~g~-----------------------~eiv~lLL~~GAdin~-----------------------------------  100 (446)
T PHA02946         79 ASKINN-----------------------NRIVAMLLTHGADPNA-----------------------------------  100 (446)
T ss_pred             HHHcCC-----------------------HHHHHHHHHCcCCCCC-----------------------------------
Confidence            877665                       6679999999887653                                   


Q ss_pred             CCcccccchhhHHHHHHHHhcCCchHHHHHHHcCC--CCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHH
Q 001613          217 DLGAKEKTTIYECVIREALALGRATKLQRAVKRNS--TPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLIL  294 (1044)
Q Consensus       217 din~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~--~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~  294 (1044)
                          ++..              |.||||+|+..+.  .++              +++|+++|++++.. .|..|.|||| 
T Consensus       101 ----~d~~--------------g~TpLh~A~~~~~~~~e~--------------v~lLl~~Gadin~~-~d~~g~tpL~-  146 (446)
T PHA02946        101 ----CDKQ--------------HKTPLYYLSGTDDEVIER--------------INLLVQYGAKINNS-VDEEGCGPLL-  146 (446)
T ss_pred             ----CCCC--------------CCCHHHHHHHcCCchHHH--------------HHHHHHcCCCcccc-cCCCCCcHHH-
Confidence                3333              9999999987664  334              89999999999852 4889999997 


Q ss_pred             HHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHH
Q 001613          295 ATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAG  374 (1044)
Q Consensus       295 Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~  374 (1044)
                      |+..|+.+++++|++. |+++  +.+|..|+||||+|+..+.      .+.+++++|+++|++++.+|..|+||||+|+.
T Consensus       147 aa~~~~~~vv~~Ll~~-gad~--~~~d~~G~t~Lh~A~~~~~------~~~~~v~~Ll~~Gadin~~d~~G~TpLH~Aa~  217 (446)
T PHA02946        147 ACTDPSERVFKKIMSI-GFEA--RIVDKFGKNHIHRHLMSDN------PKASTISWMMKLGISPSKPDHDGNTPLHIVCS  217 (446)
T ss_pred             HHHCCChHHHHHHHhc-cccc--cccCCCCCCHHHHHHHhcC------CCHHHHHHHHHcCCCCcccCCCCCCHHHHHHH
Confidence            6678999999999999 9999  8999999999999998762      26799999999999999999999999999999


Q ss_pred             cC--CHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCC-HHHHHHHHHCCCCcccccCCCCcHHHHHHHcChHHHHHHh
Q 001613          375 SG--NSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDH-MVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAA  451 (1044)
Q Consensus       375 ~g--~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~-~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~Ll~~~  451 (1044)
                      .|  +.+++++|+. +++ +|.+|..|.||||+|+..++ .+++++|+++|++++     ++| +++|+..+..++++.+
T Consensus       218 ~~~~~~~iv~lLl~-gad-in~~d~~G~TpLh~A~~~~~~~~~~~~Ll~~g~~~~-----~~~-~~~a~~~~~~~~~e~l  289 (446)
T PHA02946        218 KTVKNVDIINLLLP-STD-VNKQNKFGDSPLTLLIKTLSPAHLINKLLSTSNVIT-----DQT-VNICIFYDRDDVLEII  289 (446)
T ss_pred             cCCCcHHHHHHHHc-CCC-CCCCCCCCCCHHHHHHHhCChHHHHHHHHhCCCCCC-----CcH-HHHHHHcCchHHHHHH
Confidence            86  8899999985 777 99999999999999999988 589999999998764     333 8888888877766654


Q ss_pred             hhcCccccccchhhhhhhhcCChhhhhhHHHhhhcccCCCCccccccCCceeeeecccccCccccccccccccccccccc
Q 001613          452 NTCHTNLAFLNQEKQNASLESDEDISGTCEALLSMVDDNSNTERICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRK  531 (1044)
Q Consensus       452 ~~n~~d~~~~~~~l~~A~~~~~~~i~~~~~~l~~~~d~~~~~~~~~~~~~~~t~L~~Aa~~G~~eivk~Ll~~GAd~~~~  531 (1044)
                      +....  ..+.++++.|+..++.++++.+..       .+        ..++||||+|+..|+.+++++|+.+|++++..
T Consensus       290 ~~~g~--~~~~TpLh~Aa~~g~~eivk~Ll~-------~~--------~~~~t~L~~A~~~~~~~~v~~Ll~~ga~~n~~  352 (446)
T PHA02946        290 NDKGK--QYDSTDFKMAVEVGSIRCVKYLLD-------ND--------IICEDAMYYAVLSEYETMVDYLLFNHFSVDSV  352 (446)
T ss_pred             HHcCc--ccCCCHHHHHHHcCCHHHHHHHHH-------CC--------CccccHHHHHHHhCHHHHHHHHHHCCCCCCCc
Confidence            44322  234588888888888888775432       11        23578999999999999999999999999985


Q ss_pred             CCCcccccccccc
Q 001613          532 MNPGMCMIHASTQ  544 (1044)
Q Consensus       532 d~~G~tpLh~aa~  544 (1044)
                       ..|.|++|.+..
T Consensus       353 -~~G~t~l~~a~~  364 (446)
T PHA02946        353 -VNGHTCMSECVR  364 (446)
T ss_pred             -cccccHHHHHHH
Confidence             689999998873

>PHA02716 CPXV016; CPX019; EVM010; Provisional

Probab=100.00  E-value=3.9e-39  Score=391.24  Aligned_cols=183  Identities=17%  Similarity=0.113  Sum_probs=144.6

Q ss_pred             HHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHH--cCCHHHHHHHHHcCCCCCCCCCCC
Q 001613          244 QRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQ--AGDEDVIEILLKSKNIDINDADAD  321 (1044)
Q Consensus       244 ~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~--~G~~eiVk~LL~~~gadvn~n~~d  321 (1044)
                      ..|+..|+.++              +++|++.|++++..  |..|+||||+|+.  .++.++|++|++. |+++  +.+|
T Consensus       289 i~AA~~g~lei--------------VklLLe~GAdIN~k--D~~G~TPLH~Aaa~~~~~~eIVklLLe~-GADI--N~kD  349 (764)
T PHA02716        289 ITLARNIDISV--------------VYSFLQPGVKLHYK--DSAGRTCLHQYILRHNISTDIIKLLHEY-GNDL--NEPD  349 (764)
T ss_pred             HHHHHcCCHHH--------------HHHHHhCCCceecc--CCCCCCHHHHHHHHhCCCchHHHHHHHc-CCCC--ccCC
Confidence            34677888777              99999999999876  9999999999875  4689999999999 9999  8999


Q ss_pred             CCCchHHHHHHhcCCCc------ccccchHHHHHHHHhcCCeeeecCCCCCcHHHH----HHHcCCHHHHHHHHhcCCC-
Q 001613          322 ADGNSALHCALKTSMGL------SQHILQNRIVGILLKHGAIVSQQNKLGLTALHI----AAGSGNSQALEDLIRKEPD-  390 (1044)
Q Consensus       322 ~~G~TpLh~Aa~~g~~~------~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~----Aa~~g~~eiVklLL~~gad-  390 (1044)
                      ..|+||||+|+......      .....+.+++++|+++|++++.+|..|+||||.    |...++.+++++|++.++. 
T Consensus       350 ~~G~TPLH~A~~~lav~~~ld~~~~~~~~~eVVklLL~~GADIn~kn~~G~TPLh~y~~~a~n~~~~dIvklLis~~~~~  429 (764)
T PHA02716        350 NIGNTVLHTYLSMLSVVNILDPETDNDIRLDVIQCLISLGADITAVNCLGYTPLTSYICTAQNYMYYDIIDCLISDKVLN  429 (764)
T ss_pred             CCCCCHHHHHHHhhhhhccccccccccChHHHHHHHHHCCCCCCCcCCCCCChHHHHHHHHHhcChHHHHHHHHhCcchh
Confidence            99999999987531000      001127899999999999999999999999994    2335788999999886531 


Q ss_pred             -----------------------------------------------------------CcccCCCCCCcHHHHHHHcCC
Q 001613          391 -----------------------------------------------------------CINLKTIMMETPLFFAVKNDH  411 (1044)
Q Consensus       391 -----------------------------------------------------------~in~~d~~G~TpLh~Aa~~g~  411 (1044)
                                                                                 ++|..|..|+||||+|+.+|+
T Consensus       430 ~~~~~~~q~ll~~~d~~~~~lhh~~a~~~~~~~~~~~~~~~~~~~~~~~v~~~~ii~~~nvN~~D~~G~TPLh~Aa~~g~  509 (764)
T PHA02716        430 MVKHRILQDLLIRVDDTPCIIHHIIAKYNIPTDLYTDEYEPYDSTKIHDVYHCAIIERYNNAVCETSGMTPLHVSIISHT  509 (764)
T ss_pred             hhhhhhhhhhhhccCcchhhHHHHHHhcCcchhhhhhhhhhccccccchhhHHHHHhhccccccCCCCCCHHHHHHHcCC
Confidence                                                                       134456678888888888776


Q ss_pred             H-----HHHHHHHHCCCCcccccCCCCcHHHHHHHcChH
Q 001613          412 M-----VCAEVLLRWGANSEVLNLRRERPIDFAKSQDMR  445 (1044)
Q Consensus       412 ~-----~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~  445 (1044)
                      .     +++++|+++|||+|.+|..|+||||+|+++|..
T Consensus       510 ~~~v~~e~~k~LL~~GADIN~~d~~G~TPLh~A~~~g~~  548 (764)
T PHA02716        510 NANIVMDSFVYLLSIQYNINIPTKNGVTPLMLTMRNNRL  548 (764)
T ss_pred             ccchhHHHHHHHHhCCCCCcccCCCCCCHHHHHHHcCCc
Confidence            5     445888888888888888888888888887743

>KOG0510 consensus Ankyrin repeat protein [General function prediction only]

Probab=100.00  E-value=1.3e-39  Score=377.48  Aligned_cols=311  Identities=23%  Similarity=0.279  Sum_probs=271.5

Q ss_pred             cccccchHHHHHHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCch
Q 001613           53 QTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLL  132 (1044)
Q Consensus        53 ~~~~~~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~l  132 (1044)
                      .+..++|+||+|+.+...+.+++|++.|    ++++..+. ++.+|||+|+..|+.++.++|+++|+|+|..|.+|.|  
T Consensus        84 ~D~~~n~~l~~a~~~~~~~~i~~Lls~g----ad~~~~n~-~~~aplh~A~~~~~~s~L~~Ll~~~~dvnl~de~~~T--  156 (929)
T KOG0510|consen   84 KDSADNTPLHAAVEYNQGDKIQVLLSYG----ADTPLRNL-NKNAPLHLAADSGNYSCLKLLLDYGADVNLEDENGFT--  156 (929)
T ss_pred             hhcccCchhHHHhhcchHHHHHHHHhcC----CCCChhhh-hccCchhhccccchHHHHHHHHHhcCCccccccCCCc--
Confidence            3445589999999999999999999998    88999999 9999999999999999999999999999999999988  


Q ss_pred             HHHHHHhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHH
Q 001613          133 PLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILV  212 (1044)
Q Consensus       133 pLh~Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~  212 (1044)
                      |||+|+.+++                       .++.+.|++.|+++..                               
T Consensus       157 pLh~A~~~~~-----------------------~E~~k~Li~~~a~~~K-------------------------------  182 (929)
T KOG0510|consen  157 PLHLAARKNK-----------------------VEAKKELINKGADPCK-------------------------------  182 (929)
T ss_pred             hhhHHHhcCh-----------------------HHHHHHHHhcCCCCCc-------------------------------
Confidence            8888877765                       5568899999887753                               


Q ss_pred             hccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHH-----cCCCCCCccCCCC
Q 001613          213 LHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQL-----FGAVANGSCTDKK  287 (1044)
Q Consensus       213 ~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~-----~GAdin~~~~d~~  287 (1044)
                              .+.+              |..++|.|+++|..+.              +++.+.     .+..+|..  +..
T Consensus       183 --------~~~~--------------~~~~iH~aa~s~s~e~--------------mEi~l~~~g~~r~~~in~~--~n~  224 (929)
T KOG0510|consen  183 --------SDID--------------GNFPIHEAARSGSKEC--------------MEIFLPEHGYERQTHINFD--NNE  224 (929)
T ss_pred             --------ccCc--------------CCchHHHHHHhcchhh--------------hhhhhccccchhhcccccc--cCC
Confidence                    1222              8899999999999998              888887     66777765  889


Q ss_pred             CCcHHHHHHHcCCHHHHHHHHHcCCCCCC-------------CCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhc
Q 001613          288 VGPPLILATQAGDEDVIEILLKSKNIDIN-------------DADADADGNSALHCALKTSMGLSQHILQNRIVGILLKH  354 (1044)
Q Consensus       288 G~TpLh~Aa~~G~~eiVk~LL~~~gadvn-------------~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~  354 (1044)
                      |.||||.|++.|++++++.+|+. |..+.             +|..|++|.||||+|++.|        +.+.|+.|+..
T Consensus       225 ~~~pLhlAve~g~~e~lk~~L~n-~~~~a~~~~~~~~q~kelv~~~d~dg~tpLH~a~r~G--------~~~svd~Ll~~  295 (929)
T KOG0510|consen  225 KATPLHLAVEGGDIEMLKMCLQN-GKKIADVQLDAMQQEKELVNDEDNDGCTPLHYAARQG--------GPESVDNLLGF  295 (929)
T ss_pred             CCcchhhhhhcCCHHHHHHHHhC-ccccchhhhHHHHHHHHHhhcccccCCchHHHHHHcC--------ChhHHHHHHHc
Confidence            99999999999999999999998 55442             2567999999999999999        99999999999


Q ss_pred             CCeeeecCCCCCcHHHHHHHcCCHHHHHHHHh-cCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcc---cccC
Q 001613          355 GAIVSQQNKLGLTALHIAAGSGNSQALEDLIR-KEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSE---VLNL  430 (1044)
Q Consensus       355 GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~-~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin---~~d~  430 (1044)
                      |++++.+++++.||||.||.+|+.+.|+-||+ .+.-.+|..|..|.||||+|+++||.+++++||++||+.+   ..|.
T Consensus       296 Ga~I~~kn~d~~spLH~AA~yg~~ntv~rLL~~~~~rllne~D~~g~tpLHlaa~~gH~~v~qlLl~~GA~~~~~~e~D~  375 (929)
T KOG0510|consen  296 GASINSKNKDEESPLHFAAIYGRINTVERLLQESDTRLLNESDLHGMTPLHLAAKSGHDRVVQLLLNKGALFLNMSEADS  375 (929)
T ss_pred             CCcccccCCCCCCchHHHHHcccHHHHHHHHhCcCccccccccccCCCchhhhhhcCHHHHHHHHHhcChhhhccccccc
Confidence            99999999999999999999999999999999 6666799999999999999999999999999999999987   3466


Q ss_pred             CCCcHHHHHHHcChHHHHHHhhhcCccccccchhhhhhhhcCChhhhhhHHHhhhcccCCCCccccccCCceeeeecccc
Q 001613          431 RRERPIDFAKSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDISGTCEALLSMVDDNSNTERICSGTKIEVCKYYES  510 (1044)
Q Consensus       431 ~G~TpLh~Aa~~g~~~Ll~~~~~n~~d~~~~~~~l~~A~~~~~~~i~~~~~~l~~~~d~~~~~~~~~~~~~~~t~L~~Aa  510 (1044)
                      +|.||||+|+.                                                                     
T Consensus       376 dg~TaLH~Aa~---------------------------------------------------------------------  386 (929)
T KOG0510|consen  376 DGNTALHLAAK---------------------------------------------------------------------  386 (929)
T ss_pred             CCchhhhHHHH---------------------------------------------------------------------
Confidence            66666666654                                                                     


Q ss_pred             cCcccccccccccccccccccCCCccccccc
Q 001613          511 HSGCIRGSKCFYALGEEQHRKMNPGMCMIHA  541 (1044)
Q Consensus       511 ~~G~~eivk~Ll~~GAd~~~~d~~G~tpLh~  541 (1044)
                       .|+...|+.|+++||++...++.|+++++.
T Consensus       387 -~g~~~av~~Li~~Ga~I~~~n~~g~SA~~~  416 (929)
T KOG0510|consen  387 -YGNTSAVQKLISHGADIGVKNKKGKSAFDT  416 (929)
T ss_pred             -hccHHHHHHHHHcCCceeeccccccccccc
Confidence             456677888999999999999999999985

>PHA03095 ankyrin-like protein; Provisional

Probab=100.00  E-value=2.1e-38  Score=377.98  Aligned_cols=288  Identities=24%  Similarity=0.269  Sum_probs=256.9

Q ss_pred             HHHHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHcC---CHHHHHHHHHcCCCCCcccCCCCCchHHHHHH
Q 001613           62 RVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESH---TARCVELLLKKRARTDIRSKDGRRLLPLELSL  138 (1044)
Q Consensus        62 h~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G---~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa  138 (1044)
                      ..|+..+++++|++|++.|    +++|.++. .|.||||+|+..|   +.++|++|+++|+|+|.++..|+|  |||+|+
T Consensus        19 ~~~~~~~~~~~v~~Ll~~g----a~vn~~~~-~g~t~Lh~a~~~~~~~~~~iv~~Ll~~Gadin~~~~~g~T--pLh~A~   91 (471)
T PHA03095         19 LLNASNVTVEEVRRLLAAG----ADVNFRGE-YGKTPLHLYLHYSSEKVKDIVRLLLEAGADVNAPERCGFT--PLHLYL   91 (471)
T ss_pred             HHcCCCCCHHHHHHHHHcC----CCcccCCC-CCCCHHHHHHHhcCCChHHHHHHHHHCCCCCCCCCCCCCC--HHHHHH
Confidence            5677889999999999998    99999999 9999999999999   999999999999999999999998  888888


Q ss_pred             hCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCCC
Q 001613          139 SSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDL  218 (1044)
Q Consensus       139 ~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~adi  218 (1044)
                      ..++                      ..+++++|+++|++++.                                     
T Consensus        92 ~~~~----------------------~~~iv~lLl~~ga~in~-------------------------------------  112 (471)
T PHA03095         92 YNAT----------------------TLDVIKLLIKAGADVNA-------------------------------------  112 (471)
T ss_pred             HcCC----------------------cHHHHHHHHHcCCCCCC-------------------------------------
Confidence            7763                      46789999999887653                                     


Q ss_pred             cccccchhhHHHHHHHHhcCCchHHHHHHH--cCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHH
Q 001613          219 GAKEKTTIYECVIREALALGRATKLQRAVK--RNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILAT  296 (1044)
Q Consensus       219 n~~~~~~~~~~~i~~a~~~gg~t~L~~A~~--~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa  296 (1044)
                        .+..              |.||||+|+.  .++.++              +++|++.|++++..  |..|.||||+|+
T Consensus       113 --~~~~--------------g~tpLh~a~~~~~~~~~i--------------v~~Ll~~gad~~~~--d~~g~tpL~~a~  160 (471)
T PHA03095        113 --KDKV--------------GRTPLHVYLSGFNINPKV--------------IRLLLRKGADVNAL--DLYGMTPLAVLL  160 (471)
T ss_pred             --CCCC--------------CCCHHHHHhhCCcCCHHH--------------HHHHHHcCCCCCcc--CCCCCCHHHHHH
Confidence              2222              8999999994  345555              99999999999875  899999999999


Q ss_pred             HcC--CHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHH
Q 001613          297 QAG--DEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAG  374 (1044)
Q Consensus       297 ~~G--~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~  374 (1044)
                      ..+  +.+++++|++. |+++  +..|..|.||||+|+....      ...+++++|+++|++++.+|..|+||||+|+.
T Consensus       161 ~~~~~~~~iv~~Ll~~-g~~~--~~~d~~g~t~Lh~~~~~~~------~~~~i~~~Ll~~g~~~~~~d~~g~tpLh~Aa~  231 (471)
T PHA03095        161 KSRNANVELLRLLIDA-GADV--YAVDDRFRSLLHHHLQSFK------PRARIVRELIRAGCDPAATDMLGNTPLHSMAT  231 (471)
T ss_pred             HcCCCCHHHHHHHHHc-CCCC--cccCCCCCCHHHHHHHHCC------CcHHHHHHHHHcCCCCcccCCCCCCHHHHHHh
Confidence            876  68999999999 9999  7779999999999998641      27899999999999999999999999999999


Q ss_pred             cCCH--HHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHHcChHHHHHHhh
Q 001613          375 SGNS--QALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAAN  452 (1044)
Q Consensus       375 ~g~~--eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~Ll~~~~  452 (1044)
                      .|+.  .+++.|++.|++ +|.+|..|+||||+|+..|+.+++++|+++|||++.+|..|+||||+|+.+|+.++++.+-
T Consensus       232 ~~~~~~~~v~~ll~~g~d-in~~d~~g~TpLh~A~~~~~~~~v~~LL~~gad~n~~~~~g~tpl~~A~~~~~~~~v~~LL  310 (471)
T PHA03095        232 GSSCKRSLVLPLLIAGIS-INARNRYGQTPLHYAAVFNNPRACRRLIALGADINAVSSDGNTPLSLMVRNNNGRAVRAAL  310 (471)
T ss_pred             cCCchHHHHHHHHHcCCC-CCCcCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCcccCCCCCCHHHHHHHhCCHHHHHHHH
Confidence            9975  688999999998 9999999999999999999999999999999999999999999999999999988888655


Q ss_pred             hcCcc
Q 001613          453 TCHTN  457 (1044)
Q Consensus       453 ~n~~d  457 (1044)
                      ....+
T Consensus       311 ~~~~~  315 (471)
T PHA03095        311 AKNPS  315 (471)
T ss_pred             HhCCC
Confidence            54444

>PHA02730 ankyrin-like protein; Provisional

Probab=100.00  E-value=1.7e-38  Score=378.96  Aligned_cols=390  Identities=13%  Similarity=0.100  Sum_probs=281.7

Q ss_pred             HHHHHHHHhCCCCCccccc-cccCCCCChHHHHHHHcC---CHHHHHHHHHcCCCCCcccCCCCCchHHHHHHhCC--Cc
Q 001613           70 VSCATSLVNGDLGPVALVN-EVEESSGMTALHLAAESH---TARCVELLLKKRARTDIRSKDGRRLLPLELSLSSS--RM  143 (1044)
Q Consensus        70 ~eivk~LL~~g~~~~adiN-~~d~~~G~TpLH~Aa~~G---~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa~~g--~~  143 (1044)
                      ...+++.++..    +++| .+|. .|.||||+|+.+|   +.++|++||++|||++.+|.+|+|  |||+|+..+  +.
T Consensus        20 ~~~~~~~~~~~----~~in~~kd~-~G~TaLh~A~~~~~~~~~eivklLLs~GAdin~kD~~G~T--PLh~Aa~~~~~~~   92 (672)
T PHA02730         20 YKKIKLEIETC----HNLSKHIDR-RGNNALHCYVSNKCDTDIKIVRLLLSRGVERLCRNNEGLT--PLGVYSKRKYVKS   92 (672)
T ss_pred             HHHHHHHHHHh----cchhhhcCC-CCCcHHHHHHHcCCcCcHHHHHHHHhCCCCCcccCCCCCC--hHHHHHHcCCCcH
Confidence            44677777765    5788 8888 9999999999997   599999999999999999999999  999999977  67


Q ss_pred             ceecC------------CCCCchhHHHHHHh--cCCHHHHHHHHH-cCCCcchHHHHhhhcCcHHHHHHHHHHHhh--hh
Q 001613          144 DVIWN------------PDEYSVEDLVVILG--QKNLTTVKLLSQ-KTKELDEVAYANAVGGRIVALAALLIVAAD--KV  206 (1044)
Q Consensus       144 eIv~~------------~~~~~~t~L~~Ai~--~g~~eivklLl~-~gadi~~~~~~~a~~g~~~~l~~ll~~a~~--~~  206 (1044)
                      +|++.            .+..+.++|+.++.  .++.+++++|+. .+.+++...-.. ..+.  .+..+......  ..
T Consensus        93 eIv~~Ll~~~~~~~~~~~~~~~d~~l~~y~~s~n~~~~~vk~Li~~~~~~~~~~~~~~-~~~~--~~~~~yl~~~~~~~e  169 (672)
T PHA02730         93 QIVHLLISSYSNASNELTSNINDFDLYSYMSSDNIDLRLLKYLIVDKRIRPSKNTNYY-IHCL--GLVDIYVTTPNPRPE  169 (672)
T ss_pred             HHHHHHHhcCCCCCcccccccCCchHHHHHHhcCCcHHHHHHHHHhcCCChhhhhhhh-cccc--chhhhhHhcCCCchH
Confidence            77741            23336778888777  899999999996 666765431100 0011  12222222222  23


Q ss_pred             hhHHHHhccCCCcccccchhhHHHHHHHH-hcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCC
Q 001613          207 NESILVLHDSDLGAKEKTTIYECVIREAL-ALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTD  285 (1044)
Q Consensus       207 ~~~~l~~~~adin~~~~~~~~~~~i~~a~-~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d  285 (1044)
                      ..++++.+|++++.-.-..       ... ...+.+.||+.+..+... ..       -....+++|+++||++|..  |
T Consensus       170 IvklLi~~g~~v~g~~~~~-------~~~~~~~c~~~l~~~il~~~~~-~~-------n~~eiv~lLIs~GadIN~k--d  232 (672)
T PHA02730        170 VLLWLLKSECYSTGYVFRS-------CMYDSDRCKNSLHYYILSHRES-ES-------LSKDVIKCLIDNNVSIHGR--D  232 (672)
T ss_pred             HHHHHHHcCCccccccccc-------ccccCCccchhHHHHHHhhhhh-hc-------cCHHHHHHHHHCCCCCCCC--C
Confidence            3567777888875210000       000 112445666555443221 01       1122399999999999986  9


Q ss_pred             CCCCcHHHH--HHHcCCHHHHHHHHH--------------------------------cCCCCCCC--------------
Q 001613          286 KKVGPPLIL--ATQAGDEDVIEILLK--------------------------------SKNIDIND--------------  317 (1044)
Q Consensus       286 ~~G~TpLh~--Aa~~G~~eiVk~LL~--------------------------------~~gadvn~--------------  317 (1044)
                      ..|.||||+  |...|+.++|++|++                                . |+|+.+              
T Consensus       233 ~~G~TpLh~~~~~~~~~~eiv~~Li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~d~~i~~~~~~~~~~~~~~  311 (672)
T PHA02730        233 EGGSLPIQYYWSCSTIDIEIVKLLIKDVDTCSVYDDISQPYIRGVLADYLNKRFRVTPY-NVDMEIVNLLIEGRHTLIDV  311 (672)
T ss_pred             CCCCCHHHHHHHcCcccHHHHHHHHhccccccccccccchhhhhhHHHhhhhhhhcccC-CcchHHHHHHhhccCcchhh
Confidence            999999995  555678999999999                                5 777722              


Q ss_pred             ----CCCCCCCch---------------------HHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHH
Q 001613          318 ----ADADADGNS---------------------ALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIA  372 (1044)
Q Consensus       318 ----n~~d~~G~T---------------------pLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~A  372 (1044)
                          -..+..|.+                     .||.-...+.     ..+.+++++|+++||++|.. ..|+||||+|
T Consensus       312 ~~~~~~~~~~~~n~~~~~~i~~~~~~~~~~~~q~~l~~Y~~~~~-----~v~ieIvelLIs~GAdIN~k-~~G~TpLH~A  385 (672)
T PHA02730        312 MRSITSYDSREYNHYIIDNILKRFRQQDESIVQAMLINYLHYGD-----MVSIPILRCMLDNGATMDKT-TDNNYPLHDY  385 (672)
T ss_pred             hhccccccccccchhHHHHHHHhhhccchhHHHHHHHHHHhcCC-----cCcHHHHHHHHHCCCCCCcC-CCCCcHHHHH
Confidence                004556654                     6677666551     12799999999999999986 7999999999


Q ss_pred             HHcCC----HHHHHHHHhcCCC-CcccCCCCCCcHHHH---HHHcC---------CHHHHHHHHHCCCCcccccCCCCcH
Q 001613          373 AGSGN----SQALEDLIRKEPD-CINLKTIMMETPLFF---AVKND---------HMVCAEVLLRWGANSEVLNLRRERP  435 (1044)
Q Consensus       373 a~~g~----~eiVklLL~~gad-~in~~d~~G~TpLh~---Aa~~g---------~~~iVklLL~~GAdin~~d~~G~Tp  435 (1044)
                      +..++    .+++++||++|++ ++|.+|..|.||||.   |...+         ..+++++|+.+|||+|.+|..|+||
T Consensus       386 a~~nnn~i~~eIvelLIs~Ga~~dIN~kd~~G~T~Lh~~i~a~~~n~~~~~~e~~~~~ivk~LIs~GADINakD~~G~TP  465 (672)
T PHA02730        386 FVNNNNIVDVNVVRFIVENNGHMAINHVSNNGRLCMYGLILSRFNNCGYHCYETILIDVFDILSKYMDDIDMIDNENKTL  465 (672)
T ss_pred             HHHcCCcchHHHHHHHHHcCCCccccccccCCCchHhHHHHHHhccccccccchhHHHHHHHHHhcccchhccCCCCCCH
Confidence            98875    8999999999983 499999999999994   33332         2367999999999999999999999


Q ss_pred             HHHHHHcChHHHHHHhhhcCccccccchhhhhhhhcCChhhhhhHHHhhhcccCCCCccccccC-Cceeeeeccccc--C
Q 001613          436 IDFAKSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDISGTCEALLSMVDDNSNTERICSG-TKIEVCKYYESH--S  512 (1044)
Q Consensus       436 Lh~Aa~~g~~~Ll~~~~~n~~d~~~~~~~l~~A~~~~~~~i~~~~~~l~~~~d~~~~~~~~~~~-~~~~t~L~~Aa~--~  512 (1044)
                      ||+|+..+..++++.+-....+.+                                     ..+ ..+.||||+|+.  .
T Consensus       466 Lh~Aa~~~~~eive~LI~~GAdIN-------------------------------------~~d~~~g~TaL~~Aa~~~~  508 (672)
T PHA02730        466 LYYAVDVNNIQFARRLLEYGASVN-------------------------------------TTSRSIINTAIQKSSYRRE  508 (672)
T ss_pred             HHHHHHhCCHHHHHHHHHCCCCCC-------------------------------------CCCCcCCcCHHHHHHHhhc
Confidence            999999997777764443333311                                     111 136789999987  4


Q ss_pred             cccccccccccccccccc
Q 001613          513 GCIRGSKCFYALGEEQHR  530 (1044)
Q Consensus       513 G~~eivk~Ll~~GAd~~~  530 (1044)
                      |+.+++++|+++|+++..
T Consensus       509 ~~~eIv~~LLs~ga~i~~  526 (672)
T PHA02730        509 NKTKLVDLLLSYHPTLET  526 (672)
T ss_pred             CcHHHHHHHHHcCCCHHH
Confidence            899999999999998753

>PHA02716 CPXV016; CPX019; EVM010; Provisional

Probab=100.00  E-value=5.9e-38  Score=380.94  Aligned_cols=353  Identities=13%  Similarity=0.068  Sum_probs=260.8

Q ss_pred             HcCCHHHHHHHHhCCCCCccccccc-cCCCCChHHHHHHH--cCCHHHHHHHHHcCCCCCcccCCCCCchHHHHHHhCCC
Q 001613           66 IFDSVSCATSLVNGDLGPVALVNEV-EESSGMTALHLAAE--SHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSR  142 (1044)
Q Consensus        66 ~~G~~eivk~LL~~g~~~~adiN~~-d~~~G~TpLH~Aa~--~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa~~g~  142 (1044)
                      ..+++++|++|++.|   .+++|.+ |. .|.||||+|+.  +++.++|++|+++|+|+|.+|.+|.|  |||+|+..|+
T Consensus       151 ~~v~leiVk~LLe~G---~ADIN~~~d~-~G~TpLH~A~~n~~~~~eIVklLLe~GADVN~kD~~G~T--PLH~Aa~~g~  224 (764)
T PHA02716        151 RGIDLDLIKYMVDVG---IVNLNYVCKK-TGYGILHAYLGNMYVDIDILEWLCNNGVNVNLQNNHLIT--PLHTYLITGN  224 (764)
T ss_pred             cCCCHHHHHHHHHCC---CCCcccccCC-CCCcHHHHHHHhccCCHHHHHHHHHcCCCCCCCCCCCCC--HHHHHHHcCC
Confidence            458999999999986   4789998 77 99999999875  46799999999999999999999999  9999988775


Q ss_pred             cceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCCCcccc
Q 001613          143 MDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKE  222 (1044)
Q Consensus       143 ~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~adin~~~  222 (1044)
                      .                     +.++|++|+++|++++.                                       ++
T Consensus       225 ~---------------------~~eIVklLLe~GADVN~---------------------------------------kD  244 (764)
T PHA02716        225 V---------------------CASVIKKIIELGGDMDM---------------------------------------KC  244 (764)
T ss_pred             C---------------------CHHHHHHHHHcCCCCCC---------------------------------------CC
Confidence            2                     24789999999987753                                       23


Q ss_pred             cchhhHHHHHHHHhcCCchHHHHHHH---cCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHH---HHH
Q 001613          223 KTTIYECVIREALALGRATKLQRAVK---RNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLI---LAT  296 (1044)
Q Consensus       223 ~~~~~~~~i~~a~~~gg~t~L~~A~~---~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh---~Aa  296 (1044)
                      ..              |.||||+|+.   .++.++              +++|++.+.....    ....++|+   .|+
T Consensus       245 ~~--------------G~TPLh~Ai~~a~n~~~EI--------------vkiLie~~d~n~~----~~~~~~L~~~i~AA  292 (764)
T PHA02716        245 VN--------------GMSPIMTYIINIDNINPEI--------------TNIYIESLDGNKV----KNIPMILHSYITLA  292 (764)
T ss_pred             CC--------------CCCHHHHHHHhhhccCHHH--------------HHHHHHhcccccc----ccchhhhHHHHHHH
Confidence            33              9999998864   445555              7788776433221    11223344   478


Q ss_pred             HcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHH--
Q 001613          297 QAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAG--  374 (1044)
Q Consensus       297 ~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~--  374 (1044)
                      ..|+.++|++||+. |+++  +.+|..|+||||+|+..+.      .+.+++++|+++|+++|.+|..|+||||+|+.  
T Consensus       293 ~~g~leiVklLLe~-GAdI--N~kD~~G~TPLH~Aaa~~~------~~~eIVklLLe~GADIN~kD~~G~TPLH~A~~~l  363 (764)
T PHA02716        293 RNIDISVVYSFLQP-GVKL--HYKDSAGRTCLHQYILRHN------ISTDIIKLLHEYGNDLNEPDNIGNTVLHTYLSML  363 (764)
T ss_pred             HcCCHHHHHHHHhC-CCce--eccCCCCCCHHHHHHHHhC------CCchHHHHHHHcCCCCccCCCCCCCHHHHHHHhh
Confidence            99999999999999 9999  8999999999999875431      17899999999999999999999999999875  


Q ss_pred             ------------cCCHHHHHHHHhcCCCCcccCCCCCCcHHHH----HHHcCCHHHHHHHHHCCCCcccccC--------
Q 001613          375 ------------SGNSQALEDLIRKEPDCINLKTIMMETPLFF----AVKNDHMVCAEVLLRWGANSEVLNL--------  430 (1044)
Q Consensus       375 ------------~g~~eiVklLL~~gad~in~~d~~G~TpLh~----Aa~~g~~~iVklLL~~GAdin~~d~--------  430 (1044)
                                  .++.++|++|+++|++ ++.+|..|+||||.    |...++.+++++|++.|+..+..+.        
T Consensus       364 av~~~ld~~~~~~~~~eVVklLL~~GAD-In~kn~~G~TPLh~y~~~a~n~~~~dIvklLis~~~~~~~~~~~~q~ll~~  442 (764)
T PHA02716        364 SVVNILDPETDNDIRLDVIQCLISLGAD-ITAVNCLGYTPLTSYICTAQNYMYYDIIDCLISDKVLNMVKHRILQDLLIR  442 (764)
T ss_pred             hhhccccccccccChHHHHHHHHHCCCC-CCCcCCCCCChHHHHHHHHHhcChHHHHHHHHhCcchhhhhhhhhhhhhhc
Confidence                        3789999999999999 99999999999993    3346789999999999886544322        


Q ss_pred             CCCcH--HHHHHHcChHHHHHHhhhcCccccccchhhhhhhhcCChhhhhhHHHhhhcccCCCCccccccCCceeeeecc
Q 001613          431 RRERP--IDFAKSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDISGTCEALLSMVDDNSNTERICSGTKIEVCKYY  508 (1044)
Q Consensus       431 ~G~Tp--Lh~Aa~~g~~~Ll~~~~~n~~d~~~~~~~l~~A~~~~~~~i~~~~~~l~~~~d~~~~~~~~~~~~~~~t~L~~  508 (1044)
                      .+.+|  +|.++..+...+.........-...           ...++...  ..+...      +....+..|.||||+
T Consensus       443 ~d~~~~~lhh~~a~~~~~~~~~~~~~~~~~~~-----------~~~~v~~~--~ii~~~------nvN~~D~~G~TPLh~  503 (764)
T PHA02716        443 VDDTPCIIHHIIAKYNIPTDLYTDEYEPYDST-----------KIHDVYHC--AIIERY------NNAVCETSGMTPLHV  503 (764)
T ss_pred             cCcchhhHHHHHHhcCcchhhhhhhhhhcccc-----------ccchhhHH--HHHhhc------cccccCCCCCCHHHH
Confidence            23333  4444444322221111110000000           00000000  000011      122234678899999


Q ss_pred             cccCcccccc-----cccccccccccccCCCccccccccccc
Q 001613          509 ESHSGCIRGS-----KCFYALGEEQHRKMNPGMCMIHASTQE  545 (1044)
Q Consensus       509 Aa~~G~~eiv-----k~Ll~~GAd~~~~d~~G~tpLh~aa~~  545 (1044)
                      |+..|+.+++     ++|++.|||++.+++.|.||+|++...
T Consensus       504 Aa~~g~~~~v~~e~~k~LL~~GADIN~~d~~G~TPLh~A~~~  545 (764)
T PHA02716        504 SIISHTNANIVMDSFVYLLSIQYNINIPTKNGVTPLMLTMRN  545 (764)
T ss_pred             HHHcCCccchhHHHHHHHHhCCCCCcccCCCCCCHHHHHHHc
Confidence            9999988666     999999999999999999999999843

>KOG4177 consensus Ankyrin [Cell wall/membrane/envelope biogenesis]

Probab=100.00  E-value=2.7e-39  Score=397.83  Aligned_cols=502  Identities=19%  Similarity=0.204  Sum_probs=316.3

Q ss_pred             hHHHHHHHHHhcCHHHHHHHHHhhccccccccccccccccchHHHHHHHcCCHHHHHHHHhCCCCCccccccccCCCCCh
Q 001613           18 ETTLIINSLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMT   97 (1044)
Q Consensus        18 e~~~ll~AIl~dD~~~L~~li~~~~~~~~l~~~~~~~~~~~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~T   97 (1044)
                      .+++++.+.-.+..+....++.+...      .+-....+.||||.|+..|+.++++.|+..|    +.++.++. .|.|
T Consensus        54 ~~~pl~~aa~~~~~~v~~~ll~~~a~------v~~~~~~~~~plh~a~~~~~a~~v~~ll~~g----a~~~~~~~-~~lT  122 (1143)
T KOG4177|consen   54 GFTPLHIAAHYGNENVAELLLNRGAI------VNATARNGITPLHVASKRGDAEMVKLLLCRG----AQIDARDR-DGLT  122 (1143)
T ss_pred             ccCHHHHHhhhhhhhhhhhhhccccc------cCcccccCccHHHHHHhhcchhHHHHHHhcc----Cchhhccc-CCCc
Confidence            34455555544444444334433322      1112234466677777777777777777776    66777777 7777


Q ss_pred             HHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCchHHHHHHh-----------------------CCCcceec-------
Q 001613           98 ALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLS-----------------------SSRMDVIW-------  147 (1044)
Q Consensus        98 pLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa~-----------------------~g~~eIv~-------  147 (1044)
                      |||.|+..|+.+++++|+.+|++++++|++|.|  |+++|+.                       .++.+++.       
T Consensus       123 pLh~aa~~g~~~~~~~ll~~~a~~~~k~~~g~t--~l~~a~~~~~~~ll~~~~~~d~l~~~~~~~~~~~~~~~ll~~~~~  200 (1143)
T KOG4177|consen  123 PLHCAARKGHVQVIELLLQHGAPINIKTKNGLS--PLHMAAQVACARLLLEYKAPDYLRLHVAAHCGHARVAKLLLDKKA  200 (1143)
T ss_pred             chhhhcccccHHHHHHHHHccCCCcccccCCCC--chhhhcchhhhHHhhhcccchhhhhhHHhhcchHHHHhhhhcccC
Confidence            777777777777777777777777777777766  4444433                       11111110       


Q ss_pred             ---CCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhh--hhhhHHHHhccCCCcccc
Q 001613          148 ---NPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAAD--KVNESILVLHDSDLGAKE  222 (1044)
Q Consensus       148 ---~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~--~~~~~~l~~~~adin~~~  222 (1044)
                         .....+.++++.|+..+.+.++++++.+|+++...        ....+..+..++..  .....+++.+++.++..+
T Consensus       201 ~~~a~~~~~~tpl~~a~~~nri~~~eLll~~gadv~a~--------d~~gl~~lh~a~~~g~~~i~~~l~~~ga~~~~~~  272 (1143)
T KOG4177|consen  201 DPNASALNGFTPLHIACKKNRIKVVELLLKHGADVSAK--------DESGLTPLHVAAFMGHLDIVKLLLQHGASVNVST  272 (1143)
T ss_pred             CccccccCCCCchhhhccccccceeeeeeeccCcCCcc--------cccCccHHHHHHhccchhHHHHHHhcccccCccc
Confidence               11223667777788877888888888887777532        11223333333222  223455666677777776


Q ss_pred             cchhhHHHHHHHHhcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHcCCHH
Q 001613          223 KTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDED  302 (1044)
Q Consensus       223 ~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~G~~e  302 (1044)
                      .+              +.||+|.|+..+..+.              .++|++.|+++...  +....||+|+|...|+.+
T Consensus       273 vr--------------~~tplh~AA~~~~~e~--------------~~~ll~~ga~~~~~--~~~~kt~l~~a~~~g~~~  322 (1143)
T KOG4177|consen  273 VR--------------GETPLHMAARAGQVEV--------------CKLLLQNGADVLAK--ARDDQTPLHIASRLGHEE  322 (1143)
T ss_pred             cc--------------ccCcchhhhccchhhh--------------HhhhhccCcccccc--cccccChhhhhcccchHH
Confidence            66              7777777777777777              66777777776654  556666777776666666


Q ss_pred             HHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCc-------------------------ccccchHHHHHHHHhcCCe
Q 001613          303 VIEILLKSKNIDINDADADADGNSALHCALKTSMGL-------------------------SQHILQNRIVGILLKHGAI  357 (1044)
Q Consensus       303 iVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~-------------------------~~~~~~~~iVklLLe~GAd  357 (1044)
                      +++++++. ++.+  +..+..|.||||+++..+...                         +...+..+++++|+.+|++
T Consensus       323 i~~~~l~~-~~~~--~aar~~g~t~lHlaa~~~~~~~~~~l~~~~~~~~~a~~k~~~pl~la~~~g~~~~v~Lll~~ga~  399 (1143)
T KOG4177|consen  323 IVHLLLQA-GATP--NAARTAGYTPLHLAAKEGQVEVAGALLEHGAQRRQAEEKGFTPLHLAVKSGRVSVVELLLEAGAD  399 (1143)
T ss_pred             HHHHHhhc-cCCc--cccCcCCcccccHhhhhhhHHHHHHhhccccccCcccccCCcchhhhcccCchhHHHhhhhccCC
Confidence            66666666 6666  556666666666666555110                         1112267777777777777


Q ss_pred             eeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcC-CHHHHHHHHHCCCCcccccCCCCcHH
Q 001613          358 VSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND-HMVCAEVLLRWGANSEVLNLRRERPI  436 (1044)
Q Consensus       358 vn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g-~~~iVklLL~~GAdin~~d~~G~TpL  436 (1044)
                      +|..++.|.||||.|+.+++..+|+++++++++ .|..+..|.||+|+|+..| +.+++..+++.|+++|..-..|.|||
T Consensus       400 ~~~~gk~gvTplh~aa~~~~~~~v~l~l~~gA~-~~~~~~lG~T~lhvaa~~g~~~~~~~~l~~~g~~~n~~s~~G~T~L  478 (1143)
T KOG4177|consen  400 PNSAGKNGVTPLHVAAHYGNPRVVKLLLKRGAS-PNAKAKLGYTPLHVAAKKGRYLQIARLLLQYGADPNAVSKQGFTPL  478 (1143)
T ss_pred             cccCCCCCcceeeehhhccCcceEEEEeccCCC-hhhHhhcCCChhhhhhhcccHhhhhhhHhhcCCCcchhccccCcch
Confidence            777777777777777777777777777777777 7777777777788777777 77777777777777777777777888


Q ss_pred             HHHHHcChHHHHHHhhhc----CccccccchhhhhhhhcCChhhhhhHHHhhhcccCCCCccccccCCceeeeecccccC
Q 001613          437 DFAKSQDMRFLLKAANTC----HTNLAFLNQEKQNASLESDEDISGTCEALLSMVDDNSNTERICSGTKIEVCKYYESHS  512 (1044)
Q Consensus       437 h~Aa~~g~~~Ll~~~~~n----~~d~~~~~~~l~~A~~~~~~~i~~~~~~l~~~~d~~~~~~~~~~~~~~~t~L~~Aa~~  512 (1044)
                      |+|+..|+.+++..+...    ..+...+.+.++.++..+...+...      .++.+.+.  ....+.+.||||+|+..
T Consensus       479 hlaaq~Gh~~~~~llle~~~~~~~~~~~~l~~lhla~~~~~v~~~~~------l~~~ga~v--~~~~~r~~TpLh~A~~~  550 (1143)
T KOG4177|consen  479 HLAAQEGHTEVVQLLLEGGANDNLDAKKGLTPLHLAADEDTVKVAKI------LLEHGANV--DLRTGRGYTPLHVAVHY  550 (1143)
T ss_pred             hhhhccCCchHHHHhhhcCCccCccchhccchhhhhhhhhhHHHHHH------HhhcCCce--ehhcccccchHHHHHhc
Confidence            888777766655522221    2222334555566655555444332      12222222  22356677999999999


Q ss_pred             cccccccccccccccccccCCCccccccccccccccceec----cCCcccccCCCCCC---ccccCCCCcceEEEeee
Q 001613          513 GCIRGSKCFYALGEEQHRKMNPGMCMIHASTQEFKSKIFV----GGLPFFLDSDSLGG---YFEKHFGPIEDARVAEF  583 (1044)
Q Consensus       513 G~~eivk~Ll~~GAd~~~~d~~G~tpLh~aa~~~~~kifV----g~L~~~~te~~Lr~---~F~~~fG~v~~~~v~~d  583 (1044)
                      |++++||+|+++|||++.+++.|+||+|.++......|+.    .|...++.+.+...   .+.. +|.+..++.+.+
T Consensus       551 g~v~~VkfLLe~gAdv~ak~~~G~TPLH~Aa~~G~~~i~~LLlk~GA~vna~d~~g~TpL~iA~~-lg~~~~~k~l~~  627 (1143)
T KOG4177|consen  551 GNVDLVKFLLEHGADVNAKDKLGYTPLHQAAQQGHNDIAELLLKHGASVNAADLDGFTPLHIAVR-LGYLSVVKLLKV  627 (1143)
T ss_pred             CCchHHHHhhhCCccccccCCCCCChhhHHHHcChHHHHHHHHHcCCCCCcccccCcchhHHHHH-hcccchhhHHHh
Confidence            9999999999999999999999999999998544444332    33333333322211   2233 566666655443

>PHA02878 ankyrin repeat protein; Provisional

Probab=100.00  E-value=2.1e-37  Score=370.26  Aligned_cols=306  Identities=22%  Similarity=0.253  Sum_probs=247.1

Q ss_pred             HHHHHHHhcCHHHHHHHHHhhccccccccccccccccchHHHHHHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHH
Q 001613           21 LIINSLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALH  100 (1044)
Q Consensus        21 ~ll~AIl~dD~~~L~~li~~~~~~~~l~~~~~~~~~~~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH  100 (1044)
                      .+.+++..++.+.+.+.+..........  ......+.||||+||..|+.++|++|++.|    +++|.+|. .|+||||
T Consensus         3 ~~~~~~~~~~~~~i~~~i~~~~~~~~~~--~~~~~~~~tPLh~A~~~g~~e~vk~Ll~~g----advn~~d~-~g~TpLh   75 (477)
T PHA02878          3 KLYKSMYTDNYETILKYIEYIDHTENYS--TSASLIPFIPLHQAVEARNLDVVKSLLTRG----HNVNQPDH-RDLTPLH   75 (477)
T ss_pred             hHHHHHHhccHHHHHHHHHHHhhhhhhc--CcccccCcchHHHHHHcCCHHHHHHHHHCC----CCCCCCCC-CCCCHHH
Confidence            5677888888887777776532222111  122345689999999999999999999998    89999999 9999999


Q ss_pred             HHHHcCCHHHHHHHHHcCCCCCcccCCCCCchHHHHHHhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcc
Q 001613          101 LAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELD  180 (1044)
Q Consensus       101 ~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~  180 (1044)
                      +||..|+.++|++|++.+++.+.  ..+                         .++++.|+..++.+++++|+..+.+..
T Consensus        76 ~A~~~g~~~~v~~Ll~~~~~~~~--~~~-------------------------~~~l~~a~~~~~~ei~~~Ll~~~~~~~  128 (477)
T PHA02878         76 IICKEPNKLGMKEMIRSINKCSV--FYT-------------------------LVAIKDAFNNRNVEIFKIILTNRYKNI  128 (477)
T ss_pred             HHHHCccHhHHHHHHHHHhcccc--ccc-------------------------hhhHHHHHHcCCHHHHHHHHhCcccCc
Confidence            99999999999999998765443  222                         234445555667888999997754322


Q ss_pred             hHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcCCCCCcchhHH
Q 001613          181 EVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAE  260 (1044)
Q Consensus       181 ~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~  260 (1044)
                      ...       .   ...+               ..     .                 .        ..+..        
T Consensus       129 ~~~-------~---~~~~---------------~~-----~-----------------~--------~~~~~--------  145 (477)
T PHA02878        129 QTI-------D---LVYI---------------DK-----K-----------------S--------KDDII--------  145 (477)
T ss_pred             ccC-------c---HHHH---------------hh-----c-----------------c--------chhhH--------
Confidence            100       0   0000               00     0                 0        00000        


Q ss_pred             HHHhhHHHHHHHHHcCCCCCCccCCCC-CCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcc
Q 001613          261 KRKLLLLEIELLQLFGAVANGSCTDKK-VGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLS  339 (1044)
Q Consensus       261 ~~~~l~~~velLl~~GAdin~~~~d~~-G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~  339 (1044)
                          ....+++|+++|++++..  +.. |.||||+|+..|+.++|++|++. |+++  +..|..|.||||+|+..+    
T Consensus       146 ----~~~iv~~Ll~~gadin~~--~~~~g~tpLh~A~~~~~~~iv~~Ll~~-gad~--n~~d~~g~tpLh~A~~~~----  212 (477)
T PHA02878        146 ----EAEITKLLLSYGADINMK--DRHKGNTALHYATENKDQRLTELLLSY-GANV--NIPDKTNNSPLHHAVKHY----  212 (477)
T ss_pred             ----HHHHHHHHHHcCCCCCcc--CCCCCCCHHHHHHhCCCHHHHHHHHHC-CCCC--CCcCCCCCCHHHHHHHhC----
Confidence                001299999999999976  777 99999999999999999999999 9999  899999999999999999    


Q ss_pred             cccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHc-CCHHHHHHHHhcCCCCcccCCC-CCCcHHHHHHHcCCHHHHHH
Q 001613          340 QHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGS-GNSQALEDLIRKEPDCINLKTI-MMETPLFFAVKNDHMVCAEV  417 (1044)
Q Consensus       340 ~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~-g~~eiVklLL~~gad~in~~d~-~G~TpLh~Aa~~g~~~iVkl  417 (1044)
                          +.+++++|+++|++++.+|..|+||||+|+.. ++.+++++|+++|++ +|.++. .|.||||+|  .++.+++++
T Consensus       213 ----~~~iv~~Ll~~ga~in~~d~~g~TpLh~A~~~~~~~~iv~~Ll~~gad-vn~~~~~~g~TpLh~A--~~~~~~v~~  285 (477)
T PHA02878        213 ----NKPIVHILLENGASTDARDKCGNTPLHISVGYCKDYDILKLLLEHGVD-VNAKSYILGLTALHSS--IKSERKLKL  285 (477)
T ss_pred             ----CHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHhcCCHHHHHHHHHcCCC-CCccCCCCCCCHHHHH--ccCHHHHHH
Confidence                99999999999999999999999999999976 799999999999999 999886 799999999  578899999


Q ss_pred             HHHCCCCcccccCCCCcHHHHHHHcC
Q 001613          418 LLRWGANSEVLNLRRERPIDFAKSQD  443 (1044)
Q Consensus       418 LL~~GAdin~~d~~G~TpLh~Aa~~g  443 (1044)
                      |+++|||+|.+|..|.||||+|+..+
T Consensus       286 Ll~~gadin~~d~~g~TpL~~A~~~~  311 (477)
T PHA02878        286 LLEYGADINSLNSYKLTPLSSAVKQY  311 (477)
T ss_pred             HHHCCCCCCCcCCCCCCHHHHHHHHc
Confidence            99999999999999999999999864

>PHA02917 ankyrin-like protein; Provisional

Probab=100.00  E-value=6.7e-38  Score=382.98  Aligned_cols=413  Identities=13%  Similarity=0.020  Sum_probs=252.1

Q ss_pred             ccccchHHHHHHHc---CCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHcCCH----HHHHHHHHcCCCCCcccC
Q 001613           54 TAIVTKLLRVSCIF---DSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTA----RCVELLLKKRARTDIRSK  126 (1044)
Q Consensus        54 ~~~~~T~Lh~AA~~---G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~----eiVklLL~~GAdvn~~d~  126 (1044)
                      +..+.||||+||..   |+.++|++||+.|    ++++.++. .|+||||+|+..|+.    +++++|++++..+|..+.
T Consensus        29 d~~g~t~Lh~a~~~~~~~~~~~v~~Ll~~g----a~v~~~~~-~g~TpL~~Aa~~g~~~v~~~~~~~Ll~~~~~~n~~~~  103 (661)
T PHA02917         29 NQFKNNALHAYLFNEHCNNVEVVKLLLDSG----TNPLHKNW-RQLTPLEEYTNSRHVKVNKDIAMALLEATGYSNINDF  103 (661)
T ss_pred             CCCCCcHHHHHHHhhhcCcHHHHHHHHHCC----CCccccCC-CCCCHHHHHHHcCChhHHHHHHHHHHhccCCCCCCCc
Confidence            44556666666555   5566666666665    56666666 666666666666653    344556555433333221


Q ss_pred             CCCCchHHHHHHhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHH----H
Q 001613          127 DGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIV----A  202 (1044)
Q Consensus       127 ~G~T~lpLh~Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~----a  202 (1044)
                      .    +++++|+                       ..++.++|++|+++|++++...    ..|.    +.+...    .
T Consensus       104 ~----~~~~~a~-----------------------~~~~~e~vk~Ll~~Gadin~~d----~~g~----T~L~~~~a~~~  148 (661)
T PHA02917        104 N----IFSYMKS-----------------------KNVDVDLIKVLVEHGFDLSVKC----ENHR----SVIENYVMTDD  148 (661)
T ss_pred             c----hHHHHHh-----------------------hcCCHHHHHHHHHcCCCCCccC----CCCc----cHHHHHHHccC
Confidence            1    1344444                       4445555666666666555310    0111    112111    1


Q ss_pred             hhhhhhHHHHhccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHc-----------CCCCCcchhHHHHHhhHHHHHH
Q 001613          203 ADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKR-----------NSTPTTSQSAEKRKLLLLEIEL  271 (1044)
Q Consensus       203 ~~~~~~~~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~-----------g~~~~~~~~~~~~~~l~~~vel  271 (1044)
                      +.....++|+.+|++++.++....+...........+.||||+|+..           ++.++              +++
T Consensus       149 ~~~eivklLi~~Ga~vn~~d~~~~~g~~~~~~~~~~~~t~L~~a~~~~~~~~~~~~~~~~~ei--------------v~~  214 (661)
T PHA02917        149 PVPEIIDLFIENGCSVLYEDEDDEYGYAYDDYQPRNCGTVLHLYIISHLYSESDTRAYVRPEV--------------VKC  214 (661)
T ss_pred             CCHHHHHHHHHcCCCccccccccccccccccccccccccHHHHHHhhcccccccccccCcHHH--------------HHH
Confidence            12223445555555555433210000000000111257999999862           34444              999


Q ss_pred             HHHcCCCCCCccCCCCCCcHHHHHHHcCCH--HHHHHHHHcCCCCCCC--CCCCCCCchHHHHHHhcCCCcc-cccchHH
Q 001613          272 LQLFGAVANGSCTDKKVGPPLILATQAGDE--DVIEILLKSKNIDIND--ADADADGNSALHCALKTSMGLS-QHILQNR  346 (1044)
Q Consensus       272 Ll~~GAdin~~~~d~~G~TpLh~Aa~~G~~--eiVk~LL~~~gadvn~--n~~d~~G~TpLh~Aa~~g~~~~-~~~~~~~  346 (1044)
                      |+++|+++|..  |..|.||||+|+..|+.  ++|++|++  |++++.  ...|..|.||+|+|+.-+.... ....+.+
T Consensus       215 Li~~Gadvn~~--d~~G~TpLh~A~~~g~~~~eivk~Li~--g~d~~~~~~~~~~~~~~~~~~a~yl~~~~~~~~~v~~~  290 (661)
T PHA02917        215 LINHGIKPSSI--DKNYCTALQYYIKSSHIDIDIVKLLMK--GIDNTAYSYIDDLTCCTRGIMADYLNSDYRYNKDVDLD  290 (661)
T ss_pred             HHHCCCCcccC--CCCCCcHHHHHHHcCCCcHHHHHHHHh--CCcccccccccCcccccchHHHHHHHhhccccccchHH
Confidence            99999999986  99999999999999985  79999975  887721  1356778899999984221000 0022789


Q ss_pred             HHHHHHhcCCeeee-------cC------------CCCCcHHHHHH---HcCC--HHHHHHHHhcCCCCcccCCCCCCcH
Q 001613          347 IVGILLKHGAIVSQ-------QN------------KLGLTALHIAA---GSGN--SQALEDLIRKEPDCINLKTIMMETP  402 (1044)
Q Consensus       347 iVklLLe~GAdvn~-------~d------------~~G~TpLh~Aa---~~g~--~eiVklLL~~gad~in~~d~~G~Tp  402 (1044)
                      +|++|+++|++...       .+            ..+.++||.+.   ..|.  .++|++||++|++ +|.++.+|.|+
T Consensus       291 iv~~Li~~Ga~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~v~~Ll~~GAd-vn~~~~~g~~~  369 (661)
T PHA02917        291 LVKLFLENGKPHGIMCSIVPLWRNDKETISLILKTMNSDVLQHILIEYMTFGDIDIPLVECMLEYGAV-VNKEAIHGYFR  369 (661)
T ss_pred             HHHHHHhCCCCCceeEeeecccccchHHHHHHHHHhchHHHHHHHHHHHHcCCCcHHHHHHHHHcCCC-CCCCCccccch
Confidence            99999999987421       11            23445555433   4665  5699999999999 99999999986


Q ss_pred             HHHHHHcCCHHHHHHHHH-CCCCcccccCCCCcHHHHHHHcChHHHHHHhhhcCccccccchhhhhhhhcCChhhhhhHH
Q 001613          403 LFFAVKNDHMVCAEVLLR-WGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDISGTCE  481 (1044)
Q Consensus       403 Lh~Aa~~g~~~iVklLL~-~GAdin~~d~~G~TpLh~Aa~~g~~~Ll~~~~~n~~d~~~~~~~l~~A~~~~~~~i~~~~~  481 (1044)
                      .    .+.+.+++++||. .||+++.++..|+||||.|++.+...+--.   ..+. ..+......+  .+..+++   .
T Consensus       370 ~----~~~~~~~i~~LL~~~ga~~~~~~~~G~TpL~~a~~~~~~~~~~~---~~~~-~~~~~~~~~~--~~~~~~v---~  436 (661)
T PHA02917        370 N----INIDSYTMKYLLKKEGGDAVNHLDDGEIPIGHLCKSNYGCYNFY---TYTY-KKGLCDMSYA--CPILSTI---N  436 (661)
T ss_pred             h----hcCCHHHHHHHHHhcCCCccccCCCCCChhHHHHHhcccchhhh---hhhh-hhccchhhhh--hhhHHHH---H
Confidence            4    3667888888887 699988888889999999987653211100   0000 0000000000  1112222   2


Q ss_pred             HhhhcccCCCCccccccCCceeeeecccccCcccccccccccccccccccCCCccccccccc
Q 001613          482 ALLSMVDDNSNTERICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMCMIHAST  543 (1044)
Q Consensus       482 ~l~~~~d~~~~~~~~~~~~~~~t~L~~Aa~~G~~eivk~Ll~~GAd~~~~d~~G~tpLh~aa  543 (1044)
                      .++.    .+.. ....+..+.||||+|+..++.+++++|+++|+|++..+..|.||+|.+.
T Consensus       437 ~Ll~----~GAd-IN~kd~~G~TpLh~Aa~~~~~~~v~~Ll~~GAdin~~d~~G~T~L~~A~  493 (661)
T PHA02917        437 ICLP----YLKD-INMIDKRGETLLHKAVRYNKQSLVSLLLESGSDVNIRSNNGYTCIAIAI  493 (661)
T ss_pred             HHHH----CCCC-CCCCCCCCcCHHHHHHHcCCHHHHHHHHHCcCCCCCCCCCCCCHHHHHH
Confidence            2222    2211 1223566789999999999999999999999999999999999999987

>PHA02874 ankyrin repeat protein; Provisional

Probab=100.00  E-value=1.3e-36  Score=359.19  Aligned_cols=328  Identities=18%  Similarity=0.161  Sum_probs=271.3

Q ss_pred             HHHHHHHhcCHHHHHHHHHhhccccccccccccccccchHHHHHHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHH
Q 001613           21 LIINSLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALH  100 (1044)
Q Consensus        21 ~ll~AIl~dD~~~L~~li~~~~~~~~l~~~~~~~~~~~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH  100 (1044)
                      .+..|+..+|++.+..++......     .+.....+.||||+|+..|+.++|++|++.|    +++|..+. .|.||||
T Consensus         4 ~l~~ai~~gd~~~v~~ll~~~~~~-----~n~~~~~~~tpL~~A~~~g~~~iv~~Ll~~G----a~~n~~~~-~~~t~L~   73 (434)
T PHA02874          4 DLRMCIYSGDIEAIEKIIKNKGNC-----INISVDETTTPLIDAIRSGDAKIVELFIKHG----ADINHINT-KIPHPLL   73 (434)
T ss_pred             HHHHHHhcCCHHHHHHHHHcCCCC-----CCCcCCCCCCHHHHHHHcCCHHHHHHHHHCC----CCCCCCCC-CCCCHHH
Confidence            567899999999998888754332     1223456789999999999999999999998    89999999 9999999


Q ss_pred             HHHHcCCHHHHHHHHHcCCCCCcccCCCCCchHHHHHHhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcc
Q 001613          101 LAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELD  180 (1044)
Q Consensus       101 ~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~  180 (1044)
                      +|+..|+.++|++|+++|++++.........-.+.+....| .+ +...+..+.|+||.|+..|+.+++++|+++|++++
T Consensus        74 ~A~~~~~~~iv~~Ll~~g~~~~~~~~~~~~~~~i~~ll~~g-~d-~n~~~~~g~T~Lh~A~~~~~~~~v~~Ll~~gad~n  151 (434)
T PHA02874         74 TAIKIGAHDIIKLLIDNGVDTSILPIPCIEKDMIKTILDCG-ID-VNIKDAELKTFLHYAIKKGDLESIKMLFEYGADVN  151 (434)
T ss_pred             HHHHcCCHHHHHHHHHCCCCCCcchhccCCHHHHHHHHHCc-CC-CCCCCCCCccHHHHHHHCCCHHHHHHHHhCCCCCC
Confidence            99999999999999999998764332222211222222222 11 12345568889999999999999999999887764


Q ss_pred             hHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcCCCCCcchhHH
Q 001613          181 EVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAE  260 (1044)
Q Consensus       181 ~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~  260 (1044)
                      .                                       .+..              |.||||+|+..++.++      
T Consensus       152 ~---------------------------------------~d~~--------------g~tpLh~A~~~~~~~i------  172 (434)
T PHA02874        152 I---------------------------------------EDDN--------------GCYPIHIAIKHNFFDI------  172 (434)
T ss_pred             C---------------------------------------cCCC--------------CCCHHHHHHHCCcHHH------
Confidence            2                                       2222              8999999999999888      


Q ss_pred             HHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCccc
Q 001613          261 KRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQ  340 (1044)
Q Consensus       261 ~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~  340 (1044)
                              +++|++.|++++..  +..|.||||+|+..|+.++|++|++. |+++  +..+..|.||||+|+..+     
T Consensus       173 --------v~~Ll~~g~~~n~~--~~~g~tpL~~A~~~g~~~iv~~Ll~~-g~~i--~~~~~~g~TpL~~A~~~~-----  234 (434)
T PHA02874        173 --------IKLLLEKGAYANVK--DNNGESPLHNAAEYGDYACIKLLIDH-GNHI--MNKCKNGFTPLHNAIIHN-----  234 (434)
T ss_pred             --------HHHHHHCCCCCCCC--CCCCCCHHHHHHHcCCHHHHHHHHhC-CCCC--cCCCCCCCCHHHHHHHCC-----
Confidence                    99999999999876  89999999999999999999999999 9999  889999999999999876     


Q ss_pred             ccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcC-CHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcC-CHHHHHHH
Q 001613          341 HILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSG-NSQALEDLIRKEPDCINLKTIMMETPLFFAVKND-HMVCAEVL  418 (1044)
Q Consensus       341 ~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g-~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g-~~~iVklL  418 (1044)
                         . +++++|+ .|++++.+|..|+||||+|+..+ +.+++++|+++|++ +|.+|..|.||||+|++++ ..++++.|
T Consensus       235 ---~-~~i~~Ll-~~~~in~~d~~G~TpLh~A~~~~~~~~iv~~Ll~~gad-~n~~d~~g~TpL~~A~~~~~~~~~ik~l  308 (434)
T PHA02874        235 ---R-SAIELLI-NNASINDQDIDGSTPLHHAINPPCDIDIIDILLYHKAD-ISIKDNKGENPIDTAFKYINKDPVIKDI  308 (434)
T ss_pred             ---h-HHHHHHH-cCCCCCCcCCCCCCHHHHHHhcCCcHHHHHHHHHCcCC-CCCCCCCCCCHHHHHHHhCCccHHHHHH
Confidence               3 5667776 68999999999999999999876 78999999999999 9999999999999999987 78899999


Q ss_pred             HHCCCCcccccCCC-CcHHHHHHHcC
Q 001613          419 LRWGANSEVLNLRR-ERPIDFAKSQD  443 (1044)
Q Consensus       419 L~~GAdin~~d~~G-~TpLh~Aa~~g  443 (1044)
                      +..++.++..+..+ .+++..+...+
T Consensus       309 l~~~~~~~~~~~~~~~~~~~~~~i~~  334 (434)
T PHA02874        309 IANAVLIKEADKLKDSDFLEHIEIKD  334 (434)
T ss_pred             HHhcCchhhccccchhHHHHHHHHhc
Confidence            99999887766555 45566665544

>PHA03095 ankyrin-like protein; Provisional

Probab=100.00  E-value=3.6e-37  Score=367.49  Aligned_cols=303  Identities=23%  Similarity=0.228  Sum_probs=261.9

Q ss_pred             hHHHHHHHHHhcCHHHHHHHHHhhccccccccccccccccchHHHHHHHcC---CHHHHHHHHhCCCCCccccccccCCC
Q 001613           18 ETTLIINSLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIFD---SVSCATSLVNGDLGPVALVNEVEESS   94 (1044)
Q Consensus        18 e~~~ll~AIl~dD~~~L~~li~~~~~~~~l~~~~~~~~~~~T~Lh~AA~~G---~~eivk~LL~~g~~~~adiN~~d~~~   94 (1044)
                      ++...+.+..+.+++.++.++..+...      +..+..+.||||+|+..|   +.+++++|++.|    +++|.++. .
T Consensus        14 ~l~~~~~~~~~~~~~~v~~Ll~~ga~v------n~~~~~g~t~Lh~a~~~~~~~~~~iv~~Ll~~G----adin~~~~-~   82 (471)
T PHA03095         14 ALYDYLLNASNVTVEEVRRLLAAGADV------NFRGEYGKTPLHLYLHYSSEKVKDIVRLLLEAG----ADVNAPER-C   82 (471)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHcCCCc------ccCCCCCCCHHHHHHHhcCCChHHHHHHHHHCC----CCCCCCCC-C
Confidence            344445556668888888888765432      224456799999999999   999999999999    99999999 9


Q ss_pred             CChHHHHHHHcC-CHHHHHHHHHcCCCCCcccCCCCCchHHHHHHhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHH
Q 001613           95 GMTALHLAAESH-TARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLS  173 (1044)
Q Consensus        95 G~TpLH~Aa~~G-~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl  173 (1044)
                      |.||||+|+..| +.+++++|+++|++++..+..|.|  |||+|+...                     .++.+++++|+
T Consensus        83 g~TpLh~A~~~~~~~~iv~lLl~~ga~in~~~~~g~t--pLh~a~~~~---------------------~~~~~iv~~Ll  139 (471)
T PHA03095         83 GFTPLHLYLYNATTLDVIKLLIKAGADVNAKDKVGRT--PLHVYLSGF---------------------NINPKVIRLLL  139 (471)
T ss_pred             CCCHHHHHHHcCCcHHHHHHHHHcCCCCCCCCCCCCC--HHHHHhhCC---------------------cCCHHHHHHHH
Confidence            999999999999 599999999999999999999999  999988433                     24578899999


Q ss_pred             HcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcCCCC
Q 001613          174 QKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTP  253 (1044)
Q Consensus       174 ~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~  253 (1044)
                      ++|++++.                                       .+..              |.||||+|+..+...
T Consensus       140 ~~gad~~~---------------------------------------~d~~--------------g~tpL~~a~~~~~~~  166 (471)
T PHA03095        140 RKGADVNA---------------------------------------LDLY--------------GMTPLAVLLKSRNAN  166 (471)
T ss_pred             HcCCCCCc---------------------------------------cCCC--------------CCCHHHHHHHcCCCC
Confidence            99987653                                       2222              899999999887432


Q ss_pred             CcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHc--CCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHH
Q 001613          254 TTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQA--GDEDVIEILLKSKNIDINDADADADGNSALHCA  331 (1044)
Q Consensus       254 ~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~--G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~A  331 (1044)
                      .            ..+++|++.|++++..  |..|.||||+|+..  ++.+++++|++. |+++  +.+|..|.||||+|
T Consensus       167 ~------------~iv~~Ll~~g~~~~~~--d~~g~t~Lh~~~~~~~~~~~i~~~Ll~~-g~~~--~~~d~~g~tpLh~A  229 (471)
T PHA03095        167 V------------ELLRLLIDAGADVYAV--DDRFRSLLHHHLQSFKPRARIVRELIRA-GCDP--AATDMLGNTPLHSM  229 (471)
T ss_pred             H------------HHHHHHHHcCCCCccc--CCCCCCHHHHHHHHCCCcHHHHHHHHHc-CCCC--cccCCCCCCHHHHH
Confidence            2            2399999999999876  89999999999975  788999999999 9999  89999999999999


Q ss_pred             HhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCC
Q 001613          332 LKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDH  411 (1044)
Q Consensus       332 a~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~  411 (1044)
                      +..|.      ....+++.|+++|+++|.+|..|+||||+|+..|+.++|++||++|++ +|.+|..|+||||+|+.+|+
T Consensus       230 a~~~~------~~~~~v~~ll~~g~din~~d~~g~TpLh~A~~~~~~~~v~~LL~~gad-~n~~~~~g~tpl~~A~~~~~  302 (471)
T PHA03095        230 ATGSS------CKRSLVLPLLIAGISINARNRYGQTPLHYAAVFNNPRACRRLIALGAD-INAVSSDGNTPLSLMVRNNN  302 (471)
T ss_pred             HhcCC------chHHHHHHHHHcCCCCCCcCCCCCCHHHHHHHcCCHHHHHHHHHcCCC-CcccCCCCCCHHHHHHHhCC
Confidence            99882      135789999999999999999999999999999999999999999999 99999999999999999999


Q ss_pred             HHHHHHHHHCCCCcccccCC
Q 001613          412 MVCAEVLLRWGANSEVLNLR  431 (1044)
Q Consensus       412 ~~iVklLL~~GAdin~~d~~  431 (1044)
                      .+++++|+++|++++..+..
T Consensus       303 ~~~v~~LL~~~~~~~~~~~~  322 (471)
T PHA03095        303 GRAVRAALAKNPSAETVAAT  322 (471)
T ss_pred             HHHHHHHHHhCCCHHHHHHH
Confidence            99999999999998765543

>PHA02917 ankyrin-like protein; Provisional

Probab=100.00  E-value=4.4e-37  Score=375.85  Aligned_cols=402  Identities=12%  Similarity=0.054  Sum_probs=294.3

Q ss_pred             CChhHHHHHHHHHh---cCHHHHHHHHHhhccccccccccccccccchHHHHHHHcCCHH----HHHHHHhCCCCCcccc
Q 001613           15 TDLETTLIINSLLE---DDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIFDSVS----CATSLVNGDLGPVALV   87 (1044)
Q Consensus        15 ~d~e~~~ll~AIl~---dD~~~L~~li~~~~~~~~l~~~~~~~~~~~T~Lh~AA~~G~~e----ivk~LL~~g~~~~adi   87 (1044)
                      +...-++|.-|...   ++.+.+..++..+...      ...+..+.||||+|+..|+.+    +++.|++.+    ..+
T Consensus        29 d~~g~t~Lh~a~~~~~~~~~~~v~~Ll~~ga~v------~~~~~~g~TpL~~Aa~~g~~~v~~~~~~~Ll~~~----~~~   98 (661)
T PHA02917         29 NQFKNNALHAYLFNEHCNNVEVVKLLLDSGTNP------LHKNWRQLTPLEEYTNSRHVKVNKDIAMALLEAT----GYS   98 (661)
T ss_pred             CCCCCcHHHHHHHhhhcCcHHHHHHHHHCCCCc------cccCCCCCCHHHHHHHcCChhHHHHHHHHHHhcc----CCC
Confidence            44556688888777   6788887777655432      234567899999999999955    567888764    224


Q ss_pred             ccccCCCCChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCchHHHHHHhCCCcceecCCCCCchhHHHHHHhcCCHH
Q 001613           88 NEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLT  167 (1044)
Q Consensus        88 N~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~~e  167 (1044)
                      |..+.   .+++|+|+.+|+.++|++||++|||+|.+|.+|+|  |||+|+.                     +..|+.+
T Consensus        99 n~~~~---~~~~~~a~~~~~~e~vk~Ll~~Gadin~~d~~g~T--~L~~~~a---------------------~~~~~~e  152 (661)
T PHA02917         99 NINDF---NIFSYMKSKNVDVDLIKVLVEHGFDLSVKCENHRS--VIENYVM---------------------TDDPVPE  152 (661)
T ss_pred             CCCCc---chHHHHHhhcCCHHHHHHHHHcCCCCCccCCCCcc--HHHHHHH---------------------ccCCCHH
Confidence            44333   37788899999999999999999999999999999  7775432                     2345688


Q ss_pred             HHHHHHHcCCCcchHHHHhhhcC-------cHHHHHHHHHHHh-------------hhhhhHHHHhccCCCcccccchhh
Q 001613          168 TVKLLSQKTKELDEVAYANAVGG-------RIVALAALLIVAA-------------DKVNESILVLHDSDLGAKEKTTIY  227 (1044)
Q Consensus       168 ivklLl~~gadi~~~~~~~a~~g-------~~~~l~~ll~~a~-------------~~~~~~~l~~~~adin~~~~~~~~  227 (1044)
                      ++++|+++|++++..... ...|       .....+.++.+..             .....++|+.+|+++|.++..   
T Consensus       153 ivklLi~~Ga~vn~~d~~-~~~g~~~~~~~~~~~~t~L~~a~~~~~~~~~~~~~~~~~eiv~~Li~~Gadvn~~d~~---  228 (661)
T PHA02917        153 IIDLFIENGCSVLYEDED-DEYGYAYDDYQPRNCGTVLHLYIISHLYSESDTRAYVRPEVVKCLINHGIKPSSIDKN---  228 (661)
T ss_pred             HHHHHHHcCCCccccccc-cccccccccccccccccHHHHHHhhcccccccccccCcHHHHHHHHHCCCCcccCCCC---
Confidence            899999999998632100 0001       0011133333321             223467888899999999887   


Q ss_pred             HHHHHHHHhcCCchHHHHHHHcCCCC--CcchhHHHHHhhHHHHHHHHHcCCCCCCc--cCCCCCCcHHHHHHHc-----
Q 001613          228 ECVIREALALGRATKLQRAVKRNSTP--TTSQSAEKRKLLLLEIELLQLFGAVANGS--CTDKKVGPPLILATQA-----  298 (1044)
Q Consensus       228 ~~~i~~a~~~gg~t~L~~A~~~g~~~--~~~~~~~~~~~l~~~velLl~~GAdin~~--~~d~~G~TpLh~Aa~~-----  298 (1044)
                                 |.||||+|+.+|+.+  +              |++|+. |++++..  ..|..|.+|+|+|+..     
T Consensus       229 -----------G~TpLh~A~~~g~~~~ei--------------vk~Li~-g~d~~~~~~~~~~~~~~~~~~a~yl~~~~~  282 (661)
T PHA02917        229 -----------YCTALQYYIKSSHIDIDI--------------VKLLMK-GIDNTAYSYIDDLTCCTRGIMADYLNSDYR  282 (661)
T ss_pred             -----------CCcHHHHHHHcCCCcHHH--------------HHHHHh-CCcccccccccCcccccchHHHHHHHhhcc
Confidence                       999999999999864  5              899875 8877531  2367788999999942     


Q ss_pred             ----CCHHHHHHHHHcCCCCCCC-----CCC------------CCCCchHHHHHHh---cCCCcccccchHHHHHHHHhc
Q 001613          299 ----GDEDVIEILLKSKNIDIND-----ADA------------DADGNSALHCALK---TSMGLSQHILQNRIVGILLKH  354 (1044)
Q Consensus       299 ----G~~eiVk~LL~~~gadvn~-----n~~------------d~~G~TpLh~Aa~---~g~~~~~~~~~~~iVklLLe~  354 (1044)
                          .+.++|++||+. |++.+.     +..            ...+.++||.+..   .|      ....++|++|+++
T Consensus       283 ~~~~v~~~iv~~Li~~-Ga~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g------~~~~~~v~~Ll~~  355 (661)
T PHA02917        283 YNKDVDLDLVKLFLEN-GKPHGIMCSIVPLWRNDKETISLILKTMNSDVLQHILIEYMTFG------DIDIPLVECMLEY  355 (661)
T ss_pred             ccccchHHHHHHHHhC-CCCCceeEeeecccccchHHHHHHHHHhchHHHHHHHHHHHHcC------CCcHHHHHHHHHc
Confidence                278999999999 887521     111            2234455555443   44      1146799999999


Q ss_pred             CCeeeecCCCCCcHHHHHHHcCCHHHHHHHHh-cCCCCcccCCCCCCcHHHHHHHcC-----------------------
Q 001613          355 GAIVSQQNKLGLTALHIAAGSGNSQALEDLIR-KEPDCINLKTIMMETPLFFAVKND-----------------------  410 (1044)
Q Consensus       355 GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~-~gad~in~~d~~G~TpLh~Aa~~g-----------------------  410 (1044)
                      ||++|.++..|.|+.    ...+.+++++||. .|++ ++..+.+|+||||.|++.+                       
T Consensus       356 GAdvn~~~~~g~~~~----~~~~~~~i~~LL~~~ga~-~~~~~~~G~TpL~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  430 (661)
T PHA02917        356 GAVVNKEAIHGYFRN----INIDSYTMKYLLKKEGGD-AVNHLDDGEIPIGHLCKSNYGCYNFYTYTYKKGLCDMSYACP  430 (661)
T ss_pred             CCCCCCCCccccchh----hcCCHHHHHHHHHhcCCC-ccccCCCCCChhHHHHHhcccchhhhhhhhhhccchhhhhhh
Confidence            999999999999854    3667889998887 5777 6666778999999998543                       


Q ss_pred             CHHHHHHHHHCCCCcccccCCCCcHHHHHHHcChHHHHHHhhhcCccccccchhhhhhhhcCChhhhhhHHHhhhcccCC
Q 001613          411 HMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDISGTCEALLSMVDDN  490 (1044)
Q Consensus       411 ~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~Ll~~~~~n~~d~~~~~~~l~~A~~~~~~~i~~~~~~l~~~~d~~  490 (1044)
                      ..+++++|+.+|||+|.+|..|+||||+|+..+...+++.+-....+.                                
T Consensus       431 ~~~~v~~Ll~~GAdIN~kd~~G~TpLh~Aa~~~~~~~v~~Ll~~GAdi--------------------------------  478 (661)
T PHA02917        431 ILSTINICLPYLKDINMIDKRGETLLHKAVRYNKQSLVSLLLESGSDV--------------------------------  478 (661)
T ss_pred             hHHHHHHHHHCCCCCCCCCCCCcCHHHHHHHcCCHHHHHHHHHCcCCC--------------------------------
Confidence            356889999999999999999999999999998777666443333221                                


Q ss_pred             CCccccccCCceeeeeccccc-Cccccccccccccccccccc
Q 001613          491 SNTERICSGTKIEVCKYYESH-SGCIRGSKCFYALGEEQHRK  531 (1044)
Q Consensus       491 ~~~~~~~~~~~~~t~L~~Aa~-~G~~eivk~Ll~~GAd~~~~  531 (1044)
                           ...+..+.||||+|+. .++.+++++|+++|++++..
T Consensus       479 -----n~~d~~G~T~L~~A~~~~~~~~iv~~LL~~ga~i~~i  515 (661)
T PHA02917        479 -----NIRSNNGYTCIAIAINESRNIELLKMLLCHKPTLDCV  515 (661)
T ss_pred             -----CCCCCCCCCHHHHHHHhCCCHHHHHHHHHcCCChhHH
Confidence                 1123456789999995 78999999999999998643

>KOG4177 consensus Ankyrin [Cell wall/membrane/envelope biogenesis]

Probab=100.00  E-value=2.2e-38  Score=389.68  Aligned_cols=425  Identities=23%  Similarity=0.235  Sum_probs=303.2

Q ss_pred             cccccchHHHHHHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCch
Q 001613           53 QTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLL  132 (1044)
Q Consensus        53 ~~~~~~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~l  132 (1044)
                      .+..+.||||.||.++.++++++|+.+|    +++...|. .|.||||.|+..|+++++.+|+.+||.++..+..|.|  
T Consensus       205 ~~~~~~tpl~~a~~~nri~~~eLll~~g----adv~a~d~-~gl~~lh~a~~~g~~~i~~~l~~~ga~~~~~~vr~~t--  277 (1143)
T KOG4177|consen  205 SALNGFTPLHIACKKNRIKVVELLLKHG----ADVSAKDE-SGLTPLHVAAFMGHLDIVKLLLQHGASVNVSTVRGET--  277 (1143)
T ss_pred             cccCCCCchhhhccccccceeeeeeecc----CcCCcccc-cCccHHHHHHhccchhHHHHHHhcccccCcccccccC--
Confidence            4456799999999999999999999998    99999999 9999999999999999999999999999999999999  


Q ss_pred             HHHHHHhCCCcceec----------CCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHH
Q 001613          133 PLELSLSSSRMDVIW----------NPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVA  202 (1044)
Q Consensus       133 pLh~Aa~~g~~eIv~----------~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a  202 (1044)
                      |||+|+..+..++..          .......++++.|...|..++++++++.++.++.-.        ......+...+
T Consensus       278 plh~AA~~~~~e~~~~ll~~ga~~~~~~~~~kt~l~~a~~~g~~~i~~~~l~~~~~~~aar--------~~g~t~lHlaa  349 (1143)
T KOG4177|consen  278 PLHMAARAGQVEVCKLLLQNGADVLAKARDDQTPLHIASRLGHEEIVHLLLQAGATPNAAR--------TAGYTPLHLAA  349 (1143)
T ss_pred             cchhhhccchhhhHhhhhccCcccccccccccChhhhhcccchHHHHHHHhhccCCccccC--------cCCcccccHhh
Confidence            999999999998874          233447899999999999999999999988775321        11112222222


Q ss_pred             hhhhh--hHHHHhccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCC
Q 001613          203 ADKVN--ESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVAN  280 (1044)
Q Consensus       203 ~~~~~--~~~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin  280 (1044)
                      .....  ..++..++..-.....              .+.+++|.|+..+..+.              +++|+..|+++|
T Consensus       350 ~~~~~~~~~~l~~~~~~~~~a~~--------------k~~~pl~la~~~g~~~~--------------v~Lll~~ga~~~  401 (1143)
T KOG4177|consen  350 KEGQVEVAGALLEHGAQRRQAEE--------------KGFTPLHLAVKSGRVSV--------------VELLLEAGADPN  401 (1143)
T ss_pred             hhhhHHHHHHhhccccccCcccc--------------cCCcchhhhcccCchhH--------------HHhhhhccCCcc
Confidence            22111  1222223333332222              37788888888887777              777787887766


Q ss_pred             CccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeee
Q 001613          281 GSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQ  360 (1044)
Q Consensus       281 ~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~  360 (1044)
                      ..  ++.|.||||.|+..++..+|+.+++. |++.  +..+..|.||+|+|+..|.       ..++...+++.|+++|.
T Consensus       402 ~~--gk~gvTplh~aa~~~~~~~v~l~l~~-gA~~--~~~~~lG~T~lhvaa~~g~-------~~~~~~~l~~~g~~~n~  469 (1143)
T KOG4177|consen  402 SA--GKNGVTPLHVAAHYGNPRVVKLLLKR-GASP--NAKAKLGYTPLHVAAKKGR-------YLQIARLLLQYGADPNA  469 (1143)
T ss_pred             cC--CCCCcceeeehhhccCcceEEEEecc-CCCh--hhHhhcCCChhhhhhhccc-------HhhhhhhHhhcCCCcch
Confidence            65  77778888888888888888888877 7777  7777777888888877761       56677777777777777


Q ss_pred             cCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHH
Q 001613          361 QNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAK  440 (1044)
Q Consensus       361 ~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa  440 (1044)
                      ....|.||||+|+..|+.++++.|++.++. .+.....|-|+||.|...++..+++.|+++|++++.++..|.||||+|+
T Consensus       470 ~s~~G~T~Lhlaaq~Gh~~~~~llle~~~~-~~~~~~~~l~~lhla~~~~~v~~~~~l~~~ga~v~~~~~r~~TpLh~A~  548 (1143)
T KOG4177|consen  470 VSKQGFTPLHLAAQEGHTEVVQLLLEGGAN-DNLDAKKGLTPLHLAADEDTVKVAKILLEHGANVDLRTGRGYTPLHVAV  548 (1143)
T ss_pred             hccccCcchhhhhccCCchHHHHhhhcCCc-cCccchhccchhhhhhhhhhHHHHHHHhhcCCceehhcccccchHHHHH
Confidence            777777777777777777777777777766 6677777777777777777777777777777777777777777777777


Q ss_pred             HcChHHHHH-----HhhhcCccccccchhhhhhhhcCChhhhhhHHHhhhcccCCCCccccccCCceeeeecccccCccc
Q 001613          441 SQDMRFLLK-----AANTCHTNLAFLNQEKQNASLESDEDISGTCEALLSMVDDNSNTERICSGTKIEVCKYYESHSGCI  515 (1044)
Q Consensus       441 ~~g~~~Ll~-----~~~~n~~d~~~~~~~l~~A~~~~~~~i~~~~~~l~~~~d~~~~~~~~~~~~~~~t~L~~Aa~~G~~  515 (1044)
                      ..|+..+++     +++++..+ ..+.+|+|.|+..++.++++++-.....        .++.+-++.|||+.|+..|++
T Consensus       549 ~~g~v~~VkfLLe~gAdv~ak~-~~G~TPLH~Aa~~G~~~i~~LLlk~GA~--------vna~d~~g~TpL~iA~~lg~~  619 (1143)
T KOG4177|consen  549 HYGNVDLVKFLLEHGADVNAKD-KLGYTPLHQAAQQGHNDIAELLLKHGAS--------VNAADLDGFTPLHIAVRLGYL  619 (1143)
T ss_pred             hcCCchHHHHhhhCCccccccC-CCCCChhhHHHHcChHHHHHHHHHcCCC--------CCcccccCcchhHHHHHhccc
Confidence            777555555     44444444 4445555555555555554432211111        122344556677777777777


Q ss_pred             cccccccccccc-----ccccCCCcccccccc
Q 001613          516 RGSKCFYALGEE-----QHRKMNPGMCMIHAS  542 (1044)
Q Consensus       516 eivk~Ll~~GAd-----~~~~d~~G~tpLh~a  542 (1044)
                      ++++.|+..+++     .......|.+|....
T Consensus       620 ~~~k~l~~~~~~~~~~~~~~e~~~g~~p~~v~  651 (1143)
T KOG4177|consen  620 SVVKLLKVVTATPAATDPVKENRKGAVPEDVA  651 (1143)
T ss_pred             chhhHHHhccCccccccchhhhhcccChhhHH
Confidence            777777777777     455555555555443

>PHA03100 ankyrin repeat protein; Provisional

Probab=100.00  E-value=8.1e-37  Score=365.40  Aligned_cols=265  Identities=23%  Similarity=0.290  Sum_probs=245.3

Q ss_pred             ccccchHHHHHHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHHH-----HHHcCCHHHHHHHHHcCCCCCcccCCC
Q 001613           54 TAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHL-----AAESHTARCVELLLKKRARTDIRSKDG  128 (1044)
Q Consensus        54 ~~~~~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~-----Aa~~G~~eiVklLL~~GAdvn~~d~~G  128 (1044)
                      ...+.||||+|+..|+.++|++|++.|    +++|..+. .|.||||+     |+..|+.++|++|+++|++++..+..|
T Consensus        32 ~~~~~t~L~~A~~~~~~~ivk~Ll~~g----~~~~~~~~-~~~t~L~~~~~~~a~~~~~~~iv~~Ll~~ga~i~~~d~~g  106 (480)
T PHA03100         32 YKKPVLPLYLAKEARNIDVVKILLDNG----ADINSSTK-NNSTPLHYLSNIKYNLTDVKEIVKLLLEYGANVNAPDNNG  106 (480)
T ss_pred             hcccchhhhhhhccCCHHHHHHHHHcC----CCCCCccc-cCcCHHHHHHHHHHHhhchHHHHHHHHHCCCCCCCCCCCC
Confidence            456689999999999999999999998    89999999 99999999     999999999999999999999999999


Q ss_pred             CCchHHHHHH--hCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhh
Q 001613          129 RRLLPLELSL--SSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKV  206 (1044)
Q Consensus       129 ~T~lpLh~Aa--~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~  206 (1044)
                      .|  |||+|+  ..                       |+.+++++|+++|++++.                         
T Consensus       107 ~t--pL~~A~~~~~-----------------------~~~~iv~~Ll~~g~~~~~-------------------------  136 (480)
T PHA03100        107 IT--PLLYAISKKS-----------------------NSYSIVEYLLDNGANVNI-------------------------  136 (480)
T ss_pred             Cc--hhhHHHhccc-----------------------ChHHHHHHHHHcCCCCCc-------------------------
Confidence            88  888887  44                       457789999999887642                         


Q ss_pred             hhHHHHhccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcC--CCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccC
Q 001613          207 NESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRN--STPTTSQSAEKRKLLLLEIELLQLFGAVANGSCT  284 (1044)
Q Consensus       207 ~~~~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g--~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~  284 (1044)
                                    .+.              .|.||||+|+..+  +.++              +++|+++|++++..  
T Consensus       137 --------------~~~--------------~g~t~L~~A~~~~~~~~~i--------------v~~Ll~~g~din~~--  172 (480)
T PHA03100        137 --------------KNS--------------DGENLLHLYLESNKIDLKI--------------LKLLIDKGVDINAK--  172 (480)
T ss_pred             --------------cCC--------------CCCcHHHHHHHcCCChHHH--------------HHHHHHCCCCcccc--
Confidence                          222              2899999999999  7777              99999999999876  


Q ss_pred             CCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCC------chHHHHHHhcCCCcccccch--HHHHHHHHhcCC
Q 001613          285 DKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADG------NSALHCALKTSMGLSQHILQ--NRIVGILLKHGA  356 (1044)
Q Consensus       285 d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G------~TpLh~Aa~~g~~~~~~~~~--~~iVklLLe~GA  356 (1044)
                      +..|.||||+|+..|+.+++++|++. |+++  +..+..|      .||||+|+..+        +  .+++++|+++|+
T Consensus       173 d~~g~tpL~~A~~~~~~~iv~~Ll~~-ga~~--~~~~~~~~~~~~~~t~l~~a~~~~--------~~~~~iv~~Ll~~g~  241 (480)
T PHA03100        173 NRYGYTPLHIAVEKGNIDVIKFLLDN-GADI--NAGDIETLLFTIFETPLHIAACYN--------EITLEVVNYLLSYGV  241 (480)
T ss_pred             cCCCCCHHHHHHHhCCHHHHHHHHHc-CCCc--cCCCCCCCcHHHHHhHHHHHHHhC--------cCcHHHHHHHHHcCC
Confidence            78999999999999999999999999 9999  8888888      99999999999        7  999999999999


Q ss_pred             eeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCccccc
Q 001613          357 IVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLN  429 (1044)
Q Consensus       357 dvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d  429 (1044)
                      ++|.+|..|.||||+|+..|+.+++++|+++|++ +|.+|..|.||||+|+.+++.+++++|+++|++++..+
T Consensus       242 din~~d~~g~TpL~~A~~~~~~~iv~~Ll~~gad-~n~~d~~g~tpl~~A~~~~~~~iv~~Ll~~g~~i~~i~  313 (480)
T PHA03100        242 PINIKDVYGFTPLHYAVYNNNPEFVKYLLDLGAN-PNLVNKYGDTPLHIAILNNNKEIFKLLLNNGPSIKTII  313 (480)
T ss_pred             CCCCCCCCCCCHHHHHHHcCCHHHHHHHHHcCCC-CCccCCCCCcHHHHHHHhCCHHHHHHHHhcCCCHHHHH
Confidence            9999999999999999999999999999999998 99999999999999999999999999999999998755

>PHA03100 ankyrin repeat protein; Provisional

Probab=100.00  E-value=1.4e-36  Score=363.23  Aligned_cols=284  Identities=24%  Similarity=0.269  Sum_probs=254.0

Q ss_pred             CCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCchHHHHHHhCCCcceec
Q 001613           68 DSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIW  147 (1044)
Q Consensus        68 G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa~~g~~eIv~  147 (1044)
                      ...+++++|++.+    ...+..+. .+.||||+|+..|+.++|++||++|++++..+.+|.|  |||++...       
T Consensus        13 ~~~~~~~~~~~~~----~~~~~~~~-~~~t~L~~A~~~~~~~ivk~Ll~~g~~~~~~~~~~~t--~L~~~~~~-------   78 (480)
T PHA03100         13 IKVKNIKYIIMED----DLNDYSYK-KPVLPLYLAKEARNIDVVKILLDNGADINSSTKNNST--PLHYLSNI-------   78 (480)
T ss_pred             HHHHHHHHHHhcC----ccchhhhc-ccchhhhhhhccCCHHHHHHHHHcCCCCCCccccCcC--HHHHHHHH-------
Confidence            4557888888775    44556666 9999999999999999999999999999999999988  88873221       


Q ss_pred             CCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCCCcccccchhh
Q 001613          148 NPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIY  227 (1044)
Q Consensus       148 ~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~adin~~~~~~~~  227 (1044)
                                 .|+..++.+++++|+++|++++.                                       .+.    
T Consensus        79 -----------~a~~~~~~~iv~~Ll~~ga~i~~---------------------------------------~d~----  104 (480)
T PHA03100         79 -----------KYNLTDVKEIVKLLLEYGANVNA---------------------------------------PDN----  104 (480)
T ss_pred             -----------HHHhhchHHHHHHHHHCCCCCCC---------------------------------------CCC----
Confidence                       14555678889999999987742                                       222    


Q ss_pred             HHHHHHHHhcCCchHHHHHH--HcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHcC--CHHH
Q 001613          228 ECVIREALALGRATKLQRAV--KRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAG--DEDV  303 (1044)
Q Consensus       228 ~~~i~~a~~~gg~t~L~~A~--~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~G--~~ei  303 (1044)
                                .|.||||+|+  ..|+.++              +++|++.|++++..  +..|.||||+|+..|  +.++
T Consensus       105 ----------~g~tpL~~A~~~~~~~~~i--------------v~~Ll~~g~~~~~~--~~~g~t~L~~A~~~~~~~~~i  158 (480)
T PHA03100        105 ----------NGITPLLYAISKKSNSYSI--------------VEYLLDNGANVNIK--NSDGENLLHLYLESNKIDLKI  158 (480)
T ss_pred             ----------CCCchhhHHHhcccChHHH--------------HHHHHHcCCCCCcc--CCCCCcHHHHHHHcCCChHHH
Confidence                      2899999999  9999888              99999999999875  889999999999999  9999


Q ss_pred             HHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCC------CcHHHHHHHcCC
Q 001613          304 IEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLG------LTALHIAAGSGN  377 (1044)
Q Consensus       304 Vk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G------~TpLh~Aa~~g~  377 (1044)
                      +++|+++ |+++  +.++..|.||||+|+..|        +.+++++|+++|++++..+..|      .||||+|+..|+
T Consensus       159 v~~Ll~~-g~di--n~~d~~g~tpL~~A~~~~--------~~~iv~~Ll~~ga~~~~~~~~~~~~~~~~t~l~~a~~~~~  227 (480)
T PHA03100        159 LKLLIDK-GVDI--NAKNRYGYTPLHIAVEKG--------NIDVIKFLLDNGADINAGDIETLLFTIFETPLHIAACYNE  227 (480)
T ss_pred             HHHHHHC-CCCc--ccccCCCCCHHHHHHHhC--------CHHHHHHHHHcCCCccCCCCCCCcHHHHHhHHHHHHHhCc
Confidence            9999999 9999  889999999999999999        9999999999999999999999      999999999999


Q ss_pred             --HHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHHcChHHHHHHhhhcC
Q 001613          378 --SQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCH  455 (1044)
Q Consensus       378 --~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~Ll~~~~~n~  455 (1044)
                        .+++++|+++|++ +|.+|..|.||||+|+..|+.+++++|+++|||++.+|..|.||||+|+..+..++++.+....
T Consensus       228 ~~~~iv~~Ll~~g~d-in~~d~~g~TpL~~A~~~~~~~iv~~Ll~~gad~n~~d~~g~tpl~~A~~~~~~~iv~~Ll~~g  306 (480)
T PHA03100        228 ITLEVVNYLLSYGVP-INIKDVYGFTPLHYAVYNNNPEFVKYLLDLGANPNLVNKYGDTPLHIAILNNNKEIFKLLLNNG  306 (480)
T ss_pred             CcHHHHHHHHHcCCC-CCCCCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCccCCCCCcHHHHHHHhCCHHHHHHHHhcC
Confidence              9999999999999 9999999999999999999999999999999999999999999999999999888888665555


Q ss_pred             cc
Q 001613          456 TN  457 (1044)
Q Consensus       456 ~d  457 (1044)
                      .+
T Consensus       307 ~~  308 (480)
T PHA03100        307 PS  308 (480)
T ss_pred             CC
Confidence            44

>PHA02989 ankyrin repeat protein; Provisional

Probab=100.00  E-value=1.3e-35  Score=356.32  Aligned_cols=284  Identities=17%  Similarity=0.181  Sum_probs=240.4

Q ss_pred             cCCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHc--CCHHHHHHHHHcCCCCCcccCCCCCchHHHHHHhCCCcc
Q 001613           67 FDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAES--HTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMD  144 (1044)
Q Consensus        67 ~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~--G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa~~g~~e  144 (1044)
                      ....++|++|++.|    +++|.. . .|.||||.++..  ++.++|++||++|||+|.++ .+.|  |||.|+.++...
T Consensus        13 ~~~~~~v~~LL~~G----advN~~-~-~g~t~l~~~~~~~~~~~~iv~~Ll~~GAdvn~~~-~~~t--pL~~a~~~~~~~   83 (494)
T PHA02989         13 TVDKNALEFLLRTG----FDVNEE-Y-RGNSILLLYLKRKDVKIKIVKLLIDNGADVNYKG-YIET--PLCAVLRNREIT   83 (494)
T ss_pred             cCcHHHHHHHHHcC----CCcccc-c-CCCCHHHHHHhcCCCChHHHHHHHHcCCCccCCC-CCCC--cHHHHHhccCcc
Confidence            47899999999999    999998 5 799999876654  37999999999999999886 4566  999988776522


Q ss_pred             eecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCCCcccccc
Q 001613          145 VIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKT  224 (1044)
Q Consensus       145 Iv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~adin~~~~~  224 (1044)
                                       ..++.+++++|+++|++++.                                       ++..
T Consensus        84 -----------------~~~~~~iv~~Ll~~Gadin~---------------------------------------~d~~  107 (494)
T PHA02989         84 -----------------SNKIKKIVKLLLKFGADINL---------------------------------------KTFN  107 (494)
T ss_pred             -----------------hhhHHHHHHHHHHCCCCCCC---------------------------------------CCCC
Confidence                             24567899999999887753                                       3333


Q ss_pred             hhhHHHHHHHHhcCCchHHHHHHHcC---CCCCcchhHHHHHhhHHHHHHHHHcCCCC-CCccCCCCCCcHHHHHHHc--
Q 001613          225 TIYECVIREALALGRATKLQRAVKRN---STPTTSQSAEKRKLLLLEIELLQLFGAVA-NGSCTDKKVGPPLILATQA--  298 (1044)
Q Consensus       225 ~~~~~~i~~a~~~gg~t~L~~A~~~g---~~~~~~~~~~~~~~l~~~velLl~~GAdi-n~~~~d~~G~TpLh~Aa~~--  298 (1044)
                                    |.||||.|+..+   +.++              +++|+++||++ +..  |..|.||||+|+..  
T Consensus       108 --------------g~tpL~~a~~~~~~~~~ei--------------v~~Ll~~Gadin~~~--d~~g~tpLh~a~~~~~  157 (494)
T PHA02989        108 --------------GVSPIVCFIYNSNINNCDM--------------LRFLLSKGINVNDVK--NSRGYNLLHMYLESFS  157 (494)
T ss_pred             --------------CCcHHHHHHHhcccCcHHH--------------HHHHHHCCCCccccc--CCCCCCHHHHHHHhcc
Confidence                          899999988764   4455              99999999999 654  88999999999865  


Q ss_pred             CCHHHHHHHHHcCCCCCCCCC-CCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHc--
Q 001613          299 GDEDVIEILLKSKNIDINDAD-ADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGS--  375 (1044)
Q Consensus       299 G~~eiVk~LL~~~gadvn~n~-~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~--  375 (1044)
                      ++.++|++|++. |+++  +. .+..|.||||+|+..+.    ...+.+++++|+++|++++.+|..|.|+||.++..  
T Consensus       158 ~~~~iv~~Ll~~-Gadi--~~~~~~~g~tpL~~a~~~~~----~~~~~~iv~~Ll~~Ga~vn~~~~~~~t~l~~~~~~~~  230 (494)
T PHA02989        158 VKKDVIKILLSF-GVNL--FEKTSLYGLTPMNIYLRNDI----DVISIKVIKYLIKKGVNIETNNNGSESVLESFLDNNK  230 (494)
T ss_pred             CCHHHHHHHHHc-CCCc--cccccccCCChHHHHHhccc----ccccHHHHHHHHhCCCCccccCCccccHHHHHHHhch
Confidence            689999999999 9999  66 68899999999987651    12278999999999999999999999999987654  


Q ss_pred             ----CCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHHcChHHHHHHh
Q 001613          376 ----GNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAA  451 (1044)
Q Consensus       376 ----g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~Ll~~~  451 (1044)
                          +..+++++|+. +++ +|.+|..|+||||+|+..|+.++|++|+++|||+|.+|..|+||||+|+..|+.++++.+
T Consensus       231 ~~~~~~~~il~~l~~-~ad-vn~~d~~G~TpL~~Aa~~~~~~~v~~LL~~Gadin~~d~~G~TpL~~A~~~~~~~iv~~L  308 (494)
T PHA02989        231 ILSKKEFKVLNFILK-YIK-INKKDKKGFNPLLISAKVDNYEAFNYLLKLGDDIYNVSKDGDTVLTYAIKHGNIDMLNRI  308 (494)
T ss_pred             hhcccchHHHHHHHh-CCC-CCCCCCCCCCHHHHHHHhcCHHHHHHHHHcCCCccccCCCCCCHHHHHHHcCCHHHHHHH
Confidence                45688887765 677 999999999999999999999999999999999999999999999999999998888855


Q ss_pred             hhc
Q 001613          452 NTC  454 (1044)
Q Consensus       452 ~~n  454 (1044)
                      -..
T Consensus       309 L~~  311 (494)
T PHA02989        309 LQL  311 (494)
T ss_pred             Hhc
Confidence            443

>PHA02875 ankyrin repeat protein; Provisional

Probab=100.00  E-value=1.6e-34  Score=339.21  Aligned_cols=242  Identities=21%  Similarity=0.249  Sum_probs=211.6

Q ss_pred             chHHHHHHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCchHHHHH
Q 001613           58 TKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELS  137 (1044)
Q Consensus        58 ~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~A  137 (1044)
                      .++||.|+..|+.+++++|++.|    +++|..+. .|.||||+|+..|+.++|++|+++|++++..+.++.|  |||+|
T Consensus         3 ~~~L~~A~~~g~~~iv~~Ll~~g----~~~n~~~~-~g~tpL~~A~~~~~~~~v~~Ll~~ga~~~~~~~~~~t--~L~~A   75 (413)
T PHA02875          3 QVALCDAILFGELDIARRLLDIG----INPNFEIY-DGISPIKLAMKFRDSEAIKLLMKHGAIPDVKYPDIES--ELHDA   75 (413)
T ss_pred             chHHHHHHHhCCHHHHHHHHHCC----CCCCccCC-CCCCHHHHHHHcCCHHHHHHHHhCCCCccccCCCccc--HHHHH
Confidence            57899999999999999999988    88888888 8999999999999999999999999988888777776  66666


Q ss_pred             HhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCC
Q 001613          138 LSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSD  217 (1044)
Q Consensus       138 a~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~ad  217 (1044)
                      +..|                       +.+++++|++.|++...                                    
T Consensus        76 ~~~g-----------------------~~~~v~~Ll~~~~~~~~------------------------------------   96 (413)
T PHA02875         76 VEEG-----------------------DVKAVEELLDLGKFADD------------------------------------   96 (413)
T ss_pred             HHCC-----------------------CHHHHHHHHHcCCcccc------------------------------------
Confidence            6554                       45567777766643211                                    


Q ss_pred             CcccccchhhHHHHHHHHhcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHH
Q 001613          218 LGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQ  297 (1044)
Q Consensus       218 in~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~  297 (1044)
                                                                                       ..+..|.||||+|+.
T Consensus        97 -----------------------------------------------------------------~~~~~g~tpL~~A~~  111 (413)
T PHA02875         97 -----------------------------------------------------------------VFYKDGMTPLHLATI  111 (413)
T ss_pred             -----------------------------------------------------------------cccCCCCCHHHHHHH
Confidence                                                                             025578999999999


Q ss_pred             cCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCC
Q 001613          298 AGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGN  377 (1044)
Q Consensus       298 ~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~  377 (1044)
                      .|+.++|++|++. |+++  +..+..|.||||+|+..|        +.+++++|+++|++++.+|..|+||||+|+..|+
T Consensus       112 ~~~~~iv~~Ll~~-gad~--~~~~~~g~tpLh~A~~~~--------~~~~v~~Ll~~g~~~~~~d~~g~TpL~~A~~~g~  180 (413)
T PHA02875        112 LKKLDIMKLLIAR-GADP--DIPNTDKFSPLHLAVMMG--------DIKGIELLIDHKACLDIEDCCGCTPLIIAMAKGD  180 (413)
T ss_pred             hCCHHHHHHHHhC-CCCC--CCCCCCCCCHHHHHHHcC--------CHHHHHHHHhcCCCCCCCCCCCCCHHHHHHHcCC
Confidence            9999999999999 9999  889999999999999999        9999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCCcccCCCCCC-cHHHHHHHcCCHHHHHHHHHCCCCcccc---cCCCCcHHHHHHHc
Q 001613          378 SQALEDLIRKEPDCINLKTIMME-TPLFFAVKNDHMVCAEVLLRWGANSEVL---NLRRERPIDFAKSQ  442 (1044)
Q Consensus       378 ~eiVklLL~~gad~in~~d~~G~-TpLh~Aa~~g~~~iVklLL~~GAdin~~---d~~G~TpLh~Aa~~  442 (1044)
                      .+++++|+++|++ +|..+..|. ||||+|+..|+.+++++|+++|||+|..   +..+.|||++++..
T Consensus       181 ~eiv~~Ll~~ga~-~n~~~~~~~~t~l~~A~~~~~~~iv~~Ll~~gad~n~~~~~~~~~~t~l~~~~~~  248 (413)
T PHA02875        181 IAICKMLLDSGAN-IDYFGKNGCVAALCYAIENNKIDIVRLFIKRGADCNIMFMIEGEECTILDMICNM  248 (413)
T ss_pred             HHHHHHHHhCCCC-CCcCCCCCCchHHHHHHHcCCHHHHHHHHHCCcCcchHhhcCCCchHHHHHHHhh
Confidence            9999999999999 999988875 8899999999999999999999999876   66788999988654

>KOG0510 consensus Ankyrin repeat protein [General function prediction only]

Probab=100.00  E-value=3.4e-35  Score=340.94  Aligned_cols=358  Identities=18%  Similarity=0.175  Sum_probs=285.9

Q ss_pred             chHHHHHHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCchHHHHH
Q 001613           58 TKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELS  137 (1044)
Q Consensus        58 ~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~A  137 (1044)
                      .++++.+...   |..+++++..    ..++.++. .|.|++|.|+..+..      ++.-+...+.|..|.|  |||+|
T Consensus        32 ~~~~~~~~~d---D~~tli~~kn----s~~~~~~~-~gd~~~~~~~~~~y~------~~~~~~~~a~D~~~n~--~l~~a   95 (929)
T KOG0510|consen   32 DSQALADTLD---DRHTLILEKN----SSTPGKRA-FGDTELHHASARNYI------LSKLAISYAKDSADNT--PLHAA   95 (929)
T ss_pred             hHHHHHhhHH---HHHHHHHHhc----cccchhhh-hchhHHHHHHhhcch------hhhhhhhhhhhcccCc--hhHHH
Confidence            4444444333   4666666654    55677777 788888888877765      3434445556666655  66666


Q ss_pred             HhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCC
Q 001613          138 LSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSD  217 (1044)
Q Consensus       138 a~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~ad  217 (1044)
                      +++                       ...+.+++|++.|++.+..                                   
T Consensus        96 ~~~-----------------------~~~~~i~~Lls~gad~~~~-----------------------------------  117 (929)
T KOG0510|consen   96 VEY-----------------------NQGDKIQVLLSYGADTPLR-----------------------------------  117 (929)
T ss_pred             hhc-----------------------chHHHHHHHHhcCCCCChh-----------------------------------
Confidence            554                       4567799999999887632                                   


Q ss_pred             CcccccchhhHHHHHHHHhcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHH
Q 001613          218 LGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQ  297 (1044)
Q Consensus       218 in~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~  297 (1044)
                          +              ..+.+|+|+|+..+....              +++|+++|+++|..  |..|.||||.||.
T Consensus       118 ----n--------------~~~~aplh~A~~~~~~s~--------------L~~Ll~~~~dvnl~--de~~~TpLh~A~~  163 (929)
T KOG0510|consen  118 ----N--------------LNKNAPLHLAADSGNYSC--------------LKLLLDYGADVNLE--DENGFTPLHLAAR  163 (929)
T ss_pred             ----h--------------hhccCchhhccccchHHH--------------HHHHHHhcCCcccc--ccCCCchhhHHHh
Confidence                1              128899999999999888              99999999999886  9999999999999


Q ss_pred             cCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHh-----cCCeeeecCCCCCcHHHHH
Q 001613          298 AGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLK-----HGAIVSQQNKLGLTALHIA  372 (1044)
Q Consensus       298 ~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe-----~GAdvn~~d~~G~TpLh~A  372 (1044)
                      .++.+..+.|++. |+++  ...|.+|.+|+|.|++.|        ..+.+++.+.     .+..+|..+..|.||||.|
T Consensus       164 ~~~~E~~k~Li~~-~a~~--~K~~~~~~~~iH~aa~s~--------s~e~mEi~l~~~g~~r~~~in~~~n~~~~pLhlA  232 (929)
T KOG0510|consen  164 KNKVEAKKELINK-GADP--CKSDIDGNFPIHEAARSG--------SKECMEIFLPEHGYERQTHINFDNNEKATPLHLA  232 (929)
T ss_pred             cChHHHHHHHHhc-CCCC--CcccCcCCchHHHHHHhc--------chhhhhhhhccccchhhcccccccCCCCcchhhh
Confidence            9999988999999 9999  899999999999999999        8999999997     6788999999999999999


Q ss_pred             HHcCCHHHHHHHHhcCCCC--------------cccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHH
Q 001613          373 AGSGNSQALEDLIRKEPDC--------------INLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDF  438 (1044)
Q Consensus       373 a~~g~~eiVklLL~~gad~--------------in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~  438 (1044)
                      +..|+.++++.+|+.++..              +|..|.+|.||||+|++.|+.++++.|+..||+++.++.++.||||.
T Consensus       233 ve~g~~e~lk~~L~n~~~~a~~~~~~~~q~kelv~~~d~dg~tpLH~a~r~G~~~svd~Ll~~Ga~I~~kn~d~~spLH~  312 (929)
T KOG0510|consen  233 VEGGDIEMLKMCLQNGKKIADVQLDAMQQEKELVNDEDNDGCTPLHYAARQGGPESVDNLLGFGASINSKNKDEESPLHF  312 (929)
T ss_pred             hhcCCHHHHHHHHhCccccchhhhHHHHHHHHHhhcccccCCchHHHHHHcCChhHHHHHHHcCCcccccCCCCCCchHH
Confidence            9999999999999987652              67779999999999999999999999999999999999999999999


Q ss_pred             HHHcChHHHHHHhhhcCccccccchhhhhhhhcCChhhhhhHHHhhhcccCCCCccccccCCceeeeecccccCcccccc
Q 001613          439 AKSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDISGTCEALLSMVDDNSNTERICSGTKIEVCKYYESHSGCIRGS  518 (1044)
Q Consensus       439 Aa~~g~~~Ll~~~~~n~~d~~~~~~~l~~A~~~~~~~i~~~~~~l~~~~d~~~~~~~~~~~~~~~t~L~~Aa~~G~~eiv  518 (1044)
                      ||.+|....++.+..                                   +.+......++..+.||||+|+++||.+++
T Consensus       313 AA~yg~~ntv~rLL~-----------------------------------~~~~rllne~D~~g~tpLHlaa~~gH~~v~  357 (929)
T KOG0510|consen  313 AAIYGRINTVERLLQ-----------------------------------ESDTRLLNESDLHGMTPLHLAAKSGHDRVV  357 (929)
T ss_pred             HHHcccHHHHHHHHh-----------------------------------CcCccccccccccCCCchhhhhhcCHHHHH
Confidence            999985555542222                                   112222333456778999999999999999


Q ss_pred             ccccccccccc---ccCCCcccccccccccc----ccceeccCCcccccCCCCCCccc
Q 001613          519 KCFYALGEEQH---RKMNPGMCMIHASTQEF----KSKIFVGGLPFFLDSDSLGGYFE  569 (1044)
Q Consensus       519 k~Ll~~GAd~~---~~d~~G~tpLh~aa~~~----~~kifVg~L~~~~te~~Lr~~F~  569 (1044)
                      ++|+..||+..   ..|..|.|++|.++.+.    +.++..-|..-.+....-+.+|-
T Consensus       358 qlLl~~GA~~~~~~e~D~dg~TaLH~Aa~~g~~~av~~Li~~Ga~I~~~n~~g~SA~~  415 (929)
T KOG0510|consen  358 QLLLNKGALFLNMSEADSDGNTALHLAAKYGNTSAVQKLISHGADIGVKNKKGKSAFD  415 (929)
T ss_pred             HHHHhcChhhhcccccccCCchhhhHHHHhccHHHHHHHHHcCCceeecccccccccc
Confidence            99999999998   56999999999998433    44555555555454444444443

>PHA02878 ankyrin repeat protein; Provisional

Probab=100.00  E-value=1.8e-34  Score=344.98  Aligned_cols=242  Identities=17%  Similarity=0.180  Sum_probs=203.5

Q ss_pred             ccccCCCCChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCchHHHHHHhCCCcceecCCCCCchhHHHHHHhcCCHH
Q 001613           88 NEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLT  167 (1044)
Q Consensus        88 N~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~~e  167 (1044)
                      +..+. .+.||||+||..|+.++|++|+++|+++|..|.+|+|  |||+|+..|+                       .+
T Consensus        31 ~~~~~-~~~tPLh~A~~~g~~e~vk~Ll~~gadvn~~d~~g~T--pLh~A~~~g~-----------------------~~   84 (477)
T PHA02878         31 TSASL-IPFIPLHQAVEARNLDVVKSLLTRGHNVNQPDHRDLT--PLHIICKEPN-----------------------KL   84 (477)
T ss_pred             Ccccc-cCcchHHHHHHcCCHHHHHHHHHCCCCCCCCCCCCCC--HHHHHHHCcc-----------------------Hh
Confidence            34445 7899999999999999999999999999999999998  8888887765                       55


Q ss_pred             HHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCCCcccccchhhHHHHHHHHhcCCchHHHHHH
Q 001613          168 TVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAV  247 (1044)
Q Consensus       168 ivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~  247 (1044)
                      ++++|++.+.....                                                       ..+.++++.|+
T Consensus        85 ~v~~Ll~~~~~~~~-------------------------------------------------------~~~~~~l~~a~  109 (477)
T PHA02878         85 GMKEMIRSINKCSV-------------------------------------------------------FYTLVAIKDAF  109 (477)
T ss_pred             HHHHHHHHHhcccc-------------------------------------------------------ccchhhHHHHH
Confidence            68888865432210                                                       01678999999


Q ss_pred             HcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHc--CCHHHHHHHHHcCCCCCCCCCCCCC-C
Q 001613          248 KRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQA--GDEDVIEILLKSKNIDINDADADAD-G  324 (1044)
Q Consensus       248 ~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~--G~~eiVk~LL~~~gadvn~n~~d~~-G  324 (1044)
                      ..++.++              +++|+..+.+....    .....+..+...  .+.+++++|++. |+++  +..+.. |
T Consensus       110 ~~~~~ei--------------~~~Ll~~~~~~~~~----~~~~~~~~~~~~~~~~~~iv~~Ll~~-gadi--n~~~~~~g  168 (477)
T PHA02878        110 NNRNVEI--------------FKIILTNRYKNIQT----IDLVYIDKKSKDDIIEAEITKLLLSY-GADI--NMKDRHKG  168 (477)
T ss_pred             HcCCHHH--------------HHHHHhCcccCccc----CcHHHHhhccchhhHHHHHHHHHHHc-CCCC--CccCCCCC
Confidence            9999888              99999876554321    011111111122  234699999999 9999  888988 9


Q ss_pred             chHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHH
Q 001613          325 NSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLF  404 (1044)
Q Consensus       325 ~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh  404 (1044)
                      .||||+|+..|        +.+++++|+++|++++.+|..|+||||+|+..|+.+++++|+++|++ +|.+|..|+||||
T Consensus       169 ~tpLh~A~~~~--------~~~iv~~Ll~~gad~n~~d~~g~tpLh~A~~~~~~~iv~~Ll~~ga~-in~~d~~g~TpLh  239 (477)
T PHA02878        169 NTALHYATENK--------DQRLTELLLSYGANVNIPDKTNNSPLHHAVKHYNKPIVHILLENGAS-TDARDKCGNTPLH  239 (477)
T ss_pred             CCHHHHHHhCC--------CHHHHHHHHHCCCCCCCcCCCCCCHHHHHHHhCCHHHHHHHHHcCCC-CCCCCCCCCCHHH
Confidence            99999999999        99999999999999999999999999999999999999999999999 9999999999999


Q ss_pred             HHHHc-CCHHHHHHHHHCCCCcccccC-CCCcHHHHHH
Q 001613          405 FAVKN-DHMVCAEVLLRWGANSEVLNL-RRERPIDFAK  440 (1044)
Q Consensus       405 ~Aa~~-g~~~iVklLL~~GAdin~~d~-~G~TpLh~Aa  440 (1044)
                      +|+.. ++.+++++|+++|+++|.++. .|.||||+|+
T Consensus       240 ~A~~~~~~~~iv~~Ll~~gadvn~~~~~~g~TpLh~A~  277 (477)
T PHA02878        240 ISVGYCKDYDILKLLLEHGVDVNAKSYILGLTALHSSI  277 (477)
T ss_pred             HHHHhcCCHHHHHHHHHcCCCCCccCCCCCCCHHHHHc
Confidence            99976 799999999999999999986 7999999994

>PHA02791 ankyrin-like protein; Provisional

Probab=100.00  E-value=5.3e-34  Score=315.48  Aligned_cols=235  Identities=18%  Similarity=0.152  Sum_probs=157.0

Q ss_pred             cCCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCchHHHHHHhCCCccee
Q 001613           67 FDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVI  146 (1044)
Q Consensus        67 ~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa~~g~~eIv  146 (1044)
                      +++.+++++|++.+      .+.+|. .|.||||+|+..|+.++|++|+++|++++..+  |+|  |||+|+..|+    
T Consensus         9 ~~~~~~~~~Lis~~------a~~~D~-~G~TpLh~Aa~~g~~eiv~~Ll~~ga~~n~~d--~~T--pLh~Aa~~g~----   73 (284)
T PHA02791          9 WKSKQLKSFLSSKD------AFKADV-HGHSALYYAIADNNVRLVCTLLNAGALKNLLE--NEF--PLHQAATLED----   73 (284)
T ss_pred             cCHHHHHHHHHhCC------CCCCCC-CCCcHHHHHHHcCCHHHHHHHHHCcCCCcCCC--CCC--HHHHHHHCCC----
Confidence            57899999999987      467888 99999999999999999999999999988754  566  7777766554    


Q ss_pred             cCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCCCcccccchh
Q 001613          147 WNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTI  226 (1044)
Q Consensus       147 ~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~adin~~~~~~~  226 (1044)
                                         .+++++|++.|++++.                                       .+..  
T Consensus        74 -------------------~eiV~lLL~~Gadvn~---------------------------------------~d~~--   93 (284)
T PHA02791         74 -------------------TKIVKILLFSGMDDSQ---------------------------------------FDDK--   93 (284)
T ss_pred             -------------------HHHHHHHHHCCCCCCC---------------------------------------CCCC--
Confidence                               5667777777765532                                       1222  


Q ss_pred             hHHHHHHHHhcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCC-CcHHHHHHHcCCHHHHH
Q 001613          227 YECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKV-GPPLILATQAGDEDVIE  305 (1044)
Q Consensus       227 ~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G-~TpLh~Aa~~G~~eiVk  305 (1044)
                                  |.||||+|+..|+.++              +++|+++|++++..  +..| .||||+|+..|+.++|+
T Consensus        94 ------------G~TpLh~Aa~~g~~ei--------------vk~Ll~~gadin~~--~~~g~~TpL~~Aa~~g~~eivk  145 (284)
T PHA02791         94 ------------GNTALYYAVDSGNMQT--------------VKLFVKKNWRLMFY--GKTGWKTSFYHAVMLNDVSIVS  145 (284)
T ss_pred             ------------CCCHHHHHHHcCCHHH--------------HHHHHHCCCCcCcc--CCCCCcHHHHHHHHcCCHHHHH
Confidence                        6666666666666655              66666666666543  4444 35666666666666666


Q ss_pred             HHHHcCCCCCCCCCCC-CCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcH-HHHHHHcCCHHHHHH
Q 001613          306 ILLKSKNIDINDADAD-ADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTA-LHIAAGSGNSQALED  383 (1044)
Q Consensus       306 ~LL~~~gadvn~n~~d-~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~Tp-Lh~Aa~~g~~eiVkl  383 (1044)
                      +||++ +.+.    .| ..|.||||+|+..|        +.+++++|+++||++|.+|..|.|| ||+|+..|+.++|++
T Consensus       146 ~LL~~-~~~~----~d~~~g~TpLh~Aa~~g--------~~eiv~lLL~~gAd~n~~d~~g~t~~L~~Aa~~~~~e~v~l  212 (284)
T PHA02791        146 YFLSE-IPST----FDLAILLSCIHITIKNG--------HVDMMILLLDYMTSTNTNNSLLFIPDIKLAIDNKDLEMLQA  212 (284)
T ss_pred             HHHhc-CCcc----cccccCccHHHHHHHcC--------CHHHHHHHHHCCCCCCcccCCCCChHHHHHHHcCCHHHHHH
Confidence            66665 3322    12 23566666666666        6666666666666666666666655 666666666666666


Q ss_pred             HHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCc
Q 001613          384 LIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANS  425 (1044)
Q Consensus       384 LL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdi  425 (1044)
                      ||++|++ +|.+|..| |+|      ++.|++++||++-++.
T Consensus       213 Ll~~Ga~-in~~~~~~-~~l------~~~e~~~~ll~~~~~~  246 (284)
T PHA02791        213 LFKYDIN-IYSVNLEN-VLL------DDAEIAKMIIEKHVEY  246 (284)
T ss_pred             HHHCCCC-CccCcccC-ccC------CCHHHHHHHHHhhhhh
Confidence            6666666 66666533 444      5666666666655543

>PHA02989 ankyrin repeat protein; Provisional

Probab=100.00  E-value=1.3e-33  Score=338.82  Aligned_cols=288  Identities=20%  Similarity=0.204  Sum_probs=237.2

Q ss_pred             cCHHHHHHHHHhhccccccccccccccccchHHHHHHHc--CCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHcC
Q 001613           29 DDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIF--DSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESH  106 (1044)
Q Consensus        29 dD~~~L~~li~~~~~~~~l~~~~~~~~~~~T~Lh~AA~~--G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G  106 (1044)
                      -|.+.++.++..+...+.      . ..+.|+||.++..  ++.++|++|+++|    |++|.++  .+.||||.|+.++
T Consensus        14 ~~~~~v~~LL~~GadvN~------~-~~g~t~l~~~~~~~~~~~~iv~~Ll~~G----Advn~~~--~~~tpL~~a~~~~   80 (494)
T PHA02989         14 VDKNALEFLLRTGFDVNE------E-YRGNSILLLYLKRKDVKIKIVKLLIDNG----ADVNYKG--YIETPLCAVLRNR   80 (494)
T ss_pred             CcHHHHHHHHHcCCCccc------c-cCCCCHHHHHHhcCCCChHHHHHHHHcC----CCccCCC--CCCCcHHHHHhcc
Confidence            466677777766654221      2 3467888765544  3789999999999    9999885  4799999998764


Q ss_pred             ------CHHHHHHHHHcCCCCCcccCCCCCchHHHHHHhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcc
Q 001613          107 ------TARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELD  180 (1044)
Q Consensus       107 ------~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~  180 (1044)
                            +.++|++||++|||+|.++.+|.|  |||.|+..++                    .++.+++++|+++|++++
T Consensus        81 ~~~~~~~~~iv~~Ll~~Gadin~~d~~g~t--pL~~a~~~~~--------------------~~~~eiv~~Ll~~Gadin  138 (494)
T PHA02989         81 EITSNKIKKIVKLLLKFGADINLKTFNGVS--PIVCFIYNSN--------------------INNCDMLRFLLSKGINVN  138 (494)
T ss_pred             CcchhhHHHHHHHHHHCCCCCCCCCCCCCc--HHHHHHHhcc--------------------cCcHHHHHHHHHCCCCcc
Confidence                  578999999999999999999998  8988876543                    357899999999998873


Q ss_pred             hHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcC--CCCCcchh
Q 001613          181 EVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRN--STPTTSQS  258 (1044)
Q Consensus       181 ~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g--~~~~~~~~  258 (1044)
                      .                                      .++.              .|.||||+|+..+  +.++    
T Consensus       139 ~--------------------------------------~~d~--------------~g~tpLh~a~~~~~~~~~i----  162 (494)
T PHA02989        139 D--------------------------------------VKNS--------------RGYNLLHMYLESFSVKKDV----  162 (494)
T ss_pred             c--------------------------------------ccCC--------------CCCCHHHHHHHhccCCHHH----
Confidence            1                                      1222              2999999998764  4555    


Q ss_pred             HHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHcC----CHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhc
Q 001613          259 AEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAG----DEDVIEILLKSKNIDINDADADADGNSALHCALKT  334 (1044)
Q Consensus       259 ~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~G----~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~  334 (1044)
                                +++|+++|++++.. .+..|.||||+|+..+    +.++|++|++. |+++  +..+..+.|+||.++..
T Consensus       163 ----------v~~Ll~~Gadi~~~-~~~~g~tpL~~a~~~~~~~~~~~iv~~Ll~~-Ga~v--n~~~~~~~t~l~~~~~~  228 (494)
T PHA02989        163 ----------IKILLSFGVNLFEK-TSLYGLTPMNIYLRNDIDVISIKVIKYLIKK-GVNI--ETNNNGSESVLESFLDN  228 (494)
T ss_pred             ----------HHHHHHcCCCcccc-ccccCCChHHHHHhcccccccHHHHHHHHhC-CCCc--cccCCccccHHHHHHHh
Confidence                      99999999999863 3779999999998764    89999999999 9999  88888999999998875


Q ss_pred             CCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHH
Q 001613          335 SMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVC  414 (1044)
Q Consensus       335 g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~i  414 (1044)
                      +.  .......+++++|++ |+++|.+|..|+||||+|+..|+.++|++||++|++ +|.+|..|+||||+|+.+|+.++
T Consensus       229 ~~--~~~~~~~~il~~l~~-~advn~~d~~G~TpL~~Aa~~~~~~~v~~LL~~Gad-in~~d~~G~TpL~~A~~~~~~~i  304 (494)
T PHA02989        229 NK--ILSKKEFKVLNFILK-YIKINKKDKKGFNPLLISAKVDNYEAFNYLLKLGDD-IYNVSKDGDTVLTYAIKHGNIDM  304 (494)
T ss_pred             ch--hhcccchHHHHHHHh-CCCCCCCCCCCCCHHHHHHHhcCHHHHHHHHHcCCC-ccccCCCCCCHHHHHHHcCCHHH
Confidence            41  111225778887765 699999999999999999999999999999999999 99999999999999999999999


Q ss_pred             HHHHHHCCCCc
Q 001613          415 AEVLLRWGANS  425 (1044)
Q Consensus       415 VklLL~~GAdi  425 (1044)
                      |++|++.+++.
T Consensus       305 v~~LL~~~p~~  315 (494)
T PHA02989        305 LNRILQLKPGK  315 (494)
T ss_pred             HHHHHhcCCCh
Confidence            99999987644

>PHA02798 ankyrin-like protein; Provisional

Probab=100.00  E-value=1.6e-32  Score=329.19  Aligned_cols=266  Identities=20%  Similarity=0.222  Sum_probs=226.4

Q ss_pred             cchHHHHHH--HcCCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHc-----CCHHHHHHHHHcCCCCCcccCCCC
Q 001613           57 VTKLLRVSC--IFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAES-----HTARCVELLLKKRARTDIRSKDGR  129 (1044)
Q Consensus        57 ~~T~Lh~AA--~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~-----G~~eiVklLL~~GAdvn~~d~~G~  129 (1044)
                      +.|+++.+.  ..++.++|++|++.|    +++|.+|. .|.||||+|+.+     ++.+++++|+++|||+|.+|.+|+
T Consensus        36 ~~~~~~~yl~~~~~~~~iv~~Ll~~G----advn~~d~-~g~TpL~~~~~n~~~~~~~~~iv~~Ll~~GadiN~~d~~G~  110 (489)
T PHA02798         36 EYSIFQKYLQRDSPSTDIVKLFINLG----ANVNGLDN-EYSTPLCTILSNIKDYKHMLDIVKILIENGADINKKNSDGE  110 (489)
T ss_pred             cchHHHHHHhCCCCCHHHHHHHHHCC----CCCCCCCC-CCCChHHHHHHhHHhHHhHHHHHHHHHHCCCCCCCCCCCcC
Confidence            456666333  345899999999999    99999999 999999999865     779999999999999999999999


Q ss_pred             CchHHHHHHhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhH
Q 001613          130 RLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNES  209 (1044)
Q Consensus       130 T~lpLh~Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~  209 (1044)
                      |  |||+|+.++..                    ++.+++++|+++|++++.                            
T Consensus       111 T--pLh~a~~~~~~--------------------~~~~iv~~Ll~~Gadvn~----------------------------  140 (489)
T PHA02798        111 T--PLYCLLSNGYI--------------------NNLEILLFMIENGADTTL----------------------------  140 (489)
T ss_pred             c--HHHHHHHcCCc--------------------ChHHHHHHHHHcCCCccc----------------------------
Confidence            9  99999887642                    357889999999887753                            


Q ss_pred             HHHhccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcCC---CCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCC
Q 001613          210 ILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNS---TPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDK  286 (1044)
Q Consensus       210 ~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~---~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~  286 (1044)
                                 .+..              |.||||+|+..++   .++              +++|++.|++++.. .+.
T Consensus       141 -----------~d~~--------------g~tpL~~a~~~~~~~~~~v--------------v~~Ll~~gadin~~-~~~  180 (489)
T PHA02798        141 -----------LDKD--------------GFTMLQVYLQSNHHIDIEI--------------IKLLLEKGVDINTH-NNK  180 (489)
T ss_pred             -----------cCCC--------------CCcHHHHHHHcCCcchHHH--------------HHHHHHhCCCcccc-cCc
Confidence                       2222              9999999999887   555              99999999999864 245


Q ss_pred             CCCcHHHHHHHc----CCHHHHHHHHHcCCCCCCCCCCCCCCchHHHH-------HHhcCCCcccccchHHHHHHHHhcC
Q 001613          287 KVGPPLILATQA----GDEDVIEILLKSKNIDINDADADADGNSALHC-------ALKTSMGLSQHILQNRIVGILLKHG  355 (1044)
Q Consensus       287 ~G~TpLh~Aa~~----G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~-------Aa~~g~~~~~~~~~~~iVklLLe~G  355 (1044)
                      .|.||||.++..    ++.+++++|+++ |+++  +..+..|.|+++.       +...+        +.+++++|+. |
T Consensus       181 ~~~t~Lh~~~~~~~~~~~~~ivk~Li~~-Ga~i--~~~~~~~~~~~~~~l~~l~~~~~~~--------~~~i~~~l~~-~  248 (489)
T PHA02798        181 EKYDTLHCYFKYNIDRIDADILKLFVDN-GFII--NKENKSHKKKFMEYLNSLLYDNKRF--------KKNILDFIFS-Y  248 (489)
T ss_pred             CCCcHHHHHHHhccccCCHHHHHHHHHC-CCCc--ccCCccccchHHHHHHHHHhhcccc--------hHHHHHHHHh-c
Confidence            789999998765    489999999999 9999  8888888998772       22333        6788888766 6


Q ss_pred             CeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccC
Q 001613          356 AIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNL  430 (1044)
Q Consensus       356 Advn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~  430 (1044)
                      +|+|.+|..|+||||+|+..|+.+++++||++|++ +|.+|..|+||||+|+.+++.++++.|+++|++++....
T Consensus       249 ~dvN~~d~~G~TPL~~A~~~~~~~~v~~LL~~GAd-in~~d~~G~TpL~~A~~~~~~~iv~~lL~~~~~~~~i~~  322 (489)
T PHA02798        249 IDINQVDELGFNPLYYSVSHNNRKIFEYLLQLGGD-INIITELGNTCLFTAFENESKFIFNSILNKKPNKNTISY  322 (489)
T ss_pred             CCCCCcCcCCccHHHHHHHcCcHHHHHHHHHcCCc-ccccCCCCCcHHHHHHHcCcHHHHHHHHccCCCHHHHHH
Confidence            99999999999999999999999999999999999 999999999999999999999999999999999986544

>PHA02875 ankyrin repeat protein; Provisional

Probab=100.00  E-value=7.8e-33  Score=324.92  Aligned_cols=221  Identities=21%  Similarity=0.213  Sum_probs=192.9

Q ss_pred             CChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCchHHHHHHhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHH
Q 001613           95 GMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQ  174 (1044)
Q Consensus        95 G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~  174 (1044)
                      .+++||.|+..|+.++|++|+++|+++|..+.+|.|  |||+|+..|+                       .+++++|++
T Consensus         2 ~~~~L~~A~~~g~~~iv~~Ll~~g~~~n~~~~~g~t--pL~~A~~~~~-----------------------~~~v~~Ll~   56 (413)
T PHA02875          2 DQVALCDAILFGELDIARRLLDIGINPNFEIYDGIS--PIKLAMKFRD-----------------------SEAIKLLMK   56 (413)
T ss_pred             CchHHHHHHHhCCHHHHHHHHHCCCCCCccCCCCCC--HHHHHHHcCC-----------------------HHHHHHHHh
Confidence            579999999999999999999999999999888888  8888876654                       455666666


Q ss_pred             cCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcCCCCC
Q 001613          175 KTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPT  254 (1044)
Q Consensus       175 ~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~  254 (1044)
                      +|++                                                                            
T Consensus        57 ~ga~----------------------------------------------------------------------------   60 (413)
T PHA02875         57 HGAI----------------------------------------------------------------------------   60 (413)
T ss_pred             CCCC----------------------------------------------------------------------------
Confidence            5543                                                                            


Q ss_pred             cchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhc
Q 001613          255 TSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKT  334 (1044)
Q Consensus       255 ~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~  334 (1044)
                                              ++..  +..+.||||+|+..|+.++|++|++. |++++ +..+..|.||||+|+..
T Consensus        61 ------------------------~~~~--~~~~~t~L~~A~~~g~~~~v~~Ll~~-~~~~~-~~~~~~g~tpL~~A~~~  112 (413)
T PHA02875         61 ------------------------PDVK--YPDIESELHDAVEEGDVKAVEELLDL-GKFAD-DVFYKDGMTPLHLATIL  112 (413)
T ss_pred             ------------------------cccc--CCCcccHHHHHHHCCCHHHHHHHHHc-CCccc-ccccCCCCCHHHHHHHh
Confidence                                    3322  55778999999999999999999998 77763 45577899999999999


Q ss_pred             CCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHH
Q 001613          335 SMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVC  414 (1044)
Q Consensus       335 g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~i  414 (1044)
                      |        +.+++++|+++|++++.++..|.||||+|+..|+.+++++|+++|++ ++.+|..|.||||+|+..|+.++
T Consensus       113 ~--------~~~iv~~Ll~~gad~~~~~~~g~tpLh~A~~~~~~~~v~~Ll~~g~~-~~~~d~~g~TpL~~A~~~g~~ei  183 (413)
T PHA02875        113 K--------KLDIMKLLIARGADPDIPNTDKFSPLHLAVMMGDIKGIELLIDHKAC-LDIEDCCGCTPLIIAMAKGDIAI  183 (413)
T ss_pred             C--------CHHHHHHHHhCCCCCCCCCCCCCCHHHHHHHcCCHHHHHHHHhcCCC-CCCCCCCCCCHHHHHHHcCCHHH
Confidence            9        99999999999999999999999999999999999999999999998 99999999999999999999999


Q ss_pred             HHHHHHCCCCcccccCCCC-cHHHHHHHcChHHHHHHhhh
Q 001613          415 AEVLLRWGANSEVLNLRRE-RPIDFAKSQDMRFLLKAANT  453 (1044)
Q Consensus       415 VklLL~~GAdin~~d~~G~-TpLh~Aa~~g~~~Ll~~~~~  453 (1044)
                      +++|+++||+++..+..|. ||+|+|+..|..++++.+..
T Consensus       184 v~~Ll~~ga~~n~~~~~~~~t~l~~A~~~~~~~iv~~Ll~  223 (413)
T PHA02875        184 CKMLLDSGANIDYFGKNGCVAALCYAIENNKIDIVRLFIK  223 (413)
T ss_pred             HHHHHhCCCCCCcCCCCCCchHHHHHHHcCCHHHHHHHHH
Confidence            9999999999999998875 78888988776555554333

>PHA02798 ankyrin-like protein; Provisional

Probab=100.00  E-value=2.6e-32  Score=327.31  Aligned_cols=287  Identities=19%  Similarity=0.224  Sum_probs=235.4

Q ss_pred             CHHHHHHHHhCCCCCccccccccCCCCChHHHHHHH--cCCHHHHHHHHHcCCCCCcccCCCCCchHHHHHHhCCCccee
Q 001613           69 SVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAE--SHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVI  146 (1044)
Q Consensus        69 ~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~--~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa~~g~~eIv  146 (1044)
                      .++.|+.|+..+     ++|.. . .|.|+++.+..  .++.++|++|+++|||+|.++..|.|  |||.|+.+.     
T Consensus        17 ~~~~v~~ll~~~-----~~~~~-~-~~~~~~~~yl~~~~~~~~iv~~Ll~~Gadvn~~d~~g~T--pL~~~~~n~-----   82 (489)
T PHA02798         17 KLSTVKLLIKSC-----NPNEI-V-NEYSIFQKYLQRDSPSTDIVKLFINLGANVNGLDNEYST--PLCTILSNI-----   82 (489)
T ss_pred             cHHHHHHHHhcC-----Chhhh-c-ccchHHHHHHhCCCCCHHHHHHHHHCCCCCCCCCCCCCC--hHHHHHHhH-----
Confidence            466999999764     44544 3 57788774443  45899999999999999999999998  888886531     


Q ss_pred             cCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCCCcccccchh
Q 001613          147 WNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTI  226 (1044)
Q Consensus       147 ~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~adin~~~~~~~  226 (1044)
                                   +...+..+++++|+++|++++.                                       ++..  
T Consensus        83 -------------~~~~~~~~iv~~Ll~~GadiN~---------------------------------------~d~~--  108 (489)
T PHA02798         83 -------------KDYKHMLDIVKILIENGADINK---------------------------------------KNSD--  108 (489)
T ss_pred             -------------HhHHhHHHHHHHHHHCCCCCCC---------------------------------------CCCC--
Confidence                         1123457889999988877653                                       3333  


Q ss_pred             hHHHHHHHHhcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHcCC---HHH
Q 001613          227 YECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGD---EDV  303 (1044)
Q Consensus       227 ~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~G~---~ei  303 (1044)
                                  |.||||+|+..+....           ...+++|+++|++++..  |..|.||||+|+..|+   .++
T Consensus       109 ------------G~TpLh~a~~~~~~~~-----------~~iv~~Ll~~Gadvn~~--d~~g~tpL~~a~~~~~~~~~~v  163 (489)
T PHA02798        109 ------------GETPLYCLLSNGYINN-----------LEILLFMIENGADTTLL--DKDGFTMLQVYLQSNHHIDIEI  163 (489)
T ss_pred             ------------cCcHHHHHHHcCCcCh-----------HHHHHHHHHcCCCcccc--CCCCCcHHHHHHHcCCcchHHH
Confidence                        9999999999874311           12299999999999876  9999999999999998   999


Q ss_pred             HHHHHHcCCCCCCCCCCC-CCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHH-------HHHHc
Q 001613          304 IEILLKSKNIDINDADAD-ADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALH-------IAAGS  375 (1044)
Q Consensus       304 Vk~LL~~~gadvn~n~~d-~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh-------~Aa~~  375 (1044)
                      +++|++. |+++  +..+ ..|.||||.++..+.    ...+.+++++|+++|++++..+..|.|+++       ++...
T Consensus       164 v~~Ll~~-gadi--n~~~~~~~~t~Lh~~~~~~~----~~~~~~ivk~Li~~Ga~i~~~~~~~~~~~~~~l~~l~~~~~~  236 (489)
T PHA02798        164 IKLLLEK-GVDI--NTHNNKEKYDTLHCYFKYNI----DRIDADILKLFVDNGFIINKENKSHKKKFMEYLNSLLYDNKR  236 (489)
T ss_pred             HHHHHHh-CCCc--ccccCcCCCcHHHHHHHhcc----ccCCHHHHHHHHHCCCCcccCCccccchHHHHHHHHHhhccc
Confidence            9999999 9999  6664 578999999987541    112789999999999999999999999877       24556


Q ss_pred             CCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHHcChHHHHHHhhhcC
Q 001613          376 GNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCH  455 (1044)
Q Consensus       376 g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~Ll~~~~~n~  455 (1044)
                      ++.+++++|+. +++ +|.+|..|+||||+|+.+|+.+++++|+++|||+|.+|..|+||||+|+.++...+++.+....
T Consensus       237 ~~~~i~~~l~~-~~d-vN~~d~~G~TPL~~A~~~~~~~~v~~LL~~GAdin~~d~~G~TpL~~A~~~~~~~iv~~lL~~~  314 (489)
T PHA02798        237 FKKNILDFIFS-YID-INQVDELGFNPLYYSVSHNNRKIFEYLLQLGGDINIITELGNTCLFTAFENESKFIFNSILNKK  314 (489)
T ss_pred             chHHHHHHHHh-cCC-CCCcCcCCccHHHHHHHcCcHHHHHHHHHcCCcccccCCCCCcHHHHHHHcCcHHHHHHHHccC
Confidence            78899988776 577 9999999999999999999999999999999999999999999999999999988888655444


Q ss_pred             cc
Q 001613          456 TN  457 (1044)
Q Consensus       456 ~d  457 (1044)
                      .+
T Consensus       315 ~~  316 (489)
T PHA02798        315 PN  316 (489)
T ss_pred             CC
Confidence            44

>PHA02791 ankyrin-like protein; Provisional

Probab=100.00  E-value=2.2e-32  Score=302.61  Aligned_cols=219  Identities=19%  Similarity=0.147  Sum_probs=190.7

Q ss_pred             cccccchHHHHHHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCch
Q 001613           53 QTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLL  132 (1044)
Q Consensus        53 ~~~~~~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~l  132 (1044)
                      .+..+.||||+|+..|+.+++++|++.|    +++|..   +|.||||+|+..|+.++|++|+++|++++.+|..|+|  
T Consensus        26 ~D~~G~TpLh~Aa~~g~~eiv~~Ll~~g----a~~n~~---d~~TpLh~Aa~~g~~eiV~lLL~~Gadvn~~d~~G~T--   96 (284)
T PHA02791         26 ADVHGHSALYYAIADNNVRLVCTLLNAG----ALKNLL---ENEFPLHQAATLEDTKIVKILLFSGMDDSQFDDKGNT--   96 (284)
T ss_pred             CCCCCCcHHHHHHHcCCHHHHHHHHHCc----CCCcCC---CCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCC--
Confidence            4567899999999999999999999998    777765   4689999999999999999999999999999999998  


Q ss_pred             HHHHHHhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHH
Q 001613          133 PLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILV  212 (1044)
Q Consensus       133 pLh~Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~  212 (1044)
                      |||+|+..|+                       .+++++|+++|++++.                               
T Consensus        97 pLh~Aa~~g~-----------------------~eivk~Ll~~gadin~-------------------------------  122 (284)
T PHA02791         97 ALYYAVDSGN-----------------------MQTVKLFVKKNWRLMF-------------------------------  122 (284)
T ss_pred             HHHHHHHcCC-----------------------HHHHHHHHHCCCCcCc-------------------------------
Confidence            8888876654                       6779999999887642                               


Q ss_pred             hccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHH
Q 001613          213 LHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPL  292 (1044)
Q Consensus       213 ~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpL  292 (1044)
                              ++..             ++.||||+|+..|+.++              +++|++.+++..-   ...|.|||
T Consensus       123 --------~~~~-------------g~~TpL~~Aa~~g~~ei--------------vk~LL~~~~~~~d---~~~g~TpL  164 (284)
T PHA02791        123 --------YGKT-------------GWKTSFYHAVMLNDVSI--------------VSYFLSEIPSTFD---LAILLSCI  164 (284)
T ss_pred             --------cCCC-------------CCcHHHHHHHHcCCHHH--------------HHHHHhcCCcccc---cccCccHH
Confidence                    1111             23699999999999988              9999998765421   13589999


Q ss_pred             HHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchH-HHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHH
Q 001613          293 ILATQAGDEDVIEILLKSKNIDINDADADADGNSA-LHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHI  371 (1044)
Q Consensus       293 h~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~Tp-Lh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~  371 (1044)
                      |+|+..|+.++|++||+. |+++  +.+|..|.|| ||+|+..|        +.++|++|+++|+++|.+|..| |+|  
T Consensus       165 h~Aa~~g~~eiv~lLL~~-gAd~--n~~d~~g~t~~L~~Aa~~~--------~~e~v~lLl~~Ga~in~~~~~~-~~l--  230 (284)
T PHA02791        165 HITIKNGHVDMMILLLDY-MTST--NTNNSLLFIPDIKLAIDNK--------DLEMLQALFKYDINIYSVNLEN-VLL--  230 (284)
T ss_pred             HHHHHcCCHHHHHHHHHC-CCCC--CcccCCCCChHHHHHHHcC--------CHHHHHHHHHCCCCCccCcccC-ccC--
Confidence            999999999999999999 9999  8899999987 99999999        9999999999999999999855 666  


Q ss_pred             HHHcCCHHHHHHHHhcCCC
Q 001613          372 AAGSGNSQALEDLIRKEPD  390 (1044)
Q Consensus       372 Aa~~g~~eiVklLL~~gad  390 (1044)
                          ++.|++++||++.++
T Consensus       231 ----~~~e~~~~ll~~~~~  245 (284)
T PHA02791        231 ----DDAEIAKMIIEKHVE  245 (284)
T ss_pred             ----CCHHHHHHHHHhhhh
Confidence                899999999998776

>KOG4412 consensus 26S proteasome regulatory complex, subunit PSMD10 [Posttranslational modification, protein turnover, chaperones]

Probab=99.98  E-value=3.8e-32  Score=266.60  Aligned_cols=146  Identities=28%  Similarity=0.408  Sum_probs=140.2

Q ss_pred             CCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCC
Q 001613          284 TDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNK  363 (1044)
Q Consensus       284 ~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~  363 (1044)
                      .|..|+||||+||..|+.++|+.|+.+.|+|+  |..+..|.|+||||+..|        ..+|+++|+++|+.++.+|.
T Consensus        68 kDdaGWtPlhia~s~g~~evVk~Ll~r~~adv--na~tn~G~T~LHyAagK~--------r~eIaqlLle~ga~i~~kD~  137 (226)
T KOG4412|consen   68 KDDAGWTPLHIAASNGNDEVVKELLNRSGADV--NATTNGGQTCLHYAAGKG--------RLEIAQLLLEKGALIRIKDK  137 (226)
T ss_pred             ccccCCchhhhhhhcCcHHHHHHHhcCCCCCc--ceecCCCcceehhhhcCC--------hhhHHHHHHhcCCCCccccc
Confidence            38899999999999999999999999989999  999999999999999999        99999999999999999999


Q ss_pred             CCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHH
Q 001613          364 LGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKS  441 (1044)
Q Consensus       364 ~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~  441 (1044)
                      .|.||||-|+.-|..+++++|+..++. +|.+|+.|+||||.|...|+.++..+|+++|||+...|+.| ||+-.|+-
T Consensus       138 ~~qtplHRAAavGklkvie~Li~~~a~-~n~qDk~G~TpL~~al~e~~~d~a~lLV~~gAd~~~edke~-t~~~~a~~  213 (226)
T KOG4412|consen  138 QGQTPLHRAAAVGKLKVIEYLISQGAP-LNTQDKYGFTPLHHALAEGHPDVAVLLVRAGADTDREDKEG-TALRIACN  213 (226)
T ss_pred             ccCchhHHHHhccchhhHHHHHhcCCC-CCcccccCccHHHHHHhccCchHHHHHHHhccceeeccccC-chHHHHHH
Confidence            999999999999999999999999998 99999999999999999999999999999999999999998 99887753

>KOG4412 consensus 26S proteasome regulatory complex, subunit PSMD10 [Posttranslational modification, protein turnover, chaperones]

Probab=99.97  E-value=1.9e-32  Score=268.65  Aligned_cols=192  Identities=26%  Similarity=0.304  Sum_probs=171.1

Q ss_pred             HHHHHHcCC-CCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHH
Q 001613          269 IELLQLFGA-VANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRI  347 (1044)
Q Consensus       269 velLl~~GA-din~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~i  347 (1044)
                      ++-|++... .++.. .|.+|+|||||||..|+.+||.+||+..++.+  |.+|..|+||||+|+..|        +.++
T Consensus        19 veel~~s~~kSL~~r-~dqD~Rt~LHwa~S~g~~eiv~fLlsq~nv~~--ddkDdaGWtPlhia~s~g--------~~ev   87 (226)
T KOG4412|consen   19 VEELIQSDPKSLNAR-DDQDGRTPLHWACSFGHVEIVYFLLSQPNVKP--DDKDDAGWTPLHIAASNG--------NDEV   87 (226)
T ss_pred             HHHHHhcChhhhhcc-ccccCCceeeeeeecCchhHHHHHHhcCCCCC--CCccccCCchhhhhhhcC--------cHHH
Confidence            555555444 34443 35699999999999999999999998656666  889999999999999999        9999


Q ss_pred             HHHHHhc-CCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcc
Q 001613          348 VGILLKH-GAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSE  426 (1044)
Q Consensus       348 VklLLe~-GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin  426 (1044)
                      |+.|+.. |+|+|++++.|.|+||||+..|..+|+++|+++|+. ++++|..|.||||.|+.-|.++++++|+..||.+|
T Consensus        88 Vk~Ll~r~~advna~tn~G~T~LHyAagK~r~eIaqlLle~ga~-i~~kD~~~qtplHRAAavGklkvie~Li~~~a~~n  166 (226)
T KOG4412|consen   88 VKELLNRSGADVNATTNGGQTCLHYAAGKGRLEIAQLLLEKGAL-IRIKDKQGQTPLHRAAAVGKLKVIEYLISQGAPLN  166 (226)
T ss_pred             HHHHhcCCCCCcceecCCCcceehhhhcCChhhHHHHHHhcCCC-CcccccccCchhHHHHhccchhhHHHHHhcCCCCC
Confidence            9999987 999999999999999999999999999999999998 99999999999999999999999999999999999


Q ss_pred             cccCCCCcHHHHHHHcChHHHHHHhhhcCccccccchhhhhhhhcCChhhhhhHHHhhhcccCCCCccccccCCceeeee
Q 001613          427 VLNLRRERPIDFAKSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDISGTCEALLSMVDDNSNTERICSGTKIEVCK  506 (1044)
Q Consensus       427 ~~d~~G~TpLh~Aa~~g~~~Ll~~~~~n~~d~~~~~~~l~~A~~~~~~~i~~~~~~l~~~~d~~~~~~~~~~~~~~~t~L  506 (1044)
                      .+|+.|+||||.|.-                                                                 
T Consensus       167 ~qDk~G~TpL~~al~-----------------------------------------------------------------  181 (226)
T KOG4412|consen  167 TQDKYGFTPLHHALA-----------------------------------------------------------------  181 (226)
T ss_pred             cccccCccHHHHHHh-----------------------------------------------------------------
Confidence            999999999999942                                                                 


Q ss_pred             cccccCcccccccccccccccccccCCCccccccccc
Q 001613          507 YYESHSGCIRGSKCFYALGEEQHRKMNPGMCMIHAST  543 (1044)
Q Consensus       507 ~~Aa~~G~~eivk~Ll~~GAd~~~~d~~G~tpLh~aa  543 (1044)
                           .||.++..+|+++|||+...|+.| |++..+.
T Consensus       182 -----e~~~d~a~lLV~~gAd~~~edke~-t~~~~a~  212 (226)
T KOG4412|consen  182 -----EGHPDVAVLLVRAGADTDREDKEG-TALRIAC  212 (226)
T ss_pred             -----ccCchHHHHHHHhccceeeccccC-chHHHHH
Confidence                 246677788999999999999988 8876654

>KOG0508 consensus Ankyrin repeat protein [General function prediction only]

Probab=99.97  E-value=1.2e-30  Score=287.06  Aligned_cols=221  Identities=26%  Similarity=0.345  Sum_probs=177.5

Q ss_pred             HHHHcCCHHHHHHHHhCCCC--CccccccccCCCCChHHHHHHHcCCHHHHHHHHHc-CCCCCccc---CCCCCchHHHH
Q 001613           63 VSCIFDSVSCATSLVNGDLG--PVALVNEVEESSGMTALHLAAESHTARCVELLLKK-RARTDIRS---KDGRRLLPLEL  136 (1044)
Q Consensus        63 ~AA~~G~~eivk~LL~~g~~--~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~-GAdvn~~d---~~G~T~lpLh~  136 (1044)
                      -||..|.+..+..|+.+...  +..-++. +. +|.|||-+||++||.++|+||+++ +|++....   -+|.+      
T Consensus        10 naa~~g~l~~l~~ll~~~s~~ei~~l~~~-~~-~g~tPL~iaaRnGH~~vVeyLle~~~a~~e~~GsV~FDge~------   81 (615)
T KOG0508|consen   10 NAARDGKLQLLAKLLINSSNEEIISLIGE-VQ-NGGTPLLIAARNGHADVVEYLLEHCRASPEQGGSVRFDGET------   81 (615)
T ss_pred             HHhhhhhHHHHHHHHhCCchHHHHHHhcc-cc-CCCCceeeehhcCcHHHHHHHHHHhcCCccCCceEEeCCcc------
Confidence            56777777766655543200  0011222 23 788999999999999999999995 88776542   23333      


Q ss_pred             HHhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccC
Q 001613          137 SLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDS  216 (1044)
Q Consensus       137 Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~a  216 (1044)
                                    -.|..||..|+..|++++|++|+++|++++..                                  
T Consensus        82 --------------IegappLWaAsaAGHl~vVk~L~~~ga~VN~t----------------------------------  113 (615)
T KOG0508|consen   82 --------------IEGAPPLWAASAAGHLEVVKLLLRRGASVNDT----------------------------------  113 (615)
T ss_pred             --------------cCCCchhhHHhccCcHHHHHHHHHhcCccccc----------------------------------
Confidence                          12777888888899999999999999887642                                  


Q ss_pred             CCcccccchhhHHHHHHHHhcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHH
Q 001613          217 DLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILAT  296 (1044)
Q Consensus       217 din~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa  296 (1044)
                           ...              ..|||.-||.-|+.++              +++|+++|+|+++.  +..|.|-||+||
T Consensus       114 -----T~T--------------NStPLraACfDG~lei--------------vKyLvE~gad~~Ia--nrhGhTcLmIa~  158 (615)
T KOG0508|consen  114 -----TRT--------------NSTPLRAACFDGHLEI--------------VKYLVEHGADPEIA--NRHGHTCLMIAC  158 (615)
T ss_pred             -----ccc--------------CCccHHHHHhcchhHH--------------HHHHHHcCCCCccc--ccCCCeeEEeee
Confidence                 111              6789999999999988              99999999999886  889999999999


Q ss_pred             HcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcC
Q 001613          297 QAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSG  376 (1044)
Q Consensus       297 ~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g  376 (1044)
                      ..|+.+|+++|++. |+|+  |.++..|+|+||.+++.|        +++|+++|+++|+.++ +|..|.|||..|+..|
T Consensus       159 ykGh~~I~qyLle~-gADv--n~ks~kGNTALH~caEsG--------~vdivq~Ll~~ga~i~-~d~~GmtPL~~Aa~tG  226 (615)
T KOG0508|consen  159 YKGHVDIAQYLLEQ-GADV--NAKSYKGNTALHDCAESG--------SVDIVQLLLKHGAKID-VDGHGMTPLLLAAVTG  226 (615)
T ss_pred             ccCchHHHHHHHHh-CCCc--chhcccCchHHHhhhhcc--------cHHHHHHHHhCCceee-ecCCCCchHHHHhhhc
Confidence            99999999999999 9999  899999999999999999        9999999999999885 5566999999999999


Q ss_pred             CHHHHHHHHh
Q 001613          377 NSQALEDLIR  386 (1044)
Q Consensus       377 ~~eiVklLL~  386 (1044)
                      +.++|++|+.
T Consensus       227 ~~~iVe~L~~  236 (615)
T KOG0508|consen  227 HTDIVERLLQ  236 (615)
T ss_pred             chHHHHHHhc
Confidence            9999999984

>KOG0508 consensus Ankyrin repeat protein [General function prediction only]

Probab=99.97  E-value=2.2e-30  Score=284.87  Aligned_cols=215  Identities=17%  Similarity=0.209  Sum_probs=131.0

Q ss_pred             HHHHHHHhcCHHHHHHHHHhhccccccccccccccccchHHHHHHHcCCHHHHHHHHhCCC-----CCccccccccCCCC
Q 001613           21 LIINSLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIFDSVSCATSLVNGDL-----GPVALVNEVEESSG   95 (1044)
Q Consensus        21 ~ll~AIl~dD~~~L~~li~~~~~~~~l~~~~~~~~~~~T~Lh~AA~~G~~eivk~LL~~g~-----~~~adiN~~d~~~G   95 (1044)
                      -.+++...+....+..++... .++.+.+-.+....+.|||.+||++|+.++|++|+++..     +.....+--.. .|
T Consensus         7 ~~~naa~~g~l~~l~~ll~~~-s~~ei~~l~~~~~~g~tPL~iaaRnGH~~vVeyLle~~~a~~e~~GsV~FDge~I-eg   84 (615)
T KOG0508|consen    7 VVINAARDGKLQLLAKLLINS-SNEEIISLIGEVQNGGTPLLIAARNGHADVVEYLLEHCRASPEQGGSVRFDGETI-EG   84 (615)
T ss_pred             HHHHHhhhhhHHHHHHHHhCC-chHHHHHHhccccCCCCceeeehhcCcHHHHHHHHHHhcCCccCCceEEeCCccc-CC
Confidence            344555566665555555321 111122233345667899999999999999999998430     00122233344 78


Q ss_pred             ChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCchHHHHHHhCCCcceec----------CCCCCchhHHHHHHhcCC
Q 001613           96 MTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIW----------NPDEYSVEDLVVILGQKN  165 (1044)
Q Consensus        96 ~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa~~g~~eIv~----------~~~~~~~t~L~~Ai~~g~  165 (1044)
                      .+||-.|+..||++||++|+++||++|....-..|  ||-.||..|+.+|++          ..+..|.|.||.|+..|+
T Consensus        85 appLWaAsaAGHl~vVk~L~~~ga~VN~tT~TNSt--PLraACfDG~leivKyLvE~gad~~IanrhGhTcLmIa~ykGh  162 (615)
T KOG0508|consen   85 APPLWAASAAGHLEVVKLLLRRGASVNDTTRTNST--PLRAACFDGHLEIVKYLVEHGADPEIANRHGHTCLMIACYKGH  162 (615)
T ss_pred             CchhhHHhccCcHHHHHHHHHhcCccccccccCCc--cHHHHHhcchhHHHHHHHHcCCCCcccccCCCeeEEeeeccCc
Confidence            89999999999999999999999999887776666  777777766655542          122334444444444444


Q ss_pred             HHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCCCcccccchhhHHHHHHHHhcCCchHHHH
Q 001613          166 LTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQR  245 (1044)
Q Consensus       166 ~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~  245 (1044)
                      .+|+++|++.|+|++.                                       ++..              |.|+||.
T Consensus       163 ~~I~qyLle~gADvn~---------------------------------------ks~k--------------GNTALH~  189 (615)
T KOG0508|consen  163 VDIAQYLLEQGADVNA---------------------------------------KSYK--------------GNTALHD  189 (615)
T ss_pred             hHHHHHHHHhCCCcch---------------------------------------hccc--------------CchHHHh
Confidence            4444444444444432                                       2222              6666666


Q ss_pred             HHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHH
Q 001613          246 AVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLK  309 (1044)
Q Consensus       246 A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~  309 (1044)
                      +++.|+.++              +++|+.+|+.++.   |..|.|||..|+..|+.++|++|++
T Consensus       190 caEsG~vdi--------------vq~Ll~~ga~i~~---d~~GmtPL~~Aa~tG~~~iVe~L~~  236 (615)
T KOG0508|consen  190 CAESGSVDI--------------VQLLLKHGAKIDV---DGHGMTPLLLAAVTGHTDIVERLLQ  236 (615)
T ss_pred             hhhcccHHH--------------HHHHHhCCceeee---cCCCCchHHHHhhhcchHHHHHHhc
Confidence            666666665              6666666666654   4556666666666666666666664

>PHA02792 ankyrin-like protein; Provisional

Probab=99.97  E-value=4.5e-29  Score=295.35  Aligned_cols=333  Identities=14%  Similarity=0.081  Sum_probs=234.2

Q ss_pred             ccchHHHH-HHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHH-cCCHHHHHHHHHcCCCCCcccCCCCCchH
Q 001613           56 IVTKLLRV-SCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAE-SHTARCVELLLKKRARTDIRSKDGRRLLP  133 (1044)
Q Consensus        56 ~~~T~Lh~-AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~-~G~~eiVklLL~~GAdvn~~d~~G~T~lp  133 (1044)
                      ++.+++|+ |+..|++|+|++|+.+|    |++|.++. .|.||||+|+. .|+.|||++||++|||++..+..|.|  |
T Consensus        70 ~~~~~~~~~~s~n~~lElvk~LI~~G----AdvN~~~n-~~~~~l~ya~~~~~~~eivk~Ll~~Gad~~~~~~~g~~--~  142 (631)
T PHA02792         70 NDFDIFEYLCSDNIDIELLKLLISKG----LEINSIKN-GINIVEKYATTSNPNVDVFKLLLDKGIPTCSNIQYGYK--I  142 (631)
T ss_pred             CCccHHHHHHHhcccHHHHHHHHHcC----CCcccccC-CCCcceeEeecCCCChHHHHHHHHCCCCcccccccCcc--h
Confidence            34557875 45688999999999998    99999999 89999999976 69999999999999999999999999  7


Q ss_pred             HHHHHhCCCc-------c------eecCCCCCchhHHHHHHhcC-------CHHHHHHHHHcCCCcchHHHHhhhcCcHH
Q 001613          134 LELSLSSSRM-------D------VIWNPDEYSVEDLVVILGQK-------NLTTVKLLSQKTKELDEVAYANAVGGRIV  193 (1044)
Q Consensus       134 Lh~Aa~~g~~-------e------Iv~~~~~~~~t~L~~Ai~~g-------~~eivklLl~~gadi~~~~~~~a~~g~~~  193 (1044)
                      |+..+.....       +      ++...+..|.|+||.|+..+       +.+++++|+++|++++....    .|.  
T Consensus       143 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~g~t~L~~~i~~~s~~~~~~~~~v~k~Li~~g~~~~~~d~----~g~--  216 (631)
T PHA02792        143 IIEQITRAEYYNWDDELDDYDYDYTTDYDDRMGKTVLYYYIITRSQDGYATSLDVINYLISHEKEMRYYTY----REH--  216 (631)
T ss_pred             hhhhcccccccchhhhccccccccccccCCCCCCchHHHHHhhCCcccccCCHHHHHHHHhCCCCcCccCC----CCC--
Confidence            7665542211       0      22234556999999999999       89999999999999865321    122  


Q ss_pred             HHHHHHHHHhhh----hhhHHHHhccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHH
Q 001613          194 ALAALLIVAADK----VNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEI  269 (1044)
Q Consensus       194 ~l~~ll~~a~~~----~~~~~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~v  269 (1044)
                        +++..+....    ...++++.. .... .....+....+..-...   +         +..+          ....|
T Consensus       217 --t~l~~~~~~~~i~~ei~~~L~~~-~~~~-~~~~~~l~~y~~~~~~~---~---------~~~i----------d~~iv  270 (631)
T PHA02792        217 --TTLYYYVDKCDIKREIFDALFDS-NYSG-NELMNILSNYLRKQYRN---K---------NHKI----------DNYIV  270 (631)
T ss_pred             --hHHHHHHHcccchHHHHHHHHhc-cccc-cchHhHHHHHHHHHhcc---C---------ccCc----------cHHHH
Confidence              2222222222    112222221 1111 11111111111110000   0         0000          01123


Q ss_pred             HHHHHcCCCCCCc--cC---------------CCCCCcHHHHHHHcC--CHHHHHHHHHcCCCCCCCCCCCCCCchHHHH
Q 001613          270 ELLQLFGAVANGS--CT---------------DKKVGPPLILATQAG--DEDVIEILLKSKNIDINDADADADGNSALHC  330 (1044)
Q Consensus       270 elLl~~GAdin~~--~~---------------d~~G~TpLh~Aa~~G--~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~  330 (1044)
                      ..|++.+---+..  ..               +..-+-.||.-...+  +.+++++|+++ |+++  .  ......+++.
T Consensus       271 ~~ll~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~q~~l~~Yl~~~~v~ieiIK~LId~-Ga~~--~--r~~~~n~~~~  345 (631)
T PHA02792        271 DKLLSGHDTFYILELCNSLRNNIIISSILKRYTDSIQDLLSEYVSYHTVYINVIKCMIDE-GATL--Y--RFKHINKYFQ  345 (631)
T ss_pred             HHHHhCCCccchhhhhhhhhhhhHHHHHHHHHhHHHHHHHHHHHhcCCccHHHHHHHHHC-CCcc--c--cCCcchHHHH
Confidence            3333332210000  00               011123567767776  78899999999 9988  3  1235667999


Q ss_pred             HHhcCCCcccccchHHHHHHHHhcCCeeeecCCCC--CcHHHHHHHcCCH---HHHHHHHhcCCCCcccCCCCCCcHHHH
Q 001613          331 ALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLG--LTALHIAAGSGNS---QALEDLIRKEPDCINLKTIMMETPLFF  405 (1044)
Q Consensus       331 Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G--~TpLh~Aa~~g~~---eiVklLL~~gad~in~~d~~G~TpLh~  405 (1044)
                      |+..|        +.++|++|+++||+++.+|..|  .||||+|+.....   +++++|+++|++ +|.+|..|+||||+
T Consensus       346 Aa~~g--------n~eIVelLIs~GADIN~kD~~g~~~TpLh~A~~n~~~~v~~IlklLIs~GAD-IN~kD~~G~TPLh~  416 (631)
T PHA02792        346 KFDNR--------DPKVVEYILKNGNVVVEDDDNIINIMPLFPTLSIHESDVLSILKLCKPYIDD-INKIDKHGRSILYY  416 (631)
T ss_pred             HHHcC--------CHHHHHHHHHcCCchhhhcCCCCChhHHHHHHHhccHhHHHHHHHHHhcCCc-cccccccCcchHHH
Confidence            99999        9999999999999999999875  6999998877665   468899999999 99999999999999


Q ss_pred             HHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHH
Q 001613          406 AVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKS  441 (1044)
Q Consensus       406 Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~  441 (1044)
                      |+..++.+++++|+++||++|.+|..|+||||+|+.
T Consensus       417 Aa~~~n~eivelLLs~GADIN~kD~~G~TpL~~A~~  452 (631)
T PHA02792        417 CIESHSVSLVEWLIDNGADINITTKYGSTCIGICVI  452 (631)
T ss_pred             HHHcCCHHHHHHHHHCCCCCCCcCCCCCCHHHHHHH
Confidence            999999999999999999999999999999999976

>PHA02792 ankyrin-like protein; Provisional

Probab=99.97  E-value=1.1e-28  Score=292.23  Aligned_cols=346  Identities=13%  Similarity=0.021  Sum_probs=236.5

Q ss_pred             CCCChhHHHHHH-HHHhcCHHHHHHHHHhhccccccccccccccccchHHHHHHH-cCCHHHHHHHHhCCCCCcc-----
Q 001613           13 SVTDLETTLIIN-SLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCI-FDSVSCATSLVNGDLGPVA-----   85 (1044)
Q Consensus        13 s~~d~e~~~ll~-AIl~dD~~~L~~li~~~~~~~~l~~~~~~~~~~~T~Lh~AA~-~G~~eivk~LL~~g~~~~a-----   85 (1044)
                      ..+.+++.++.. +....|++.+.-++..+...+.      .++.+.++||+|+. .|++|+|++||+.|....+     
T Consensus        66 ~~n~~~~~~~~~~~s~n~~lElvk~LI~~GAdvN~------~~n~~~~~l~ya~~~~~~~eivk~Ll~~Gad~~~~~~~g  139 (631)
T PHA02792         66 YKNINDFDIFEYLCSDNIDIELLKLLISKGLEINS------IKNGINIVEKYATTSNPNVDVFKLLLDKGIPTCSNIQYG  139 (631)
T ss_pred             cCccCCccHHHHHHHhcccHHHHHHHHHcCCCccc------ccCCCCcceeEeecCCCChHHHHHHHHCCCCcccccccC
Confidence            445555543322 3344778888777776554332      23346899999976 6999999999999843111     


Q ss_pred             ---------------------------ccccccCCCCChHHHHHHHcC-------CHHHHHHHHHcCCCCCcccCCCCCc
Q 001613           86 ---------------------------LVNEVEESSGMTALHLAAESH-------TARCVELLLKKRARTDIRSKDGRRL  131 (1044)
Q Consensus        86 ---------------------------diN~~d~~~G~TpLH~Aa~~G-------~~eiVklLL~~GAdvn~~d~~G~T~  131 (1044)
                                                 .+|..|. .|.||||+|+.++       +.+++++||++||+++.+|..|.| 
T Consensus       140 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~-~g~t~L~~~i~~~s~~~~~~~~~v~k~Li~~g~~~~~~d~~g~t-  217 (631)
T PHA02792        140 YKIIIEQITRAEYYNWDDELDDYDYDYTTDYDDR-MGKTVLYYYIITRSQDGYATSLDVINYLISHEKEMRYYTYREHT-  217 (631)
T ss_pred             cchhhhhcccccccchhhhccccccccccccCCC-CCCchHHHHHhhCCcccccCCHHHHHHHHhCCCCcCccCCCCCh-
Confidence                                       2455666 8999999999999       899999999999999999999999 


Q ss_pred             hHHHHHHhCCCc--ceecCC----CC--CchhHHH----HHHhc----CCHHHHHHHHHcCCCcchHHHHhhhcCcHHHH
Q 001613          132 LPLELSLSSSRM--DVIWNP----DE--YSVEDLV----VILGQ----KNLTTVKLLSQKTKELDEVAYANAVGGRIVAL  195 (1044)
Q Consensus       132 lpLh~Aa~~g~~--eIv~~~----~~--~~~t~L~----~Ai~~----g~~eivklLl~~gadi~~~~~~~a~~g~~~~l  195 (1044)
                       |||+|+.+.++  ||+..+    ..  .....|.    .--+.    =+..+|..|++.+...+...            
T Consensus       218 -~l~~~~~~~~i~~ei~~~L~~~~~~~~~~~~~l~~y~~~~~~~~~~~id~~iv~~ll~~~~~~~i~~------------  284 (631)
T PHA02792        218 -TLYYYVDKCDIKREIFDALFDSNYSGNELMNILSNYLRKQYRNKNHKIDNYIVDKLLSGHDTFYILE------------  284 (631)
T ss_pred             -HHHHHHHcccchHHHHHHHHhccccccchHhHHHHHHHHHhccCccCccHHHHHHHHhCCCccchhh------------
Confidence             99999998843  332100    00  0000000    00000    01224444443332111100            


Q ss_pred             HHHHHHHhhhhhhHHHHhccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHc
Q 001613          196 AALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLF  275 (1044)
Q Consensus       196 ~~ll~~a~~~~~~~~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~  275 (1044)
                                    .+       +...........+.... ..-+..||.-..++....            ..+++|++.
T Consensus       285 --------------~~-------~~~~~~~~~~~~~~~~~-~~~q~~l~~Yl~~~~v~i------------eiIK~LId~  330 (631)
T PHA02792        285 --------------LC-------NSLRNNIIISSILKRYT-DSIQDLLSEYVSYHTVYI------------NVIKCMIDE  330 (631)
T ss_pred             --------------hh-------hhhhhhhHHHHHHHHHh-HHHHHHHHHHHhcCCccH------------HHHHHHHHC
Confidence                          00       00000000000100000 113445666666554332            349999999


Q ss_pred             CCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCC--chHHHHHHhcCCCcccccchHHHHHHHHh
Q 001613          276 GAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADG--NSALHCALKTSMGLSQHILQNRIVGILLK  353 (1044)
Q Consensus       276 GAdin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G--~TpLh~Aa~~g~~~~~~~~~~~iVklLLe  353 (1044)
                      |++.+.    ......++.|+..|+.++|++|+++ |+++  +.+|.+|  .||||+|+....     ....+++++|++
T Consensus       331 Ga~~~r----~~~~n~~~~Aa~~gn~eIVelLIs~-GADI--N~kD~~g~~~TpLh~A~~n~~-----~~v~~IlklLIs  398 (631)
T PHA02792        331 GATLYR----FKHINKYFQKFDNRDPKVVEYILKN-GNVV--VEDDDNIINIMPLFPTLSIHE-----SDVLSILKLCKP  398 (631)
T ss_pred             CCcccc----CCcchHHHHHHHcCCHHHHHHHHHc-CCch--hhhcCCCCChhHHHHHHHhcc-----HhHHHHHHHHHh
Confidence            999752    2356689999999999999999999 9999  7777765  699999877651     113467899999


Q ss_pred             cCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHH--c--------CCHHHHHHHHHCCC
Q 001613          354 HGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVK--N--------DHMVCAEVLLRWGA  423 (1044)
Q Consensus       354 ~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~--~--------g~~~iVklLL~~GA  423 (1044)
                      +|||+|.+|..|+||||+|+..++.+++++|+++|++ +|.+|..|.||||+|+.  .        ...+++++|+++|.
T Consensus       399 ~GADIN~kD~~G~TPLh~Aa~~~n~eivelLLs~GAD-IN~kD~~G~TpL~~A~~~~~~~~~~i~~~~~~il~lLLs~~p  477 (631)
T PHA02792        399 YIDDINKIDKHGRSILYYCIESHSVSLVEWLIDNGAD-INITTKYGSTCIGICVILAHACIPEIAELYIKILEIILSKLP  477 (631)
T ss_pred             cCCccccccccCcchHHHHHHcCCHHHHHHHHHCCCC-CCCcCCCCCCHHHHHHHHHhcccHHHHHHHHHHHHHHHhcCC
Confidence            9999999999999999999999999999999999999 99999999999999976  2        23677999999998


Q ss_pred             Ccc
Q 001613          424 NSE  426 (1044)
Q Consensus       424 din  426 (1044)
                      +++
T Consensus       478 ~i~  480 (631)
T PHA02792        478 TIE  480 (631)
T ss_pred             Chh
Confidence            875

>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]

Probab=99.96  E-value=1.5e-29  Score=290.74  Aligned_cols=212  Identities=25%  Similarity=0.276  Sum_probs=148.8

Q ss_pred             cccchHHHHHHHcCCHHHHHHHHhC-CCCCccccccccCCCCChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCchH
Q 001613           55 AIVTKLLRVSCIFDSVSCATSLVNG-DLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLP  133 (1044)
Q Consensus        55 ~~~~T~Lh~AA~~G~~eivk~LL~~-g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lp  133 (1044)
                      +....-++.|+.+|.++-|+.|++. |    .++|..|. +|.|+||+||.+++++++++||++|||+|...-+.     
T Consensus        42 d~~~~~~v~A~q~G~l~~v~~lve~~g----~~v~~~D~-~g~tlLHWAAiNNrl~v~r~li~~gadvn~~gG~l-----  111 (600)
T KOG0509|consen   42 DSSLDDIVKATQYGELETVKELVESEG----ESVNNPDR-EGVTLLHWAAINNRLDVARYLISHGADVNAIGGVL-----  111 (600)
T ss_pred             chhhhhhhhHhhcchHHHHHHHHhhcC----cCCCCCCc-CCccceeHHHHcCcHHHHHHHHHcCCCccccCCCC-----
Confidence            3346778899999999999999988 6    78999999 99999999999999999999999999988654211     


Q ss_pred             HHHHHhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHh
Q 001613          134 LELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVL  213 (1044)
Q Consensus       134 Lh~Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~  213 (1044)
                                                                                                      
T Consensus       112 --------------------------------------------------------------------------------  111 (600)
T KOG0509|consen  112 --------------------------------------------------------------------------------  111 (600)
T ss_pred             --------------------------------------------------------------------------------
Confidence                                                                                            


Q ss_pred             ccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHH
Q 001613          214 HDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLI  293 (1044)
Q Consensus       214 ~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh  293 (1044)
                                               +.||||||+++|+..+              +++|+++||+++..  |..|.+|||
T Consensus       112 -------------------------~stPLHWAar~G~~~v--------------v~lLlqhGAdpt~~--D~~G~~~lH  150 (600)
T KOG0509|consen  112 -------------------------GSTPLHWAARNGHISV--------------VDLLLQHGADPTLK--DKQGLTPLH  150 (600)
T ss_pred             -------------------------CCCcchHHHHcCcHHH--------------HHHHHHcCCCCcee--cCCCCcHHH
Confidence                                     3333444444443333              55555566665554  667777777


Q ss_pred             HHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecC-CCCCcHHHHH
Q 001613          294 LATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQN-KLGLTALHIA  372 (1044)
Q Consensus       294 ~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d-~~G~TpLh~A  372 (1044)
                      .|++.|+.-+|-|||.+ ++|+  +.+|.+|+||||+|+..|        ....+++||+.|++++.+| ..|+||||+|
T Consensus       151 la~~~~~~~~vayll~~-~~d~--d~~D~~grTpLmwAaykg--------~~~~v~~LL~f~a~~~~~d~~~g~TpLHwa  219 (600)
T KOG0509|consen  151 LAAQFGHTALVAYLLSK-GADI--DLRDNNGRTPLMWAAYKG--------FALFVRRLLKFGASLLLTDDNHGNTPLHWA  219 (600)
T ss_pred             HHHHhCchHHHHHHHHh-cccC--CCcCCCCCCHHHHHHHhc--------ccHHHHHHHHhcccccccccccCCchHHHH
Confidence            77777777777777776 6666  667777777777777766        4444677777777776666 6677777777


Q ss_pred             HHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHc
Q 001613          373 AGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKN  409 (1044)
Q Consensus       373 a~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~  409 (1044)
                      +..|+..++.+|++.|++ .+.+|.+|.||+.+|.+.
T Consensus       220 ~~~gN~~~v~Ll~~g~~~-~d~~~~~g~tp~~LA~~~  255 (600)
T KOG0509|consen  220 VVGGNLTAVKLLLEGGAD-LDKTNTNGKTPFDLAQER  255 (600)
T ss_pred             HhcCCcceEehhhhcCCc-ccccccCCCCHHHHHHHh
Confidence            777777777733344444 666676677777777665

>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]

Probab=99.95  E-value=2.8e-28  Score=280.24  Aligned_cols=176  Identities=26%  Similarity=0.361  Sum_probs=131.6

Q ss_pred             chHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHc-CCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC
Q 001613          240 ATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLF-GAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDA  318 (1044)
Q Consensus       240 ~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~-GAdin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n  318 (1044)
                      ..-+..|++.|..+.              ++.|++. |.+++..  |.+|.|+||+|+.+++++++++|+++ |+||  |
T Consensus        45 ~~~~v~A~q~G~l~~--------------v~~lve~~g~~v~~~--D~~g~tlLHWAAiNNrl~v~r~li~~-gadv--n  105 (600)
T KOG0509|consen   45 LDDIVKATQYGELET--------------VKELVESEGESVNNP--DREGVTLLHWAAINNRLDVARYLISH-GADV--N  105 (600)
T ss_pred             hhhhhhHhhcchHHH--------------HHHHHhhcCcCCCCC--CcCCccceeHHHHcCcHHHHHHHHHc-CCCc--c
Confidence            345566667776665              7777777 6666654  77777777777777777777777777 7777  5


Q ss_pred             CCC-CCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCC
Q 001613          319 DAD-ADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTI  397 (1044)
Q Consensus       319 ~~d-~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~  397 (1044)
                      ..+ .-+.||||||+++|        ++.+|++|+++|||++.+|..|.||||+|+..|+.-+|-+||.++++ +|.+|.
T Consensus       106 ~~gG~l~stPLHWAar~G--------~~~vv~lLlqhGAdpt~~D~~G~~~lHla~~~~~~~~vayll~~~~d-~d~~D~  176 (600)
T KOG0509|consen  106 AIGGVLGSTPLHWAARNG--------HISVVDLLLQHGADPTLKDKQGLTPLHLAAQFGHTALVAYLLSKGAD-IDLRDN  176 (600)
T ss_pred             ccCCCCCCCcchHHHHcC--------cHHHHHHHHHcCCCCceecCCCCcHHHHHHHhCchHHHHHHHHhccc-CCCcCC
Confidence            555 56677777777777        77777777777777777777777777777777777777777777776 777777


Q ss_pred             CCCcHHHHHHHcCCHHHHHHHHHCCCCccccc-CCCCcHHHHHHHcC
Q 001613          398 MMETPLFFAVKNDHMVCAEVLLRWGANSEVLN-LRRERPIDFAKSQD  443 (1044)
Q Consensus       398 ~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d-~~G~TpLh~Aa~~g  443 (1044)
                      +|+||||+|+..|+...+.+|++.|++++.+| .+|.||||+|+..|
T Consensus       177 ~grTpLmwAaykg~~~~v~~LL~f~a~~~~~d~~~g~TpLHwa~~~g  223 (600)
T KOG0509|consen  177 NGRTPLMWAAYKGFALFVRRLLKFGASLLLTDDNHGNTPLHWAVVGG  223 (600)
T ss_pred             CCCCHHHHHHHhcccHHHHHHHHhcccccccccccCCchHHHHHhcC
Confidence            77777777777777777777777777777776 67777777776543

>PHA02859 ankyrin repeat protein; Provisional

Probab=99.95  E-value=1.1e-26  Score=247.39  Aligned_cols=180  Identities=16%  Similarity=0.180  Sum_probs=159.9

Q ss_pred             hcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHcC--CHHHHHHHHHcCCC
Q 001613          236 ALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAG--DEDVIEILLKSKNI  313 (1044)
Q Consensus       236 ~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~G--~~eiVk~LL~~~ga  313 (1044)
                      ...+.+||++|+..++.+.              ++.|+..+   +.  .+..|.||||+|+..+  +.+++++||+. |+
T Consensus        18 ~~~~~~pL~~A~~~~~~~~--------------vk~Li~~~---n~--~~~~g~TpLh~a~~~~~~~~eiv~~Ll~~-ga   77 (209)
T PHA02859         18 FYRYCNPLFYYVEKDDIEG--------------VKKWIKFV---ND--CNDLYETPIFSCLEKDKVNVEILKFLIEN-GA   77 (209)
T ss_pred             hhccCcHHHHHHHhCcHHH--------------HHHHHHhh---hc--cCccCCCHHHHHHHcCCCCHHHHHHHHHC-CC
Confidence            4458999999999999888              99998753   33  3778999999999865  89999999999 99


Q ss_pred             CCCCCCCC-CCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHH--cCCHHHHHHHHhcCCC
Q 001613          314 DINDADAD-ADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAG--SGNSQALEDLIRKEPD  390 (1044)
Q Consensus       314 dvn~n~~d-~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~--~g~~eiVklLL~~gad  390 (1044)
                      ++  +.++ ..|.||||+|+..+.     ..+.+++++|+++|+++|.+|..|.||||+|+.  .++.+++++|+++|++
T Consensus        78 dv--n~~~~~~g~TpLh~a~~~~~-----~~~~eiv~~Ll~~gadin~~d~~G~TpLh~a~~~~~~~~~iv~~Li~~gad  150 (209)
T PHA02859         78 DV--NFKTRDNNLSALHHYLSFNK-----NVEPEILKILIDSGSSITEEDEDGKNLLHMYMCNFNVRINVIKLLIDSGVS  150 (209)
T ss_pred             CC--CccCCCCCCCHHHHHHHhCc-----cccHHHHHHHHHCCCCCCCcCCCCCCHHHHHHHhccCCHHHHHHHHHcCCC
Confidence            99  8886 589999999886430     116899999999999999999999999999876  4689999999999999


Q ss_pred             CcccCCCCCCcHHHH-HHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHHcC
Q 001613          391 CINLKTIMMETPLFF-AVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQD  443 (1044)
Q Consensus       391 ~in~~d~~G~TpLh~-Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g  443 (1044)
                       +|.+|..|.||||. |+..++.+++++|+++|++++.+|..|+||||+|+.++
T Consensus       151 -in~~d~~g~t~Lh~~a~~~~~~~iv~~Ll~~Gadi~~~d~~g~tpl~la~~~~  203 (209)
T PHA02859        151 -FLNKDFDNNNILYSYILFHSDKKIFDFLTSLGIDINETNKSGYNCYDLIKFRN  203 (209)
T ss_pred             -cccccCCCCcHHHHHHHhcCCHHHHHHHHHcCCCCCCCCCCCCCHHHHHhhhh
Confidence             99999999999995 56788999999999999999999999999999999876

>PHA02795 ankyrin-like protein; Provisional

Probab=99.95  E-value=9.5e-27  Score=267.07  Aligned_cols=215  Identities=17%  Similarity=0.077  Sum_probs=148.2

Q ss_pred             cCCHH-HHHHHHhCCCCCccccccccCCCCChHHHHHHHcCCHHHHHHHHHcCCCCC------cccCCCCCchHHHHHHh
Q 001613           67 FDSVS-CATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTD------IRSKDGRRLLPLELSLS  139 (1044)
Q Consensus        67 ~G~~e-ivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdvn------~~d~~G~T~lpLh~Aa~  139 (1044)
                      .+-++ ..++++.+|    +++|..+. +|     +|+..+..|++++|+++|+++|      .++..++|  +||+|+.
T Consensus        58 ~~~~~~~~~~~~~~~----~~i~~~~~-~~-----~~~~~~~k~~~~~l~s~~~~~~~~~~~~~~~~~~~~--~L~~~~~  125 (437)
T PHA02795         58 CDPVDVLYDYFRIHR----DNIDQYIV-DR-----LFAYITYKDIISALVSKNYMEDIFSIIIKNCNSVQD--LLLYYLS  125 (437)
T ss_pred             CCHHHHHHHHHHHcC----cchhhhhh-hh-----HHhhcchHHHHHHHHhcccccchhhhhhhccccccH--HHHHHHH
Confidence            34555 467888988    89999988 77     9999999999999999999988      55555555  5555554


Q ss_pred             CCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCCCc
Q 001613          140 SSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLG  219 (1044)
Q Consensus       140 ~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~adin  219 (1044)
                      ++.                     |+.++|++|+++|                                           
T Consensus       126 n~~---------------------n~~eiV~~LI~~G-------------------------------------------  141 (437)
T PHA02795        126 NAY---------------------VEIDIVDFMVDHG-------------------------------------------  141 (437)
T ss_pred             hcC---------------------CCHHHHHHHHHCC-------------------------------------------
Confidence            321                     3344455555544                                           


Q ss_pred             ccccchhhHHHHHHHHhcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHcC
Q 001613          220 AKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAG  299 (1044)
Q Consensus       220 ~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~G  299 (1044)
                                                                               |+++..    ++.||||+|+..|
T Consensus       142 ---------------------------------------------------------ADIn~~----~~~t~lh~A~~~~  160 (437)
T PHA02795        142 ---------------------------------------------------------AVIYKI----ECLNAYFRGICKK  160 (437)
T ss_pred             ---------------------------------------------------------CCCCCC----CCCCHHHHHHHcC
Confidence                                                                     444432    3356777777777


Q ss_pred             CHHHHHHHHHcCCCCCCCCCC-----CCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHH
Q 001613          300 DEDVIEILLKSKNIDINDADA-----DADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAG  374 (1044)
Q Consensus       300 ~~eiVk~LL~~~gadvn~n~~-----d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~  374 (1044)
                      +.++|++|+++ |++.+ +..     +..+.|++|.|+..+        +.+++++|+++||++|.+|..|.||||+|+.
T Consensus       161 ~~eIVk~Lls~-Ga~~~-n~~~~~l~~~~~~t~l~~a~~~~--------~~eIve~LIs~GADIN~kD~~G~TpLh~Aa~  230 (437)
T PHA02795        161 ESSVVEFILNC-GIPDE-NDVKLDLYKIIQYTRGFLVDEPT--------VLEIYKLCIPYIEDINQLDAGGRTLLYRAIY  230 (437)
T ss_pred             cHHHHHHHHhc-CCccc-ccccchhhhhhccchhHHHHhcC--------HHHHHHHHHhCcCCcCcCCCCCCCHHHHHHH
Confidence            77777777776 65331 221     133667777777766        7777777777777777777777777777777


Q ss_pred             cCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcC--------CHHHHHHHHHCCCCccccc
Q 001613          375 SGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND--------HMVCAEVLLRWGANSEVLN  429 (1044)
Q Consensus       375 ~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g--------~~~iVklLL~~GAdin~~d  429 (1044)
                      .|+.++|++|+++|++ +|.+|..|+||||+|+.+|        +.+++++|+++|++++..+
T Consensus       231 ~g~~eiVelLL~~GAd-IN~~d~~G~TpLh~Aa~~g~~~~~~~~~~eIvelLL~~gadI~~~~  292 (437)
T PHA02795        231 AGYIDLVSWLLENGAN-VNAVMSNGYTCLDVAVDRGSVIARRETHLKILEILLREPLSIDCIK  292 (437)
T ss_pred             cCCHHHHHHHHHCCCC-CCCcCCCCCCHHHHHHHcCCcccccccHHHHHHHHHhCCCCCCchh
Confidence            7777777777777776 7777777777777777766        3577777777777776543

>PHA02795 ankyrin-like protein; Provisional

Probab=99.94  E-value=7.4e-26  Score=259.77  Aligned_cols=219  Identities=16%  Similarity=0.104  Sum_probs=156.4

Q ss_pred             HHHHcCCHHHHHHHHhCCCCCccccc------cccCCCCChHHHHHHH--cCCHHHHHHHHHcCCCCCcccCCCCCchHH
Q 001613           63 VSCIFDSVSCATSLVNGDLGPVALVN------EVEESSGMTALHLAAE--SHTARCVELLLKKRARTDIRSKDGRRLLPL  134 (1044)
Q Consensus        63 ~AA~~G~~eivk~LL~~g~~~~adiN------~~d~~~G~TpLH~Aa~--~G~~eiVklLL~~GAdvn~~d~~G~T~lpL  134 (1044)
                      +||..+..|++++|+++|    +++|      .++. .++|+||+|+.  +|+.++|++||++|||++..  ++.|  ||
T Consensus        83 ~~~~~~~k~~~~~l~s~~----~~~~~~~~~~~~~~-~~~~~L~~~~~n~~n~~eiV~~LI~~GADIn~~--~~~t--~l  153 (437)
T PHA02795         83 LFAYITYKDIISALVSKN----YMEDIFSIIIKNCN-SVQDLLLYYLSNAYVEIDIVDFMVDHGAVIYKI--ECLN--AY  153 (437)
T ss_pred             HHhhcchHHHHHHHHhcc----cccchhhhhhhccc-cccHHHHHHHHhcCCCHHHHHHHHHCCCCCCCC--CCCC--HH
Confidence            999999999999999999    8888      8888 89999999999  99999999999999999874  3455  66


Q ss_pred             HHHHhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhc
Q 001613          135 ELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLH  214 (1044)
Q Consensus       135 h~Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~  214 (1044)
                      |.|+..                       ++.+++++|+++|++....                                
T Consensus       154 h~A~~~-----------------------~~~eIVk~Lls~Ga~~~n~--------------------------------  178 (437)
T PHA02795        154 FRGICK-----------------------KESSVVEFILNCGIPDEND--------------------------------  178 (437)
T ss_pred             HHHHHc-----------------------CcHHHHHHHHhcCCccccc--------------------------------
Confidence            666554                       4577799999998743210                                


Q ss_pred             cCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHH
Q 001613          215 DSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLIL  294 (1044)
Q Consensus       215 ~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~  294 (1044)
                                              +.+++                                        .+..+.|++|.
T Consensus       179 ------------------------~~~~l----------------------------------------~~~~~~t~l~~  194 (437)
T PHA02795        179 ------------------------VKLDL----------------------------------------YKIIQYTRGFL  194 (437)
T ss_pred             ------------------------ccchh----------------------------------------hhhhccchhHH
Confidence                                    00000                                        01234467777


Q ss_pred             HHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHH
Q 001613          295 ATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAG  374 (1044)
Q Consensus       295 Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~  374 (1044)
                      |+..++.+++++|+++ |+++  |.+|..|.||||+|+..|        +.+++++|+++||++|.+|..|+||||+|+.
T Consensus       195 a~~~~~~eIve~LIs~-GADI--N~kD~~G~TpLh~Aa~~g--------~~eiVelLL~~GAdIN~~d~~G~TpLh~Aa~  263 (437)
T PHA02795        195 VDEPTVLEIYKLCIPY-IEDI--NQLDAGGRTLLYRAIYAG--------YIDLVSWLLENGANVNAVMSNGYTCLDVAVD  263 (437)
T ss_pred             HHhcCHHHHHHHHHhC-cCCc--CcCCCCCCCHHHHHHHcC--------CHHHHHHHHHCCCCCCCcCCCCCCHHHHHHH
Confidence            7777777777777777 7777  677777777777777777        7777777777777777777777777777777


Q ss_pred             cCC--------HHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcc
Q 001613          375 SGN--------SQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSE  426 (1044)
Q Consensus       375 ~g~--------~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin  426 (1044)
                      .|+        .+++++|+++|++ ++....   |.+..  ...+.++++.|+++++.++
T Consensus       264 ~g~~~~~~~~~~eIvelLL~~gad-I~~~~~---~~~~~--~~~n~~~ik~lI~y~~~ld  317 (437)
T PHA02795        264 RGSVIARRETHLKILEILLREPLS-IDCIKL---AILNN--TIENHDVIKLCIKYFMMVD  317 (437)
T ss_pred             cCCcccccccHHHHHHHHHhCCCC-CCchhH---Hhhhc--ccchHHHHHHHHHHHHhcc
Confidence            663        5777777777776 555332   22211  1125677777777665443

>PHA02859 ankyrin repeat protein; Provisional

Probab=99.93  E-value=3.7e-25  Score=235.77  Aligned_cols=71  Identities=14%  Similarity=0.164  Sum_probs=46.9

Q ss_pred             chHHHHHHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHcC--CHHHHHHHHHcCCCCCccc-CCCCCchHH
Q 001613           58 TKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESH--TARCVELLLKKRARTDIRS-KDGRRLLPL  134 (1044)
Q Consensus        58 ~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G--~~eiVklLL~~GAdvn~~d-~~G~T~lpL  134 (1044)
                      .||||+|+..|++++|+.|++.       +|..|. .|.||||+|+.++  +.++|++||++|+|+|.++ ..|+|  ||
T Consensus        22 ~~pL~~A~~~~~~~~vk~Li~~-------~n~~~~-~g~TpLh~a~~~~~~~~eiv~~Ll~~gadvn~~~~~~g~T--pL   91 (209)
T PHA02859         22 CNPLFYYVEKDDIEGVKKWIKF-------VNDCND-LYETPIFSCLEKDKVNVEILKFLIENGADVNFKTRDNNLS--AL   91 (209)
T ss_pred             CcHHHHHHHhCcHHHHHHHHHh-------hhccCc-cCCCHHHHHHHcCCCCHHHHHHHHHCCCCCCccCCCCCCC--HH
Confidence            6677777777777777777653       355666 6777777777643  6777777777777776665 35555  55


Q ss_pred             HHHH
Q 001613          135 ELSL  138 (1044)
Q Consensus       135 h~Aa  138 (1044)
                      |+|+
T Consensus        92 h~a~   95 (209)
T PHA02859         92 HHYL   95 (209)
T ss_pred             HHHH
Confidence            5544

>KOG4369 consensus RTK signaling protein MASK/UNC-44 [Signal transduction mechanisms]

Probab=99.93  E-value=5.8e-27  Score=275.04  Aligned_cols=310  Identities=17%  Similarity=0.167  Sum_probs=266.0

Q ss_pred             ccchHHHHHHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHcCCHHHHHHHHHcCCCCCcc-cCCCCCchHH
Q 001613           56 IVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIR-SKDGRRLLPL  134 (1044)
Q Consensus        56 ~~~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~-d~~G~T~lpL  134 (1044)
                      ...|+|-.||..|+.|+|++|+.+|    +++..+|. .|.+||..|+-.||..+|+.||++.|++++. |+.+.|  +|
T Consensus       756 n~~t~LT~acaggh~e~vellv~rg----aniehrdk-kgf~plImaatagh~tvV~~llk~ha~veaQsdrtkdt--~l  828 (2131)
T KOG4369|consen  756 NIKTNLTSACAGGHREEVELLVVRG----ANIEHRDK-KGFVPLIMAATAGHITVVQDLLKAHADVEAQSDRTKDT--ML  828 (2131)
T ss_pred             cccccccccccCccHHHHHHHHHhc----cccccccc-ccchhhhhhcccCchHHHHHHHhhhhhhhhhcccccCc--eE
Confidence            3489999999999999999999999    99999999 9999999999999999999999999999885 677777  88


Q ss_pred             HHHHhCCCcceec----------CCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhh
Q 001613          135 ELSLSSSRMDVIW----------NPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAAD  204 (1044)
Q Consensus       135 h~Aa~~g~~eIv~----------~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~  204 (1044)
                      .+||..|+.+++.          ..+-...+||.+|...|..++|++|+..|++++                        
T Consensus       829 Slacsggr~~vvelLl~~gankehrnvsDytPlsla~Sggy~~iI~~llS~GseIn------------------------  884 (2131)
T KOG4369|consen  829 SLACSGGRTRVVELLLNAGANKEHRNVSDYTPLSLARSGGYTKIIHALLSSGSEIN------------------------  884 (2131)
T ss_pred             EEecCCCcchHHHHHHHhhccccccchhhcCchhhhcCcchHHHHHHHhhcccccc------------------------
Confidence            8888888877642          011113455555555555555555555555554                        


Q ss_pred             hhhhHHHHhccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccC
Q 001613          205 KVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCT  284 (1044)
Q Consensus       205 ~~~~~~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~  284 (1044)
                                     .+...            +-|..||++|..+|+...              +..|++.|.|+|... 
T Consensus       885 ---------------SrtgS------------klgisPLmlatmngh~~a--------------t~~ll~~gsdiNaqI-  922 (2131)
T KOG4369|consen  885 ---------------SRTGS------------KLGISPLMLATMNGHQAA--------------TLSLLQPGSDINAQI-  922 (2131)
T ss_pred             ---------------ccccc------------ccCcchhhhhhhccccHH--------------HHHHhcccchhcccc-
Confidence                           33222            228899999999999988              999999999999874 


Q ss_pred             CCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeec--C
Q 001613          285 DKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQ--N  362 (1044)
Q Consensus       285 d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~--d  362 (1044)
                      ..+-+|+|-+|+..|..++|.+||.. .+++  ..+-+.|.|||+-++..|        .+++-++||..|||+|+.  -
T Consensus       923 eTNrnTaltla~fqgr~evv~lLLa~-~anv--ehRaktgltplme~AsgG--------yvdvg~~li~~gad~nasPvp  991 (2131)
T KOG4369|consen  923 ETNRNTALTLALFQGRPEVVFLLLAA-QANV--EHRAKTGLTPLMEMASGG--------YVDVGNLLIAAGADTNASPVP  991 (2131)
T ss_pred             ccccccceeeccccCcchHHHHHHHH-hhhh--hhhcccCCcccchhhcCC--------ccccchhhhhcccccccCCCC
Confidence            55778999999999999999999998 7777  888899999999999999        999999999999999873  2


Q ss_pred             CCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHHc
Q 001613          363 KLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQ  442 (1044)
Q Consensus       363 ~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~  442 (1044)
                      ....|+|-+++..||...|..|+...+. +..+++.|.|+|.+|+..|++..+.+|++++||++..|+...++++.|.+.
T Consensus       992 ~T~dtalti~a~kGh~kfv~~lln~~at-v~v~NkkG~T~Lwla~~Gg~lss~~il~~~~ad~d~qdnr~~S~~maafRK 1070 (2131)
T KOG4369|consen  992 NTWDTALTIPANKGHTKFVPKLLNGDAT-VRVPNKKGCTVLWLASAGGALSSCPILVSSVADADQQDNRTNSRTMAAFRK 1070 (2131)
T ss_pred             CcCCccceeecCCCchhhhHHhhCCccc-eecccCCCCcccchhccCCccccchHHhhcccChhhhhcccccccHHHHHh
Confidence            3445999999999999999999999888 999999999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHH
Q 001613          443 DMRFLLKA  450 (1044)
Q Consensus       443 g~~~Ll~~  450 (1044)
                      |+..|+++
T Consensus      1071 gh~~iVk~ 1078 (2131)
T KOG4369|consen 1071 GHFAIVKK 1078 (2131)
T ss_pred             chhheecc
Confidence            98888874

>KOG4369 consensus RTK signaling protein MASK/UNC-44 [Signal transduction mechanisms]

Probab=99.92  E-value=3.7e-25  Score=259.98  Aligned_cols=310  Identities=20%  Similarity=0.186  Sum_probs=239.4

Q ss_pred             CCChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCchHHHHHHhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHH
Q 001613           94 SGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLS  173 (1044)
Q Consensus        94 ~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl  173 (1044)
                      +-.|+|-.||.+||.|+|++|+.+|+++..+|+.|.+  ||.+|                       +..||..+|+.|+
T Consensus       756 n~~t~LT~acaggh~e~vellv~rganiehrdkkgf~--plIma-----------------------atagh~tvV~~ll  810 (2131)
T KOG4369|consen  756 NIKTNLTSACAGGHREEVELLVVRGANIEHRDKKGFV--PLIMA-----------------------ATAGHITVVQDLL  810 (2131)
T ss_pred             cccccccccccCccHHHHHHHHHhcccccccccccch--hhhhh-----------------------cccCchHHHHHHH
Confidence            5679999999999999999999999999999988877  55544                       4455566788888


Q ss_pred             HcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcCCCC
Q 001613          174 QKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTP  253 (1044)
Q Consensus       174 ~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~  253 (1044)
                      .+.++++..                                      .++              .+.|+|.+||.-|..+
T Consensus       811 k~ha~veaQ--------------------------------------sdr--------------tkdt~lSlacsggr~~  838 (2131)
T KOG4369|consen  811 KAHADVEAQ--------------------------------------SDR--------------TKDTMLSLACSGGRTR  838 (2131)
T ss_pred             hhhhhhhhh--------------------------------------ccc--------------ccCceEEEecCCCcch
Confidence            777666431                                      112              2778888888888888


Q ss_pred             CcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHh
Q 001613          254 TTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALK  333 (1044)
Q Consensus       254 ~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~  333 (1044)
                      +              +++|+..|++-.-.  +-...|||.+|...|.+++|++||.. |+.||.....+.|-.||++|..
T Consensus       839 v--------------velLl~~gankehr--nvsDytPlsla~Sggy~~iI~~llS~-GseInSrtgSklgisPLmlatm  901 (2131)
T KOG4369|consen  839 V--------------VELLLNAGANKEHR--NVSDYTPLSLARSGGYTKIIHALLSS-GSEINSRTGSKLGISPLMLATM  901 (2131)
T ss_pred             H--------------HHHHHHhhcccccc--chhhcCchhhhcCcchHHHHHHHhhc-ccccccccccccCcchhhhhhh
Confidence            8              88888888876543  66677888888888888888888888 8888656667788888888888


Q ss_pred             cCCCcccccchHHHHHHHHhcCCeeeec-CCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCH
Q 001613          334 TSMGLSQHILQNRIVGILLKHGAIVSQQ-NKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHM  412 (1044)
Q Consensus       334 ~g~~~~~~~~~~~iVklLLe~GAdvn~~-d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~  412 (1044)
                      +|        |...++.|++.|.|+|+. ..+.+|+|-+|+..|..++|.+||...+. +..+-+.|.|||+-++..|++
T Consensus       902 ng--------h~~at~~ll~~gsdiNaqIeTNrnTaltla~fqgr~evv~lLLa~~an-vehRaktgltplme~AsgGyv  972 (2131)
T KOG4369|consen  902 NG--------HQAATLSLLQPGSDINAQIETNRNTALTLALFQGRPEVVFLLLAAQAN-VEHRAKTGLTPLMEMASGGYV  972 (2131)
T ss_pred             cc--------ccHHHHHHhcccchhccccccccccceeeccccCcchHHHHHHHHhhh-hhhhcccCCcccchhhcCCcc
Confidence            88        888888888888888863 34567888888888888888888888887 888888888888888888888


Q ss_pred             HHHHHHHHCCCCccccc--CCCCcHHHHHHHcChHHHHHHhhhcCccccccchhhhhhhhcCChhhhhhHHHhhhcccCC
Q 001613          413 VCAEVLLRWGANSEVLN--LRRERPIDFAKSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDISGTCEALLSMVDDN  490 (1044)
Q Consensus       413 ~iVklLL~~GAdin~~d--~~G~TpLh~Aa~~g~~~Ll~~~~~n~~d~~~~~~~l~~A~~~~~~~i~~~~~~l~~~~d~~  490 (1044)
                      ++-++||..|||+|+--  ....|+|-+++..|+...+..+.....                                  
T Consensus       973 dvg~~li~~gad~nasPvp~T~dtalti~a~kGh~kfv~~lln~~a---------------------------------- 1018 (2131)
T KOG4369|consen  973 DVGNLLIAAGADTNASPVPNTWDTALTIPANKGHTKFVPKLLNGDA---------------------------------- 1018 (2131)
T ss_pred             ccchhhhhcccccccCCCCCcCCccceeecCCCchhhhHHhhCCcc----------------------------------
Confidence            88888888888887642  345577877777775554442221110                                  


Q ss_pred             CCccccccCCceeeeecccccCcccccccccccccccccccCCCccccccccc
Q 001613          491 SNTERICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMCMIHAST  543 (1044)
Q Consensus       491 ~~~~~~~~~~~~~t~L~~Aa~~G~~eivk~Ll~~GAd~~~~d~~G~tpLh~aa  543 (1044)
                         .....+.+|.|+|++|+..|++..+..|+++++|++..|+...+++..+-
T Consensus      1019 ---tv~v~NkkG~T~Lwla~~Gg~lss~~il~~~~ad~d~qdnr~~S~~maaf 1068 (2131)
T KOG4369|consen 1019 ---TVRVPNKKGCTVLWLASAGGALSSCPILVSSVADADQQDNRTNSRTMAAF 1068 (2131)
T ss_pred             ---ceecccCCCCcccchhccCCccccchHHhhcccChhhhhcccccccHHHH
Confidence               01112345568888999999999999999999998888888777766554

>TIGR00870 trp transient-receptor-potential calcium channel protein

Probab=99.91  E-value=6.2e-24  Score=267.36  Aligned_cols=256  Identities=16%  Similarity=0.070  Sum_probs=192.2

Q ss_pred             ccccchHHHHHHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHH-HHHHcCCHHHHHHHHHcCCCCCcccCCCCCch
Q 001613           54 TAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALH-LAAESHTARCVELLLKKRARTDIRSKDGRRLL  132 (1044)
Q Consensus        54 ~~~~~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH-~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~l  132 (1044)
                      -....+.|+.||..|+.+.|+.+++.+.  ..++|..|. .|+|||| .|+.+++.+++++|+++|+    .+..|.|  
T Consensus        14 ~~~~~~~~l~A~~~g~~~~v~~lL~~~~--~~~in~~d~-~G~t~Lh~~A~~~~~~eiv~lLl~~g~----~~~~G~T--   84 (743)
T TIGR00870        14 LSDEEKAFLPAAERGDLASVYRDLEEPK--KLNINCPDR-LGRSALFVAAIENENLELTELLLNLSC----RGAVGDT--   84 (743)
T ss_pred             CCHHHHHHHHHHHcCCHHHHHHHhcccc--ccCCCCcCc-cchhHHHHHHHhcChHHHHHHHHhCCC----CCCcChH--
Confidence            3455899999999999999999998821  288999999 9999999 8999999999999999998    5677877  


Q ss_pred             HHHHHHhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHH
Q 001613          133 PLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILV  212 (1044)
Q Consensus       133 pLh~Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~  212 (1044)
                      |||+|+..++.                    +...++.++...+.+...                               
T Consensus        85 ~Lh~A~~~~~~--------------------~v~~ll~~l~~~~~~~~~-------------------------------  113 (743)
T TIGR00870        85 LLHAISLEYVD--------------------AVEAILLHLLAAFRKSGP-------------------------------  113 (743)
T ss_pred             HHHHHHhccHH--------------------HHHHHHHHHhhcccccCc-------------------------------
Confidence            88888763320                    011223333322211100                               


Q ss_pred             hccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHH
Q 001613          213 LHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPL  292 (1044)
Q Consensus       213 ~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpL  292 (1044)
                                                  ..+                             .   .+.+ ......|.|||
T Consensus       114 ----------------------------~~~-----------------------------~---~~~~-~~~~~~G~TpL  132 (743)
T TIGR00870       114 ----------------------------LEL-----------------------------A---NDQY-TSEFTPGITAL  132 (743)
T ss_pred             ----------------------------hhh-----------------------------h---cccc-ccccCCCCcHH
Confidence                                        000                             0   0000 01134688888


Q ss_pred             HHHHHcCCHHHHHHHHHcCCCCCCCCCC--------------CCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCee
Q 001613          293 ILATQAGDEDVIEILLKSKNIDINDADA--------------DADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIV  358 (1044)
Q Consensus       293 h~Aa~~G~~eiVk~LL~~~gadvn~n~~--------------d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdv  358 (1044)
                      |+|+.+|+.++|++||++ |+++  +.+              ...|.||||+|+..|        +.+++++|+++|+|+
T Consensus       133 hlAa~~~~~eiVklLL~~-GAdv--~~~~~~~~~~~~~~~~~~~~g~tpL~~Aa~~~--------~~~iv~lLl~~gadi  201 (743)
T TIGR00870       133 HLAAHRQNYEIVKLLLER-GASV--PARACGDFFVKSQGVDSFYHGESPLNAAACLG--------SPSIVALLSEDPADI  201 (743)
T ss_pred             HHHHHhCCHHHHHHHHhC-CCCC--CcCcCCchhhcCCCCCcccccccHHHHHHHhC--------CHHHHHHHhcCCcch
Confidence            888888888888888888 8888  433              236899999999999        999999999999999


Q ss_pred             eecCCCCCcHHHHHHHcC---------CHHHHHHHHhcCCC--Cc----ccCCCCCCcHHHHHHHcCCHHHHHHHHHCCC
Q 001613          359 SQQNKLGLTALHIAAGSG---------NSQALEDLIRKEPD--CI----NLKTIMMETPLFFAVKNDHMVCAEVLLRWGA  423 (1044)
Q Consensus       359 n~~d~~G~TpLh~Aa~~g---------~~eiVklLL~~gad--~i----n~~d~~G~TpLh~Aa~~g~~~iVklLL~~GA  423 (1044)
                      |.+|..|+||||+|+..+         ...+.+++++.++.  +.    +..|.+|.||||+|+..|+.+++++|++.++
T Consensus       202 n~~d~~g~T~Lh~A~~~~~~~~~~~~l~~~~~~~l~~ll~~~~~~~el~~i~N~~g~TPL~~A~~~g~~~l~~lLL~~~~  281 (743)
T TIGR00870       202 LTADSLGNTLLHLLVMENEFKAEYEELSCQMYNFALSLLDKLRDSKELEVILNHQGLTPLKLAAKEGRIVLFRLKLAIKY  281 (743)
T ss_pred             hhHhhhhhHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHhccCChHhhhhhcCCCCCCchhhhhhcCCccHHHHHHHHHH
Confidence            999999999999999987         23355666655444  13    6789999999999999999999999999777


Q ss_pred             CcccccCCCCcHHHHHHH
Q 001613          424 NSEVLNLRRERPIDFAKS  441 (1044)
Q Consensus       424 din~~d~~G~TpLh~Aa~  441 (1044)
                      +......+...|.+.+..
T Consensus       282 ~~kk~~a~~~~~~~~~~~  299 (743)
T TIGR00870       282 KQKKFVAWPNGQQLLSLY  299 (743)
T ss_pred             hcceeeccCcchHhHhhh
Confidence            666666667777776654

after chronic exposure to capsaicin. (McCleskey and Gold, 1999).

>KOG0502 consensus Integral membrane ankyrin-repeat protein Kidins220 (protein kinase D substrate) [General function prediction only]

Probab=99.89  E-value=8.3e-24  Score=213.45  Aligned_cols=140  Identities=22%  Similarity=0.174  Sum_probs=127.0

Q ss_pred             CCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCC
Q 001613          285 DKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKL  364 (1044)
Q Consensus       285 d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~  364 (1044)
                      |..|.|||+||+..|++.+|++||+. |+|+  ....+...|+|.+|+..|        ..+||++||..+.|+|..|.+
T Consensus       157 De~GfTpLiWAaa~G~i~vV~fLL~~-GAdp--~~lgk~resALsLAt~gg--------ytdiV~lLL~r~vdVNvyDwN  225 (296)
T KOG0502|consen  157 DEFGFTPLIWAAAKGHIPVVQFLLNS-GADP--DALGKYRESALSLATRGG--------YTDIVELLLTREVDVNVYDWN  225 (296)
T ss_pred             cccCchHhHHHHhcCchHHHHHHHHc-CCCh--hhhhhhhhhhHhHHhcCC--------hHHHHHHHHhcCCCcceeccC
Confidence            88999999999999999999999998 9999  778888889999999988        899999999999999999999


Q ss_pred             CCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHH
Q 001613          365 GLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPID  437 (1044)
Q Consensus       365 G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh  437 (1044)
                      |-|||.||+..|+.++|+.||+.|++ ++..+..|.+++..|+..|+. +|+..|++-++.+.+|+.-+||+|
T Consensus       226 GgTpLlyAvrgnhvkcve~Ll~sGAd-~t~e~dsGy~~mdlAValGyr-~Vqqvie~h~lkl~Q~~~~~~~~~  296 (296)
T KOG0502|consen  226 GGTPLLYAVRGNHVKCVESLLNSGAD-VTQEDDSGYWIMDLAVALGYR-IVQQVIEKHALKLCQDSEKRTPLH  296 (296)
T ss_pred             CCceeeeeecCChHHHHHHHHhcCCC-cccccccCCcHHHHHHHhhhH-HHHHHHHHHHHHHhhcccCCCCCC
Confidence            99999999999999999999999998 999999999999999999988 888889888888888888888775

>KOG0507 consensus CASK-interacting adaptor protein (caskin) and related proteins with ankyrin repeats and SAM domain [Signal transduction mechanisms]

Probab=99.89  E-value=9.8e-23  Score=236.32  Aligned_cols=243  Identities=26%  Similarity=0.273  Sum_probs=195.1

Q ss_pred             HHHHHHHcCCHHHHHHHHhCCCC---------CccccccccCCCCChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCC
Q 001613           60 LLRVSCIFDSVSCATSLVNGDLG---------PVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRR  130 (1044)
Q Consensus        60 ~Lh~AA~~G~~eivk~LL~~g~~---------~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T  130 (1044)
                      =|.-|+..|+++.+..|++...+         ....+|..|- +|.|+||.||.+|+.+++++|+++.+-++..+..|.+
T Consensus         6 el~~a~ka~d~~tva~ll~~~~~r~~~l~~~trsds~n~qd~-~gfTalhha~Lng~~~is~llle~ea~ldl~d~kg~~   84 (854)
T KOG0507|consen    6 ELIDACKAGDYDTVALLLSSKKGRSGLLFFTTRSDSHNLQDY-SGFTLLHHAVLNGQNQISKLLLDYEALLDLCDTKGIL   84 (854)
T ss_pred             hHHHhhhcccHHHHHHhccCCCCCCCCCCCCCCCccccccCc-cchhHHHHHHhcCchHHHHHHhcchhhhhhhhccCcc
Confidence            37789999999999999964221         2256888899 9999999999999999999999998877776655554


Q ss_pred             chHHHHHHhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHH
Q 001613          131 LLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESI  210 (1044)
Q Consensus       131 ~lpLh~Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~  210 (1044)
                        |||+|+..|+                       .+++++|+..+                                  
T Consensus        85 --plhlaaw~g~-----------------------~e~vkmll~q~----------------------------------  105 (854)
T KOG0507|consen   85 --PLHLAAWNGN-----------------------LEIVKMLLLQT----------------------------------  105 (854)
T ss_pred             --eEEehhhcCc-----------------------chHHHHHHhcc----------------------------------
Confidence              5565555544                       44455555443                                  


Q ss_pred             HHhccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCc
Q 001613          211 LVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGP  290 (1044)
Q Consensus       211 l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~T  290 (1044)
                                                                                        ..+|..  ...|.|
T Consensus       106 ------------------------------------------------------------------d~~na~--~~e~~t  117 (854)
T KOG0507|consen  106 ------------------------------------------------------------------DILNAV--NIENET  117 (854)
T ss_pred             ------------------------------------------------------------------cCCCcc--cccCcC
Confidence                                                                              333332  557788


Q ss_pred             HHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCe--------eeecC
Q 001613          291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAI--------VSQQN  362 (1044)
Q Consensus       291 pLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAd--------vn~~d  362 (1044)
                      |||.|++.||.++|.+||++ |+|.  -.++..+.|+|-+|++.|        ..++|+.|++...+        -..++
T Consensus       118 plhlaaqhgh~dvv~~Ll~~-~adp--~i~nns~~t~ldlA~qfg--------r~~Vvq~ll~~~~~~~~~~~~~~~~~~  186 (854)
T KOG0507|consen  118 PLHLAAQHGHLEVVFYLLKK-NADP--FIRNNSKETVLDLASRFG--------RAEVVQMLLQKKFPVQSSLRVGDIKRP  186 (854)
T ss_pred             ccchhhhhcchHHHHHHHhc-CCCc--cccCcccccHHHHHHHhh--------hhHHHHHHhhhccchhhcccCCCCCCC
Confidence            88888888888888888888 8887  777888888888888888        78888888765222        12355


Q ss_pred             CCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHHc
Q 001613          363 KLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQ  442 (1044)
Q Consensus       363 ~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~  442 (1044)
                      ..+.+|||+|+.+|+.++++.|++.|.+ +|.....| |+||.|+..|..++|.+|++.|.+..++|.+|+|+|++-...
T Consensus       187 ~~~~~plHlaakngh~~~~~~ll~ag~d-in~~t~~g-talheaalcgk~evvr~ll~~gin~h~~n~~~qtaldil~d~  264 (854)
T KOG0507|consen  187 FPAIYPLHLAAKNGHVECMQALLEAGFD-INYTTEDG-TALHEAALCGKAEVVRFLLEIGINTHIKNQHGQTALDIIIDL  264 (854)
T ss_pred             CCCcCCcchhhhcchHHHHHHHHhcCCC-cccccccc-hhhhhHhhcCcchhhhHHHhhccccccccccchHHHHHHHhc
Confidence            6788999999999999999999999999 99999877 999999999999999999999999999999999999988776


Q ss_pred             C
Q 001613          443 D  443 (1044)
Q Consensus       443 g  443 (1044)
                      -
T Consensus       265 ~  265 (854)
T KOG0507|consen  265 Q  265 (854)
T ss_pred             c
Confidence            5

>PLN03192 Voltage-dependent potassium channel; Provisional

Probab=99.88  E-value=2.9e-22  Score=253.95  Aligned_cols=173  Identities=24%  Similarity=0.297  Sum_probs=136.5

Q ss_pred             CchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC
Q 001613          239 RATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDA  318 (1044)
Q Consensus       239 g~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n  318 (1044)
                      ..++|+.|+..|+.++              ++.|+..|+++|..  |..|.||||+|+..|+.++|++|+++ |+++  |
T Consensus       525 ~~~~L~~Aa~~g~~~~--------------l~~Ll~~G~d~n~~--d~~G~TpLh~Aa~~g~~~~v~~Ll~~-gadi--n  585 (823)
T PLN03192        525 MASNLLTVASTGNAAL--------------LEELLKAKLDPDIG--DSKGRTPLHIAASKGYEDCVLVLLKH-ACNV--H  585 (823)
T ss_pred             chhHHHHHHHcCCHHH--------------HHHHHHCCCCCCCC--CCCCCCHHHHHHHcChHHHHHHHHhc-CCCC--C
Confidence            3567778888777766              78888888887765  77888888888888888888888887 8877  7


Q ss_pred             CCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCC
Q 001613          319 DADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIM  398 (1044)
Q Consensus       319 ~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~  398 (1044)
                      .+|.+|+||||+|+..|        +.+++++|++.++..+  ...|.++||.|+..|+.+++++|+++|++ +|.+|.+
T Consensus       586 ~~d~~G~TpL~~A~~~g--------~~~iv~~L~~~~~~~~--~~~~~~~L~~Aa~~g~~~~v~~Ll~~Gad-in~~d~~  654 (823)
T PLN03192        586 IRDANGNTALWNAISAK--------HHKIFRILYHFASISD--PHAAGDLLCTAAKRNDLTAMKELLKQGLN-VDSEDHQ  654 (823)
T ss_pred             CcCCCCCCHHHHHHHhC--------CHHHHHHHHhcCcccC--cccCchHHHHHHHhCCHHHHHHHHHCCCC-CCCCCCC
Confidence            77888888888888888        8888888887776544  23466788888888888888888888887 8888888


Q ss_pred             CCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCC-CcHHHHHHH
Q 001613          399 METPLFFAVKNDHMVCAEVLLRWGANSEVLNLRR-ERPIDFAKS  441 (1044)
Q Consensus       399 G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G-~TpLh~Aa~  441 (1044)
                      |+||||+|+..|+.+++++|+++|||++..|..| .||++++..
T Consensus       655 G~TpLh~A~~~g~~~iv~~Ll~~GAdv~~~~~~g~~t~~~l~~~  698 (823)
T PLN03192        655 GATALQVAMAEDHVDMVRLLIMNGADVDKANTDDDFSPTELREL  698 (823)
T ss_pred             CCCHHHHHHHCCcHHHHHHHHHcCCCCCCCCCCCCCCHHHHHHH
Confidence            8888888888888888888888888888888777 788877754

>KOG0502 consensus Integral membrane ankyrin-repeat protein Kidins220 (protein kinase D substrate) [General function prediction only]

Probab=99.88  E-value=1.9e-22  Score=203.74  Aligned_cols=177  Identities=26%  Similarity=0.295  Sum_probs=168.0

Q ss_pred             CchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC
Q 001613          239 RATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDA  318 (1044)
Q Consensus       239 g~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n  318 (1044)
                      |+.+++.++-.++...              +..++..|+..|..  +-.+.+|+.+++...+++++..|.++   .+  |
T Consensus        96 g~~~~~v~ap~~s~~k--------------~sttltN~~rgnev--s~~p~s~~slsVhql~L~~~~~~~~n---~V--N  154 (296)
T KOG0502|consen   96 GWSALLVAAPCGSVDK--------------VSTTLTNGARGNEV--SLMPWSPLSLSVHQLHLDVVDLLVNN---KV--N  154 (296)
T ss_pred             hhhhhhhcCCCCCcce--------------eeeeecccccCCcc--ccccCChhhHHHHHHHHHHHHHHhhc---cc--c
Confidence            8888998888888777              88889999998875  88999999999999999999988877   56  8


Q ss_pred             CCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCC
Q 001613          319 DADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIM  398 (1044)
Q Consensus       319 ~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~  398 (1044)
                      ..|..|.|||.||+..|        ++.+|++||+.|||++..-+...|+|.+|+..|..+||++||..+.+ +|.-|-+
T Consensus       155 ~~De~GfTpLiWAaa~G--------~i~vV~fLL~~GAdp~~lgk~resALsLAt~ggytdiV~lLL~r~vd-VNvyDwN  225 (296)
T KOG0502|consen  155 ACDEFGFTPLIWAAAKG--------HIPVVQFLLNSGADPDALGKYRESALSLATRGGYTDIVELLLTREVD-VNVYDWN  225 (296)
T ss_pred             CccccCchHhHHHHhcC--------chHHHHHHHHcCCChhhhhhhhhhhHhHHhcCChHHHHHHHHhcCCC-cceeccC
Confidence            99999999999999999        99999999999999999999999999999999999999999999999 9999999


Q ss_pred             CCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHHcChH
Q 001613          399 METPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMR  445 (1044)
Q Consensus       399 G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~  445 (1044)
                      |-|||-||++.||.+|++.||+.|||++..+..|++++++|+..|..
T Consensus       226 GgTpLlyAvrgnhvkcve~Ll~sGAd~t~e~dsGy~~mdlAValGyr  272 (296)
T KOG0502|consen  226 GGTPLLYAVRGNHVKCVESLLNSGADVTQEDDSGYWIMDLAVALGYR  272 (296)
T ss_pred             CCceeeeeecCChHHHHHHHHhcCCCcccccccCCcHHHHHHHhhhH
Confidence            99999999999999999999999999999999999999999999965

>TIGR00870 trp transient-receptor-potential calcium channel protein

Probab=99.87  E-value=4e-22  Score=250.96  Aligned_cols=246  Identities=16%  Similarity=0.069  Sum_probs=184.7

Q ss_pred             CchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHc--CCCCCCccCCCCCCcHHH-HHHHcCCHHHHHHHHHcCCCCC
Q 001613          239 RATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLF--GAVANGSCTDKKVGPPLI-LATQAGDEDVIEILLKSKNIDI  315 (1044)
Q Consensus       239 g~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~--GAdin~~~~d~~G~TpLh-~Aa~~G~~eiVk~LL~~~gadv  315 (1044)
                      +...++.|++.|+.+.              ++.+++.  +.++|  +.|..|+|||| .|+.+++.+++++|++. |+  
T Consensus        17 ~~~~~l~A~~~g~~~~--------------v~~lL~~~~~~~in--~~d~~G~t~Lh~~A~~~~~~eiv~lLl~~-g~--   77 (743)
T TIGR00870        17 EEKAFLPAAERGDLAS--------------VYRDLEEPKKLNIN--CPDRLGRSALFVAAIENENLELTELLLNL-SC--   77 (743)
T ss_pred             HHHHHHHHHHcCCHHH--------------HHHHhccccccCCC--CcCccchhHHHHHHHhcChHHHHHHHHhC-CC--
Confidence            6789999999999988              9999998  55555  45999999999 89999999999999998 54  


Q ss_pred             CCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCe------ee----ecCCCCCcHHHHHHHcCCHHHHHHHH
Q 001613          316 NDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAI------VS----QQNKLGLTALHIAAGSGNSQALEDLI  385 (1044)
Q Consensus       316 n~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAd------vn----~~d~~G~TpLh~Aa~~g~~eiVklLL  385 (1044)
                          .+..|.||||+|+..+     +.....+++++...+.+      ++    ..+..|.||||+||.+|+.++|++||
T Consensus        78 ----~~~~G~T~Lh~A~~~~-----~~~v~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~G~TpLhlAa~~~~~eiVklLL  148 (743)
T TIGR00870        78 ----RGAVGDTLLHAISLEY-----VDAVEAILLHLLAAFRKSGPLELANDQYTSEFTPGITALHLAAHRQNYEIVKLLL  148 (743)
T ss_pred             ----CCCcChHHHHHHHhcc-----HHHHHHHHHHHhhcccccCchhhhccccccccCCCCcHHHHHHHhCCHHHHHHHH
Confidence                4678999999999843     01134455555555432      11    12356999999999999999999999


Q ss_pred             hcCCCCcccCC--------------CCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHHcC-----hHH
Q 001613          386 RKEPDCINLKT--------------IMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQD-----MRF  446 (1044)
Q Consensus       386 ~~gad~in~~d--------------~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g-----~~~  446 (1044)
                      ++|++ +|.++              ..|+||||+|+..|+.+++++|+++|||+|.+|..|+||||+|+..+     ..+
T Consensus       149 ~~GAd-v~~~~~~~~~~~~~~~~~~~~g~tpL~~Aa~~~~~~iv~lLl~~gadin~~d~~g~T~Lh~A~~~~~~~~~~~~  227 (743)
T TIGR00870       149 ERGAS-VPARACGDFFVKSQGVDSFYHGESPLNAAACLGSPSIVALLSEDPADILTADSLGNTLLHLLVMENEFKAEYEE  227 (743)
T ss_pred             hCCCC-CCcCcCCchhhcCCCCCcccccccHHHHHHHhCCHHHHHHHhcCCcchhhHhhhhhHHHHHHHhhhhhhHHHHH
Confidence            99999 88764              35899999999999999999999999999999999999999999876     111


Q ss_pred             HHHHhhhcCccccccchhhhhhhhcCChhhhhhHHHhhhcccCCCCc--cccccCCceeeeecccccCcccccccccccc
Q 001613          447 LLKAANTCHTNLAFLNQEKQNASLESDEDISGTCEALLSMVDDNSNT--ERICSGTKIEVCKYYESHSGCIRGSKCFYAL  524 (1044)
Q Consensus       447 Ll~~~~~n~~d~~~~~~~l~~A~~~~~~~i~~~~~~l~~~~d~~~~~--~~~~~~~~~~t~L~~Aa~~G~~eivk~Ll~~  524 (1044)
                      +...                            ....++...+.....  -....+..+.||||+|+..|+.+++++|++.
T Consensus       228 l~~~----------------------------~~~~l~~ll~~~~~~~el~~i~N~~g~TPL~~A~~~g~~~l~~lLL~~  279 (743)
T TIGR00870       228 LSCQ----------------------------MYNFALSLLDKLRDSKELEVILNHQGLTPLKLAAKEGRIVLFRLKLAI  279 (743)
T ss_pred             HHHH----------------------------HHHHHHHHHhccCChHhhhhhcCCCCCCchhhhhhcCCccHHHHHHHH
Confidence            1110                            000111111111110  0112346778999999999999999999998


Q ss_pred             cccccccCCCccccccc
Q 001613          525 GEEQHRKMNPGMCMIHA  541 (1044)
Q Consensus       525 GAd~~~~d~~G~tpLh~  541 (1044)
                      +.+.........++.+.
T Consensus       280 ~~~~kk~~a~~~~~~~~  296 (743)
T TIGR00870       280 KYKQKKFVAWPNGQQLL  296 (743)
T ss_pred             HHhcceeeccCcchHhH
Confidence            87755555555555443

after chronic exposure to capsaicin. (McCleskey and Gold, 1999).

>PLN03192 Voltage-dependent potassium channel; Provisional

Probab=99.87  E-value=2.7e-21  Score=245.15  Aligned_cols=193  Identities=21%  Similarity=0.186  Sum_probs=155.3

Q ss_pred             CCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCchHHHHHHhCCCcceec
Q 001613           68 DSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIW  147 (1044)
Q Consensus        68 G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa~~g~~eIv~  147 (1044)
                      ...++-..|.+.+      ....+. .+.++||.||..|+.++++.|+++|+|+|..|.+|+|  |||+|+.+|+     
T Consensus       505 ~~l~v~~ll~~~~------~~~~~~-~~~~~L~~Aa~~g~~~~l~~Ll~~G~d~n~~d~~G~T--pLh~Aa~~g~-----  570 (823)
T PLN03192        505 HDLNVGDLLGDNG------GEHDDP-NMASNLLTVASTGNAALLEELLKAKLDPDIGDSKGRT--PLHIAASKGY-----  570 (823)
T ss_pred             ccccHHHHHhhcc------cccCCc-cchhHHHHHHHcCCHHHHHHHHHCCCCCCCCCCCCCC--HHHHHHHcCh-----
Confidence            4444555555544      112333 6779999999999999999999999999999999988  8888877765     


Q ss_pred             CCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCCCcccccchhh
Q 001613          148 NPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIY  227 (1044)
Q Consensus       148 ~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~adin~~~~~~~~  227 (1044)
                                        .+++++|+                                                      
T Consensus       571 ------------------~~~v~~Ll------------------------------------------------------  578 (823)
T PLN03192        571 ------------------EDCVLVLL------------------------------------------------------  578 (823)
T ss_pred             ------------------HHHHHHHH------------------------------------------------------
Confidence                              33344444                                                      


Q ss_pred             HHHHHHHHhcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHcCCHHHHHHH
Q 001613          228 ECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEIL  307 (1044)
Q Consensus       228 ~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~G~~eiVk~L  307 (1044)
                                                                    ++|+++|..  |..|.||||+|+..|+.+++++|
T Consensus       579 ----------------------------------------------~~gadin~~--d~~G~TpL~~A~~~g~~~iv~~L  610 (823)
T PLN03192        579 ----------------------------------------------KHACNVHIR--DANGNTALWNAISAKHHKIFRIL  610 (823)
T ss_pred             ----------------------------------------------hcCCCCCCc--CCCCCCHHHHHHHhCCHHHHHHH
Confidence                                                          444444443  77899999999999999999999


Q ss_pred             HHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhc
Q 001613          308 LKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRK  387 (1044)
Q Consensus       308 L~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~  387 (1044)
                      ++. ++..  +  ...|.++||+|+..|        +.+++++|+++|+|+|.+|..|+||||+|+..|+.+++++|+++
T Consensus       611 ~~~-~~~~--~--~~~~~~~L~~Aa~~g--------~~~~v~~Ll~~Gadin~~d~~G~TpLh~A~~~g~~~iv~~Ll~~  677 (823)
T PLN03192        611 YHF-ASIS--D--PHAAGDLLCTAAKRN--------DLTAMKELLKQGLNVDSEDHQGATALQVAMAEDHVDMVRLLIMN  677 (823)
T ss_pred             Hhc-Cccc--C--cccCchHHHHHHHhC--------CHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCcHHHHHHHHHc
Confidence            987 6555  2  345779999999999        99999999999999999999999999999999999999999999


Q ss_pred             CCCCcccCCCCC-CcHHHHHHH
Q 001613          388 EPDCINLKTIMM-ETPLFFAVK  408 (1044)
Q Consensus       388 gad~in~~d~~G-~TpLh~Aa~  408 (1044)
                      |++ ++..|..| .||+.++..
T Consensus       678 GAd-v~~~~~~g~~t~~~l~~~  698 (823)
T PLN03192        678 GAD-VDKANTDDDFSPTELREL  698 (823)
T ss_pred             CCC-CCCCCCCCCCCHHHHHHH
Confidence            998 99999888 899877644

>KOG0507 consensus CASK-interacting adaptor protein (caskin) and related proteins with ankyrin repeats and SAM domain [Signal transduction mechanisms]

Probab=99.86  E-value=1.6e-21  Score=226.34  Aligned_cols=258  Identities=21%  Similarity=0.207  Sum_probs=202.9

Q ss_pred             HHHHHHHHhcCHHHHHHHHHhhccc-------cccccccccccccchHHHHHHHcCCHHHHHHHHhCCCCCccccccccC
Q 001613           20 TLIINSLLEDDKKQLINVSKRHFID-------NSLDNADQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEE   92 (1044)
Q Consensus        20 ~~ll~AIl~dD~~~L~~li~~~~~~-------~~l~~~~~~~~~~~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~   92 (1044)
                      ..++.|....|++..-.++..-...       -.-++...++..+.|+||.||..|+.+++++|++..    +-++..|.
T Consensus         5 qel~~a~ka~d~~tva~ll~~~~~r~~~l~~~trsds~n~qd~~gfTalhha~Lng~~~is~llle~e----a~ldl~d~   80 (854)
T KOG0507|consen    5 QELIDACKAGDYDTVALLLSSKKGRSGLLFFTTRSDSHNLQDYSGFTLLHHAVLNGQNQISKLLLDYE----ALLDLCDT   80 (854)
T ss_pred             hhHHHhhhcccHHHHHHhccCCCCCCCCCCCCCCCccccccCccchhHHHHHHhcCchHHHHHHhcch----hhhhhhhc
Confidence            3678899999999888888733222       111245556778899999999999999999999987    88899998


Q ss_pred             CCCChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCchHHHHHHhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHH
Q 001613           93 SSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLL  172 (1044)
Q Consensus        93 ~~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklL  172 (1044)
                       .|.+|||+|+.+|+.++|++||.++..+|+.+..|.|  |||.|+..||                       .+++.+|
T Consensus        81 -kg~~plhlaaw~g~~e~vkmll~q~d~~na~~~e~~t--plhlaaqhgh-----------------------~dvv~~L  134 (854)
T KOG0507|consen   81 -KGILPLHLAAWNGNLEIVKMLLLQTDILNAVNIENET--PLHLAAQHGH-----------------------LEVVFYL  134 (854)
T ss_pred             -cCcceEEehhhcCcchHHHHHHhcccCCCcccccCcC--ccchhhhhcc-----------------------hHHHHHH
Confidence             9999999999999999999999999999999999988  8887777666                       4557777


Q ss_pred             HHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCCCcccccchhhHHHHHHHHhcCCchHHHHHHHcCCC
Q 001613          173 SQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNST  252 (1044)
Q Consensus       173 l~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~  252 (1044)
                      +.+|++.-                                                                        
T Consensus       135 l~~~adp~------------------------------------------------------------------------  142 (854)
T KOG0507|consen  135 LKKNADPF------------------------------------------------------------------------  142 (854)
T ss_pred             HhcCCCcc------------------------------------------------------------------------
Confidence            77776542                                                                        


Q ss_pred             CCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCC------CCCCCCCCCch
Q 001613          253 PTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDI------NDADADADGNS  326 (1044)
Q Consensus       253 ~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadv------n~n~~d~~G~T  326 (1044)
                                                  .  .+..+.|+|..|++-|..++|+.|+.. ..++      +...++..+-+
T Consensus       143 ----------------------------i--~nns~~t~ldlA~qfgr~~Vvq~ll~~-~~~~~~~~~~~~~~~~~~~~~  191 (854)
T KOG0507|consen  143 ----------------------------I--RNNSKETVLDLASRFGRAEVVQMLLQK-KFPVQSSLRVGDIKRPFPAIY  191 (854)
T ss_pred             ----------------------------c--cCcccccHHHHHHHhhhhHHHHHHhhh-ccchhhcccCCCCCCCCCCcC
Confidence                                        1  134444555555555555555555543 1111      11356778899


Q ss_pred             HHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHH
Q 001613          327 ALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFA  406 (1044)
Q Consensus       327 pLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~A  406 (1044)
                      |||.|+++|        +.++++.|+++|.|+|.....| |+||.|+..|..++|.+|++.|.. ..+++.+|+|+|.+-
T Consensus       192 plHlaakng--------h~~~~~~ll~ag~din~~t~~g-talheaalcgk~evvr~ll~~gin-~h~~n~~~qtaldil  261 (854)
T KOG0507|consen  192 PLHLAAKNG--------HVECMQALLEAGFDINYTTEDG-TALHEAALCGKAEVVRFLLEIGIN-THIKNQHGQTALDII  261 (854)
T ss_pred             Ccchhhhcc--------hHHHHHHHHhcCCCcccccccc-hhhhhHhhcCcchhhhHHHhhccc-cccccccchHHHHHH
Confidence            999999999        9999999999999999999888 999999999999999999999998 999999999999876


Q ss_pred             HHc---CCHHHHHHHHH
Q 001613          407 VKN---DHMVCAEVLLR  420 (1044)
Q Consensus       407 a~~---g~~~iVklLL~  420 (1044)
                      ...   -..+++-++..
T Consensus       262 ~d~~~~~~~ei~ga~~~  278 (854)
T KOG0507|consen  262 IDLQENRRYEIAGAVKN  278 (854)
T ss_pred             Hhcchhhhhhhhhhhhc
Confidence            653   33455555444

>PHA02743 Viral ankyrin protein; Provisional

Probab=99.85  E-value=7.1e-21  Score=195.50  Aligned_cols=148  Identities=20%  Similarity=0.120  Sum_probs=129.4

Q ss_pred             CCCCCCccCCCCCCcHHHHHHHcCCH----HHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHH
Q 001613          276 GAVANGSCTDKKVGPPLILATQAGDE----DVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGIL  351 (1044)
Q Consensus       276 GAdin~~~~d~~G~TpLh~Aa~~G~~----eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklL  351 (1044)
                      |++++.  .+..+.++||.||..|+.    +++++|++. |+++  +.+|..|+||||+|+..|.     ...++++++|
T Consensus        10 ~~~~~~--~~~~~~~~l~~a~~~g~~~~l~~~~~~l~~~-g~~~--~~~d~~g~t~Lh~Aa~~g~-----~~~~~~i~~L   79 (166)
T PHA02743         10 NLGAVE--IDEDEQNTFLRICRTGNIYELMEVAPFISGD-GHLL--HRYDHHGRQCTHMVAWYDR-----ANAVMKIELL   79 (166)
T ss_pred             chHHhh--hccCCCcHHHHHHHcCCHHHHHHHHHHHhhc-chhh--hccCCCCCcHHHHHHHhCc-----cCHHHHHHHH
Confidence            444443  377888999999999998    666778887 8888  8899999999999999881     1124568999


Q ss_pred             HhcCCeeeecC-CCCCcHHHHHHHcCCHHHHHHHHh-cCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCccccc
Q 001613          352 LKHGAIVSQQN-KLGLTALHIAAGSGNSQALEDLIR-KEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLN  429 (1044)
Q Consensus       352 Le~GAdvn~~d-~~G~TpLh~Aa~~g~~eiVklLL~-~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d  429 (1044)
                      +++|+++|.++ ..|+||||+|+..|+.+++++|+. .+++ ++.+|..|.||||+|+..++.+++++|+++||+++.++
T Consensus        80 l~~Gadin~~d~~~g~TpLh~A~~~g~~~iv~~Ll~~~gad-~~~~d~~g~tpL~~A~~~~~~~iv~~Ll~~ga~~~~~~  158 (166)
T PHA02743         80 VNMGADINARELGTGNTLLHIAASTKNYELAEWLCRQLGVN-LGAINYQHETAYHIAYKMRDRRMMEILRANGAVCDDPL  158 (166)
T ss_pred             HHcCCCCCCCCCCCCCcHHHHHHHhCCHHHHHHHHhccCCC-ccCcCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCCcc
Confidence            99999999998 589999999999999999999995 7888 99999999999999999999999999999999999999


Q ss_pred             CCCCc
Q 001613          430 LRRER  434 (1044)
Q Consensus       430 ~~G~T  434 (1044)
                      ..|.+
T Consensus       159 ~~~~~  163 (166)
T PHA02743        159 SIGLS  163 (166)
T ss_pred             cCCcc
Confidence            87753

>KOG0505 consensus Myosin phosphatase, regulatory subunit [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.84  E-value=2.3e-20  Score=211.02  Aligned_cols=94  Identities=24%  Similarity=0.326  Sum_probs=79.1

Q ss_pred             chHHHHHHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCchHHHHH
Q 001613           58 TKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELS  137 (1044)
Q Consensus        58 ~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~A  137 (1044)
                      .-.+.-|+..|..+-|+.|+..|    +++|..+. +|.|+||-||.-.+.+||++|+++|++||..|.+|||  |||.|
T Consensus        41 sa~~l~A~~~~d~~ev~~ll~~g----a~~~~~n~-DglTalhq~~id~~~e~v~~l~e~ga~Vn~~d~e~wt--Plhaa  113 (527)
T KOG0505|consen   41 SAVFLEACSRGDLEEVRKLLNRG----ASPNLCNV-DGLTALHQACIDDNLEMVKFLVENGANVNAQDNEGWT--PLHAA  113 (527)
T ss_pred             hHHHHhccccccHHHHHHHhccC----CCccccCC-ccchhHHHHHhcccHHHHHHHHHhcCCccccccccCC--cchhh
Confidence            34566778888999999999888    77898988 9999999999999999999999999999999999988  77777


Q ss_pred             HhCCCcceecCCCCCchhHHHHHHhcCCHHHHHHHHHcCCCcch
Q 001613          138 LSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDE  181 (1044)
Q Consensus       138 a~~g~~eIv~~~~~~~~t~L~~Ai~~g~~eivklLl~~gadi~~  181 (1044)
                      +.-|                       +.+++++|+..|+++..
T Consensus       114 ascg-----------------------~~~i~~~li~~gA~~~a  134 (527)
T KOG0505|consen  114 ASCG-----------------------YLNIVEYLIQHGANLLA  134 (527)
T ss_pred             cccc-----------------------cHHHHHHHHHhhhhhhh
Confidence            6555                       46679999999887643

>KOG0514 consensus Ankyrin repeat protein [General function prediction only]

Probab=99.82  E-value=2.8e-20  Score=200.39  Aligned_cols=158  Identities=22%  Similarity=0.273  Sum_probs=143.7

Q ss_pred             CCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecC-C
Q 001613          285 DKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQN-K  363 (1044)
Q Consensus       285 d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d-~  363 (1044)
                      |.+|.|+||||+.++++++|+.||+..-+++  +.++.-|+||+++|+....   ....+.++|..|.+.| |||++- .
T Consensus       265 DsNGNTALHYsVSHaNF~VV~~LLDSgvC~V--D~qNrAGYtpiMLaALA~l---k~~~d~~vV~~LF~mg-nVNaKAsQ  338 (452)
T KOG0514|consen  265 DSNGNTALHYAVSHANFDVVSILLDSGVCDV--DQQNRAGYTPVMLAALAKL---KQPADRTVVERLFKMG-DVNAKASQ  338 (452)
T ss_pred             cCCCCeeeeeeecccchHHHHHHhccCcccc--cccccccccHHHHHHHHhh---cchhhHHHHHHHHhcc-Ccchhhhh
Confidence            8999999999999999999999999966788  8999999999999987652   1233789999999875 677754 5


Q ss_pred             CCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHH-CCCCcccccCCCCcHHHHHHHc
Q 001613          364 LGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLR-WGANSEVLNLRRERPIDFAKSQ  442 (1044)
Q Consensus       364 ~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~-~GAdin~~d~~G~TpLh~Aa~~  442 (1044)
                      .|+|+|++|+..|+.++|+.||..|+| +|++|.+|.|+|+.|+++||.+||++||. .++|+...|.+|-|+|.+|...
T Consensus       339 ~gQTALMLAVSHGr~d~vk~LLacgAd-VNiQDdDGSTALMCA~EHGhkEivklLLA~p~cd~sLtD~DgSTAl~IAlea  417 (452)
T KOG0514|consen  339 HGQTALMLAVSHGRVDMVKALLACGAD-VNIQDDDGSTALMCAAEHGHKEIVKLLLAVPSCDISLTDVDGSTALSIALEA  417 (452)
T ss_pred             hcchhhhhhhhcCcHHHHHHHHHccCC-CccccCCccHHHhhhhhhChHHHHHHHhccCcccceeecCCCchhhhhHHhc
Confidence            799999999999999999999999999 99999999999999999999999999997 5899999999999999999999


Q ss_pred             ChHHHHH
Q 001613          443 DMRFLLK  449 (1044)
Q Consensus       443 g~~~Ll~  449 (1044)
                      |+.+|--
T Consensus       418 gh~eIa~  424 (452)
T KOG0514|consen  418 GHREIAV  424 (452)
T ss_pred             CchHHHH
Confidence            9888865

>KOG0514 consensus Ankyrin repeat protein [General function prediction only]

Probab=99.82  E-value=3.4e-20  Score=199.69  Aligned_cols=168  Identities=28%  Similarity=0.361  Sum_probs=143.4

Q ss_pred             cccccCCCCChHHHHHHHcCCHHHHHHHHHcC-CCCCcccCCCCCchHHHHHHhCCCcceecCCCCCchhHHHHHHhcCC
Q 001613           87 VNEVEESSGMTALHLAAESHTARCVELLLKKR-ARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKN  165 (1044)
Q Consensus        87 iN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~G-Advn~~d~~G~T~lpLh~Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g~  165 (1044)
                      ||..|. +|.|+||||+.++|++||+.||+.| +|+|..++-|+|  |+++|+...-                  -...+
T Consensus       261 VNlaDs-NGNTALHYsVSHaNF~VV~~LLDSgvC~VD~qNrAGYt--piMLaALA~l------------------k~~~d  319 (452)
T KOG0514|consen  261 VNLADS-NGNTALHYAVSHANFDVVSILLDSGVCDVDQQNRAGYT--PVMLAALAKL------------------KQPAD  319 (452)
T ss_pred             hhhhcC-CCCeeeeeeecccchHHHHHHhccCccccccccccccc--HHHHHHHHhh------------------cchhh
Confidence            788899 9999999999999999999999997 799999999999  8877764321                  12234


Q ss_pred             HHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCCCcccccchhhHHHHHHHHhcCCchHHHH
Q 001613          166 LTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQR  245 (1044)
Q Consensus       166 ~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~  245 (1044)
                      .++|.-|...|                                        ++|.+..             ..|+|+|++
T Consensus       320 ~~vV~~LF~mg----------------------------------------nVNaKAs-------------Q~gQTALML  346 (452)
T KOG0514|consen  320 RTVVERLFKMG----------------------------------------DVNAKAS-------------QHGQTALML  346 (452)
T ss_pred             HHHHHHHHhcc----------------------------------------Ccchhhh-------------hhcchhhhh
Confidence            55666665544                                        3333322             239999999


Q ss_pred             HHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCc
Q 001613          246 AVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGN  325 (1044)
Q Consensus       246 A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~  325 (1044)
                      |+..|..++              ++.|+..|||+|++  |.+|.|+|++|+++||.+||++||...++|+  ...|.+|.
T Consensus       347 AVSHGr~d~--------------vk~LLacgAdVNiQ--DdDGSTALMCA~EHGhkEivklLLA~p~cd~--sLtD~DgS  408 (452)
T KOG0514|consen  347 AVSHGRVDM--------------VKALLACGADVNIQ--DDDGSTALMCAAEHGHKEIVKLLLAVPSCDI--SLTDVDGS  408 (452)
T ss_pred             hhhcCcHHH--------------HHHHHHccCCCccc--cCCccHHHhhhhhhChHHHHHHHhccCcccc--eeecCCCc
Confidence            999999998              99999999999987  9999999999999999999999999988888  89999999


Q ss_pred             hHHHHHHhcCCCcccccchHHHHHHHHhc
Q 001613          326 SALHCALKTSMGLSQHILQNRIVGILLKH  354 (1044)
Q Consensus       326 TpLh~Aa~~g~~~~~~~~~~~iVklLLe~  354 (1044)
                      |+|.+|...|        |.+|.-+|..+
T Consensus       409 TAl~IAleag--------h~eIa~mlYa~  429 (452)
T KOG0514|consen  409 TALSIALEAG--------HREIAVMLYAH  429 (452)
T ss_pred             hhhhhHHhcC--------chHHHHHHHHH
Confidence            9999999999        99998888764

>PHA02741 hypothetical protein; Provisional

Probab=99.81  E-value=1.5e-19  Score=186.30  Aligned_cols=131  Identities=22%  Similarity=0.250  Sum_probs=119.7

Q ss_pred             CCCCCCcHHHHHHHcCCHHHHHHHHHc-----CCCCCCCCCCCCCCchHHHHHHhcCCCcccccch----HHHHHHHHhc
Q 001613          284 TDKKVGPPLILATQAGDEDVIEILLKS-----KNIDINDADADADGNSALHCALKTSMGLSQHILQ----NRIVGILLKH  354 (1044)
Q Consensus       284 ~d~~G~TpLh~Aa~~G~~eiVk~LL~~-----~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~----~~iVklLLe~  354 (1044)
                      .+..|.||||+|+..|+.++|++|+..     .|+++  +.+|..|.||||+|+..|        +    .+++++|+++
T Consensus        17 ~~~~g~t~Lh~Aa~~g~~~~v~~l~~~~~~~~~ga~i--n~~d~~g~T~Lh~A~~~g--------~~~~~~~ii~~Ll~~   86 (169)
T PHA02741         17 KNSEGENFFHEAARCGCFDIIARFTPFIRGDCHAAAL--NATDDAGQMCIHIAAEKH--------EAQLAAEIIDHLIEL   86 (169)
T ss_pred             cccCCCCHHHHHHHcCCHHHHHHHHHHhccchhhhhh--hccCCCCCcHHHHHHHcC--------ChHHHHHHHHHHHHc
Confidence            378999999999999999999998653     15777  899999999999999998        5    5899999999


Q ss_pred             CCeeeecCC-CCCcHHHHHHHcCCHHHHHHHHh-cCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCc
Q 001613          355 GAIVSQQNK-LGLTALHIAAGSGNSQALEDLIR-KEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANS  425 (1044)
Q Consensus       355 GAdvn~~d~-~G~TpLh~Aa~~g~~eiVklLL~-~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdi  425 (1044)
                      |+++|.++. .|+||||+|+..++.+++++|+. .+++ ++..|..|+||||+|+..++.+++++|+++++..
T Consensus        87 gadin~~~~~~g~TpLh~A~~~~~~~iv~~Ll~~~g~~-~~~~n~~g~tpL~~A~~~~~~~iv~~L~~~~~~~  158 (169)
T PHA02741         87 GADINAQEMLEGDTALHLAAHRRDHDLAEWLCCQPGID-LHFCNADNKSPFELAIDNEDVAMMQILREIVATS  158 (169)
T ss_pred             CCCCCCCCcCCCCCHHHHHHHcCCHHHHHHHHhCCCCC-CCcCCCCCCCHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            999999985 89999999999999999999998 4887 9999999999999999999999999999987654

>PHA02736 Viral ankyrin protein; Provisional

Probab=99.80  E-value=1.8e-19  Score=182.53  Aligned_cols=135  Identities=19%  Similarity=0.227  Sum_probs=112.8

Q ss_pred             CCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCC-----CCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCee
Q 001613          284 TDKKVGPPLILATQAGDEDVIEILLKSKNIDIN-----DADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIV  358 (1044)
Q Consensus       284 ~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn-----~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdv  358 (1044)
                      .|..|.||||+|+..|+.  +.+|+.. +...+     .+..|..|.||||+|+..+.     ....+++++|+++|+++
T Consensus        13 ~d~~g~tpLh~A~~~g~~--~~l~~~~-~~~~~~~~~~~~~~d~~g~t~Lh~a~~~~~-----~~~~e~v~~Ll~~gadi   84 (154)
T PHA02736         13 PDIEGENILHYLCRNGGV--TDLLAFK-NAISDENRYLVLEYNRHGKQCVHIVSNPDK-----ADPQEKLKLLMEWGADI   84 (154)
T ss_pred             cCCCCCCHHHHHHHhCCH--HHHHHHH-HHhcchhHHHHHHhcCCCCEEEEeecccCc-----hhHHHHHHHHHHcCCCc
Confidence            478999999999999984  4444332 22221     13468899999999999881     11236789999999999


Q ss_pred             eecC-CCCCcHHHHHHHcCCHHHHHHHHhc-CCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCccc
Q 001613          359 SQQN-KLGLTALHIAAGSGNSQALEDLIRK-EPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEV  427 (1044)
Q Consensus       359 n~~d-~~G~TpLh~Aa~~g~~eiVklLL~~-gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~  427 (1044)
                      |.++ ..|+||||+|+..|+.+++++|+.+ +++ +|.+|..|+||||+|+..|+.+++++|+++||++++
T Consensus        85 n~~~~~~g~T~Lh~A~~~~~~~i~~~Ll~~~g~d-~n~~~~~g~tpL~~A~~~~~~~i~~~Ll~~ga~~~~  154 (154)
T PHA02736         85 NGKERVFGNTPLHIAVYTQNYELATWLCNQPGVN-MEILNYAFKTPYYVACERHDAKMMNILRAKGAQCKV  154 (154)
T ss_pred             cccCCCCCCcHHHHHHHhCCHHHHHHHHhCCCCC-CccccCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCC
Confidence            9998 5999999999999999999999985 777 999999999999999999999999999999998763

>KOG0505 consensus Myosin phosphatase, regulatory subunit [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.79  E-value=1.4e-19  Score=204.69  Aligned_cols=97  Identities=27%  Similarity=0.329  Sum_probs=89.7

Q ss_pred             HHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCc
Q 001613          346 RIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANS  425 (1044)
Q Consensus       346 ~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdi  425 (1044)
                      .=++..+..|.+.++.+..|-|.||.|+.+|..++.++||++|.+ ++++|.+|+||||.|+..|..+++++|+++|++.
T Consensus       179 ~D~~q~l~~G~~~d~~~~rG~T~lHvAaa~Gy~e~~~lLl~ag~~-~~~~D~dgWtPlHAAA~Wg~~~~~elL~~~ga~~  257 (527)
T KOG0505|consen  179 DDARQWLNAGAELDARHARGATALHVAAANGYTEVAALLLQAGYS-VNIKDYDGWTPLHAAAHWGQEDACELLVEHGADM  257 (527)
T ss_pred             HHHHHHHhccccccccccccchHHHHHHhhhHHHHHHHHHHhccC-cccccccCCCcccHHHHhhhHhHHHHHHHhhccc
Confidence            334455568999999998899999999999999999999999999 9999999999999999999999999999999999


Q ss_pred             ccccCCCCcHHHHHHHcC
Q 001613          426 EVLNLRRERPIDFAKSQD  443 (1044)
Q Consensus       426 n~~d~~G~TpLh~Aa~~g  443 (1044)
                      +..+..|.||+++|...-
T Consensus       258 d~~t~~g~~p~dv~dee~  275 (527)
T KOG0505|consen  258 DAKTKMGETPLDVADEEE  275 (527)
T ss_pred             chhhhcCCCCccchhhhh
Confidence            999999999999998754

>PHA02741 hypothetical protein; Provisional

Probab=99.78  E-value=1e-18  Score=180.04  Aligned_cols=126  Identities=21%  Similarity=0.303  Sum_probs=115.2

Q ss_pred             CCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHh------cCCeeeecCCCCCcHHHHHHHcCC----HHHHHHHHhc
Q 001613          318 ADADADGNSALHCALKTSMGLSQHILQNRIVGILLK------HGAIVSQQNKLGLTALHIAAGSGN----SQALEDLIRK  387 (1044)
Q Consensus       318 n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe------~GAdvn~~d~~G~TpLh~Aa~~g~----~eiVklLL~~  387 (1044)
                      +.++..|.||||+|+..|        +.+++++|+.      .|++++.+|..|+||||+|+..|+    .+++++|+++
T Consensus        15 ~~~~~~g~t~Lh~Aa~~g--------~~~~v~~l~~~~~~~~~ga~in~~d~~g~T~Lh~A~~~g~~~~~~~ii~~Ll~~   86 (169)
T PHA02741         15 AEKNSEGENFFHEAARCG--------CFDIIARFTPFIRGDCHAAALNATDDAGQMCIHIAAEKHEAQLAAEIIDHLIEL   86 (169)
T ss_pred             hccccCCCCHHHHHHHcC--------CHHHHHHHHHHhccchhhhhhhccCCCCCcHHHHHHHcCChHHHHHHHHHHHHc
Confidence            446789999999999999        9999999854      478999999999999999999999    5899999999


Q ss_pred             CCCCcccCCC-CCCcHHHHHHHcCCHHHHHHHHH-CCCCcccccCCCCcHHHHHHHcChHHHHHHhh
Q 001613          388 EPDCINLKTI-MMETPLFFAVKNDHMVCAEVLLR-WGANSEVLNLRRERPIDFAKSQDMRFLLKAAN  452 (1044)
Q Consensus       388 gad~in~~d~-~G~TpLh~Aa~~g~~~iVklLL~-~GAdin~~d~~G~TpLh~Aa~~g~~~Ll~~~~  452 (1044)
                      |++ +|.++. .|+||||+|+.+++.+++++|++ .|++++.+|..|+||||+|+..+..++++.+.
T Consensus        87 gad-in~~~~~~g~TpLh~A~~~~~~~iv~~Ll~~~g~~~~~~n~~g~tpL~~A~~~~~~~iv~~L~  152 (169)
T PHA02741         87 GAD-INAQEMLEGDTALHLAAHRRDHDLAEWLCCQPGIDLHFCNADNKSPFELAIDNEDVAMMQILR  152 (169)
T ss_pred             CCC-CCCCCcCCCCCHHHHHHHcCCHHHHHHHHhCCCCCCCcCCCCCCCHHHHHHHCCCHHHHHHHH
Confidence            999 999985 99999999999999999999998 59999999999999999999999877776444

>KOG0512 consensus Fetal globin-inducing factor (contains ankyrin repeats) [Transcription]

Probab=99.78  E-value=1.1e-18  Score=170.81  Aligned_cols=143  Identities=26%  Similarity=0.256  Sum_probs=130.4

Q ss_pred             cHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHH
Q 001613          290 PPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTAL  369 (1044)
Q Consensus       290 TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpL  369 (1044)
                      -.+.+|+..+.+..|+.||+. .++. +|.+|.+|+||||.|+.+|        +++||+.|+..||+++++...|||||
T Consensus        65 rl~lwaae~nrl~eV~~lL~e-~an~-vNtrD~D~YTpLHRAaYn~--------h~div~~ll~~gAn~~a~T~~GWTPL  134 (228)
T KOG0512|consen   65 RLLLWAAEKNRLTEVQRLLSE-KANH-VNTRDEDEYTPLHRAAYNG--------HLDIVHELLLSGANKEAKTNEGWTPL  134 (228)
T ss_pred             HHHHHHHhhccHHHHHHHHHh-cccc-ccccccccccHHHHHHhcC--------chHHHHHHHHccCCcccccccCccch
Confidence            457899999999999999998 4443 3999999999999999999        99999999999999999999999999


Q ss_pred             HHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCH-HHHHHHH-HCCCCcccccCCCCcHHHHHHHcC
Q 001613          370 HIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHM-VCAEVLL-RWGANSEVLNLRRERPIDFAKSQD  443 (1044)
Q Consensus       370 h~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~-~iVklLL-~~GAdin~~d~~G~TpLh~Aa~~g  443 (1044)
                      |-||..++.+++-+||++|++ +|+......||||+||...+. ..+.+|+ ..+.++...+..+.||+++|-.-+
T Consensus       135 hSAckWnN~~va~~LLqhgaD-VnA~t~g~ltpLhlaa~~rn~r~t~~~Ll~dryi~pg~~nn~eeta~~iARRT~  209 (228)
T KOG0512|consen  135 HSACKWNNFEVAGRLLQHGAD-VNAQTKGLLTPLHLAAGNRNSRDTLELLLHDRYIHPGLKNNLEETAFDIARRTS  209 (228)
T ss_pred             hhhhcccchhHHHHHHhccCc-ccccccccchhhHHhhcccchHHHHHHHhhccccChhhhcCccchHHHHHHHhh
Confidence            999999999999999999999 999999999999999987664 5556555 578999999999999999998876

>PHA02743 Viral ankyrin protein; Provisional

Probab=99.77  E-value=1.1e-18  Score=179.21  Aligned_cols=138  Identities=18%  Similarity=0.147  Sum_probs=122.5

Q ss_pred             CchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccCCCCCCcHHHHHHHcCCHHH---HHHHHHcCCCCC
Q 001613          239 RATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDV---IEILLKSKNIDI  315 (1044)
Q Consensus       239 g~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~d~~G~TpLh~Aa~~G~~ei---Vk~LL~~~gadv  315 (1044)
                      +.++||.|++.|+...          +...+++|++.|++++..  |..|+||||+|+..|+.++   +++|++. |+++
T Consensus        20 ~~~~l~~a~~~g~~~~----------l~~~~~~l~~~g~~~~~~--d~~g~t~Lh~Aa~~g~~~~~~~i~~Ll~~-Gadi   86 (166)
T PHA02743         20 EQNTFLRICRTGNIYE----------LMEVAPFISGDGHLLHRY--DHHGRQCTHMVAWYDRANAVMKIELLVNM-GADI   86 (166)
T ss_pred             CCcHHHHHHHcCCHHH----------HHHHHHHHhhcchhhhcc--CCCCCcHHHHHHHhCccCHHHHHHHHHHc-CCCC
Confidence            7889999999988632          222367888899988765  8899999999999988654   8999999 9999


Q ss_pred             CCCCCC-CCCchHHHHHHhcCCCcccccchHHHHHHHHh-cCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcc
Q 001613          316 NDADAD-ADGNSALHCALKTSMGLSQHILQNRIVGILLK-HGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCIN  393 (1044)
Q Consensus       316 n~n~~d-~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe-~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in  393 (1044)
                        +.++ ..|.||||+|+..+        +.+++++|++ .|++++.+|..|+||||+|+..++.+++++|+++|++ ++
T Consensus        87 --n~~d~~~g~TpLh~A~~~g--------~~~iv~~Ll~~~gad~~~~d~~g~tpL~~A~~~~~~~iv~~Ll~~ga~-~~  155 (166)
T PHA02743         87 --NARELGTGNTLLHIAASTK--------NYELAEWLCRQLGVNLGAINYQHETAYHIAYKMRDRRMMEILRANGAV-CD  155 (166)
T ss_pred             --CCCCCCCCCcHHHHHHHhC--------CHHHHHHHHhccCCCccCcCCCCCCHHHHHHHcCCHHHHHHHHHcCCC-CC
Confidence              8888 58999999999999        9999999995 8999999999999999999999999999999999999 99


Q ss_pred             cCCCCCC
Q 001613          394 LKTIMME  400 (1044)
Q Consensus       394 ~~d~~G~  400 (1044)
                      .++..|.
T Consensus       156 ~~~~~~~  162 (166)
T PHA02743        156 DPLSIGL  162 (166)
T ss_pred             CcccCCc
Confidence            9988775

>PHA02884 ankyrin repeat protein; Provisional

Probab=99.76  E-value=3.9e-18  Score=189.32  Aligned_cols=115  Identities=24%  Similarity=0.277  Sum_probs=61.3

Q ss_pred             HHHHHHcCCHHHHHHHHHcCCCCCCCCCC----CCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeec-CCCCC
Q 001613          292 LILATQAGDEDVIEILLKSKNIDINDADA----DADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQ-NKLGL  366 (1044)
Q Consensus       292 Lh~Aa~~G~~eiVk~LL~~~gadvn~n~~----d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~-d~~G~  366 (1044)
                      ||.|+..|+.++|++||++ |+|+  +.+    +..|.||||+|+..+        +.+++++|+++|||+|.+ +..|.
T Consensus        37 L~~A~~~~~~eivk~LL~~-GAdi--N~~~~~sd~~g~TpLh~Aa~~~--------~~eivklLL~~GADVN~~~~~~g~  105 (300)
T PHA02884         37 LYSSIKFHYTDIIDAILKL-GADP--EAPFPLSENSKTNPLIYAIDCD--------NDDAAKLLIRYGADVNRYAEEAKI  105 (300)
T ss_pred             HHHHHHcCCHHHHHHHHHC-CCCc--cccCcccCCCCCCHHHHHHHcC--------CHHHHHHHHHcCCCcCcccCCCCC
Confidence            3444444555555555555 5555  333    235555555555555        555555555555555553 23455


Q ss_pred             cHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHH
Q 001613          367 TALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVL  418 (1044)
Q Consensus       367 TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklL  418 (1044)
                      ||||+|+..|+.+++++|+++|++ +|.+|..|.||||+|+..++.+++.++
T Consensus       106 TpLh~Aa~~~~~eivklLL~~GAd-in~kd~~G~TpL~~A~~~~~~~~~~~~  156 (300)
T PHA02884        106 TPLYISVLHGCLKCLEILLSYGAD-INIQTNDMVTPIELALMICNNFLAFMI  156 (300)
T ss_pred             CHHHHHHHcCCHHHHHHHHHCCCC-CCCCCCCCCCHHHHHHHhCChhHHHHh
Confidence            555555555555555555555555 555555555555555555555554333

>PHA02884 ankyrin repeat protein; Provisional

Probab=99.76  E-value=6.8e-18  Score=187.42  Aligned_cols=123  Identities=25%  Similarity=0.270  Sum_probs=105.7

Q ss_pred             CCCCCCCch-HHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecC----CCCCcHHHHHHHcCCHHHHHHHHhcCCCCc
Q 001613          318 ADADADGNS-ALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQN----KLGLTALHIAAGSGNSQALEDLIRKEPDCI  392 (1044)
Q Consensus       318 n~~d~~G~T-pLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d----~~G~TpLh~Aa~~g~~eiVklLL~~gad~i  392 (1044)
                      ..+|..|+| +||.|+..|        +.+++++|+++||++|.++    ..|.||||+|+..|+.+++++|+++|++ +
T Consensus        26 ~~~d~~~~~~lL~~A~~~~--------~~eivk~LL~~GAdiN~~~~~sd~~g~TpLh~Aa~~~~~eivklLL~~GAD-V   96 (300)
T PHA02884         26 KKKNKICIANILYSSIKFH--------YTDIIDAILKLGADPEAPFPLSENSKTNPLIYAIDCDNDDAAKLLIRYGAD-V   96 (300)
T ss_pred             hccCcCCCCHHHHHHHHcC--------CHHHHHHHHHCCCCccccCcccCCCCCCHHHHHHHcCCHHHHHHHHHcCCC-c
Confidence            446677766 556666667        8999999999999999874    5899999999999999999999999998 9


Q ss_pred             ccC-CCCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHHcChHHHHH
Q 001613          393 NLK-TIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLK  449 (1044)
Q Consensus       393 n~~-d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~Ll~  449 (1044)
                      |.+ +..|.||||+|+..|+.+++++|+++||+++.+|..|.||||+|+..+...+..
T Consensus        97 N~~~~~~g~TpLh~Aa~~~~~eivklLL~~GAdin~kd~~G~TpL~~A~~~~~~~~~~  154 (300)
T PHA02884         97 NRYAEEAKITPLYISVLHGCLKCLEILLSYGADINIQTNDMVTPIELALMICNNFLAF  154 (300)
T ss_pred             CcccCCCCCCHHHHHHHcCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHhCChhHHH
Confidence            986 457999999999999999999999999999999999999999999877665544

>KOG0195 consensus Integrin-linked kinase [Signal transduction mechanisms]

Probab=99.72  E-value=3.4e-18  Score=178.67  Aligned_cols=142  Identities=30%  Similarity=0.367  Sum_probs=122.2

Q ss_pred             HcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcC
Q 001613          297 QAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSG  376 (1044)
Q Consensus       297 ~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g  376 (1044)
                      +.|+.--|++-|+...-|.  |..|..|.+||||||+.|        +..+|+.|+..|+.+|..|....||||+|+..|
T Consensus         9 regna~qvrlwld~tehdl--n~gddhgfsplhwaakeg--------h~aivemll~rgarvn~tnmgddtplhlaaahg   78 (448)
T KOG0195|consen    9 REGNAFQVRLWLDDTEHDL--NVGDDHGFSPLHWAAKEG--------HVAIVEMLLSRGARVNSTNMGDDTPLHLAAAHG   78 (448)
T ss_pred             hcCCeEEEEEEecCccccc--ccccccCcchhhhhhhcc--------cHHHHHHHHhcccccccccCCCCcchhhhhhcc
Confidence            3445444555555445566  888999999999999999        999999999999999999998999999999999


Q ss_pred             CHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHHcChHHHHH
Q 001613          377 NSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLK  449 (1044)
Q Consensus       377 ~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~Ll~  449 (1044)
                      +.++|+.||+..++ +|+.+..|+|||||||..|+..|.+-|+..||-+++.|++|.|||+.|.-.-...|++
T Consensus        79 hrdivqkll~~kad-vnavnehgntplhyacfwgydqiaedli~~ga~v~icnk~g~tpldkakp~l~~~l~e  150 (448)
T KOG0195|consen   79 HRDIVQKLLSRKAD-VNAVNEHGNTPLHYACFWGYDQIAEDLISCGAAVNICNKKGMTPLDKAKPMLKNTLLE  150 (448)
T ss_pred             cHHHHHHHHHHhcc-cchhhccCCCchhhhhhhcHHHHHHHHHhccceeeecccCCCCchhhhchHHHHHHHH
Confidence            99999999999999 9999999999999999999999999999999999999999999999886544334443

>PHA02736 Viral ankyrin protein; Provisional

Probab=99.71  E-value=2.7e-17  Score=166.64  Aligned_cols=129  Identities=16%  Similarity=0.190  Sum_probs=108.9

Q ss_pred             HhcCCchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCC-----ccCCCCCCcHHHHHHHcCCHH---HHHH
Q 001613          235 LALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANG-----SCTDKKVGPPLILATQAGDED---VIEI  306 (1044)
Q Consensus       235 ~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~-----~~~d~~G~TpLh~Aa~~G~~e---iVk~  306 (1044)
                      .+..|.||||+|+..|+  +              +++|...+...+.     ...|..|.||||+|+..|+.+   ++++
T Consensus        13 ~d~~g~tpLh~A~~~g~--~--------------~~l~~~~~~~~~~~~~~~~~~d~~g~t~Lh~a~~~~~~~~~e~v~~   76 (154)
T PHA02736         13 PDIEGENILHYLCRNGG--V--------------TDLLAFKNAISDENRYLVLEYNRHGKQCVHIVSNPDKADPQEKLKL   76 (154)
T ss_pred             cCCCCCCHHHHHHHhCC--H--------------HHHHHHHHHhcchhHHHHHHhcCCCCEEEEeecccCchhHHHHHHH
Confidence            34459999999999997  2              3444333332221     124789999999999999874   6899


Q ss_pred             HHHcCCCCCCCCCCC-CCCchHHHHHHhcCCCcccccchHHHHHHHHh-cCCeeeecCCCCCcHHHHHHHcCCHHHHHHH
Q 001613          307 LLKSKNIDINDADAD-ADGNSALHCALKTSMGLSQHILQNRIVGILLK-HGAIVSQQNKLGLTALHIAAGSGNSQALEDL  384 (1044)
Q Consensus       307 LL~~~gadvn~n~~d-~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe-~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklL  384 (1044)
                      |++. |+++  +.++ ..|.||||+|+..+        +.+++++|++ .|++++.+|..|+||||+|+..|+.+++++|
T Consensus        77 Ll~~-gadi--n~~~~~~g~T~Lh~A~~~~--------~~~i~~~Ll~~~g~d~n~~~~~g~tpL~~A~~~~~~~i~~~L  145 (154)
T PHA02736         77 LMEW-GADI--NGKERVFGNTPLHIAVYTQ--------NYELATWLCNQPGVNMEILNYAFKTPYYVACERHDAKMMNIL  145 (154)
T ss_pred             HHHc-CCCc--cccCCCCCCcHHHHHHHhC--------CHHHHHHHHhCCCCCCccccCCCCCHHHHHHHcCCHHHHHHH
Confidence            9999 9999  8887 59999999999999        9999999998 5999999999999999999999999999999


Q ss_pred             HhcCCC
Q 001613          385 IRKEPD  390 (1044)
Q Consensus       385 L~~gad  390 (1044)
                      +++|++
T Consensus       146 l~~ga~  151 (154)
T PHA02736        146 RAKGAQ  151 (154)
T ss_pred             HHcCCC
Confidence            999987

>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]

Probab=99.68  E-value=3.2e-17  Score=168.77  Aligned_cols=210  Identities=17%  Similarity=0.181  Sum_probs=169.9

Q ss_pred             ccccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEE
Q 001613          543 TQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEV  621 (1044)
Q Consensus       543 a~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i  621 (1044)
                      .++.+.++.|.-||..++.+++|.+|.. .|+|++|++++|+.++  +|-|||||.|-++++|++|+.. ||..+..|.|
T Consensus        37 t~~skTNLIvNYLPQ~MTqdE~rSLF~S-iGeiEScKLvRDKitG--qSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTI  113 (360)
T KOG0145|consen   37 TDESKTNLIVNYLPQNMTQDELRSLFGS-IGEIESCKLVRDKITG--QSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTI  113 (360)
T ss_pred             cCcccceeeeeecccccCHHHHHHHhhc-ccceeeeeeeeccccc--cccccceeeecChHHHHHHHhhhcceeeccceE
Confidence            3788899999999999999999999998 9999999999998776  8999999999999999999999 9999999999


Q ss_pred             EEcccCChhHHHHHHHHHHHhhhhhhhhcccccCCCCCChhhHHHH--HhhhhhHHHhhhhcccc--Cccccccchhhhc
Q 001613          622 EIKSAVPKEVLFAELQKQSAQQQESKHEHQARLGAKIPDERTMEQI--ISRNAKEEIQTKKITEE--MPCRRVTEEATAE  697 (1044)
Q Consensus       622 ~v~~A~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~~--l~~~~~~e~~~~~i~~~--~s~~~~~~~~~~~  697 (1044)
                      +|+.|.|.....+               +-......+|+.++.+++  +.++....|++..+..+  --++.|+++++++
T Consensus       114 KVSyARPSs~~Ik---------------~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDK  178 (360)
T KOG0145|consen  114 KVSYARPSSDSIK---------------DANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDK  178 (360)
T ss_pred             EEEeccCChhhhc---------------ccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecc
Confidence            9999998652111               122667789999998877  88999999999887722  4568999999999


Q ss_pred             cccccccccC-CCCCCCccccccccccccccCchhhhhhhhccCCcchhhhcccCCCCC-c-----------cccccccc
Q 001613          698 KSWAGRLLYG-QPKTSSNESQAYLVESFEEKSMPKWLRTFKKWLPRFLKDVYRHPLEGK-Y-----------ALSSLKTD  764 (1044)
Q Consensus       698 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-----------~~~~~~~~  764 (1044)
                      |..+.++|.| ++..|+++++||.|++.++++--+..-.+   .+-|..+. ||.+|+- .           +-...-++
T Consensus       179 r~EAe~AIk~lNG~~P~g~tepItVKFannPsq~t~~a~l---s~ly~sp~-rr~~Gp~hh~~~r~r~~~~~~~~~~~~r  254 (360)
T KOG0145|consen  179 RIEAEEAIKGLNGQKPSGCTEPITVKFANNPSQKTNQALL---SQLYQSPA-RRYGGPMHHQAQRFRLDNLLNPHAAQAR  254 (360)
T ss_pred             hhHHHHHHHhccCCCCCCCCCCeEEEecCCcccccchhhh---HHhhcCcc-ccCCCcccchhhhhccccccchhhhhcc
Confidence            9999999999 99999999999999999998754444433   34444444 5554432 1           22234567


Q ss_pred             hhhhcccccc
Q 001613          765 FKAVCGLELD  774 (1044)
Q Consensus       765 ~~~~~~~~~~  774 (1044)
                      |+++.++.++
T Consensus       255 fsP~~~d~m~  264 (360)
T KOG0145|consen  255 FSPMTIDGMS  264 (360)
T ss_pred             CCCccccccc
Confidence            7777766554

>KOG0512 consensus Fetal globin-inducing factor (contains ankyrin repeats) [Transcription]

Probab=99.67  E-value=2.3e-16  Score=154.65  Aligned_cols=143  Identities=32%  Similarity=0.321  Sum_probs=123.0

Q ss_pred             hHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCC-CCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC
Q 001613          241 TKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVA-NGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDAD  319 (1044)
Q Consensus       241 t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdi-n~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~  319 (1044)
                      ..+.+|+..+....              |+.|++..++. |.  +|.+|.||||.|+.+|+.+||+.||.. |+++  +.
T Consensus        65 rl~lwaae~nrl~e--------------V~~lL~e~an~vNt--rD~D~YTpLHRAaYn~h~div~~ll~~-gAn~--~a  125 (228)
T KOG0512|consen   65 RLLLWAAEKNRLTE--------------VQRLLSEKANHVNT--RDEDEYTPLHRAAYNGHLDIVHELLLS-GANK--EA  125 (228)
T ss_pred             HHHHHHHhhccHHH--------------HHHHHHhccccccc--cccccccHHHHHHhcCchHHHHHHHHc-cCCc--cc
Confidence            34667777777665              88888887764 54  599999999999999999999999999 9999  99


Q ss_pred             CCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCH-HHHHHHHhcCCCCcccCCCC
Q 001613          320 ADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNS-QALEDLIRKEPDCINLKTIM  398 (1044)
Q Consensus       320 ~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~-eiVklLL~~gad~in~~d~~  398 (1044)
                      +...|+||||-||+.+        +.+++-+||++|+|||+.....+||||+||...+. ..+.+|+.......-.++..
T Consensus       126 ~T~~GWTPLhSAckWn--------N~~va~~LLqhgaDVnA~t~g~ltpLhlaa~~rn~r~t~~~Ll~dryi~pg~~nn~  197 (228)
T KOG0512|consen  126 KTNEGWTPLHSACKWN--------NFEVAGRLLQHGADVNAQTKGLLTPLHLAAGNRNSRDTLELLLHDRYIHPGLKNNL  197 (228)
T ss_pred             ccccCccchhhhhccc--------chhHHHHHHhccCcccccccccchhhHHhhcccchHHHHHHHhhccccChhhhcCc
Confidence            9999999999999998        99999999999999999999999999999987654 56677765544447788889


Q ss_pred             CCcHHHHHHHcC
Q 001613          399 METPLFFAVKND  410 (1044)
Q Consensus       399 G~TpLh~Aa~~g  410 (1044)
                      +.||+.+|-+-+
T Consensus       198 eeta~~iARRT~  209 (228)
T KOG0512|consen  198 EETAFDIARRTS  209 (228)
T ss_pred             cchHHHHHHHhh
Confidence            999999997754

>KOG0195 consensus Integrin-linked kinase [Signal transduction mechanisms]

Probab=99.67  E-value=1.4e-16  Score=166.82  Aligned_cols=140  Identities=26%  Similarity=0.228  Sum_probs=121.7

Q ss_pred             HcCCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHh
Q 001613          274 LFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLK  353 (1044)
Q Consensus       274 ~~GAdin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe  353 (1044)
                      +..-|.|..  |..|.+|||+|++.|+..+|+.||.+ |+.+  |..+....||||+|+..|        |-+||+.|++
T Consensus        22 ~tehdln~g--ddhgfsplhwaakegh~aivemll~r-garv--n~tnmgddtplhlaaahg--------hrdivqkll~   88 (448)
T KOG0195|consen   22 DTEHDLNVG--DDHGFSPLHWAAKEGHVAIVEMLLSR-GARV--NSTNMGDDTPLHLAAAHG--------HRDIVQKLLS   88 (448)
T ss_pred             Ccccccccc--cccCcchhhhhhhcccHHHHHHHHhc-cccc--ccccCCCCcchhhhhhcc--------cHHHHHHHHH
Confidence            344555554  99999999999999999999999999 9999  899999999999999999        9999999999


Q ss_pred             cCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCccc
Q 001613          354 HGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEV  427 (1044)
Q Consensus       354 ~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~  427 (1044)
                      ..+|+|+.|..|+|||||||..|...+.+-|+..|+. +++.+++|.|||..|--.-...+.++--++|-++|.
T Consensus        89 ~kadvnavnehgntplhyacfwgydqiaedli~~ga~-v~icnk~g~tpldkakp~l~~~l~e~aek~gq~~nr  161 (448)
T KOG0195|consen   89 RKADVNAVNEHGNTPLHYACFWGYDQIAEDLISCGAA-VNICNKKGMTPLDKAKPMLKNTLLEIAEKHGQSPNR  161 (448)
T ss_pred             HhcccchhhccCCCchhhhhhhcHHHHHHHHHhccce-eeecccCCCCchhhhchHHHHHHHHHHHHhCCCCCc
Confidence            9999999999999999999999999999999999999 999999999999987433222233333346777764

>PF12796 Ank_2: Ankyrin repeats (3 copies); InterPro: IPR020683 This entry represents the ankyrin repeat-containing domain

Probab=99.65  E-value=4.8e-16  Score=142.20  Aligned_cols=89  Identities=34%  Similarity=0.465  Sum_probs=83.3

Q ss_pred             HHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHH
Q 001613          328 LHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV  407 (1044)
Q Consensus       328 Lh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa  407 (1044)
                      ||+|++.|        +.+++++|++.+++++.    |.||||+|+..|+.+++++|+++|++ ++.+|..|+||||+|+
T Consensus         1 L~~A~~~~--------~~~~~~~ll~~~~~~~~----~~~~l~~A~~~~~~~~~~~Ll~~g~~-~~~~~~~g~t~L~~A~   67 (89)
T PF12796_consen    1 LHIAAQNG--------NLEILKFLLEKGADINL----GNTALHYAAENGNLEIVKLLLENGAD-INSQDKNGNTALHYAA   67 (89)
T ss_dssp             HHHHHHTT--------THHHHHHHHHTTSTTTS----SSBHHHHHHHTTTHHHHHHHHHTTTC-TT-BSTTSSBHHHHHH
T ss_pred             CHHHHHcC--------CHHHHHHHHHCcCCCCC----CCCHHHHHHHcCCHHHHHHHHHhccc-ccccCCCCCCHHHHHH
Confidence            79999999        99999999999998876    89999999999999999999999998 9999999999999999


Q ss_pred             HcCCHHHHHHHHHCCCCccccc
Q 001613          408 KNDHMVCAEVLLRWGANSEVLN  429 (1044)
Q Consensus       408 ~~g~~~iVklLL~~GAdin~~d  429 (1044)
                      .+|+.+++++|+++|++++.+|
T Consensus        68 ~~~~~~~~~~Ll~~g~~~~~~n   89 (89)
T PF12796_consen   68 ENGNLEIVKLLLEHGADVNIRN   89 (89)
T ss_dssp             HTTHHHHHHHHHHTTT-TTSS-
T ss_pred             HcCCHHHHHHHHHcCCCCCCcC
Confidence            9999999999999999999876

These domains contain multiple repeats of a beta(2)-alpha(2) motif. The ankyrin repeat is one of the most common protein-protein interaction motifs in nature. Ankyrin repeats are tandemly repeated modules of about 33 amino acids. They occur in a large number of functionally diverse proteins mainly from eukaryotes. The few known examples from prokaryotes and viruses may be the result of horizontal gene transfers []. The repeat has been found in proteins of diverse function such as transcriptional initiators, cell-cycle regulators, cytoskeletal, ion transporters and signal transducers. The ankyrin fold appears to be defined by its structure rather than its function since there is no specific sequence or structure which is universally recognised by it. The conserved fold of the ankyrin repeat unit is known from several crystal and solution structures [, , , ]. Each repeat folds into a helix-loop-helix structure with a beta-hairpin/loop region projecting out from the helices at a 90o angle. The repeats stack together to form an L-shaped structure [, ].; PDB: 3AAA_C 3F6Q_A 2KBX_A 3IXE_A 3TWR_D 3TWV_A 3TWT_B 3TWQ_A 3TWS_A 3TWX_B ....

>cd00204 ANK ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins

Probab=99.63  E-value=4.4e-15  Score=142.13  Aligned_cols=123  Identities=37%  Similarity=0.554  Sum_probs=93.2

Q ss_pred             CCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCC
Q 001613          285 DKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKL  364 (1044)
Q Consensus       285 d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~  364 (1044)
                      +..|.||||+|+..++.+++++|++. +.++  +..+..|.||||+|+..+        +.+++++|+++|++++..+..
T Consensus         4 ~~~g~t~l~~a~~~~~~~~i~~li~~-~~~~--~~~~~~g~~~l~~a~~~~--------~~~~~~~ll~~~~~~~~~~~~   72 (126)
T cd00204           4 DEDGRTPLHLAASNGHLEVVKLLLEN-GADV--NAKDNDGRTPLHLAAKNG--------HLEIVKLLLEKGADVNARDKD   72 (126)
T ss_pred             CcCCCCHHHHHHHcCcHHHHHHHHHc-CCCC--CccCCCCCcHHHHHHHcC--------CHHHHHHHHHcCCCccccCCC
Confidence            45677777777777777777777777 6666  667777777777777777        677777777777777777777


Q ss_pred             CCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHH
Q 001613          365 GLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLL  419 (1044)
Q Consensus       365 G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL  419 (1044)
                      |.||+|+|+..++.+++++|++++.+ ++..+..|.|||++|+..++.+++++|+
T Consensus        73 ~~~~l~~a~~~~~~~~~~~L~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~~~Ll  126 (126)
T cd00204          73 GNTPLHLAARNGNLDVVKLLLKHGAD-VNARDKDGRTPLHLAAKNGHLEVVKLLL  126 (126)
T ss_pred             CCCHHHHHHHcCcHHHHHHHHHcCCC-CcccCCCCCCHHHHHHhcCCHHHHHHhC
Confidence            77777777777777777777777766 7777777777777777777777777764

The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other types of domains. The structural repeat unit contains two antiparallel helices and a beta-hairpin, repeats are stacked in a superhelical arrangement; this alignment contains 4 consecutive repeats.

>KOG3676 consensus Ca2+-permeable cation channel OSM-9 and related channels (OTRPC family) [Inorganic ion transport and metabolism; Signal transduction mechanisms]

Probab=99.61  E-value=1.7e-15  Score=179.28  Aligned_cols=157  Identities=24%  Similarity=0.246  Sum_probs=137.1

Q ss_pred             CCCCCCcHHHHHHHc---CCHHHHHHHHHcCCCCCCC--CCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCee
Q 001613          284 TDKKVGPPLILATQA---GDEDVIEILLKSKNIDIND--ADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIV  358 (1044)
Q Consensus       284 ~d~~G~TpLh~Aa~~---G~~eiVk~LL~~~gadvn~--n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdv  358 (1044)
                      +...|.|.||.|..+   ++.++++.||+...--+|.  -.....|.||||+|+.+.        +.++|++|++.||||
T Consensus       139 RGa~GET~Lh~~lL~~~~~~n~la~~LL~~~p~lind~~~~eeY~GqSaLHiAIv~~--------~~~~V~lLl~~gADV  210 (782)
T KOG3676|consen  139 RGATGETLLHKALLNLSDGHNELARVLLEIFPKLINDIYTSEEYYGQSALHIAIVNR--------DAELVRLLLAAGADV  210 (782)
T ss_pred             ccchhhhHHHHHHhcCchhHHHHHHHHHHHhHHHhhhhhhhHhhcCcchHHHHHHhc--------cHHHHHHHHHcCCch
Confidence            467899999999974   5668999999864322310  112457999999999998        999999999999999


Q ss_pred             eecC-----------------------CCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHH
Q 001613          359 SQQN-----------------------KLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCA  415 (1044)
Q Consensus       359 n~~d-----------------------~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iV  415 (1044)
                      +++-                       ..|..||.+||-.++.+++++|+++|+| +|++|..|+|.||..+.+-..++.
T Consensus       211 ~aRa~G~FF~~~dqk~~rk~T~Y~G~~YfGEyPLSfAAC~nq~eivrlLl~~gAd-~~aqDS~GNTVLH~lVi~~~~~My  289 (782)
T KOG3676|consen  211 HARACGAFFCPDDQKASRKSTNYTGYFYFGEYPLSFAACTNQPEIVRLLLAHGAD-PNAQDSNGNTVLHMLVIHFVTEMY  289 (782)
T ss_pred             hhHhhccccCcccccccccccCCcceeeeccCchHHHHHcCCHHHHHHHHhcCCC-CCccccCCChHHHHHHHHHHHHHH
Confidence            8741                       1378899999999999999999999999 999999999999999999999999


Q ss_pred             HHHHHCCCC--cccccCCCCcHHHHHHHcChHHHHH
Q 001613          416 EVLLRWGAN--SEVLNLRRERPIDFAKSQDMRFLLK  449 (1044)
Q Consensus       416 klLL~~GAd--in~~d~~G~TpLh~Aa~~g~~~Ll~  449 (1044)
                      ++++++||+  ..++|+.|.|||.+|++.|..+|.+
T Consensus       290 ~~~L~~ga~~l~~v~N~qgLTPLtLAaklGk~emf~  325 (782)
T KOG3676|consen  290 DLALELGANALEHVRNNQGLTPLTLAAKLGKKEMFQ  325 (782)
T ss_pred             HHHHhcCCCccccccccCCCChHHHHHHhhhHHHHH
Confidence            999999999  9999999999999999999777766

>cd00204 ANK ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins

Probab=99.61  E-value=8.9e-15  Score=140.01  Aligned_cols=122  Identities=29%  Similarity=0.443  Sum_probs=115.6

Q ss_pred             CCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCC
Q 001613          320 ADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMM  399 (1044)
Q Consensus       320 ~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G  399 (1044)
                      .|..|.||||+|+..+        +.+++++|+++|++.+.++..|.||||+|+..++.+++++|+++++. ++..+..|
T Consensus         3 ~~~~g~t~l~~a~~~~--------~~~~i~~li~~~~~~~~~~~~g~~~l~~a~~~~~~~~~~~ll~~~~~-~~~~~~~~   73 (126)
T cd00204           3 RDEDGRTPLHLAASNG--------HLEVVKLLLENGADVNAKDNDGRTPLHLAAKNGHLEIVKLLLEKGAD-VNARDKDG   73 (126)
T ss_pred             cCcCCCCHHHHHHHcC--------cHHHHHHHHHcCCCCCccCCCCCcHHHHHHHcCCHHHHHHHHHcCCC-ccccCCCC
Confidence            4678999999999999        89999999999999999999999999999999999999999999987 89999999


Q ss_pred             CcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHHcChHHHHHH
Q 001613          400 ETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKA  450 (1044)
Q Consensus       400 ~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~Ll~~  450 (1044)
                      .||+|+|+..++.+++++|+++|.+++..+..|.|||++|...+...+++.
T Consensus        74 ~~~l~~a~~~~~~~~~~~L~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  124 (126)
T cd00204          74 NTPLHLAARNGNLDVVKLLLKHGADVNARDKDGRTPLHLAAKNGHLEVVKL  124 (126)
T ss_pred             CCHHHHHHHcCcHHHHHHHHHcCCCCcccCCCCCCHHHHHHhcCCHHHHHH
Confidence            999999999999999999999999999999999999999999987777664

The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other types of domains. The structural repeat unit contains two antiparallel helices and a beta-hairpin, repeats are stacked in a superhelical arrangement; this alignment contains 4 consecutive repeats.

>PF12796 Ank_2: Ankyrin repeats (3 copies); InterPro: IPR020683 This entry represents the ankyrin repeat-containing domain

Probab=99.60  E-value=3.3e-15  Score=136.68  Aligned_cols=89  Identities=38%  Similarity=0.581  Sum_probs=82.0

Q ss_pred             HHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHH
Q 001613          292 LILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHI  371 (1044)
Q Consensus       292 Lh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~  371 (1044)
                      ||+|++.|+.+++++|++. +.++  +.    |+||||+|+..|        +.+++++|+++|++++.+|..|+||||+
T Consensus         1 L~~A~~~~~~~~~~~ll~~-~~~~--~~----~~~~l~~A~~~~--------~~~~~~~Ll~~g~~~~~~~~~g~t~L~~   65 (89)
T PF12796_consen    1 LHIAAQNGNLEILKFLLEK-GADI--NL----GNTALHYAAENG--------NLEIVKLLLENGADINSQDKNGNTALHY   65 (89)
T ss_dssp             HHHHHHTTTHHHHHHHHHT-TSTT--TS----SSBHHHHHHHTT--------THHHHHHHHHTTTCTT-BSTTSSBHHHH
T ss_pred             CHHHHHcCCHHHHHHHHHC-cCCC--CC----CCCHHHHHHHcC--------CHHHHHHHHHhcccccccCCCCCCHHHH
Confidence            7999999999999999997 8888  43    899999999999        9999999999999999999999999999


Q ss_pred             HHHcCCHHHHHHHHhcCCCCcccCC
Q 001613          372 AAGSGNSQALEDLIRKEPDCINLKT  396 (1044)
Q Consensus       372 Aa~~g~~eiVklLL~~gad~in~~d  396 (1044)
                      |+.+|+.+++++|+++|++ +|.+|
T Consensus        66 A~~~~~~~~~~~Ll~~g~~-~~~~n   89 (89)
T PF12796_consen   66 AAENGNLEIVKLLLEHGAD-VNIRN   89 (89)
T ss_dssp             HHHTTHHHHHHHHHHTTT--TTSS-
T ss_pred             HHHcCCHHHHHHHHHcCCC-CCCcC
Confidence            9999999999999999998 88775

These domains contain multiple repeats of a beta(2)-alpha(2) motif. The ankyrin repeat is one of the most common protein-protein interaction motifs in nature. Ankyrin repeats are tandemly repeated modules of about 33 amino acids. They occur in a large number of functionally diverse proteins mainly from eukaryotes. The few known examples from prokaryotes and viruses may be the result of horizontal gene transfers []. The repeat has been found in proteins of diverse function such as transcriptional initiators, cell-cycle regulators, cytoskeletal, ion transporters and signal transducers. The ankyrin fold appears to be defined by its structure rather than its function since there is no specific sequence or structure which is universally recognised by it. The conserved fold of the ankyrin repeat unit is known from several crystal and solution structures [, , , ]. Each repeat folds into a helix-loop-helix structure with a beta-hairpin/loop region projecting out from the helices at a 90o angle. The repeats stack together to form an L-shaped structure [, ].; PDB: 3AAA_C 3F6Q_A 2KBX_A 3IXE_A 3TWR_D 3TWV_A 3TWT_B 3TWQ_A 3TWS_A 3TWX_B ....

>KOG3676 consensus Ca2+-permeable cation channel OSM-9 and related channels (OTRPC family) [Inorganic ion transport and metabolism; Signal transduction mechanisms]

Probab=99.55  E-value=2.4e-14  Score=169.77  Aligned_cols=199  Identities=21%  Similarity=0.243  Sum_probs=155.6

Q ss_pred             CCChHHHHHHHcCCHHHHHHHHHcC---------CCCCcccCCCCCchHHHHHHhCCCcceecCCCCCchhHHHHHHhcC
Q 001613           94 SGMTALHLAAESHTARCVELLLKKR---------ARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQK  164 (1044)
Q Consensus        94 ~G~TpLH~Aa~~G~~eiVklLL~~G---------Advn~~d~~G~T~lpLh~Aa~~g~~eIv~~~~~~~~t~L~~Ai~~g  164 (1044)
                      ..+.++..|...+..+..+.|+..+         -+++.+..-|.|  .||.|..+.+                    .+
T Consensus       100 ~d~~~~~~~~~~~~l~~l~~l~~~~~~~k~r~~~w~~~~RGa~GET--~Lh~~lL~~~--------------------~~  157 (782)
T KOG3676|consen  100 FDRDALFIADSEGALSDLDGLLKFLRKSKYRLTDWKLNERGATGET--LLHKALLNLS--------------------DG  157 (782)
T ss_pred             cchhhhhhccccccHHHHhccchhhhhhhhhhhhhccccccchhhh--HHHHHHhcCc--------------------hh
Confidence            3347888888889988888887765         455555566666  6666655432                    34


Q ss_pred             CHHHHHHHHHcCCCcchHHHHhhhcCcHHHHHHHHHHHhhhhhhHHHHhccCCCcccccchhhHHHHHHHHhcCCchHHH
Q 001613          165 NLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQ  244 (1044)
Q Consensus       165 ~~eivklLl~~gadi~~~~~~~a~~g~~~~l~~ll~~a~~~~~~~~l~~~~adin~~~~~~~~~~~i~~a~~~gg~t~L~  244 (1044)
                      +.++++.|++.-..+-                                      |          .+.....+.|.||||
T Consensus       158 ~n~la~~LL~~~p~li--------------------------------------n----------d~~~~eeY~GqSaLH  189 (782)
T KOG3676|consen  158 HNELARVLLEIFPKLI--------------------------------------N----------DIYTSEEYYGQSALH  189 (782)
T ss_pred             HHHHHHHHHHHhHHHh--------------------------------------h----------hhhhhHhhcCcchHH
Confidence            4577777775432110                                      0          001112234999999


Q ss_pred             HHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCCCCCccC-------CC--------------CCCcHHHHHHHcCCHHH
Q 001613          245 RAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCT-------DK--------------KVGPPLILATQAGDEDV  303 (1044)
Q Consensus       245 ~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAdin~~~~-------d~--------------~G~TpLh~Aa~~G~~ei  303 (1044)
                      +|+.+.+.+.              |++|++.|||++..+.       |.              .|..||-.||..++.++
T Consensus       190 iAIv~~~~~~--------------V~lLl~~gADV~aRa~G~FF~~~dqk~~rk~T~Y~G~~YfGEyPLSfAAC~nq~ei  255 (782)
T KOG3676|consen  190 IAIVNRDAEL--------------VRLLLAAGADVHARACGAFFCPDDQKASRKSTNYTGYFYFGEYPLSFAACTNQPEI  255 (782)
T ss_pred             HHHHhccHHH--------------HHHHHHcCCchhhHhhccccCcccccccccccCCcceeeeccCchHHHHHcCCHHH
Confidence            9999999988              9999999999986541       11              46789999999999999


Q ss_pred             HHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCe--eeecCCCCCcHHHHHHHcCCHHHH
Q 001613          304 IEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAI--VSQQNKLGLTALHIAAGSGNSQAL  381 (1044)
Q Consensus       304 Vk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAd--vn~~d~~G~TpLh~Aa~~g~~eiV  381 (1044)
                      |++|+++ |+|+  +.+|.+|+|.||..+..-        ..++..+++++|++  ...+|+.|.|||.+||.-|..++.
T Consensus       256 vrlLl~~-gAd~--~aqDS~GNTVLH~lVi~~--------~~~My~~~L~~ga~~l~~v~N~qgLTPLtLAaklGk~emf  324 (782)
T KOG3676|consen  256 VRLLLAH-GADP--NAQDSNGNTVLHMLVIHF--------VTEMYDLALELGANALEHVRNNQGLTPLTLAAKLGKKEMF  324 (782)
T ss_pred             HHHHHhc-CCCC--CccccCCChHHHHHHHHH--------HHHHHHHHHhcCCCccccccccCCCChHHHHHHhhhHHHH
Confidence            9999998 9999  999999999999999886        88999999999999  888999999999999999999999


Q ss_pred             HHHHhc
Q 001613          382 EDLIRK  387 (1044)
Q Consensus       382 klLL~~  387 (1044)
                      +.+++.
T Consensus       325 ~~ile~  330 (782)
T KOG3676|consen  325 QHILER  330 (782)
T ss_pred             HHHHHh
Confidence            999987

>COG0666 Arp FOG: Ankyrin repeat [General function prediction only]

Probab=99.51  E-value=1.5e-13  Score=145.25  Aligned_cols=127  Identities=31%  Similarity=0.407  Sum_probs=120.7

Q ss_pred             CCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccch-----HHHHHHHHhcCC--
Q 001613          284 TDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQ-----NRIVGILLKHGA--  356 (1044)
Q Consensus       284 ~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~-----~~iVklLLe~GA--  356 (1044)
                      .+..+.++++.|+..+..+++++|+.. |+++  +.++..|.||||+|+..+        +     .+++++|++.|+  
T Consensus        69 ~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~--~~~~~~g~t~l~~a~~~~--------~~~~~~~~~~~~ll~~g~~~  137 (235)
T COG0666          69 RDLDGRLPLHSAASKGDDKIVKLLLAS-GADV--NAKDADGDTPLHLAALNG--------NPPEGNIEVAKLLLEAGADL  137 (235)
T ss_pred             CCccccCHHHHHHHcCcHHHHHHHHHc-CCCc--ccccCCCCcHHHHHHhcC--------CcccchHHHHHHHHHcCCCC
Confidence            467789999999999999999999999 9999  999999999999999999        7     999999999999  


Q ss_pred             -eeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCC
Q 001613          357 -IVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWG  422 (1044)
Q Consensus       357 -dvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~G  422 (1044)
                       +.+.+|..|+||||+|+..|+.+++++|++.+++ ++..+..|.|+|+.|+..++.++++.|++.+
T Consensus       138 ~~~~~~~~~g~tpl~~A~~~~~~~~~~~ll~~~~~-~~~~~~~g~t~l~~a~~~~~~~~~~~l~~~~  203 (235)
T COG0666         138 DVNNLRDEDGNTPLHWAALNGDADIVELLLEAGAD-PNSRNSYGVTALDPAAKNGRIELVKLLLDKG  203 (235)
T ss_pred             CCccccCCCCCchhHHHHHcCchHHHHHHHhcCCC-CcccccCCCcchhhhcccchHHHHHHHHhcC
Confidence             5666799999999999999999999999999999 9999999999999999999999999999976

>COG0666 Arp FOG: Ankyrin repeat [General function prediction only]

Probab=99.49  E-value=5.6e-13  Score=140.93  Aligned_cols=128  Identities=32%  Similarity=0.341  Sum_probs=119.5

Q ss_pred             CCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCC-----HHHHHHHHhcCC--C
Q 001613          318 ADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGN-----SQALEDLIRKEP--D  390 (1044)
Q Consensus       318 n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~-----~eiVklLL~~ga--d  390 (1044)
                      ...+..+.+++|.++..+        ...++++|+..|++++.+|..|.||||+|+..++     .+++++||+.|+  +
T Consensus        67 ~~~~~~~~~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~~g~t~l~~a~~~~~~~~~~~~~~~~ll~~g~~~~  138 (235)
T COG0666          67 AARDLDGRLPLHSAASKG--------DDKIVKLLLASGADVNAKDADGDTPLHLAALNGNPPEGNIEVAKLLLEAGADLD  138 (235)
T ss_pred             ccCCccccCHHHHHHHcC--------cHHHHHHHHHcCCCcccccCCCCcHHHHHHhcCCcccchHHHHHHHHHcCCCCC
Confidence            556777999999999999        8899999999999999999999999999999999     999999999999  5


Q ss_pred             CcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHHcChHHHHHHhhh
Q 001613          391 CINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANT  453 (1044)
Q Consensus       391 ~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~Ll~~~~~  453 (1044)
                      ..+.+|..|.||||+|+..|+.+++++|++.|++++.++..|.|++++|+..+...+++.+..
T Consensus       139 ~~~~~~~~g~tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~g~t~l~~a~~~~~~~~~~~l~~  201 (235)
T COG0666         139 VNNLRDEDGNTPLHWAALNGDADIVELLLEAGADPNSRNSYGVTALDPAAKNGRIELVKLLLD  201 (235)
T ss_pred             CccccCCCCCchhHHHHHcCchHHHHHHHhcCCCCcccccCCCcchhhhcccchHHHHHHHHh
Confidence            588889999999999999999999999999999999999999999999999998888774444

>KOG4214 consensus Myotrophin and similar proteins [Transcription]

Probab=99.49  E-value=6.7e-14  Score=124.04  Aligned_cols=113  Identities=29%  Similarity=0.300  Sum_probs=102.7

Q ss_pred             hHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHH
Q 001613          326 SALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFF  405 (1044)
Q Consensus       326 TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~  405 (1044)
                      --+.|++++|        .++-|+-.+..|-+||..= .|+||||+|+..|+.+++++|+..|++ ++.+|++|-|||-.
T Consensus         4 ~~~~W~vkNG--------~~DeVk~~v~~g~nVn~~~-ggR~plhyAAD~GQl~ilefli~iGA~-i~~kDKygITPLLs   73 (117)
T KOG4214|consen    4 MSVAWNVKNG--------EIDEVKQSVNEGLNVNEIY-GGRTPLHYAADYGQLSILEFLISIGAN-IQDKDKYGITPLLS   73 (117)
T ss_pred             hhHhhhhccC--------cHHHHHHHHHccccHHHHh-CCcccchHhhhcchHHHHHHHHHhccc-cCCccccCCcHHHH
Confidence            4578899999        8999999999998888654 899999999999999999999999999 99999999999999


Q ss_pred             HHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHHcChHHHH
Q 001613          406 AVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLL  448 (1044)
Q Consensus       406 Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~Ll  448 (1044)
                      |+..||.++|++||++|||-..+.-+|.+.+..+-....+.||
T Consensus        74 AvwEGH~~cVklLL~~GAdrt~~~PdG~~~~eate~edIr~LL  116 (117)
T KOG4214|consen   74 AVWEGHRDCVKLLLQNGADRTIHAPDGTALIEATEEEDIRELL  116 (117)
T ss_pred             HHHHhhHHHHHHHHHcCcccceeCCCchhHHhhccHHHHHHHh
Confidence            9999999999999999999999999999988877666665554

>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]

Probab=99.41  E-value=7.3e-14  Score=143.82  Aligned_cols=81  Identities=35%  Similarity=0.542  Sum_probs=75.8

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHhCCCccCCeEEEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEI  623 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~~~~~i~Gr~i~v  623 (1044)
                      +-..+|||||||+|++..+.||.+|++ ||+|.++.|+.|+.++  ||||||||+|.+.++|.+|++..+-.|+||+..+
T Consensus         9 DT~~TKifVggL~w~T~~~~l~~yFeq-fGeI~eavvitd~~t~--rskGyGfVTf~d~~aa~rAc~dp~piIdGR~aNc   85 (247)
T KOG0149|consen    9 DTTFTKIFVGGLAWETHKETLRRYFEQ-FGEIVEAVVITDKNTG--RSKGYGFVTFRDAEAATRACKDPNPIIDGRKANC   85 (247)
T ss_pred             CceEEEEEEcCcccccchHHHHHHHHH-hCceEEEEEEeccCCc--cccceeeEEeecHHHHHHHhcCCCCccccccccc
Confidence            345789999999999999999999998 9999999999998877  8999999999999999999999889999999999


Q ss_pred             cccC
Q 001613          624 KSAV  627 (1044)
Q Consensus       624 ~~A~  627 (1044)
                      +.|-
T Consensus        86 nlA~   89 (247)
T KOG0149|consen   86 NLAS   89 (247)
T ss_pred             chhh
Confidence            9874

>KOG4214 consensus Myotrophin and similar proteins [Transcription]

Probab=99.38  E-value=1.1e-12  Score=116.52  Aligned_cols=104  Identities=18%  Similarity=0.279  Sum_probs=93.5

Q ss_pred             cHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHH
Q 001613          290 PPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTAL  369 (1044)
Q Consensus       290 TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpL  369 (1044)
                      .-+.|++++|.++-|+-.+.. |.++  |.. ..|+||||+|+-.|        +++++++|+..||+++.+|+.|.|||
T Consensus         4 ~~~~W~vkNG~~DeVk~~v~~-g~nV--n~~-~ggR~plhyAAD~G--------Ql~ilefli~iGA~i~~kDKygITPL   71 (117)
T KOG4214|consen    4 MSVAWNVKNGEIDEVKQSVNE-GLNV--NEI-YGGRTPLHYAADYG--------QLSILEFLISIGANIQDKDKYGITPL   71 (117)
T ss_pred             hhHhhhhccCcHHHHHHHHHc-cccH--HHH-hCCcccchHhhhcc--------hHHHHHHHHHhccccCCccccCCcHH
Confidence            457899999999999999998 8888  655 48999999999999        99999999999999999999999999


Q ss_pred             HHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHH
Q 001613          370 HIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFA  406 (1044)
Q Consensus       370 h~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~A  406 (1044)
                      ..|+..||.++|++||+.|++ -.....+|.+.+..+
T Consensus        72 LsAvwEGH~~cVklLL~~GAd-rt~~~PdG~~~~eat  107 (117)
T KOG4214|consen   72 LSAVWEGHRDCVKLLLQNGAD-RTIHAPDGTALIEAT  107 (117)
T ss_pred             HHHHHHhhHHHHHHHHHcCcc-cceeCCCchhHHhhc
Confidence            999999999999999999999 777778887765443

>PLN03134 glycine-rich RNA-binding protein 4; Provisional

Probab=99.36  E-value=7e-13  Score=132.61  Aligned_cols=84  Identities=33%  Similarity=0.556  Sum_probs=78.4

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~  622 (1044)
                      ....++|||++|++.+++++|+++|++ ||.|.++.++.|+.++  ++||||||+|.++++|++|++. ++.+|+|++|+
T Consensus        31 ~~~~~~lfVgnL~~~~te~~L~~~F~~-~G~I~~v~i~~d~~tg--~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~  107 (144)
T PLN03134         31 RLMSTKLFIGGLSWGTDDASLRDAFAH-FGDVVDAKVIVDRETG--RSRGFGFVNFNDEGAATAAISEMDGKELNGRHIR  107 (144)
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHhc-CCCeEEEEEEecCCCC--CcceEEEEEECCHHHHHHHHHHcCCCEECCEEEE
Confidence            456789999999999999999999998 9999999999988766  8999999999999999999998 99999999999


Q ss_pred             EcccCChh
Q 001613          623 IKSAVPKE  630 (1044)
Q Consensus       623 v~~A~~k~  630 (1044)
                      |++|.++.
T Consensus       108 V~~a~~~~  115 (144)
T PLN03134        108 VNPANDRP  115 (144)
T ss_pred             EEeCCcCC
Confidence            99998764

>PTZ00322 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase; Provisional

Probab=99.32  E-value=4.3e-12  Score=157.29  Aligned_cols=106  Identities=26%  Similarity=0.219  Sum_probs=100.9

Q ss_pred             hHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHH
Q 001613          326 SALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFF  405 (1044)
Q Consensus       326 TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~  405 (1044)
                      +.|+.|+..|        +.+++++|+++|+++|.+|..|+||||+|+..|+.++|++|+++|++ +|.+|..|.||||+
T Consensus        84 ~~L~~aa~~G--------~~~~vk~LL~~Gadin~~d~~G~TpLh~Aa~~g~~eiv~~LL~~Gad-vn~~d~~G~TpLh~  154 (664)
T PTZ00322         84 VELCQLAASG--------DAVGARILLTGGADPNCRDYDGRTPLHIACANGHVQVVRVLLEFGAD-PTLLDKDGKTPLEL  154 (664)
T ss_pred             HHHHHHHHcC--------CHHHHHHHHHCCCCCCCcCCCCCcHHHHHHHCCCHHHHHHHHHCCCC-CCCCCCCCCCHHHH
Confidence            4689999999        99999999999999999999999999999999999999999999999 99999999999999


Q ss_pred             HHHcCCHHHHHHHHHC-------CCCcccccCCCCcHHHHHH
Q 001613          406 AVKNDHMVCAEVLLRW-------GANSEVLNLRRERPIDFAK  440 (1044)
Q Consensus       406 Aa~~g~~~iVklLL~~-------GAdin~~d~~G~TpLh~Aa  440 (1044)
                      |+.+|+.+++++|+++       ||+++..+..|.+|+..+.
T Consensus       155 A~~~g~~~iv~~Ll~~~~~~~~~ga~~~~~~~~g~~~~~~~~  196 (664)
T PTZ00322        155 AEENGFREVVQLLSRHSQCHFELGANAKPDSFTGKPPSLEDS  196 (664)
T ss_pred             HHHCCcHHHHHHHHhCCCcccccCCCCCccccCCCCccchhh
Confidence            9999999999999999       9999999999998877654

>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]

Probab=99.29  E-value=2.8e-12  Score=137.20  Aligned_cols=82  Identities=27%  Similarity=0.521  Sum_probs=76.5

Q ss_pred             ccccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEE
Q 001613          543 TQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEV  621 (1044)
Q Consensus       543 a~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i  621 (1044)
                      ..+..++|+|.|+|+...|.+|+.+|++ ||.|.+|+|++.. .+   |||||||+|++.++|++|-++ +|..++||+|
T Consensus        92 s~~~pkRLhVSNIPFrFRdpDL~aMF~k-fG~VldVEIIfNE-RG---SKGFGFVTmen~~dadRARa~LHgt~VEGRkI  166 (376)
T KOG0125|consen   92 SKDTPKRLHVSNIPFRFRDPDLRAMFEK-FGKVLDVEIIFNE-RG---SKGFGFVTMENPADADRARAELHGTVVEGRKI  166 (376)
T ss_pred             CCCCCceeEeecCCccccCccHHHHHHh-hCceeeEEEEecc-CC---CCccceEEecChhhHHHHHHHhhcceeeceEE
Confidence            3778899999999999999999999998 9999999999763 33   899999999999999999999 9999999999


Q ss_pred             EEcccCCh
Q 001613          622 EIKSAVPK  629 (1044)
Q Consensus       622 ~v~~A~~k  629 (1044)
                      +|..|.+|
T Consensus       167 EVn~ATar  174 (376)
T KOG0125|consen  167 EVNNATAR  174 (376)
T ss_pred             EEeccchh
Confidence            99999876

>PF13857 Ank_5: Ankyrin repeats (many copies); PDB: 1SW6_A 3EHR_B 3EHQ_A

Probab=99.26  E-value=4.3e-12  Score=105.95  Aligned_cols=56  Identities=25%  Similarity=0.447  Sum_probs=30.3

Q ss_pred             HHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHH
Q 001613          384 LIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFA  439 (1044)
Q Consensus       384 LL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~A  439 (1044)
                      ||+++..++|.+|..|.||||+|+.+|+.++|++|+++|+|++.+|..|+||||+|
T Consensus         1 LL~~~~~~~n~~d~~G~T~LH~A~~~g~~~~v~~Ll~~g~d~~~~d~~G~Tpl~~A   56 (56)
T PF13857_consen    1 LLEHGPADVNAQDKYGNTPLHWAARYGHSEVVRLLLQNGADPNAKDKDGQTPLHYA   56 (56)
T ss_dssp             -----T--TT---TTS--HHHHHHHHT-HHHHHHHHHCT--TT---TTS--HHHH-
T ss_pred             CCccCcCCCcCcCCCCCcHHHHHHHcCcHHHHHHHHHCcCCCCCCcCCCCCHHHhC
Confidence            56777444888888888888888888888888888888888888888888888887

>KOG0515 consensus p53-interacting protein 53BP/ASPP, contains ankyrin and SH3 domains [Cell cycle control, cell division, chromosome partitioning]

Probab=99.26  E-value=1.3e-11  Score=138.72  Aligned_cols=119  Identities=24%  Similarity=0.304  Sum_probs=97.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHH
Q 001613          291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALH  370 (1044)
Q Consensus       291 pLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh  370 (1044)
                      .|.-|+..|.+++|+..+.. --|+  ...+..|-||||-|+..|        |.+||++||+.|++||+.|.+||||||
T Consensus       553 LLLDaaLeGEldlVq~~i~e-v~Dp--SqpNdEGITaLHNAiCag--------hyeIVkFLi~~ganVNa~DSdGWTPLH  621 (752)
T KOG0515|consen  553 LLLDAALEGELDLVQRIIYE-VTDP--SQPNDEGITALHNAICAG--------HYEIVKFLIEFGANVNAADSDGWTPLH  621 (752)
T ss_pred             HHHhhhhcchHHHHHHHHHh-hcCC--CCCCccchhHHhhhhhcc--------hhHHHHHHHhcCCcccCccCCCCchhh
Confidence            35557888899999888887 5566  777888999999999888        899999999999999999999999999


Q ss_pred             HHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHH--HcCCHHHHHHHHH
Q 001613          371 IAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV--KNDHMVCAEVLLR  420 (1044)
Q Consensus       371 ~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa--~~g~~~iVklLL~  420 (1044)
                      +|+..++.-+++.|+++|+.-+-..-.++.||..-+-  +.|+..|.+||-.
T Consensus       622 CAASCNnv~~ckqLVe~GaavfAsTlSDmeTa~eKCee~eeGY~~CsqyL~~  673 (752)
T KOG0515|consen  622 CAASCNNVPMCKQLVESGAAVFASTLSDMETAAEKCEEMEEGYDQCSQYLYG  673 (752)
T ss_pred             hhhhcCchHHHHHHHhccceEEeeecccccchhhhcchhhhhHHHHHHHHHH
Confidence            9999999999999999988833344467888877664  4678888888864

>PTZ00322 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase; Provisional

Probab=99.24  E-value=2e-11  Score=151.45  Aligned_cols=106  Identities=25%  Similarity=0.293  Sum_probs=99.0

Q ss_pred             cHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHH
Q 001613          290 PPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTAL  369 (1044)
Q Consensus       290 TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpL  369 (1044)
                      +.|+.|+..|+.++|++|++. |+++  |.+|..|.||||+|+..|        +.+++++|+++|+++|.+|..|+|||
T Consensus        84 ~~L~~aa~~G~~~~vk~LL~~-Gadi--n~~d~~G~TpLh~Aa~~g--------~~eiv~~LL~~Gadvn~~d~~G~TpL  152 (664)
T PTZ00322         84 VELCQLAASGDAVGARILLTG-GADP--NCRDYDGRTPLHIACANG--------HVQVVRVLLEFGADPTLLDKDGKTPL  152 (664)
T ss_pred             HHHHHHHHcCCHHHHHHHHHC-CCCC--CCcCCCCCcHHHHHHHCC--------CHHHHHHHHHCCCCCCCCCCCCCCHH
Confidence            468999999999999999999 9999  899999999999999999        99999999999999999999999999


Q ss_pred             HHHHHcCCHHHHHHHHhc-------CCCCcccCCCCCCcHHHHHH
Q 001613          370 HIAAGSGNSQALEDLIRK-------EPDCINLKTIMMETPLFFAV  407 (1044)
Q Consensus       370 h~Aa~~g~~eiVklLL~~-------gad~in~~d~~G~TpLh~Aa  407 (1044)
                      |+|+..|+.+++++|+++       +++ ++..+..|.+|+..+.
T Consensus       153 h~A~~~g~~~iv~~Ll~~~~~~~~~ga~-~~~~~~~g~~~~~~~~  196 (664)
T PTZ00322        153 ELAEENGFREVVQLLSRHSQCHFELGAN-AKPDSFTGKPPSLEDS  196 (664)
T ss_pred             HHHHHCCcHHHHHHHHhCCCcccccCCC-CCccccCCCCccchhh
Confidence            999999999999999999       777 8888888888876554

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.24  E-value=5.8e-12  Score=145.07  Aligned_cols=161  Identities=18%  Similarity=0.231  Sum_probs=111.8

Q ss_pred             cccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEc
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~  624 (1044)
                      ...+|||++||..+++++|+++|++ ||+|.+++|++|+.++  ++||||||+|.+.++|++|++. ++..+.|++|.|.
T Consensus         2 ~~~~l~V~nLp~~~~e~~l~~~F~~-~G~i~~v~i~~d~~~g--~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~   78 (352)
T TIGR01661         2 SKTNLIVNYLPQTMTQEEIRSLFTS-IGEIESCKLVRDKVTG--QSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVS   78 (352)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHc-cCCEEEEEEEEcCCCC--ccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEE
Confidence            4678999999999999999999998 9999999999998765  8999999999999999999998 9999999999999


Q ss_pred             ccCChhHHHHHHHHHHHhhhhhhhhcccccCCCCCChhhHHHH--HhhhhhHHHhhhhccc--cCccccccchhhhcccc
Q 001613          625 SAVPKEVLFAELQKQSAQQQESKHEHQARLGAKIPDERTMEQI--ISRNAKEEIQTKKITE--EMPCRRVTEEATAEKSW  700 (1044)
Q Consensus       625 ~A~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~~--l~~~~~~e~~~~~i~~--~~s~~~~~~~~~~~~~~  700 (1044)
                      ++.++...               -.........+|...+..++  +.++.........+..  ....++++..+.....-
T Consensus        79 ~a~~~~~~---------------~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~  143 (352)
T TIGR01661        79 YARPSSDS---------------IKGANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNVTGLSKGVGFIRFDKRDE  143 (352)
T ss_pred             eecccccc---------------cccceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCCCCCcCcEEEEEECCHHH
Confidence            99775410               01123556677877666655  3343332222222211  12344566666666555


Q ss_pred             ccccccC-CCCCCCccccccccccc
Q 001613          701 AGRLLYG-QPKTSSNESQAYLVESF  724 (1044)
Q Consensus       701 ~~~~~~~-~~~~~~~~~~~~~~~~~  724 (1044)
                      +.+++.. ++..-.....++.+...
T Consensus       144 A~~ai~~l~g~~~~g~~~~i~v~~a  168 (352)
T TIGR01661       144 ADRAIKTLNGTTPSGCTEPITVKFA  168 (352)
T ss_pred             HHHHHHHhCCCccCCCceeEEEEEC
Confidence            6665554 33333333334444444

These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).

>KOG1710 consensus MYND Zn-finger and ankyrin repeat protein [General function prediction only]

Probab=99.19  E-value=7e-11  Score=124.63  Aligned_cols=120  Identities=26%  Similarity=0.264  Sum_probs=106.3

Q ss_pred             CCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeee-cCCCCC
Q 001613          288 VGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQ-QNKLGL  366 (1044)
Q Consensus       288 G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~-~d~~G~  366 (1044)
                      -..||.-|+..|+.+....||+. --.+  |..|..|.|+|..|+..|        +.++|++||++|+|||. ++..+.
T Consensus        12 ~~~~Lle~i~Kndt~~a~~LLs~-vr~v--n~~D~sGMs~LahAaykG--------nl~~v~lll~~gaDvN~~qhg~~Y   80 (396)
T KOG1710|consen   12 PKSPLLEAIDKNDTEAALALLST-VRQV--NQRDPSGMSVLAHAAYKG--------NLTLVELLLELGADVNDKQHGTLY   80 (396)
T ss_pred             hhhHHHHHHccCcHHHHHHHHHH-hhhh--hccCCCcccHHHHHHhcC--------cHHHHHHHHHhCCCcCcccccccc
Confidence            45789999999999999999986 4446  889999999999999999        99999999999999986 456789


Q ss_pred             cHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHH
Q 001613          367 TALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLL  419 (1044)
Q Consensus       367 TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL  419 (1044)
                      ||||+|+.+|+.++.++|++.|+. ....+.-|+|+-.+|+.-|+-++|..+-
T Consensus        81 TpLmFAALSGn~dvcrllldaGa~-~~~vNsvgrTAaqmAAFVG~H~CV~iIN  132 (396)
T KOG1710|consen   81 TPLMFAALSGNQDVCRLLLDAGAR-MYLVNSVGRTAAQMAAFVGHHECVAIIN  132 (396)
T ss_pred             cHHHHHHHcCCchHHHHHHhccCc-cccccchhhhHHHHHHHhcchHHHHHHh
Confidence            999999999999999999999998 8899999999999999999988887653

>PF13857 Ank_5: Ankyrin repeats (many copies); PDB: 1SW6_A 3EHR_B 3EHQ_A

Probab=99.18  E-value=1.5e-11  Score=102.65  Aligned_cols=55  Identities=44%  Similarity=0.547  Sum_probs=33.5

Q ss_pred             HHhcC-CeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHH
Q 001613          351 LLKHG-AIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFA  406 (1044)
Q Consensus       351 LLe~G-Advn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~A  406 (1044)
                      ||++| +++|.+|..|.||||+||..|+.++|++||+.+++ ++.+|..|+||||+|
T Consensus         1 LL~~~~~~~n~~d~~G~T~LH~A~~~g~~~~v~~Ll~~g~d-~~~~d~~G~Tpl~~A   56 (56)
T PF13857_consen    1 LLEHGPADVNAQDKYGNTPLHWAARYGHSEVVRLLLQNGAD-PNAKDKDGQTPLHYA   56 (56)
T ss_dssp             -----T--TT---TTS--HHHHHHHHT-HHHHHHHHHCT---TT---TTS--HHHH-
T ss_pred             CCccCcCCCcCcCCCCCcHHHHHHHcCcHHHHHHHHHCcCC-CCCCcCCCCCHHHhC
Confidence            67888 99999999999999999999999999999999998 999999999999998

>PF13637 Ank_4: Ankyrin repeats (many copies); PDB: 3B95_A 3B7B_A 3F6Q_A 2KBX_A 3IXE_A 2DWZ_C 2DVW_A 3AJI_A 1S70_B 2HE0_A

Probab=99.17  E-value=5.3e-11  Score=98.55  Aligned_cols=54  Identities=39%  Similarity=0.487  Sum_probs=43.6

Q ss_pred             CCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHH
Q 001613          365 GLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLL  419 (1044)
Q Consensus       365 G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL  419 (1044)
                      |+||||+|+..|+.+++++|++++.+ +|.+|.+|+||||+|+.+|+.+++++||
T Consensus         1 g~t~lh~A~~~g~~~~~~~Ll~~~~d-in~~d~~g~t~lh~A~~~g~~~~~~~Ll   54 (54)
T PF13637_consen    1 GRTPLHWAARSGNLEIVKLLLEHGAD-INAQDEDGRTPLHYAAKNGNIDIVKFLL   54 (54)
T ss_dssp             SSBHHHHHHHTT-HHHHHHHHHTTSG-TT-B-TTS--HHHHHHHTT-HHHHHHHH
T ss_pred             CChHHHHHHHhCCHHHHHHHHHCCCC-CCCCCCCCCCHHHHHHHccCHHHHHHHC
Confidence            68999999999999999999999888 9999999999999999999999999886

...

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.17  E-value=1.8e-11  Score=139.45  Aligned_cols=145  Identities=21%  Similarity=0.248  Sum_probs=105.3

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~  622 (1044)
                      ....++|||++||+++++++|+++|++ ||.|.+|+|++|+.++  ++||||||+|.++++|++|++. ++..+.|++|+
T Consensus       104 ~~~~~~LfVgnLp~~~te~~L~~lF~~-~G~V~~v~i~~d~~tg--~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~  180 (346)
T TIGR01659       104 NNSGTNLIVNYLPQDMTDRELYALFRT-IGPINTCRIMRDYKTG--YSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLK  180 (346)
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHh-cCCEEEEEEEecCCCC--ccCcEEEEEEccHHHHHHHHHHcCCCccCCceee
Confidence            345789999999999999999999998 9999999999988766  8999999999999999999998 99999999999


Q ss_pred             EcccCChhHHHHHHHHHHHhhhhhhhhcccccCCCCCChhhHHHH--HhhhhhHHHhhhhcc-c--cCccccccchhhhc
Q 001613          623 IKSAVPKEVLFAELQKQSAQQQESKHEHQARLGAKIPDERTMEQI--ISRNAKEEIQTKKIT-E--EMPCRRVTEEATAE  697 (1044)
Q Consensus       623 v~~A~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~~--l~~~~~~e~~~~~i~-~--~~s~~~~~~~~~~~  697 (1044)
                      |.+|.+...               .......+...+|..-++++|  +.+...+ +....|. .  .-..+.+...+...
T Consensus       181 V~~a~p~~~---------------~~~~~~lfV~nLp~~vtee~L~~~F~~fG~-V~~v~i~~d~~tg~~kG~aFV~F~~  244 (346)
T TIGR01659       181 VSYARPGGE---------------SIKDTNLYVTNLPRTITDDQLDTIFGKYGQ-IVQKNILRDKLTGTPRGVAFVRFNK  244 (346)
T ss_pred             eeccccccc---------------ccccceeEEeCCCCcccHHHHHHHHHhcCC-EEEEEEeecCCCCccceEEEEEECC
Confidence            999876421               001123566678877777665  3333222 2222221 1  11223456666666


Q ss_pred             cccccccccC
Q 001613          698 KSWAGRLLYG  707 (1044)
Q Consensus       698 ~~~~~~~~~~  707 (1044)
                      ++-+.+++..
T Consensus       245 ~e~A~~Ai~~  254 (346)
T TIGR01659       245 REEAQEAISA  254 (346)
T ss_pred             HHHHHHHHHH
Confidence            5556665554

This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.16  E-value=2e-11  Score=140.66  Aligned_cols=83  Identities=23%  Similarity=0.295  Sum_probs=77.4

Q ss_pred             ccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEE
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEI  623 (1044)
Q Consensus       545 ~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v  623 (1044)
                      ...++|||+|||+++++++|+++|++ ||.|.+++|+.|+.++  ++||||||+|.+.++|.+|+.. +|..++||+|+|
T Consensus       267 ~~~~~lfV~NL~~~~~e~~L~~~F~~-fG~v~~v~i~~d~~t~--~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V  343 (352)
T TIGR01661       267 GAGYCIFVYNLSPDTDETVLWQLFGP-FGAVQNVKIIRDLTTN--QCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQV  343 (352)
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHh-CCCeEEEEEeEcCCCC--CccceEEEEECCHHHHHHHHHHhCCCEECCeEEEE
Confidence            34457999999999999999999998 9999999999988666  8999999999999999999998 999999999999


Q ss_pred             cccCChh
Q 001613          624 KSAVPKE  630 (1044)
Q Consensus       624 ~~A~~k~  630 (1044)
                      +++.+|+
T Consensus       344 ~~~~~~~  350 (352)
T TIGR01661       344 SFKTNKA  350 (352)
T ss_pred             EEccCCC
Confidence            9998875

These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).

>PF13637 Ank_4: Ankyrin repeats (many copies); PDB: 3B95_A 3B7B_A 3F6Q_A 2KBX_A 3IXE_A 2DWZ_C 2DVW_A 3AJI_A 1S70_B 2HE0_A

Probab=99.15  E-value=5.8e-11  Score=98.29  Aligned_cols=54  Identities=39%  Similarity=0.569  Sum_probs=46.8

Q ss_pred             CchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHH
Q 001613          324 GNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLI  385 (1044)
Q Consensus       324 G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL  385 (1044)
                      |+||||+|+..|        +.+++++|+++|+++|.+|.+|+||||+|+..|+.+++++||
T Consensus         1 g~t~lh~A~~~g--------~~~~~~~Ll~~~~din~~d~~g~t~lh~A~~~g~~~~~~~Ll   54 (54)
T PF13637_consen    1 GRTPLHWAARSG--------NLEIVKLLLEHGADINAQDEDGRTPLHYAAKNGNIDIVKFLL   54 (54)
T ss_dssp             SSBHHHHHHHTT---------HHHHHHHHHTTSGTT-B-TTS--HHHHHHHTT-HHHHHHHH
T ss_pred             CChHHHHHHHhC--------CHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHccCHHHHHHHC
Confidence            789999999999        999999999999999999999999999999999999999996

...

>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]

Probab=99.14  E-value=8e-11  Score=130.70  Aligned_cols=116  Identities=25%  Similarity=0.285  Sum_probs=97.4

Q ss_pred             cCCCccccccccc--cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHH
Q 001613          531 KMNPGMCMIHAST--QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA  608 (1044)
Q Consensus       531 ~d~~G~tpLh~aa--~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A  608 (1044)
                      +.+.|.-|-.|..  ......||||+||.++.|++|+.+|++ .|+|.++++|+|+.++  .+||||||+|.+.++|++|
T Consensus        65 qrk~ggPpP~weg~~p~~G~EVfvGkIPrD~~EdeLvplfEk-iG~I~elRLMmD~~sG--~nRGYAFVtf~~Ke~Aq~A  141 (506)
T KOG0117|consen   65 QRKYGGPPPGWEGPPPPRGCEVFVGKIPRDVFEDELVPLFEK-IGKIYELRLMMDPFSG--DNRGYAFVTFCTKEEAQEA  141 (506)
T ss_pred             ccccCCCCCcccCCCCCCCceEEecCCCccccchhhHHHHHh-ccceeeEEEeecccCC--CCcceEEEEeecHHHHHHH
Confidence            4444444444554  567889999999999999999999998 9999999999998776  7999999999999999999


Q ss_pred             HHh-CCCcc-CCeEEEEcccCChhHHHHHHHHHHHhhhhhhhhcccccCCCCCChhhHHHHHhh
Q 001613          609 VQA-RFVTI-MGKEVEIKSAVPKEVLFAELQKQSAQQQESKHEHQARLGAKIPDERTMEQIISR  670 (1044)
Q Consensus       609 ~~~-~~~~i-~Gr~i~v~~A~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~~l~~  670 (1044)
                      ++. |+++| .||.|.|..+..+-                     +.+.+.+|++++++++|..
T Consensus       142 ik~lnn~Eir~GK~igvc~Svan~---------------------RLFiG~IPK~k~keeIlee  184 (506)
T KOG0117|consen  142 IKELNNYEIRPGKLLGVCVSVANC---------------------RLFIGNIPKTKKKEEILEE  184 (506)
T ss_pred             HHHhhCccccCCCEeEEEEeeecc---------------------eeEeccCCccccHHHHHHH
Confidence            999 88888 79999988776543                     2666789999998877654

>KOG1710 consensus MYND Zn-finger and ankyrin repeat protein [General function prediction only]

Probab=99.07  E-value=6.4e-10  Score=117.52  Aligned_cols=123  Identities=24%  Similarity=0.205  Sum_probs=109.4

Q ss_pred             CchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccC-CCCCCcH
Q 001613          324 GNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLK-TIMMETP  402 (1044)
Q Consensus       324 G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~-d~~G~Tp  402 (1044)
                      -..||.-++-.+        ..+-...||+---++|.+|..|+|+|..|+..|+.++|++||+.|+| +|.. +..+.||
T Consensus        12 ~~~~Lle~i~Kn--------dt~~a~~LLs~vr~vn~~D~sGMs~LahAaykGnl~~v~lll~~gaD-vN~~qhg~~YTp   82 (396)
T KOG1710|consen   12 PKSPLLEAIDKN--------DTEAALALLSTVRQVNQRDPSGMSVLAHAAYKGNLTLVELLLELGAD-VNDKQHGTLYTP   82 (396)
T ss_pred             hhhHHHHHHccC--------cHHHHHHHHHHhhhhhccCCCcccHHHHHHhcCcHHHHHHHHHhCCC-cCcccccccccH
Confidence            457888888888        88888888887666999999999999999999999999999999999 7754 5778999


Q ss_pred             HHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHHcChHHHHHHhhhcC
Q 001613          403 LFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCH  455 (1044)
Q Consensus       403 Lh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~Ll~~~~~n~  455 (1044)
                      ||+|+..|+.++.++|++.||.+...|.-|+|+-.+|+.-|+-+.+...+...
T Consensus        83 LmFAALSGn~dvcrllldaGa~~~~vNsvgrTAaqmAAFVG~H~CV~iINN~~  135 (396)
T KOG1710|consen   83 LMFAALSGNQDVCRLLLDAGARMYLVNSVGRTAAQMAAFVGHHECVAIINNHI  135 (396)
T ss_pred             HHHHHHcCCchHHHHHHhccCccccccchhhhHHHHHHHhcchHHHHHHhccc
Confidence            99999999999999999999999999999999999999999777766544433

>PF00076 RRM_1: RNA recognition motif

Probab=99.05  E-value=1e-10  Score=101.33  Aligned_cols=69  Identities=30%  Similarity=0.596  Sum_probs=64.6

Q ss_pred             eeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 001613          550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       550 ifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~  622 (1044)
                      |||+|||..+++++|+++|++ ||.|..+.++.+   .+++++|||||+|.+.++|++|++. ++..++|+.|+
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~-~g~i~~~~~~~~---~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir   70 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQ-FGKIESIKVMRN---SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHT-TSTEEEEEEEEE---TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHH-hhhccccccccc---ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            799999999999999999998 999999999887   3447999999999999999999998 99999999985

(a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....

>KOG0515 consensus p53-interacting protein 53BP/ASPP, contains ankyrin and SH3 domains [Cell cycle control, cell division, chromosome partitioning]

Probab=99.04  E-value=3.7e-10  Score=127.29  Aligned_cols=102  Identities=23%  Similarity=0.148  Sum_probs=86.5

Q ss_pred             HHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHH
Q 001613          329 HCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVK  408 (1044)
Q Consensus       329 h~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~  408 (1044)
                      .-|+..|        .+++|+..+..--|+...|..|.|+||-|+..||++||++||+.|++ +|..|.+||||||.|+.
T Consensus       555 LDaaLeG--------EldlVq~~i~ev~DpSqpNdEGITaLHNAiCaghyeIVkFLi~~gan-VNa~DSdGWTPLHCAAS  625 (752)
T KOG0515|consen  555 LDAALEG--------ELDLVQRIIYEVTDPSQPNDEGITALHNAICAGHYEIVKFLIEFGAN-VNAADSDGWTPLHCAAS  625 (752)
T ss_pred             Hhhhhcc--------hHHHHHHHHHhhcCCCCCCccchhHHhhhhhcchhHHHHHHHhcCCc-ccCccCCCCchhhhhhh
Confidence            3366667        88999999888888888899999999999999999999999999998 99999999999999999


Q ss_pred             cCCHHHHHHHHHCCCCccccc-CCCCcHHHHH
Q 001613          409 NDHMVCAEVLLRWGANSEVLN-LRRERPIDFA  439 (1044)
Q Consensus       409 ~g~~~iVklLL~~GAdin~~d-~~G~TpLh~A  439 (1044)
                      .++..+++.|++.||-|-+.. .++.||.+-+
T Consensus       626 CNnv~~ckqLVe~GaavfAsTlSDmeTa~eKC  657 (752)
T KOG0515|consen  626 CNNVPMCKQLVESGAAVFASTLSDMETAAEKC  657 (752)
T ss_pred             cCchHHHHHHHhccceEEeeecccccchhhhc
Confidence            999999999999998876654 4566766544

>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=99.03  E-value=8.3e-11  Score=119.28  Aligned_cols=83  Identities=30%  Similarity=0.520  Sum_probs=78.7

Q ss_pred             ccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEE
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEI  623 (1044)
Q Consensus       545 ~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v  623 (1044)
                      .++++||||+|..++++.-|...|-. ||.|.++.+..|+.+.  ++||||||+|...|+|.+|+.. |..++.||.|+|
T Consensus         8 ~~KrtlYVGGladeVtekvLhaAFIP-FGDI~dIqiPlDyesq--kHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirV   84 (298)
T KOG0111|consen    8 NQKRTLYVGGLADEVTEKVLHAAFIP-FGDIKDIQIPLDYESQ--KHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRV   84 (298)
T ss_pred             ccceeEEeccchHHHHHHHHHhcccc-ccchhhcccccchhcc--cccceeEEEeeccchhHHHhhcCchhhhcceeEEE
Confidence            46899999999999999999999999 9999999999999887  8999999999999999999999 999999999999


Q ss_pred             cccCChh
Q 001613          624 KSAVPKE  630 (1044)
Q Consensus       624 ~~A~~k~  630 (1044)
                      ..|.|..
T Consensus        85 N~AkP~k   91 (298)
T KOG0111|consen   85 NLAKPEK   91 (298)
T ss_pred             eecCCcc
Confidence            9998853

>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]

Probab=98.99  E-value=4.1e-10  Score=116.72  Aligned_cols=81  Identities=26%  Similarity=0.349  Sum_probs=76.4

Q ss_pred             cccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEc
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~  624 (1044)
                      ...+|-|.||+.++++++|+++|.+ ||.|..+.|.+|+.|+  .+||||||+|.+.++|.+|++. +|+-++.-.|+|.
T Consensus       188 D~~tvRvtNLsed~~E~dL~eLf~~-fg~i~rvylardK~TG--~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvE  264 (270)
T KOG0122|consen  188 DEATVRVTNLSEDMREDDLEELFRP-FGPITRVYLARDKETG--LSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVE  264 (270)
T ss_pred             ccceeEEecCccccChhHHHHHhhc-cCccceeEEEEccccC--cccceEEEEEecHHHHHHHHHHccCcccceEEEEEE
Confidence            4457999999999999999999998 9999999999988877  8999999999999999999999 9999999999999


Q ss_pred             ccCCh
Q 001613          625 SAVPK  629 (1044)
Q Consensus       625 ~A~~k  629 (1044)
                      |+.|+
T Consensus       265 wskP~  269 (270)
T KOG0122|consen  265 WSKPS  269 (270)
T ss_pred             ecCCC
Confidence            99886

>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]

Probab=98.98  E-value=2.4e-10  Score=121.28  Aligned_cols=96  Identities=22%  Similarity=0.351  Sum_probs=85.7

Q ss_pred             ccccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEE
Q 001613          543 TQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEV  621 (1044)
Q Consensus       543 a~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i  621 (1044)
                      ..+.-++|||+-|+++++|..|+..|++ ||.|+.+.++.|+.++  +|+|||||+|+++.++..|.+. +|..|+|+.|
T Consensus        97 ~gDPy~TLFv~RLnydT~EskLrreF~~-YG~IkrirlV~d~vTg--kskGYAFIeye~erdm~~AYK~adG~~Idgrri  173 (335)
T KOG0113|consen   97 IGDPYKTLFVARLNYDTSESKLRREFEK-YGPIKRIRLVRDKVTG--KSKGYAFIEYEHERDMKAAYKDADGIKIDGRRI  173 (335)
T ss_pred             cCCccceeeeeeccccccHHHHHHHHHh-cCcceeEEEeeecccC--CccceEEEEeccHHHHHHHHHhccCceecCcEE
Confidence            3678899999999999999999999998 9999999999998877  8999999999999999999999 9999999999


Q ss_pred             EEcccCChhHHHHHHHHHHH
Q 001613          622 EIKSAVPKEVLFAELQKQSA  641 (1044)
Q Consensus       622 ~v~~A~~k~~~~~~~~~~~~  641 (1044)
                      .|+.-..+....|...+..+
T Consensus       174 ~VDvERgRTvkgW~PRRLGG  193 (335)
T KOG0113|consen  174 LVDVERGRTVKGWLPRRLGG  193 (335)
T ss_pred             EEEecccccccccccccccC
Confidence            99988776655555544433

>PLN03120 nucleic acid binding protein; Provisional

Probab=98.97  E-value=4e-10  Score=120.63  Aligned_cols=77  Identities=21%  Similarity=0.244  Sum_probs=70.9

Q ss_pred             cccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHhCCCccCCeEEEEcc
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKS  625 (1044)
Q Consensus       546 ~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~~~~~i~Gr~i~v~~  625 (1044)
                      ..++|||+||++.+++++|+++|+. ||+|.++++++++.     ++|||||+|.++++|+.|+..+|..|.||+|.|.+
T Consensus         3 ~~rtVfVgNLs~~tTE~dLrefFS~-~G~I~~V~I~~d~~-----~~GfAFVtF~d~eaAe~AllLnG~~l~gr~V~Vt~   76 (260)
T PLN03120          3 QVRTVKVSNVSLKATERDIKEFFSF-SGDIEYVEMQSENE-----RSQIAYVTFKDPQGAETALLLSGATIVDQSVTITP   76 (260)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHh-cCCeEEEEEeecCC-----CCCEEEEEeCcHHHHHHHHHhcCCeeCCceEEEEe
Confidence            3579999999999999999999998 99999999988753     57999999999999999998899999999999999


Q ss_pred             cCC
Q 001613          626 AVP  628 (1044)
Q Consensus       626 A~~  628 (1044)
                      +..
T Consensus        77 a~~   79 (260)
T PLN03120         77 AED   79 (260)
T ss_pred             ccC
Confidence            863

>TIGR01645 half-pint poly-U binding splicing factor, half-pint family

Probab=98.96  E-value=4.7e-10  Score=134.47  Aligned_cols=82  Identities=21%  Similarity=0.410  Sum_probs=76.2

Q ss_pred             cccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEc
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~  624 (1044)
                      ..++|||+||+.++++++|+++|++ ||.|.++++++|+.++  ++||||||+|.+.++|.+|++. |+.+|+|+.|+|.
T Consensus       203 ~~~rLfVgnLp~~vteedLk~lFs~-FG~I~svrl~~D~~tg--ksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~  279 (612)
T TIGR01645       203 KFNRIYVASVHPDLSETDIKSVFEA-FGEIVKCQLARAPTGR--GHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVG  279 (612)
T ss_pred             ccceEEeecCCCCCCHHHHHHHHhh-cCCeeEEEEEecCCCC--CcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEE
Confidence            3468999999999999999999998 9999999999888765  8999999999999999999999 9999999999999


Q ss_pred             ccCChh
Q 001613          625 SAVPKE  630 (1044)
Q Consensus       625 ~A~~k~  630 (1044)
                      +|.++.
T Consensus       280 kAi~pP  285 (612)
T TIGR01645       280 KCVTPP  285 (612)
T ss_pred             ecCCCc
Confidence            998643

In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.

>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=98.96  E-value=2.2e-10  Score=113.50  Aligned_cols=76  Identities=25%  Similarity=0.553  Sum_probs=71.6

Q ss_pred             ccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEcc
Q 001613          547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKS  625 (1044)
Q Consensus       547 ~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~  625 (1044)
                      ..-|||||||+..+|.++...|++ ||+|.++.+++|+.|+  +|+||+|..|++..+-.-|+.. ||..|.||.|+|+-
T Consensus        35 sA~Iyiggl~~~LtEgDil~VFSq-yGe~vdinLiRDk~TG--KSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDH  111 (219)
T KOG0126|consen   35 SAYIYIGGLPYELTEGDILCVFSQ-YGEIVDINLIRDKKTG--KSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDH  111 (219)
T ss_pred             ceEEEECCCcccccCCcEEEEeec-cCceEEEEEEecCCCC--cccceEEEEecCccceEEEEeccCCceecceeEEeee
Confidence            346999999999999999999998 9999999999988776  8999999999999999999999 99999999999984

>TIGR01645 half-pint poly-U binding splicing factor, half-pint family

Probab=98.95  E-value=3.8e-10  Score=135.30  Aligned_cols=80  Identities=21%  Similarity=0.461  Sum_probs=74.3

Q ss_pred             ccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEE
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEI  623 (1044)
Q Consensus       545 ~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v  623 (1044)
                      ...++||||||++++++++|+++|++ ||.|.++++++|+.++  ++||||||+|.+.++|++|++. +|..++||+|+|
T Consensus       105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~-fG~I~sV~I~~D~~Tg--kskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV  181 (612)
T TIGR01645       105 AIMCRVYVGSISFELREDTIRRAFDP-FGPIKSINMSWDPATG--KHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKV  181 (612)
T ss_pred             cCCCEEEEcCCCCCCCHHHHHHHHHc-cCCEEEEEEeecCCCC--CcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeee
Confidence            34578999999999999999999998 9999999999988766  8999999999999999999998 999999999999


Q ss_pred             cccC
Q 001613          624 KSAV  627 (1044)
Q Consensus       624 ~~A~  627 (1044)
                      .+..
T Consensus       182 ~rp~  185 (612)
T TIGR01645       182 GRPS  185 (612)
T ss_pred             cccc
Confidence            8654

In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.

>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]

Probab=98.94  E-value=5.8e-10  Score=123.40  Aligned_cols=174  Identities=20%  Similarity=0.200  Sum_probs=122.0

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh--CCCccCC--e
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA--RFVTIMG--K  619 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~--~~~~i~G--r  619 (1044)
                      +...-|+|||-+|..++|.++|++|++ ||.|.+|.|++|+.++  .++||+||+|.+.++|.+|+.+  |...+-|  .
T Consensus        31 d~~~vKlfVgqIprt~sE~dlr~lFe~-yg~V~einl~kDk~t~--~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~  107 (510)
T KOG0144|consen   31 DGSAVKLFVGQIPRTASEKDLRELFEK-YGNVYEINLIKDKSTG--QSKGCCFVKYYTRKEADEAINALHNQKTLPGMHH  107 (510)
T ss_pred             CchhhhheeccCCccccHHHHHHHHHH-hCceeEEEeecccccC--cccceEEEEeccHHHHHHHHHHhhcccccCCCCc
Confidence            455679999999999999999999998 9999999999999887  8999999999999999999999  5567766  5


Q ss_pred             EEEEcccCChhHHHHHHHHHHHhhhhhhhhcccccCCCCCChhhHHHH--HhhhhhHHHhhhhcc-ccCccccccchhhh
Q 001613          620 EVEIKSAVPKEVLFAELQKQSAQQQESKHEHQARLGAKIPDERTMEQI--ISRNAKEEIQTKKIT-EEMPCRRVTEEATA  696 (1044)
Q Consensus       620 ~i~v~~A~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~~--l~~~~~~e~~~~~i~-~~~s~~~~~~~~~~  696 (1044)
                      +|.|+.|.......              -.....+...+++..++.++  +.+.......-..++ ...-|++-.+....
T Consensus       108 pvqvk~Ad~E~er~--------------~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fs  173 (510)
T KOG0144|consen  108 PVQVKYADGERERI--------------VEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFS  173 (510)
T ss_pred             ceeecccchhhhcc--------------ccchhhhhhhccccccHHHHHHHHHhhCccchhhheecccccccceeEEEEe
Confidence            78888885422100              01122445556654444333  444433333333333 44455666677777


Q ss_pred             ccccccccccC-CCC-CCCcccccccccccc-ccCchhhhhhh
Q 001613          697 EKSWAGRLLYG-QPK-TSSNESQAYLVESFE-EKSMPKWLRTF  736 (1044)
Q Consensus       697 ~~~~~~~~~~~-~~~-~~~~~~~~~~~~~~~-~~~~~~~~~~~  736 (1044)
                      .|+++-.++-+ +++ |=-.+++|+||++.. .+.  +-.+++
T Consensus       174 tke~A~~Aika~ng~~tmeGcs~PLVVkFADtqkd--k~~~~l  214 (510)
T KOG0144|consen  174 TKEMAVAAIKALNGTQTMEGCSQPLVVKFADTQKD--KDGKRL  214 (510)
T ss_pred             hHHHHHHHHHhhccceeeccCCCceEEEecccCCC--chHHHH
Confidence            77777766666 554 555788999999984 444  445554

>PLN03213 repressor of silencing 3; Provisional

Probab=98.94  E-value=4.8e-10  Score=125.03  Aligned_cols=78  Identities=19%  Similarity=0.320  Sum_probs=70.7

Q ss_pred             ccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCH--HHHHHHHHh-CCCccCCeEE
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHE--KSAAAAVQA-RFVTIMGKEV  621 (1044)
Q Consensus       545 ~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~--e~a~~A~~~-~~~~i~Gr~i  621 (1044)
                      ....+||||||++.+++++|+..|.+ ||.|.++.|+  +.+  |  ||||||+|.+.  +++.+|+.. +|.++.||.|
T Consensus         8 ~~gMRIYVGNLSydVTEDDLravFSe-FGsVkdVEIp--RET--G--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~L   80 (759)
T PLN03213          8 GGGVRLHVGGLGESVGRDDLLKIFSP-MGTVDAVEFV--RTK--G--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRL   80 (759)
T ss_pred             CcceEEEEeCCCCCCCHHHHHHHHHh-cCCeeEEEEe--ccc--C--CceEEEEecCCcHHHHHHHHHHhcCCeecCcee
Confidence            34578999999999999999999998 9999999998  333  3  99999999987  789999999 9999999999


Q ss_pred             EEcccCCh
Q 001613          622 EIKSAVPK  629 (1044)
Q Consensus       622 ~v~~A~~k  629 (1044)
                      +|..|.+.
T Consensus        81 KVNKAKP~   88 (759)
T PLN03213         81 RLEKAKEH   88 (759)
T ss_pred             EEeeccHH
Confidence            99999773

>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]

Probab=98.93  E-value=6.1e-10  Score=116.71  Aligned_cols=81  Identities=28%  Similarity=0.435  Sum_probs=76.1

Q ss_pred             ccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEcc
Q 001613          547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKS  625 (1044)
Q Consensus       547 ~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~  625 (1044)
                      .--+|||-|..+++.+.||+.|.+ ||+|.+++|++|..|+  +|||||||.|-..++|++||.. +|.-|++|.|+-.|
T Consensus        62 hfhvfvgdls~eI~~e~lr~aF~p-FGevS~akvirD~~T~--KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNW  138 (321)
T KOG0148|consen   62 HFHVFVGDLSPEIDNEKLREAFAP-FGEVSDAKVIRDMNTG--KSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNW  138 (321)
T ss_pred             ceeEEehhcchhcchHHHHHHhcc-ccccccceEeecccCC--cccceeEEeccchHHHHHHHHHhCCeeeccceeeccc
Confidence            346899999999999999999998 9999999999988777  8999999999999999999999 99999999999999


Q ss_pred             cCChh
Q 001613          626 AVPKE  630 (1044)
Q Consensus       626 A~~k~  630 (1044)
                      |..|.
T Consensus       139 ATRKp  143 (321)
T KOG0148|consen  139 ATRKP  143 (321)
T ss_pred             cccCc
Confidence            98765

>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family

Probab=98.93  E-value=1.2e-09  Score=133.99  Aligned_cols=89  Identities=31%  Similarity=0.378  Sum_probs=79.8

Q ss_pred             cccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEc
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~  624 (1044)
                      ...+|||+||+..+++++|+++|++ ||.|.+++++.|.   +|++||||||+|.+.++|.+|+.. ++..++||+|.|.
T Consensus       284 ~~~~l~V~nl~~~~~~~~L~~~F~~-~G~i~~~~i~~d~---~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~  359 (562)
T TIGR01628       284 QGVNLYVKNLDDTVTDEKLRELFSE-CGEITSAKVMLDE---KGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVA  359 (562)
T ss_pred             CCCEEEEeCCCCccCHHHHHHHHHh-cCCeEEEEEEECC---CCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEE
Confidence            4567999999999999999999998 9999999999883   347999999999999999999998 9999999999999


Q ss_pred             ccCChhHHHHHHHH
Q 001613          625 SAVPKEVLFAELQK  638 (1044)
Q Consensus       625 ~A~~k~~~~~~~~~  638 (1044)
                      +|..++......+.
T Consensus       360 ~a~~k~~~~~~~~~  373 (562)
T TIGR01628       360 LAQRKEQRRAHLQD  373 (562)
T ss_pred             eccCcHHHHHHHHH
Confidence            99988765554443

There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.

>PF14259 RRM_6: RNA recognition motif (a

Probab=98.92  E-value=8.1e-10  Score=96.29  Aligned_cols=69  Identities=30%  Similarity=0.606  Sum_probs=62.3

Q ss_pred             eeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 001613          550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       550 ifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~  622 (1044)
                      |||+|||+.+++++|+++|++ ||.|..+.+..+++ +  +++|+|||+|.++++|.+|++. ++..++||.|+
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~-~g~v~~v~~~~~~~-~--~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~   70 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSR-FGPVEKVRLIKNKD-G--QSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR   70 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTT-SSBEEEEEEEESTT-S--SEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHh-cCCcceEEEEeeec-c--ccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence            789999999999999999998 99999999988766 3  7999999999999999999999 77999999985

k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....

>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]

Probab=98.91  E-value=4.2e-10  Score=113.57  Aligned_cols=80  Identities=29%  Similarity=0.459  Sum_probs=75.5

Q ss_pred             ccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEE
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEI  623 (1044)
Q Consensus       545 ~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v  623 (1044)
                      +....|.|-||.+.++.++|+..|++ ||.|-+|.|.+|+.|.  .+||||||.|.+..+|+.|+++ +|..++|+.|.|
T Consensus        11 ~gm~SLkVdNLTyRTspd~LrrvFek-YG~vgDVyIPrdr~Tr--~sRgFaFVrf~~k~daedA~damDG~~ldgRelrV   87 (256)
T KOG4207|consen   11 EGMTSLKVDNLTYRTSPDDLRRVFEK-YGRVGDVYIPRDRYTR--QSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRV   87 (256)
T ss_pred             ccceeEEecceeccCCHHHHHHHHHH-hCcccceecccccccc--cccceeEEEeeecchHHHHHHhhcceeeccceeee
Confidence            45667899999999999999999998 9999999999999887  7999999999999999999999 999999999999


Q ss_pred             cccC
Q 001613          624 KSAV  627 (1044)
Q Consensus       624 ~~A~  627 (1044)
                      ++|.
T Consensus        88 q~ar   91 (256)
T KOG4207|consen   88 QMAR   91 (256)
T ss_pred             hhhh
Confidence            9885

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=98.89  E-value=1.3e-09  Score=124.33  Aligned_cols=81  Identities=25%  Similarity=0.410  Sum_probs=73.4

Q ss_pred             cccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCC--eEEE
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMG--KEVE  622 (1044)
Q Consensus       546 ~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~G--r~i~  622 (1044)
                      ..++|||+||+..+++++|+++|++ ||+|..+.|++|+.++  ++||||||+|++.++|++|++. ++..++|  ++|.
T Consensus       192 ~~~~lfV~nLp~~vtee~L~~~F~~-fG~V~~v~i~~d~~tg--~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~  268 (346)
T TIGR01659       192 KDTNLYVTNLPRTITDDQLDTIFGK-YGQIVQKNILRDKLTG--TPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLT  268 (346)
T ss_pred             ccceeEEeCCCCcccHHHHHHHHHh-cCCEEEEEEeecCCCC--ccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEE
Confidence            3568999999999999999999998 9999999999887665  7999999999999999999999 9988876  7899


Q ss_pred             EcccCCh
Q 001613          623 IKSAVPK  629 (1044)
Q Consensus       623 v~~A~~k  629 (1044)
                      |++|..+
T Consensus       269 V~~a~~~  275 (346)
T TIGR01659       269 VRLAEEH  275 (346)
T ss_pred             EEECCcc
Confidence            9998764

This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).

>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family

Probab=98.86  E-value=2.2e-09  Score=128.67  Aligned_cols=99  Identities=30%  Similarity=0.396  Sum_probs=82.4

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccC-CeEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIM-GKEV  621 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~-Gr~i  621 (1044)
                      .+...+|||++||.++++++|+++|++ ||.|.+++|++| .+  |++||||||+|.+.++|++|++. ++.++. |+.+
T Consensus        55 p~~~~~lFVgnLp~~~tEd~L~~~F~~-~G~I~~vrl~~D-~s--G~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l  130 (578)
T TIGR01648        55 PGRGCEVFVGKIPRDLYEDELVPLFEK-AGPIYELRLMMD-FS--GQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLL  130 (578)
T ss_pred             CCCCCEEEeCCCCCCCCHHHHHHHHHh-hCCEEEEEEEEC-CC--CCccceEEEEeCCHHHHHHHHHHcCCCeecCCccc
Confidence            456789999999999999999999998 999999999999 33  47999999999999999999999 888884 8888


Q ss_pred             EEcccCChhHHHHHHHHHHHhhhhhhhhcccccCCCCCChhhHHHH
Q 001613          622 EIKSAVPKEVLFAELQKQSAQQQESKHEHQARLGAKIPDERTMEQI  667 (1044)
Q Consensus       622 ~v~~A~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~~  667 (1044)
                      .|.++...                     ...+...+|...+.+++
T Consensus       131 ~V~~S~~~---------------------~rLFVgNLP~~~TeeeL  155 (578)
T TIGR01648       131 GVCISVDN---------------------CRLFVGGIPKNKKREEI  155 (578)
T ss_pred             cccccccC---------------------ceeEeecCCcchhhHHH
Confidence            88766432                     23555667777666655

Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.

>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]

Probab=98.86  E-value=6.2e-10  Score=123.46  Aligned_cols=82  Identities=39%  Similarity=0.622  Sum_probs=78.7

Q ss_pred             cccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHhCCCccCCeEEEEcc
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKS  625 (1044)
Q Consensus       546 ~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~~~~~i~Gr~i~v~~  625 (1044)
                      ...|+|+|+|+|+++++.|+++|.+ ||+|.++.+|+|+.++  |+||||||+|++.+.+.+++....+.|+||.|+++.
T Consensus         5 ~~~KlfiGgisw~ttee~Lr~yf~~-~Gev~d~~vm~d~~t~--rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~   81 (311)
T KOG4205|consen    5 ESGKLFIGGLSWETTEESLREYFSQ-FGEVTDCVVMRDPSTG--RSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKR   81 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhcc-cCceeeEEEeccCCCC--CcccccceecCCCcchheeecccccccCCcccccee
Confidence            5679999999999999999999998 9999999999999885  999999999999999999999999999999999999


Q ss_pred             cCChh
Q 001613          626 AVPKE  630 (1044)
Q Consensus       626 A~~k~  630 (1044)
                      |.|++
T Consensus        82 av~r~   86 (311)
T KOG4205|consen   82 AVSRE   86 (311)
T ss_pred             ccCcc
Confidence            99987

>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family

Probab=98.80  E-value=3.1e-09  Score=130.33  Aligned_cols=76  Identities=28%  Similarity=0.489  Sum_probs=71.9

Q ss_pred             ceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEcccC
Q 001613          549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSAV  627 (1044)
Q Consensus       549 kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~A~  627 (1044)
                      .||||+|+.++++++|+++|++ ||.|.+|+|++|+.++  +++|||||+|.+.++|.+|++. ++..+.|++|+|.|+.
T Consensus         2 sl~VgnLp~~vte~~L~~~F~~-~G~v~~v~v~~d~~t~--~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~   78 (562)
T TIGR01628         2 SLYVGDLDPDVTEAKLYDLFKP-FGPVLSVRVCRDSVTR--RSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQ   78 (562)
T ss_pred             eEEEeCCCCCCCHHHHHHHHHh-cCCEEEEEEEecCCCC--CcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeeccc
Confidence            6999999999999999999998 9999999999988766  8999999999999999999998 8888999999999975

There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.

>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]

Probab=98.79  E-value=2.3e-09  Score=118.80  Aligned_cols=80  Identities=31%  Similarity=0.431  Sum_probs=72.7

Q ss_pred             ccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CC-CccCC--eEEE
Q 001613          547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RF-VTIMG--KEVE  622 (1044)
Q Consensus       547 ~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~-~~i~G--r~i~  622 (1044)
                      .+|||||-|+..++|.++++.|++ ||.|++|.|++|.++.   |||||||+|.+.|-|..|+++ |+ ..++|  -++.
T Consensus       124 e~KLFvg~lsK~~te~evr~iFs~-fG~Ied~~ilrd~~~~---sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLV  199 (510)
T KOG0144|consen  124 ERKLFVGMLSKQCTENEVREIFSR-FGHIEDCYILRDPDGL---SRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLV  199 (510)
T ss_pred             chhhhhhhccccccHHHHHHHHHh-hCccchhhheeccccc---ccceeEEEEehHHHHHHHHHhhccceeeccCCCceE
Confidence            579999999999999999999998 9999999999998775   999999999999999999999 66 56777  5899


Q ss_pred             EcccCChh
Q 001613          623 IKSAVPKE  630 (1044)
Q Consensus       623 v~~A~~k~  630 (1044)
                      |+||.++.
T Consensus       200 VkFADtqk  207 (510)
T KOG0144|consen  200 VKFADTQK  207 (510)
T ss_pred             EEecccCC
Confidence            99997643

>smart00361 RRM_1 RNA recognition motif

Probab=98.76  E-value=1.2e-08  Score=89.24  Aligned_cols=63  Identities=19%  Similarity=0.274  Sum_probs=55.4

Q ss_pred             CCCCCCccc----cCCCCcceEE-EeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEc
Q 001613          561 SDSLGGYFE----KHFGPIEDAR-VAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       561 e~~Lr~~F~----~~fG~v~~~~-v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~  624 (1044)
                      +++|+++|+    + ||.|.++. ++.++.+..|++||||||+|.+.++|.+|+.. +|..++||.|.+.
T Consensus         2 ~~~l~~~~~~~~~~-fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~~   70 (70)
T smart00361        2 DEDFEREFSEEEEY-FGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKAE   70 (70)
T ss_pred             chhHHHHHHHHHHh-cCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEeC
Confidence            567888887    8 99999996 77777664468999999999999999999999 9999999999863

>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]

Probab=98.76  E-value=3e-09  Score=118.02  Aligned_cols=82  Identities=43%  Similarity=0.692  Sum_probs=79.1

Q ss_pred             cccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHhCCCccCCeEEEEcc
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKS  625 (1044)
Q Consensus       546 ~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~~~~~i~Gr~i~v~~  625 (1044)
                      ..+|||||+++..+++.+++++|++ ||.|.++.++.|+.+.  ++||||||+|.+++++++++....+.+.|+.++|++
T Consensus        96 ~tkkiFvGG~~~~~~e~~~r~yfe~-~g~v~~~~~~~d~~~~--~~rgFgfv~~~~e~sVdkv~~~~f~~~~gk~vevkr  172 (311)
T KOG4205|consen   96 RTKKIFVGGLPPDTTEEDFKDYFEQ-FGKVADVVIMYDKTTS--RPRGFGFVTFDSEDSVDKVTLQKFHDFNGKKVEVKR  172 (311)
T ss_pred             ceeEEEecCcCCCCchHHHhhhhhc-cceeEeeEEeeccccc--ccccceeeEeccccccceecccceeeecCceeeEee
Confidence            5779999999999999999999998 9999999999999888  899999999999999999999999999999999999


Q ss_pred             cCChh
Q 001613          626 AVPKE  630 (1044)
Q Consensus       626 A~~k~  630 (1044)
                      |.||+
T Consensus       173 A~pk~  177 (311)
T KOG4205|consen  173 AIPKE  177 (311)
T ss_pred             ccchh
Confidence            99997

>TIGR01622 SF-CC1 splicing factor, CC1-like family

Probab=98.75  E-value=6.3e-09  Score=124.34  Aligned_cols=82  Identities=20%  Similarity=0.328  Sum_probs=75.3

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHhCCCccCCeEEEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEI  623 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~~~~~i~Gr~i~v  623 (1044)
                      ....++|||+|||..+++++|+++|++ ||.|.++.++.|+.++  ++||||||+|.+.++|.+|+..++..+.|++|.|
T Consensus        86 ~~~~~~l~V~nlp~~~~~~~l~~~F~~-~G~v~~v~i~~d~~~~--~skg~afVeF~~~e~A~~Al~l~g~~~~g~~i~v  162 (457)
T TIGR01622        86 ERDDRTVFVLQLALKARERDLYEFFSK-VGKVRDVQCIKDRNSR--RSKGVAYVEFYDVESVIKALALTGQMLLGRPIIV  162 (457)
T ss_pred             ccCCcEEEEeCCCCCCCHHHHHHHHHh-cCCeeEEEEeecCCCC--CcceEEEEEECCHHHHHHHHHhCCCEECCeeeEE
Confidence            345679999999999999999999998 9999999999887665  8999999999999999999998999999999999


Q ss_pred             cccCC
Q 001613          624 KSAVP  628 (1044)
Q Consensus       624 ~~A~~  628 (1044)
                      +.+..
T Consensus       163 ~~~~~  167 (457)
T TIGR01622       163 QSSQA  167 (457)
T ss_pred             eecch
Confidence            87654

A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.

>smart00362 RRM_2 RNA recognition motif

Probab=98.74  E-value=1e-08  Score=88.10  Aligned_cols=71  Identities=34%  Similarity=0.640  Sum_probs=65.4

Q ss_pred             ceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEc
Q 001613          549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       549 kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~  624 (1044)
                      +||++|+|..+++++++++|.+ ||.|..+.+..++    +.++|+|||+|.+.++|++|++. ++..+.|+++.|+
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~-~g~v~~~~~~~~~----~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~   72 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSK-FGPIESVKIPKDT----GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE   72 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHh-cCCEEEEEEecCC----CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence            5899999999999999999998 9999999988765    46899999999999999999998 8899999999874

>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]

Probab=98.74  E-value=6.3e-09  Score=103.06  Aligned_cols=76  Identities=28%  Similarity=0.446  Sum_probs=69.7

Q ss_pred             ccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEE
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEI  623 (1044)
Q Consensus       545 ~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v  623 (1044)
                      ...+|||||||+..+++.+|...|.. ||.+..+.|..       .+.|||||+|+++.+|+.|+.. +|..|.|..|.|
T Consensus         8 ~~~~kVYVGnL~~~a~k~eLE~~F~~-yG~lrsvWvAr-------nPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rV   79 (195)
T KOG0107|consen    8 NGNTKVYVGNLGSRATKRELERAFSK-YGPLRSVWVAR-------NPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRV   79 (195)
T ss_pred             CCCceEEeccCCCCcchHHHHHHHHh-cCcceeEEEee-------cCCCceEEeccCcccHHHHHhhcCCccccCceEEE
Confidence            34689999999999999999999998 99999999965       3789999999999999999999 999999999999


Q ss_pred             cccCC
Q 001613          624 KSAVP  628 (1044)
Q Consensus       624 ~~A~~  628 (1044)
                      ....-
T Consensus        80 E~S~G   84 (195)
T KOG0107|consen   80 ELSTG   84 (195)
T ss_pred             EeecC
Confidence            87753

>PLN03121 nucleic acid binding protein; Provisional

Probab=98.72  E-value=9.2e-09  Score=108.56  Aligned_cols=76  Identities=21%  Similarity=0.128  Sum_probs=69.8

Q ss_pred             cccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHhCCCccCCeEEEEcc
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKS  625 (1044)
Q Consensus       546 ~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~~~~~i~Gr~i~v~~  625 (1044)
                      ..++|||+||++.+++++|+++|+. ||+|.++++++|.     +++|||||+|.++++++.|+..+|..|.|++|.|..
T Consensus         4 ~g~TV~V~NLS~~tTE~dLrefFS~-~G~I~~V~I~~D~-----et~gfAfVtF~d~~aaetAllLnGa~l~d~~I~It~   77 (243)
T PLN03121          4 GGYTAEVTNLSPKATEKDVYDFFSH-CGAIEHVEIIRSG-----EYACTAYVTFKDAYALETAVLLSGATIVDQRVCITR   77 (243)
T ss_pred             CceEEEEecCCCCCCHHHHHHHHHh-cCCeEEEEEecCC-----CcceEEEEEECCHHHHHHHHhcCCCeeCCceEEEEe
Confidence            3478999999999999999999998 9999999998773     466899999999999999998899999999999987


Q ss_pred             cC
Q 001613          626 AV  627 (1044)
Q Consensus       626 A~  627 (1044)
                      +.
T Consensus        78 ~~   79 (243)
T PLN03121         78 WG   79 (243)
T ss_pred             Cc
Confidence            64

>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]

Probab=98.70  E-value=1.2e-08  Score=107.08  Aligned_cols=76  Identities=28%  Similarity=0.454  Sum_probs=70.4

Q ss_pred             ccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEE
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEI  623 (1044)
Q Consensus       545 ~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v  623 (1044)
                      ...++||+||++..++|+.+|+.|++ ||.|.+|+|.+        -+||+||.|+++|.|..||.. |+.+|.|..|++
T Consensus       162 p~NtsVY~G~I~~~lte~~mr~~Fs~-fG~I~EVRvFk--------~qGYaFVrF~tkEaAahAIv~mNntei~G~~VkC  232 (321)
T KOG0148|consen  162 PDNTSVYVGNIASGLTEDLMRQTFSP-FGPIQEVRVFK--------DQGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRC  232 (321)
T ss_pred             CCCceEEeCCcCccccHHHHHHhccc-CCcceEEEEec--------ccceEEEEecchhhHHHHHHHhcCceeCceEEEE
Confidence            35678999999999999999999998 99999999975        489999999999999999999 999999999999


Q ss_pred             cccCCh
Q 001613          624 KSAVPK  629 (1044)
Q Consensus       624 ~~A~~k  629 (1044)
                      .|-+..
T Consensus       233 sWGKe~  238 (321)
T KOG0148|consen  233 SWGKEG  238 (321)
T ss_pred             eccccC
Confidence            997643

>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor

Probab=98.69  E-value=1.2e-08  Score=123.50  Aligned_cols=82  Identities=21%  Similarity=0.440  Sum_probs=75.7

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~  622 (1044)
                      .+..++|||||||..+++++|+++|++ ||.|..+.++.++.++  +++|||||+|.+.++|..|++. ++..|+|+.|.
T Consensus       292 ~~~~~~l~v~nlp~~~~~~~l~~~f~~-~G~i~~~~~~~~~~~g--~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~  368 (509)
T TIGR01642       292 LDSKDRIYIGNLPLYLGEDQIKELLES-FGDLKAFNLIKDIATG--LSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLH  368 (509)
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHh-cCCeeEEEEEecCCCC--CcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEE
Confidence            356789999999999999999999998 9999999998887655  8999999999999999999998 99999999999


Q ss_pred             EcccCC
Q 001613          623 IKSAVP  628 (1044)
Q Consensus       623 v~~A~~  628 (1044)
                      |.+|..
T Consensus       369 v~~a~~  374 (509)
T TIGR01642       369 VQRACV  374 (509)
T ss_pred             EEECcc
Confidence            999864

Members of this subfamily are found in plants, metazoa and fungi.

>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]

Probab=98.69  E-value=1.1e-08  Score=116.25  Aligned_cols=84  Identities=29%  Similarity=0.409  Sum_probs=77.6

Q ss_pred             cccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEc
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~  624 (1044)
                      ..++|.|.||||.+.+.+|..+|++ ||.|.++.|++.++++   ..|||||.|....+|..|++. |+++|+||+|-|+
T Consensus       116 ~k~rLIIRNLPf~~k~~dLk~vFs~-~G~V~Ei~IP~k~dgk---lcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVD  191 (678)
T KOG0127|consen  116 PKWRLIIRNLPFKCKKPDLKNVFSN-FGKVVEIVIPRKKDGK---LCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVD  191 (678)
T ss_pred             ccceEEeecCCcccCcHHHHHHHhh-cceEEEEEcccCCCCC---ccceEEEEEeeHHHHHHHHHhccCceecCceeEEe
Confidence            3789999999999999999999998 9999999998777766   569999999999999999999 9999999999999


Q ss_pred             ccCChhHHH
Q 001613          625 SAVPKEVLF  633 (1044)
Q Consensus       625 ~A~~k~~~~  633 (1044)
                      ||.+|....
T Consensus       192 WAV~Kd~ye  200 (678)
T KOG0127|consen  192 WAVDKDTYE  200 (678)
T ss_pred             eeccccccc
Confidence            999987554

>TIGR01622 SF-CC1 splicing factor, CC1-like family

Probab=98.67  E-value=1.5e-08  Score=121.07  Aligned_cols=79  Identities=29%  Similarity=0.514  Sum_probs=74.2

Q ss_pred             ccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEcc
Q 001613          547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKS  625 (1044)
Q Consensus       547 ~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~  625 (1044)
                      .++|||+||+..+++++|+++|++ ||.|..+.++.++.++  +++|||||+|.+.++|.+|++. +|..|.|++|.|.+
T Consensus       186 ~~~l~v~nl~~~~te~~l~~~f~~-~G~i~~v~~~~d~~~g--~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~  262 (457)
T TIGR01622       186 FLKLYVGNLHFNITEQELRQIFEP-FGDIEDVQLHRDPETG--RSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGY  262 (457)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHh-cCCeEEEEEEEcCCCC--ccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEE
Confidence            678999999999999999999998 9999999999887664  7999999999999999999998 99999999999999


Q ss_pred             cCC
Q 001613          626 AVP  628 (1044)
Q Consensus       626 A~~  628 (1044)
                      |..
T Consensus       263 a~~  265 (457)
T TIGR01622       263 AQD  265 (457)
T ss_pred             ccC
Confidence            863

A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.

>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]

Probab=98.67  E-value=9.2e-09  Score=96.72  Aligned_cols=80  Identities=20%  Similarity=0.327  Sum_probs=75.2

Q ss_pred             ccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEE
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEI  623 (1044)
Q Consensus       545 ~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v  623 (1044)
                      ....+||||||++.++|+++.++|++ .|+|..+.+-.|+.+.  .+-||+||+|-+.++|..|+.- +++.++.|+|.+
T Consensus        34 r~S~tvyVgNlSfyttEEqiyELFs~-cG~irriiMGLdr~kk--tpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~  110 (153)
T KOG0121|consen   34 RKSCTVYVGNLSFYTTEEQIYELFSK-CGDIRRIIMGLDRFKK--TPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRI  110 (153)
T ss_pred             hhcceEEEeeeeeeecHHHHHHHHHh-ccchheeEeccccCCc--CccceEEEEEecchhHHHHHHHhccCcccccceee
Confidence            35679999999999999999999998 9999999998999888  5999999999999999999999 999999999999


Q ss_pred             cccC
Q 001613          624 KSAV  627 (1044)
Q Consensus       624 ~~A~  627 (1044)
                      +|-.
T Consensus       111 D~D~  114 (153)
T KOG0121|consen  111 DWDA  114 (153)
T ss_pred             eccc
Confidence            9864

>smart00360 RRM RNA recognition motif

Probab=98.67  E-value=2e-08  Score=85.82  Aligned_cols=70  Identities=34%  Similarity=0.568  Sum_probs=63.5

Q ss_pred             ccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEc
Q 001613          552 VGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       552 Vg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~  624 (1044)
                      |+|+|..+++++++++|.+ ||.|..+.+..++.+  ++++|||||+|.+.++|.+|++. ++..++|+.+.|.
T Consensus         1 i~~l~~~~~~~~l~~~f~~-~g~v~~~~i~~~~~~--~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~   71 (71)
T smart00360        1 VGNLPPDVTEEELRELFSK-FGKIESVRLVRDKDT--GKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK   71 (71)
T ss_pred             CCCCCcccCHHHHHHHHHh-hCCEeEEEEEeCCCC--CCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence            5789999999999999998 999999999877654  47999999999999999999998 8899999999874

>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]

Probab=98.66  E-value=3e-08  Score=103.22  Aligned_cols=83  Identities=25%  Similarity=0.270  Sum_probs=77.4

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~  622 (1044)
                      ....+-|||-||..+.+|.-|.++|.+ ||.|..++|++|..++  ++||||||++.+.++|.-|+.. ||..+++|.+.
T Consensus       275 ~~~g~ciFvYNLspd~de~~LWQlFgp-FGAv~nVKvirD~ttn--kCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQ  351 (360)
T KOG0145|consen  275 PGGGWCIFVYNLSPDADESILWQLFGP-FGAVTNVKVIRDFTTN--KCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQ  351 (360)
T ss_pred             CCCeeEEEEEecCCCchHhHHHHHhCc-ccceeeEEEEecCCcc--cccceeEEEecchHHHHHHHHHhcCccccceEEE
Confidence            445788999999999999999999999 9999999999999988  8999999999999999999999 99999999999


Q ss_pred             EcccCCh
Q 001613          623 IKSAVPK  629 (1044)
Q Consensus       623 v~~A~~k  629 (1044)
                      |.+-..|
T Consensus       352 VsFKtnk  358 (360)
T KOG0145|consen  352 VSFKTNK  358 (360)
T ss_pred             EEEecCC
Confidence            9876544

>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]

Probab=98.65  E-value=6.9e-09  Score=103.41  Aligned_cols=81  Identities=21%  Similarity=0.466  Sum_probs=76.6

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~  622 (1044)
                      .++..+||+|||+..+++..|.++|.+ .|+|..+++.+|+.+.  ..+|||||+|.++|+|+-|++- +...+-||+|+
T Consensus         6 rnqd~tiyvgnld~kvs~~~l~EL~iq-agpVv~i~iPkDrv~~--~~qGygF~Ef~~eedadYAikiln~VkLYgrpIr   82 (203)
T KOG0131|consen    6 RNQDATLYVGNLDEKVSEELLYELFIQ-AGPVVNLHIPKDRVTQ--KHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIR   82 (203)
T ss_pred             cCCCceEEEecCCHHHHHHHHHHHHHh-cCceeeeecchhhhcc--cccceeEEEEechhhhHHHHHHHHHHHhcCceeE
Confidence            456789999999999999999999998 9999999999999887  7999999999999999999999 99999999999


Q ss_pred             EcccC
Q 001613          623 IKSAV  627 (1044)
Q Consensus       623 v~~A~  627 (1044)
                      |..|.
T Consensus        83 v~kas   87 (203)
T KOG0131|consen   83 VNKAS   87 (203)
T ss_pred             EEecc
Confidence            99986

>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]

Probab=98.64  E-value=2.2e-08  Score=115.87  Aligned_cols=80  Identities=25%  Similarity=0.481  Sum_probs=76.1

Q ss_pred             cceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEccc
Q 001613          548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSA  626 (1044)
Q Consensus       548 ~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~A  626 (1044)
                      ..||||++|+++++++|.+.|++ .|.|.+++++.|++++  ++|||||++|.+.+++..|++. ++.++.||+++|.++
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~-~g~v~s~~~v~D~~tG--~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~   95 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSG-VGPVLSFRLVYDRETG--KPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYA   95 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhc-cCccceeeecccccCC--CcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecc
Confidence            78999999999999999999998 9999999999999887  8999999999999999999999 999999999999998


Q ss_pred             CChh
Q 001613          627 VPKE  630 (1044)
Q Consensus       627 ~~k~  630 (1044)
                      ....
T Consensus        96 ~~~~   99 (435)
T KOG0108|consen   96 SNRK   99 (435)
T ss_pred             cccc
Confidence            6543

>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family

Probab=98.63  E-value=2e-08  Score=120.60  Aligned_cols=74  Identities=23%  Similarity=0.391  Sum_probs=68.7

Q ss_pred             cccceeccCCcccccCCCCCCccccCC--CCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHF--GPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       546 ~~~kifVg~L~~~~te~~Lr~~F~~~f--G~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~  622 (1044)
                      ..++|||+||++++++++|+++|++ |  |+|+++.+          .+|||||+|++.++|++|++. ++.+|+|+.|+
T Consensus       232 ~~k~LfVgNL~~~~tee~L~~~F~~-f~~G~I~rV~~----------~rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~  300 (578)
T TIGR01648       232 KVKILYVRNLMTTTTEEIIEKSFSE-FKPGKVERVKK----------IRDYAFVHFEDREDAVKAMDELNGKELEGSEIE  300 (578)
T ss_pred             cccEEEEeCCCCCCCHHHHHHHHHh-cCCCceEEEEe----------ecCeEEEEeCCHHHHHHHHHHhCCCEECCEEEE
Confidence            4578999999999999999999998 9  99999876          467999999999999999998 99999999999


Q ss_pred             EcccCChh
Q 001613          623 IKSAVPKE  630 (1044)
Q Consensus       623 v~~A~~k~  630 (1044)
                      |++|.|+.
T Consensus       301 V~~Akp~~  308 (578)
T TIGR01648       301 VTLAKPVD  308 (578)
T ss_pred             EEEccCCC
Confidence            99998865

Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.

>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]

Probab=98.60  E-value=3.3e-08  Score=107.97  Aligned_cols=79  Identities=33%  Similarity=0.653  Sum_probs=73.9

Q ss_pred             ccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEcc
Q 001613          547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKS  625 (1044)
Q Consensus       547 ~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~  625 (1044)
                      ..+||||||+..+++++|+++|.+ ||.|..+.+..++.+  |++||||||+|.++++|..|++. ++..+.|+++.|.+
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~-~g~~~~~~~~~d~~~--~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~  191 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKK-FGPVKRVRLVRDRET--GKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQK  191 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHh-cCceeEEEeeecccc--CccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeec
Confidence            589999999999999999999998 999999999988844  48999999999999999999999 88999999999999


Q ss_pred             cCC
Q 001613          626 AVP  628 (1044)
Q Consensus       626 A~~  628 (1044)
                      +.+
T Consensus       192 ~~~  194 (306)
T COG0724         192 AQP  194 (306)
T ss_pred             ccc
Confidence            754

>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]

Probab=98.59  E-value=2.4e-08  Score=108.03  Aligned_cols=77  Identities=22%  Similarity=0.482  Sum_probs=72.6

Q ss_pred             cccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEc
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~  624 (1044)
                      ...+||||.++++..|+.+|..|.. ||+|+++.+-+|+.|+  ++|||+||+|+-+|.|.-|++. |+..++||.|+|.
T Consensus       112 iMcRvYVGSIsfEl~EDtiR~AF~P-FGPIKSInMSWDp~T~--kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVg  188 (544)
T KOG0124|consen  112 IMCRVYVGSISFELREDTIRRAFDP-FGPIKSINMSWDPATG--KHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVG  188 (544)
T ss_pred             HhHheeeeeeEEEechHHHHhhccC-CCCcceeecccccccc--cccceEEEEEeCcHHHHHHHHHhccccccCcccccc
Confidence            3578999999999999999999999 9999999998888776  8999999999999999999999 9999999999997


Q ss_pred             c
Q 001613          625 S  625 (1044)
Q Consensus       625 ~  625 (1044)
                      +
T Consensus       189 r  189 (544)
T KOG0124|consen  189 R  189 (544)
T ss_pred             C
Confidence            5

>KOG0783 consensus Uncharacterized conserved protein, contains ankyrin and BTB/POZ domains [Function unknown]

Probab=98.58  E-value=2.7e-08  Score=117.48  Aligned_cols=83  Identities=24%  Similarity=0.325  Sum_probs=79.7

Q ss_pred             eeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCC-CCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHH
Q 001613          358 VSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTI-MMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPI  436 (1044)
Q Consensus       358 vn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~-~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpL  436 (1044)
                      .|++|..|+|+||+|+..+..+++++||++|.+ ++.+|. .|+||||.|+.+|+++++-+||.+|+...++|++|.+||
T Consensus        45 anikD~~GR~alH~~~S~~k~~~l~wLlqhGid-v~vqD~ESG~taLHRaiyyG~idca~lLL~~g~SL~i~Dkeglspl  123 (1267)
T KOG0783|consen   45 ANIKDRYGRTALHIAVSENKNSFLRWLLQHGID-VFVQDEESGYTALHRAIYYGNIDCASLLLSKGRSLRIKDKEGLSPL  123 (1267)
T ss_pred             hhHHHhhccceeeeeeccchhHHHHHHHhcCce-eeeccccccchHhhHhhhhchHHHHHHHHhcCCceEEecccCCCHH
Confidence            678999999999999999999999999999999 999995 699999999999999999999999999999999999999


Q ss_pred             HHHHH
Q 001613          437 DFAKS  441 (1044)
Q Consensus       437 h~Aa~  441 (1044)
                      +.-++
T Consensus       124 q~~~r  128 (1267)
T KOG0783|consen  124 QFLSR  128 (1267)
T ss_pred             HHHhh
Confidence            99887

>PF13606 Ank_3: Ankyrin repeat

Probab=98.56  E-value=6.7e-08  Score=69.78  Aligned_cols=30  Identities=37%  Similarity=0.473  Sum_probs=28.1

Q ss_pred             CCChHHHHHHHcCCHHHHHHHHHcCCCCCc
Q 001613           94 SGMTALHLAAESHTARCVELLLKKRARTDI  123 (1044)
Q Consensus        94 ~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~  123 (1044)
                      +|+||||+||..|+.++|++||++|+|+|.
T Consensus         1 ~G~T~Lh~A~~~g~~e~v~~Ll~~gadvn~   30 (30)
T PF13606_consen    1 NGNTPLHLAASNGNIEIVKYLLEHGADVNA   30 (30)
T ss_pred             CCCCHHHHHHHhCCHHHHHHHHHcCCCCCC
Confidence            589999999999999999999999999974

>KOG0783 consensus Uncharacterized conserved protein, contains ankyrin and BTB/POZ domains [Function unknown]

Probab=98.54  E-value=6.4e-08  Score=114.37  Aligned_cols=95  Identities=28%  Similarity=0.332  Sum_probs=81.4

Q ss_pred             HHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCC-CCCcHHHHHHHcCCHHHHH
Q 001613          304 IEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNK-LGLTALHIAAGSGNSQALE  382 (1044)
Q Consensus       304 Vk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~-~G~TpLh~Aa~~g~~eiVk  382 (1044)
                      ++-+++..+-+. .|.+|..|+|+||+|+..+        ...++++||++|+|++.+|. .|+||||-|..+|+++++-
T Consensus        33 lk~F~~k~c~n~-anikD~~GR~alH~~~S~~--------k~~~l~wLlqhGidv~vqD~ESG~taLHRaiyyG~idca~  103 (1267)
T KOG0783|consen   33 LKGFSEKSCQNL-ANIKDRYGRTALHIAVSEN--------KNSFLRWLLQHGIDVFVQDEESGYTALHRAIYYGNIDCAS  103 (1267)
T ss_pred             HHHHHHHhhhhh-hhHHHhhccceeeeeeccc--------hhHHHHHHHhcCceeeeccccccchHhhHhhhhchHHHHH
Confidence            344444323333 3788999999999999998        89999999999999999985 7999999999999999999


Q ss_pred             HHHhcCCCCcccCCCCCCcHHHHHHH
Q 001613          383 DLIRKEPDCINLKTIMMETPLFFAVK  408 (1044)
Q Consensus       383 lLL~~gad~in~~d~~G~TpLh~Aa~  408 (1044)
                      +||.+|.. +.++|++|..||.+-++
T Consensus       104 lLL~~g~S-L~i~Dkeglsplq~~~r  128 (1267)
T KOG0783|consen  104 LLLSKGRS-LRIKDKEGLSPLQFLSR  128 (1267)
T ss_pred             HHHhcCCc-eEEecccCCCHHHHHhh
Confidence            99999998 99999999999998776

>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]

Probab=98.54  E-value=2.2e-08  Score=104.63  Aligned_cols=83  Identities=31%  Similarity=0.381  Sum_probs=78.3

Q ss_pred             ccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEE
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEI  623 (1044)
Q Consensus       545 ~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v  623 (1044)
                      ....+|||-.||.+..+.+|..+|.. ||.|.+.+|..||.|+  +||+||||.|++..++++||.+ ||..|+-|+++|
T Consensus       283 PeGCNlFIYHLPQEFgDaEliQmF~P-FGhivSaKVFvDRATN--QSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKV  359 (371)
T KOG0146|consen  283 PEGCNLFIYHLPQEFGDAELIQMFLP-FGHIVSAKVFVDRATN--QSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKV  359 (371)
T ss_pred             CCcceEEEEeCchhhccHHHHHHhcc-ccceeeeeeeehhccc--cccceeeEecCCchhHHHHHHHhcchhhhhhhhhh
Confidence            34679999999999999999999999 9999999999999998  8999999999999999999999 999999999999


Q ss_pred             cccCChh
Q 001613          624 KSAVPKE  630 (1044)
Q Consensus       624 ~~A~~k~  630 (1044)
                      +.-+||.
T Consensus       360 QLKRPkd  366 (371)
T KOG0146|consen  360 QLKRPKD  366 (371)
T ss_pred             hhcCccc
Confidence            9887775

>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]

Probab=98.51  E-value=6.7e-08  Score=109.95  Aligned_cols=80  Identities=30%  Similarity=0.528  Sum_probs=75.0

Q ss_pred             cceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEccc
Q 001613          548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSA  626 (1044)
Q Consensus       548 ~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~A  626 (1044)
                      .+|||++||++++.++|.++|+. +|+|..+.++.++.+.  .+||||||+|+=.+++++|+.. .+..++||.+.|+.|
T Consensus         6 ~TlfV~~lp~~~~~~qL~e~FS~-vGPik~~~vVt~~gs~--~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A   82 (678)
T KOG0127|consen    6 ATLFVSRLPFSSTGEQLEEFFSY-VGPIKHAVVVTNKGSS--EKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPA   82 (678)
T ss_pred             ceEEEecCCCccchhHHHHhhhc-ccCcceeEEecCCCcc--cccCccceeeehHhHHHHHHHHhhcCcccceecccccc
Confidence            78999999999999999999997 9999999998776655  8999999999999999999999 999999999999999


Q ss_pred             CChh
Q 001613          627 VPKE  630 (1044)
Q Consensus       627 ~~k~  630 (1044)
                      .+|.
T Consensus        83 ~~R~   86 (678)
T KOG0127|consen   83 KKRA   86 (678)
T ss_pred             cccc
Confidence            8775

>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability

Probab=98.51  E-value=1.2e-07  Score=81.72  Aligned_cols=73  Identities=32%  Similarity=0.566  Sum_probs=66.8

Q ss_pred             ceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEcc
Q 001613          549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKS  625 (1044)
Q Consensus       549 kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~  625 (1044)
                      +|+++|||..+++++++++|.+ ||.|..+.+..++.+   +++|+|||+|.+.++|..|++. ++..++|+.+.|.+
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~-~g~i~~~~~~~~~~~---~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~   74 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSK-FGKVESVRIVRDKDT---KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF   74 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHh-cCCEEEEEEeeCCCC---CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence            4899999999999999999998 999999999877665   4899999999999999999999 88889999998863

This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).

>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family

Probab=98.48  E-value=9.5e-08  Score=114.77  Aligned_cols=75  Identities=23%  Similarity=0.270  Sum_probs=68.4

Q ss_pred             ccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh---CCCccCCeEEEE
Q 001613          547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA---RFVTIMGKEVEI  623 (1044)
Q Consensus       547 ~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~---~~~~i~Gr~i~v  623 (1044)
                      .+.|||+|||+++++++|+++|++ ||.|.++.+++        +||||||+|.+.++|.+|++.   ++..++|++|.|
T Consensus         2 s~vv~V~nLp~~~te~~L~~~f~~-fG~V~~v~i~~--------~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v   72 (481)
T TIGR01649         2 SPVVHVRNLPQDVVEADLVEALIP-FGPVSYVMMLP--------GKRQALVEFEDEESAKACVNFATSVPIYIRGQPAFF   72 (481)
T ss_pred             ccEEEEcCCCCCCCHHHHHHHHHh-cCCeeEEEEEC--------CCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEE
Confidence            468999999999999999999998 99999999873        579999999999999999984   678999999999


Q ss_pred             cccCChh
Q 001613          624 KSAVPKE  630 (1044)
Q Consensus       624 ~~A~~k~  630 (1044)
                      .++.+++
T Consensus        73 ~~s~~~~   79 (481)
T TIGR01649        73 NYSTSQE   79 (481)
T ss_pred             EecCCcc
Confidence            9997654

Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).

>PF00023 Ank: Ankyrin repeat Hereditary spherocytosis; InterPro: IPR002110 The ankyrin repeat is one of the most common protein-protein interaction motifs in nature

Probab=98.47  E-value=1.9e-07  Score=69.06  Aligned_cols=33  Identities=39%  Similarity=0.501  Sum_probs=30.7

Q ss_pred             CCChHHHHHHHcCCHHHHHHHHHcCCCCCcccC
Q 001613           94 SGMTALHLAAESHTARCVELLLKKRARTDIRSK  126 (1044)
Q Consensus        94 ~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~  126 (1044)
                      +|.||||+||..|+.++|++||++|++++.+|+
T Consensus         1 dG~TpLh~A~~~~~~~~v~~Ll~~ga~~~~~d~   33 (33)
T PF00023_consen    1 DGNTPLHYAAQRGHPDIVKLLLKHGADINARDN   33 (33)
T ss_dssp             TSBBHHHHHHHTTCHHHHHHHHHTTSCTTCBCT
T ss_pred             CcccHHHHHHHHHHHHHHHHHHHCcCCCCCCCC
Confidence            589999999999999999999999999998874

Ankyrin repeats are tandemly repeated modules of about 33 amino acids. They occur in a large number of functionally diverse proteins mainly from eukaryotes. The few known examples from prokaryotes and viruses may be the result of horizontal gene transfers []. The repeat has been found in proteins of diverse function such as transcriptional initiators, cell-cycle regulators, cytoskeletal, ion transporters and signal transducers. The ankyrin fold appears to be defined by its structure rather than its function since there is no specific sequence or structure which is universally recognised by it. The conserved fold of the ankyrin repeat unit is known from several crystal and solution structures [, , , ]. Each repeat folds into a helix-loop-helix structure with a beta-hairpin/loop region projecting out from the helices at a 90o angle. The repeats stack together to form an L-shaped structure [, ].; GO: 0005515 protein binding; PDB: 1D9S_A 1NFI_F 1IKN_D 1WDY_A 1OT8_C 1QYM_A 1TR4_A 1UOH_A 1N11_A 1K1A_A ....

>KOG0506 consensus Glutaminase (contains ankyrin repeat) [Amino acid transport and metabolism]

Probab=98.43  E-value=1.8e-07  Score=105.03  Aligned_cols=92  Identities=21%  Similarity=0.105  Sum_probs=70.4

Q ss_pred             CCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCc
Q 001613          322 ADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMET  401 (1044)
Q Consensus       322 ~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~T  401 (1044)
                      .++..++++|++.|        .+..++.+.-.|.|++.+|.+.+|+||.||..|+++++++||+....+++.+|..|+|
T Consensus       504 ~~~~i~~~~aa~~G--------D~~alrRf~l~g~D~~~~DyD~RTaLHvAAaEG~v~v~kfl~~~~kv~~~~kDRw~rt  575 (622)
T KOG0506|consen  504 NDTVINVMYAAKNG--------DLSALRRFALQGMDLETKDYDDRTALHVAAAEGHVEVVKFLLNACKVDPDPKDRWGRT  575 (622)
T ss_pred             ccchhhhhhhhhcC--------CHHHHHHHHHhcccccccccccchhheeecccCceeHHHHHHHHHcCCCChhhccCCC
Confidence            45566777777777        7777777777777887788778888888888888888888877766667777888888


Q ss_pred             HHHHHHHcCCHHHHHHHHHC
Q 001613          402 PLFFAVKNDHMVCAEVLLRW  421 (1044)
Q Consensus       402 pLh~Aa~~g~~~iVklLL~~  421 (1044)
                      ||.-|...+|.+++++|-+.
T Consensus       576 PlDdA~~F~h~~v~k~L~~~  595 (622)
T KOG0506|consen  576 PLDDAKHFKHKEVVKLLEEA  595 (622)
T ss_pred             cchHhHhcCcHHHHHHHHHH
Confidence            88888888888888777764

>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family

Probab=98.42  E-value=1.8e-07  Score=112.50  Aligned_cols=77  Identities=18%  Similarity=0.257  Sum_probs=70.3

Q ss_pred             ccccceeccCCcc-cccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 001613          545 EFKSKIFVGGLPF-FLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       545 ~~~~kifVg~L~~-~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~  622 (1044)
                      ....+|||+||++ .+++++|+++|++ ||.|.+++++++       .+|||||+|.+.++|.+|+.. ++..|.|++|+
T Consensus       273 ~~~~~l~v~nL~~~~vt~~~L~~lF~~-yG~V~~vki~~~-------~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~  344 (481)
T TIGR01649       273 GPGSVLMVSGLHQEKVNCDRLFNLFCV-YGNVERVKFMKN-------KKETALIEMADPYQAQLALTHLNGVKLFGKPLR  344 (481)
T ss_pred             CCCCEEEEeCCCCCCCCHHHHHHHHHh-cCCeEEEEEEeC-------CCCEEEEEECCHHHHHHHHHHhCCCEECCceEE
Confidence            3567999999998 6999999999998 999999999875       479999999999999999998 99999999999


Q ss_pred             EcccCCh
Q 001613          623 IKSAVPK  629 (1044)
Q Consensus       623 v~~A~~k  629 (1044)
                      |.++..+
T Consensus       345 v~~s~~~  351 (481)
T TIGR01649       345 VCPSKQQ  351 (481)
T ss_pred             EEEcccc
Confidence            9987543

Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).

>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]

Probab=98.41  E-value=1.1e-07  Score=106.38  Aligned_cols=76  Identities=22%  Similarity=0.381  Sum_probs=70.6

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~  622 (1044)
                      ..+++-|||.||+.++|++.|++.|.+ ||.|+.|+.+          |-||||.|.+.++|.+|++. |+.+|+|..|+
T Consensus       256 ms~VKvLYVRNL~~~tTeE~lk~~F~~-~G~veRVkk~----------rDYaFVHf~eR~davkAm~~~ngkeldG~~iE  324 (506)
T KOG0117|consen  256 MSKVKVLYVRNLMESTTEETLKKLFNE-FGKVERVKKP----------RDYAFVHFAEREDAVKAMKETNGKELDGSPIE  324 (506)
T ss_pred             hhheeeeeeeccchhhhHHHHHHHHHh-ccceEEeecc----------cceeEEeecchHHHHHHHHHhcCceecCceEE
Confidence            457888999999999999999999998 9999998875          45999999999999999999 99999999999


Q ss_pred             EcccCChh
Q 001613          623 IKSAVPKE  630 (1044)
Q Consensus       623 v~~A~~k~  630 (1044)
                      |..|+|..
T Consensus       325 vtLAKP~~  332 (506)
T KOG0117|consen  325 VTLAKPVD  332 (506)
T ss_pred             EEecCChh
Confidence            99999865

>PF13606 Ank_3: Ankyrin repeat

Probab=98.41  E-value=2.9e-07  Score=66.50  Aligned_cols=30  Identities=30%  Similarity=0.417  Sum_probs=24.0

Q ss_pred             CCCcHHHHHHHcCCHHHHHHHHHCCCCccc
Q 001613          398 MMETPLFFAVKNDHMVCAEVLLRWGANSEV  427 (1044)
Q Consensus       398 ~G~TpLh~Aa~~g~~~iVklLL~~GAdin~  427 (1044)
                      +|+||||+|+.+|+.++|++||++|+|+|.
T Consensus         1 ~G~T~Lh~A~~~g~~e~v~~Ll~~gadvn~   30 (30)
T PF13606_consen    1 NGNTPLHLAASNGNIEIVKYLLEHGADVNA   30 (30)
T ss_pred             CCCCHHHHHHHhCCHHHHHHHHHcCCCCCC
Confidence            478888888888888888888888888763

>PF13893 RRM_5: RNA recognition motif

Probab=98.41  E-value=2.9e-07  Score=76.70  Aligned_cols=55  Identities=27%  Similarity=0.482  Sum_probs=47.5

Q ss_pred             CCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEccc
Q 001613          564 LGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSA  626 (1044)
Q Consensus       564 Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~A  626 (1044)
                      |+++|++ ||+|.++.+...       .+|++||+|.+.++|.+|++. ++..++|++|+|++|
T Consensus         1 L~~~f~~-fG~V~~i~~~~~-------~~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a   56 (56)
T PF13893_consen    1 LYKLFSK-FGEVKKIKIFKK-------KRGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA   56 (56)
T ss_dssp             HHHHHTT-TS-EEEEEEETT-------STTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred             ChHHhCC-cccEEEEEEEeC-------CCCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence            3567898 999999999543       169999999999999999998 999999999999875

(a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....

>KOG0782 consensus Predicted diacylglycerol kinase [Signal transduction mechanisms]

Probab=98.39  E-value=8.3e-07  Score=101.01  Aligned_cols=107  Identities=18%  Similarity=0.145  Sum_probs=93.7

Q ss_pred             hHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCC-cccCCCCCCcHHHHHHHcCCHHHHHHHHHCC
Q 001613          344 QNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDC-INLKTIMMETPLFFAVKNDHMVCAEVLLRWG  422 (1044)
Q Consensus       344 ~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~-in~~d~~G~TpLh~Aa~~g~~~iVklLL~~G  422 (1044)
                      ++--++.+..+|-++-.++.+..|.||+|+..|+-++|++||++++.. +++.|..|.|+||.|+..++..+.++|++.|
T Consensus       878 D~~klqE~h~~gg~ll~~~~~~~sllh~a~~tg~~eivkyildh~p~elld~~de~get~lhkaa~~~~r~vc~~lvdag  957 (1004)
T KOG0782|consen  878 DLMKLQETHLNGGSLLIQGPDHCSLLHYAAKTGNGEIVKYILDHGPSELLDMADETGETALHKAACQRNRAVCQLLVDAG  957 (1004)
T ss_pred             cHHHHHHHHhcCCceEeeCcchhhHHHHHHhcCChHHHHHHHhcCCHHHHHHHhhhhhHHHHHHHHhcchHHHHHHHhcc
Confidence            333344455678888899999999999999999999999999998763 6788899999999999999999999999999


Q ss_pred             CCcccccCCCCcHHHHHHHcChHHHHHH
Q 001613          423 ANSEVLNLRRERPIDFAKSQDMRFLLKA  450 (1044)
Q Consensus       423 Adin~~d~~G~TpLh~Aa~~g~~~Ll~~  450 (1044)
                      |..-..|..|.||-.-|-+.|..+|...
T Consensus       958 asl~ktd~kg~tp~eraqqa~d~dlaay  985 (1004)
T KOG0782|consen  958 ASLRKTDSKGKTPQERAQQAGDPDLAAY  985 (1004)
T ss_pred             hhheecccCCCChHHHHHhcCCchHHHH
Confidence            9999999999999999998887666553

>PF00023 Ank: Ankyrin repeat Hereditary spherocytosis; InterPro: IPR002110 The ankyrin repeat is one of the most common protein-protein interaction motifs in nature

Probab=98.38  E-value=4.2e-07  Score=67.15  Aligned_cols=33  Identities=27%  Similarity=0.384  Sum_probs=27.6

Q ss_pred             CCCcHHHHHHHcCCHHHHHHHHHCCCCcccccC
Q 001613          398 MMETPLFFAVKNDHMVCAEVLLRWGANSEVLNL  430 (1044)
Q Consensus       398 ~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~  430 (1044)
                      +|+||||+|+.+|+.+++++||++||+++.+|+
T Consensus         1 dG~TpLh~A~~~~~~~~v~~Ll~~ga~~~~~d~   33 (33)
T PF00023_consen    1 DGNTPLHYAAQRGHPDIVKLLLKHGADINARDN   33 (33)
T ss_dssp             TSBBHHHHHHHTTCHHHHHHHHHTTSCTTCBCT
T ss_pred             CcccHHHHHHHHHHHHHHHHHHHCcCCCCCCCC
Confidence            478888888888888888888888888888764

Ankyrin repeats are tandemly repeated modules of about 33 amino acids. They occur in a large number of functionally diverse proteins mainly from eukaryotes. The few known examples from prokaryotes and viruses may be the result of horizontal gene transfers []. The repeat has been found in proteins of diverse function such as transcriptional initiators, cell-cycle regulators, cytoskeletal, ion transporters and signal transducers. The ankyrin fold appears to be defined by its structure rather than its function since there is no specific sequence or structure which is universally recognised by it. The conserved fold of the ankyrin repeat unit is known from several crystal and solution structures [, , , ]. Each repeat folds into a helix-loop-helix structure with a beta-hairpin/loop region projecting out from the helices at a 90o angle. The repeats stack together to form an L-shaped structure [, ].; GO: 0005515 protein binding; PDB: 1D9S_A 1NFI_F 1IKN_D 1WDY_A 1OT8_C 1QYM_A 1TR4_A 1UOH_A 1N11_A 1K1A_A ....

>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]

Probab=98.37  E-value=1.5e-07  Score=89.25  Aligned_cols=80  Identities=21%  Similarity=0.342  Sum_probs=74.0

Q ss_pred             ccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEcc
Q 001613          547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKS  625 (1044)
Q Consensus       547 ~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~  625 (1044)
                      .+-|||-++-.+.+++++.+.|.. ||+|+.+.+-.|+.++  -.|||+.|+|++.+.|++|+.+ |+..+.|.+|.|+|
T Consensus        72 GwIi~VtgvHeEatEedi~d~F~d-yGeiKNihLNLDRRtG--y~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw  148 (170)
T KOG0130|consen   72 GWIIFVTGVHEEATEEDIHDKFAD-YGEIKNIHLNLDRRTG--YVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDW  148 (170)
T ss_pred             eEEEEEeccCcchhHHHHHHHHhh-cccccceeeccccccc--cccceeeeehHhHHHHHHHHHhccchhhhCCceeEEE
Confidence            467999999999999999999997 9999999998887665  8999999999999999999999 99999999999999


Q ss_pred             cCCh
Q 001613          626 AVPK  629 (1044)
Q Consensus       626 A~~k  629 (1044)
                      +-.+
T Consensus       149 ~Fv~  152 (170)
T KOG0130|consen  149 CFVK  152 (170)
T ss_pred             EEec
Confidence            8643

>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]

Probab=98.37  E-value=2.8e-07  Score=91.86  Aligned_cols=77  Identities=21%  Similarity=0.337  Sum_probs=68.7

Q ss_pred             cccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEc
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~  624 (1044)
                      ..++|||||||.++.+.++.++|.+ ||.|.++.+-   ...  ..-+|+||+|++..+|+.|+.. ++..++|-+++|.
T Consensus         5 ~~~~iyvGNLP~diRekeieDlFyK-yg~i~~ieLK---~r~--g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVE   78 (241)
T KOG0105|consen    5 NSRRIYVGNLPGDIREKEIEDLFYK-YGRIREIELK---NRP--GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVE   78 (241)
T ss_pred             ccceEEecCCCcchhhccHHHHHhh-hcceEEEEec---cCC--CCCCeeEEEecCccchhhhhhcccccccCcceEEEE
Confidence            4578999999999999999999998 9999999882   111  3578999999999999999999 9999999999999


Q ss_pred             ccCC
Q 001613          625 SAVP  628 (1044)
Q Consensus       625 ~A~~  628 (1044)
                      ++..
T Consensus        79 fprg   82 (241)
T KOG0105|consen   79 FPRG   82 (241)
T ss_pred             eccC
Confidence            9864

>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]

Probab=98.36  E-value=3.6e-07  Score=95.68  Aligned_cols=94  Identities=31%  Similarity=0.390  Sum_probs=81.0

Q ss_pred             cccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CC-CccCC--eEE
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RF-VTIMG--KEV  621 (1044)
Q Consensus       546 ~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~-~~i~G--r~i  621 (1044)
                      ..+|+|||-|...-.|+++|.+|.. ||+|++|.+++..++.   +||++||.|.+..+|..||.. ++ ..+-|  ..+
T Consensus        18 ~drklfvgml~kqq~e~dvrrlf~p-fG~~~e~tvlrg~dg~---sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSL   93 (371)
T KOG0146|consen   18 DDRKLFVGMLNKQQSEDDVRRLFQP-FGNIEECTVLRGPDGN---SKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSL   93 (371)
T ss_pred             cchhhhhhhhcccccHHHHHHHhcc-cCCcceeEEecCCCCC---CCCceEEEeccchHHHHHHHHhcccccCCCCccce
Confidence            5689999999999999999999998 9999999999888776   999999999999999999999 66 56666  468


Q ss_pred             EEccc-CChhHHHHHHHHHHHhh
Q 001613          622 EIKSA-VPKEVLFAELQKQSAQQ  643 (1044)
Q Consensus       622 ~v~~A-~~k~~~~~~~~~~~~~~  643 (1044)
                      .|++| ..|+...++||+.-++-
T Consensus        94 VVK~ADTdkER~lRRMQQma~ql  116 (371)
T KOG0146|consen   94 VVKFADTDKERTLRRMQQMAGQL  116 (371)
T ss_pred             EEEeccchHHHHHHHHHHHHHHh
Confidence            89988 45776677777765543

>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=98.34  E-value=3.4e-07  Score=99.67  Aligned_cols=78  Identities=26%  Similarity=0.417  Sum_probs=71.6

Q ss_pred             ccccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh--CCCccCCeE
Q 001613          543 TQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA--RFVTIMGKE  620 (1044)
Q Consensus       543 a~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~--~~~~i~Gr~  620 (1044)
                      ++...++||||+|...+++.+++++|.+ ||+|+.++++        ..+|+|||+|.+.++|+.|.+.  +...|+|++
T Consensus       224 eD~~I~tLyIg~l~d~v~e~dIrdhFyq-yGeirsi~~~--------~~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~R  294 (377)
T KOG0153|consen  224 EDTSIKTLYIGGLNDEVLEQDIRDHFYQ-YGEIRSIRIL--------PRKGCAFVTFTTREAAEKAAEKSFNKLVINGFR  294 (377)
T ss_pred             cccceeEEEecccccchhHHHHHHHHhh-cCCeeeEEee--------cccccceeeehhhHHHHHHHHhhcceeeecceE
Confidence            3667789999999999999999999998 9999999996        3578999999999999999998  778899999


Q ss_pred             EEEcccCCh
Q 001613          621 VEIKSAVPK  629 (1044)
Q Consensus       621 i~v~~A~~k  629 (1044)
                      |.|.|..++
T Consensus       295 l~i~Wg~~~  303 (377)
T KOG0153|consen  295 LKIKWGRPK  303 (377)
T ss_pred             EEEEeCCCc
Confidence            999999884

>KOG0506 consensus Glutaminase (contains ankyrin repeat) [Amino acid transport and metabolism]

Probab=98.33  E-value=4.3e-07  Score=102.08  Aligned_cols=94  Identities=19%  Similarity=0.237  Sum_probs=86.5

Q ss_pred             CCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHh-cCCeeeecCC
Q 001613          285 DKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLK-HGAIVSQQNK  363 (1044)
Q Consensus       285 d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe-~GAdvn~~d~  363 (1044)
                      +.++...+++|+..|++..++.+.-. |.|+  +.+|.+.+|+||.||..|        +++++++|++ .+.+++.+|.
T Consensus       503 ~~~~~i~~~~aa~~GD~~alrRf~l~-g~D~--~~~DyD~RTaLHvAAaEG--------~v~v~kfl~~~~kv~~~~kDR  571 (622)
T KOG0506|consen  503 ENDTVINVMYAAKNGDLSALRRFALQ-GMDL--ETKDYDDRTALHVAAAEG--------HVEVVKFLLNACKVDPDPKDR  571 (622)
T ss_pred             cccchhhhhhhhhcCCHHHHHHHHHh-cccc--cccccccchhheeecccC--------ceeHHHHHHHHHcCCCChhhc
Confidence            44667789999999999999988888 9999  999999999999999999        9999999997 5899999999


Q ss_pred             CCCcHHHHHHHcCCHHHHHHHHhcCC
Q 001613          364 LGLTALHIAAGSGNSQALEDLIRKEP  389 (1044)
Q Consensus       364 ~G~TpLh~Aa~~g~~eiVklLL~~ga  389 (1044)
                      .|+|||.-|-..+|.+++++|-+...
T Consensus       572 w~rtPlDdA~~F~h~~v~k~L~~~~~  597 (622)
T KOG0506|consen  572 WGRTPLDDAKHFKHKEVVKLLEEAQY  597 (622)
T ss_pred             cCCCcchHhHhcCcHHHHHHHHHHhc
Confidence            99999999999999999999977644

>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]

Probab=98.31  E-value=2e-07  Score=98.99  Aligned_cols=71  Identities=24%  Similarity=0.540  Sum_probs=67.3

Q ss_pred             cceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEccc
Q 001613          548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSA  626 (1044)
Q Consensus       548 ~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~A  626 (1044)
                      .|+||||||..+++.+||.+|++ ||+|.+|.|+          |-||||..++...+..|+.. ++..|+|..|.|+.+
T Consensus         3 ~KLFIGNLp~~~~~~elr~lFe~-ygkVlECDIv----------KNYgFVHiEdktaaedairNLhgYtLhg~nInVeaS   71 (346)
T KOG0109|consen    3 VKLFIGNLPREATEQELRSLFEQ-YGKVLECDIV----------KNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEAS   71 (346)
T ss_pred             cchhccCCCcccchHHHHHHHHh-hCceEeeeee----------cccceEEeecccccHHHHhhcccceecceEEEEEec
Confidence            58999999999999999999998 9999999996          45999999999999999998 999999999999998


Q ss_pred             CCh
Q 001613          627 VPK  629 (1044)
Q Consensus       627 ~~k  629 (1044)
                      ++|
T Consensus        72 ksK   74 (346)
T KOG0109|consen   72 KSK   74 (346)
T ss_pred             ccc
Confidence            877

>KOG0818 consensus GTPase-activating proteins of the GIT family [Signal transduction mechanisms]

Probab=98.30  E-value=1.7e-06  Score=97.66  Aligned_cols=86  Identities=28%  Similarity=0.243  Sum_probs=77.7

Q ss_pred             HHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecC-CCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHH
Q 001613          327 ALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQN-KLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFF  405 (1044)
Q Consensus       327 pLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d-~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~  405 (1044)
                      -||..++.|        +.++.-.||..||++|..+ ..|.||||.|+..|+..-+++|+-+|+| +++.|..|+||+.+
T Consensus       136 QLhasvRt~--------nlet~LRll~lGA~~N~~hpekg~TpLHvAAk~Gq~~Q~ElL~vYGAD-~~a~d~~GmtP~~~  206 (669)
T KOG0818|consen  136 QLHSSVRTG--------NLETCLRLLSLGAQANFFHPEKGNTPLHVAAKAGQILQAELLAVYGAD-PGAQDSSGMTPVDY  206 (669)
T ss_pred             HHHHHhhcc--------cHHHHHHHHHcccccCCCCcccCCchhHHHHhccchhhhhHHhhccCC-CCCCCCCCCcHHHH
Confidence            488889888        8999999999999999876 5699999999999999999999999999 99999999999999


Q ss_pred             HHHcCCHHHHHHHHHC
Q 001613          406 AVKNDHMVCAEVLLRW  421 (1044)
Q Consensus       406 Aa~~g~~~iVklLL~~  421 (1044)
                      |-..||-++.+.|++.
T Consensus       207 AR~~gH~~laeRl~e~  222 (669)
T KOG0818|consen  207 ARQGGHHELAERLVEI  222 (669)
T ss_pred             HHhcCchHHHHHHHHH
Confidence            9999999888888763

>KOG3609 consensus Receptor-activated Ca2+-permeable cation channels (STRPC family) [Inorganic ion transport and metabolism; Signal transduction mechanisms]

Probab=98.29  E-value=1.7e-06  Score=104.41  Aligned_cols=126  Identities=23%  Similarity=0.235  Sum_probs=104.3

Q ss_pred             CCCcHHHHHHHcCCHHHHHHHHHcCCC-CCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCC
Q 001613          287 KVGPPLILATQAGDEDVIEILLKSKNI-DINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLG  365 (1044)
Q Consensus       287 ~G~TpLh~Aa~~G~~eiVk~LL~~~ga-dvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G  365 (1044)
                      .+.--...|++.|+...|+..++.... .+|+|..|.-|+++|++|..+-        +.+++++|++++..+       
T Consensus        24 ~~e~~fL~a~E~gd~~~V~k~l~~~~~~~lninc~d~lGr~al~iai~ne--------nle~~eLLl~~~~~~-------   88 (822)
T KOG3609|consen   24 EGEKGFLLAHENGDVPLVAKALEYKAVSKLNINCRDPLGRLALHIAIDNE--------NLELQELLLDTSSEE-------   88 (822)
T ss_pred             hhhHHHHHHHHcCChHHHHHHHHhccccccchhccChHhhhceecccccc--------cHHHHHHHhcCcccc-------
Confidence            344567889999999999999986322 3667999999999999999988        999999999987665       


Q ss_pred             CcHHHHHHHcCCHHHHHHHHhcCCCC---------cccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCccc
Q 001613          366 LTALHIAAGSGNSQALEDLIRKEPDC---------INLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEV  427 (1044)
Q Consensus       366 ~TpLh~Aa~~g~~eiVklLL~~gad~---------in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~  427 (1044)
                      ..+|.+|+..|..++|++|+.+....         -...-..+.|||++||..++++|+++||++|+.+..
T Consensus        89 gdALL~aI~~~~v~~VE~ll~~~~~~~~~~~~~d~~~~~ft~ditPliLAAh~NnyEil~~Ll~kg~~i~~  159 (822)
T KOG3609|consen   89 GDALLLAIAVGSVPLVELLLVHFVDAPYLERSGDANSPHFTPDITPLMLAAHLNNFEILQCLLTRGHCIPI  159 (822)
T ss_pred             chHHHHHHHHHHHHHHHHHHhcccccchhccccccCcccCCCCccHHHHHHHhcchHHHHHHHHcCCCCCC
Confidence            35899999999999999999885541         112334678999999999999999999999998743

>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]

Probab=98.29  E-value=5.6e-07  Score=95.71  Aligned_cols=75  Identities=21%  Similarity=0.474  Sum_probs=70.1

Q ss_pred             ccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEE
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEI  623 (1044)
Q Consensus       545 ~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v  623 (1044)
                      ....||+|||+.+..+.+++|+.|++ ||+|.++.++          |+|+||.|+-.++|..|+.. ++.+++|+++.|
T Consensus        76 k~stkl~vgNis~tctn~ElRa~fe~-ygpviecdiv----------kdy~fvh~d~~eda~~air~l~~~~~~gk~m~v  144 (346)
T KOG0109|consen   76 KASTKLHVGNISPTCTNQELRAKFEK-YGPVIECDIV----------KDYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHV  144 (346)
T ss_pred             CCccccccCCCCccccCHHHhhhhcc-cCCceeeeee----------cceeEEEEeeccchHHHHhcccccccccceeee
Confidence            35679999999999999999999998 9999999994          67999999999999999999 999999999999


Q ss_pred             cccCChh
Q 001613          624 KSAVPKE  630 (1044)
Q Consensus       624 ~~A~~k~  630 (1044)
                      +.+.+|-
T Consensus       145 q~stsrl  151 (346)
T KOG0109|consen  145 QLSTSRL  151 (346)
T ss_pred             eeecccc
Confidence            9998764

>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]

Probab=98.28  E-value=5.7e-07  Score=103.42  Aligned_cols=78  Identities=29%  Similarity=0.599  Sum_probs=71.3

Q ss_pred             ceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEcccC
Q 001613          549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSAV  627 (1044)
Q Consensus       549 kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~A~  627 (1044)
                      ++|||||-+.++++.++..|+. ||.|+.+.+++|..++  ++|||||++|...++|.+|++. ||.+|-||.|+|..-.
T Consensus       280 rl~vgnLHfNite~~lr~ifep-fg~Ie~v~l~~d~~tG--~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~  356 (549)
T KOG0147|consen  280 RLYVGNLHFNITEDMLRGIFEP-FGKIENVQLTKDSETG--RSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVT  356 (549)
T ss_pred             hhhhcccccCchHHHHhhhccC-cccceeeeeccccccc--cccCcceEEEecHHHHHHHHHHhccceecCceEEEEEee
Confidence            3999999999999999999999 9999999998876555  8999999999999999999999 9999999999987654


Q ss_pred             Ch
Q 001613          628 PK  629 (1044)
Q Consensus       628 ~k  629 (1044)
                      .+
T Consensus       357 ~r  358 (549)
T KOG0147|consen  357 ER  358 (549)
T ss_pred             ee
Confidence            43

>KOG0782 consensus Predicted diacylglycerol kinase [Signal transduction mechanisms]

Probab=98.27  E-value=2.4e-06  Score=97.42  Aligned_cols=118  Identities=24%  Similarity=0.174  Sum_probs=101.1

Q ss_pred             HHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCe--eeecCCCCCcHH
Q 001613          292 LILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAI--VSQQNKLGLTAL  369 (1044)
Q Consensus       292 Lh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAd--vn~~d~~G~TpL  369 (1044)
                      |..|+..+++--+.-+... |-++  -.++.+..|.||+|++.|        +-+||++||+||..  ++..|..|.|+|
T Consensus       870 il~av~~~D~~klqE~h~~-gg~l--l~~~~~~~sllh~a~~tg--------~~eivkyildh~p~elld~~de~get~l  938 (1004)
T KOG0782|consen  870 ILRAVLSSDLMKLQETHLN-GGSL--LIQGPDHCSLLHYAAKTG--------NGEIVKYILDHGPSELLDMADETGETAL  938 (1004)
T ss_pred             HHHHHHhccHHHHHHHHhc-CCce--EeeCcchhhHHHHHHhcC--------ChHHHHHHHhcCCHHHHHHHhhhhhHHH
Confidence            4556666665544444455 6677  678888999999999999        89999999999875  577889999999


Q ss_pred             HHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHC
Q 001613          370 HIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRW  421 (1044)
Q Consensus       370 h~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~  421 (1044)
                      |-|+..++..+.++|++.|+. +-..|..|.||-..|-+.|..+++.||-..
T Consensus       939 hkaa~~~~r~vc~~lvdagas-l~ktd~kg~tp~eraqqa~d~dlaayle~r  989 (1004)
T KOG0782|consen  939 HKAACQRNRAVCQLLVDAGAS-LRKTDSKGKTPQERAQQAGDPDLAAYLESR  989 (1004)
T ss_pred             HHHHHhcchHHHHHHHhcchh-heecccCCCChHHHHHhcCCchHHHHHhhh
Confidence            999999999999999999999 889999999999999999999999998653

>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]

Probab=98.26  E-value=1.8e-06  Score=88.39  Aligned_cols=91  Identities=23%  Similarity=0.412  Sum_probs=74.5

Q ss_pred             ccceeccCCcccccCCCCCCccccCC-CCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEc
Q 001613          547 KSKIFVGGLPFFLDSDSLGGYFEKHF-GPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       547 ~~kifVg~L~~~~te~~Lr~~F~~~f-G~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~  624 (1044)
                      ..-++++.++....+..+..+|.+ | |.|..+++-+.+  .||.|||||||+|++++.|.-|.+. |+.-+.|+.+.|.
T Consensus        49 ~g~~~~~~~p~g~~e~~~~~~~~q-~~g~v~r~rlsRnk--rTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~  125 (214)
T KOG4208|consen   49 EGVVYVDHIPHGFFETEILNYFRQ-FGGTVTRFRLSRNK--RTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECH  125 (214)
T ss_pred             ccceeecccccchhHHHHhhhhhh-cCCeeEEEEeeccc--ccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeE
Confidence            445789999999999999999998 6 788877774554  5558999999999999999999999 9999999999998


Q ss_pred             ccCChhHHHHHHHHHH
Q 001613          625 SAVPKEVLFAELQKQS  640 (1044)
Q Consensus       625 ~A~~k~~~~~~~~~~~  640 (1044)
                      .--|.+.....+.+..
T Consensus       126 vmppe~~v~~~~~k~~  141 (214)
T KOG4208|consen  126 VMPPEQKVEKNLKKVS  141 (214)
T ss_pred             EeCchhhhhhhhhhhc
Confidence            8766544555544443

>KOG0818 consensus GTPase-activating proteins of the GIT family [Signal transduction mechanisms]

Probab=98.25  E-value=2.5e-06  Score=96.34  Aligned_cols=89  Identities=25%  Similarity=0.324  Sum_probs=79.3

Q ss_pred             ecCCCCCcH------HHHHHHcCCHHHHHHHHhcCCCCcccCC-CCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCC
Q 001613          360 QQNKLGLTA------LHIAAGSGNSQALEDLIRKEPDCINLKT-IMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRR  432 (1044)
Q Consensus       360 ~~d~~G~Tp------Lh~Aa~~g~~eiVklLL~~gad~in~~d-~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G  432 (1044)
                      .+|.+|-|.      ||..+..|+.++.-.||..|++ +|..+ ..|.||||+|++.|+.--+++|+-+|||+++.|..|
T Consensus       122 ~rDdD~~~~~~LsrQLhasvRt~nlet~LRll~lGA~-~N~~hpekg~TpLHvAAk~Gq~~Q~ElL~vYGAD~~a~d~~G  200 (669)
T KOG0818|consen  122 CRDDDSVTAKDLSKQLHSSVRTGNLETCLRLLSLGAQ-ANFFHPEKGNTPLHVAAKAGQILQAELLAVYGADPGAQDSSG  200 (669)
T ss_pred             CCCcchhhHHHHHHHHHHHhhcccHHHHHHHHHcccc-cCCCCcccCCchhHHHHhccchhhhhHHhhccCCCCCCCCCC
Confidence            355555543      8899999999999999999999 99887 469999999999999999999999999999999999


Q ss_pred             CcHHHHHHHcChHHHHH
Q 001613          433 ERPIDFAKSQDMRFLLK  449 (1044)
Q Consensus       433 ~TpLh~Aa~~g~~~Ll~  449 (1044)
                      +||+.||-..|+-+|..
T Consensus       201 mtP~~~AR~~gH~~lae  217 (669)
T KOG0818|consen  201 MTPVDYARQGGHHELAE  217 (669)
T ss_pred             CcHHHHHHhcCchHHHH
Confidence            99999999999766655

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=98.23  E-value=2.5e-06  Score=98.11  Aligned_cols=81  Identities=31%  Similarity=0.389  Sum_probs=67.9

Q ss_pred             hHHHHHHHHhcCCeee----ecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHH
Q 001613          344 QNRIVGILLKHGAIVS----QQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLL  419 (1044)
Q Consensus       344 ~~~iVklLLe~GAdvn----~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL  419 (1044)
                      ++..+-+||.||....    ..+.+|.|+||+||..|++.+.++|+-+|+| +-++|..|+|+|.||-+.|..+|+.+|+
T Consensus       636 Dl~t~~lLLAhg~~~e~~~t~~~~~grt~LHLa~~~gnVvl~QLLiWyg~d-v~~rda~g~t~l~yar~a~sqec~d~ll  714 (749)
T KOG0705|consen  636 DLQTAILLLAHGSREEVNETCGEGDGRTALHLAARKGNVVLAQLLIWYGVD-VMARDAHGRTALFYARQAGSQECIDVLL  714 (749)
T ss_pred             HHHHHHHHHhccCchhhhccccCCCCcchhhhhhhhcchhHHHHHHHhCcc-ceecccCCchhhhhHhhcccHHHHHHHH
Confidence            7778888888886532    2446778999999999999999999999988 8899999999999999999999999999


Q ss_pred             HCCCCc
Q 001613          420 RWGANS  425 (1044)
Q Consensus       420 ~~GAdi  425 (1044)
                      ++|+-.
T Consensus       715 q~gcp~  720 (749)
T KOG0705|consen  715 QYGCPD  720 (749)
T ss_pred             HcCCCc
Confidence            988654

>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]

Probab=98.16  E-value=1.4e-06  Score=100.14  Aligned_cols=78  Identities=31%  Similarity=0.422  Sum_probs=73.4

Q ss_pred             eeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEcccCC
Q 001613          550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSAVP  628 (1044)
Q Consensus       550 ifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~A~~  628 (1044)
                      |||-||+.+++...|.+.|+. ||+|.+|+|+.+.++    ++|| ||.|+++++|.+|++. ||..+.|++|.|..+..
T Consensus        79 ~~i~nl~~~~~~~~~~d~f~~-~g~ilS~kv~~~~~g----~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~  152 (369)
T KOG0123|consen   79 VFIKNLDESIDNKSLYDTFSE-FGNILSCKVATDENG----SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFER  152 (369)
T ss_pred             eeecCCCcccCcHHHHHHHHh-hcCeeEEEEEEcCCC----ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccc
Confidence            999999999999999999998 999999999998766    8999 9999999999999999 99999999999999988


Q ss_pred             hhHHH
Q 001613          629 KEVLF  633 (1044)
Q Consensus       629 k~~~~  633 (1044)
                      ++...
T Consensus       153 ~~er~  157 (369)
T KOG0123|consen  153 KEERE  157 (369)
T ss_pred             hhhhc
Confidence            77443

>KOG0522 consensus Ankyrin repeat protein [General function prediction only]

Probab=98.16  E-value=3.4e-06  Score=96.88  Aligned_cols=90  Identities=31%  Similarity=0.427  Sum_probs=68.5

Q ss_pred             cHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHH
Q 001613          290 PPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTAL  369 (1044)
Q Consensus       290 TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpL  369 (1044)
                      -|||+++.....+-+..++.. .+...++..|..|.||||+|+.-|        +...++.|+.+||++..+|+.||+||
T Consensus        22 ~~lh~~~~~~~~~sl~~el~~-~~~~~id~~D~~g~TpLhlAV~Lg--------~~~~a~~Ll~a~Adv~~kN~~gWs~L   92 (560)
T KOG0522|consen   22 KPLHWAVVTTDSDSLEQELLA-KVSLVIDRRDPPGRTPLHLAVRLG--------HVEAARILLSAGADVSIKNNEGWSPL   92 (560)
T ss_pred             cccchhhhccchhhHHHHHhh-hhhceeccccCCCCccHHHHHHhc--------CHHHHHHHHhcCCCccccccccccHH
Confidence            358888887777665554444 233333778888888888888888        88888888888888888888888888


Q ss_pred             HHHHHcCCHHHHHHHHhcC
Q 001613          370 HIAAGSGNSQALEDLIRKE  388 (1044)
Q Consensus       370 h~Aa~~g~~eiVklLL~~g  388 (1044)
                      |.|+..|+.+++..+|.+-
T Consensus        93 ~EAv~~g~~q~i~~vlr~~  111 (560)
T KOG0522|consen   93 HEAVSTGNEQIITEVLRHL  111 (560)
T ss_pred             HHHHHcCCHHHHHHHHHHh
Confidence            8888888888887777654

>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]

Probab=98.10  E-value=1.9e-06  Score=95.80  Aligned_cols=79  Identities=18%  Similarity=0.323  Sum_probs=72.3

Q ss_pred             ccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEcc
Q 001613          547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKS  625 (1044)
Q Consensus       547 ~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~  625 (1044)
                      .+.+||-|+|++..+++|+++|....|+|+.|.++.|..+   ++||+|.|+|+++|.+++|++. +.+++.||++.|+.
T Consensus        44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~G---K~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKE  120 (608)
T KOG4212|consen   44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESG---KARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKE  120 (608)
T ss_pred             cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCC---CcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEec
Confidence            3459999999999999999999876999999999999765   5999999999999999999999 99999999999987


Q ss_pred             cCC
Q 001613          626 AVP  628 (1044)
Q Consensus       626 A~~  628 (1044)
                      -..
T Consensus       121 d~d  123 (608)
T KOG4212|consen  121 DHD  123 (608)
T ss_pred             cCc
Confidence            543

>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]

Probab=98.09  E-value=1e-06  Score=88.27  Aligned_cols=80  Identities=21%  Similarity=0.384  Sum_probs=72.3

Q ss_pred             cceeccCCcccccCCCCCCccccCCCCcceE-EEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEcc
Q 001613          548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDA-RVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKS  625 (1044)
Q Consensus       548 ~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~-~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~  625 (1044)
                      .++|+|||..++++..|.+.|+. ||.+... .+|+|.+|+  .++|||||.|++.|.+.+|+.+ ++..+..|++.|..
T Consensus        97 anlfvgNLd~~vDe~~L~dtFsa-fG~l~~~P~i~rd~~tg--~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~y  173 (203)
T KOG0131|consen   97 ANLFVGNLDPEVDEKLLYDTFSA-FGVLISPPKIMRDPDTG--NPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSY  173 (203)
T ss_pred             ccccccccCcchhHHHHHHHHHh-ccccccCCcccccccCC--CCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEE
Confidence            68999999999999999999998 9988764 677777766  7999999999999999999999 99999999999999


Q ss_pred             cCChh
Q 001613          626 AVPKE  630 (1044)
Q Consensus       626 A~~k~  630 (1044)
                      |..+.
T Consensus       174 a~k~~  178 (203)
T KOG0131|consen  174 AFKKD  178 (203)
T ss_pred             EEecC
Confidence            87553

>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=98.09  E-value=5e-06  Score=75.82  Aligned_cols=81  Identities=21%  Similarity=0.392  Sum_probs=71.8

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~  622 (1044)
                      ++..+-|||.|||+.++.++.-+.|.+ ||.|..++|--.+     .-||-|||.|++..+|++|++. .|..++++.+.
T Consensus        15 pevnriLyirNLp~~ITseemydlFGk-yg~IrQIRiG~~k-----~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~   88 (124)
T KOG0114|consen   15 PEVNRILYIRNLPFKITSEEMYDLFGK-YGTIRQIRIGNTK-----ETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLV   88 (124)
T ss_pred             hhhheeEEEecCCccccHHHHHHHhhc-ccceEEEEecCcc-----CcCceEEEEehHhhhHHHHHHHhcccccCCceEE
Confidence            556778999999999999999999998 9999999995433     3589999999999999999999 99999999999


Q ss_pred             EcccCChh
Q 001613          623 IKSAVPKE  630 (1044)
Q Consensus       623 v~~A~~k~  630 (1044)
                      |-.-.+-.
T Consensus        89 vlyyq~~~   96 (124)
T KOG0114|consen   89 VLYYQPED   96 (124)
T ss_pred             EEecCHHH
Confidence            98766543

>KOG0522 consensus Ankyrin repeat protein [General function prediction only]

Probab=98.02  E-value=1e-05  Score=92.99  Aligned_cols=64  Identities=25%  Similarity=0.323  Sum_probs=33.0

Q ss_pred             CeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHH
Q 001613          356 AIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLR  420 (1044)
Q Consensus       356 Advn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~  420 (1044)
                      ..++.+|..|+||||+|+..|+.+.++.|+..+++ +..+|+.|++|||-|+..|+..++..++.
T Consensus        46 ~~id~~D~~g~TpLhlAV~Lg~~~~a~~Ll~a~Ad-v~~kN~~gWs~L~EAv~~g~~q~i~~vlr  109 (560)
T KOG0522|consen   46 LVIDRRDPPGRTPLHLAVRLGHVEAARILLSAGAD-VSIKNNEGWSPLHEAVSTGNEQIITEVLR  109 (560)
T ss_pred             ceeccccCCCCccHHHHHHhcCHHHHHHHHhcCCC-ccccccccccHHHHHHHcCCHHHHHHHHH
Confidence            34444555555555555555555555555555555 55555555555555555555544444443

>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor

Probab=98.01  E-value=1.7e-06  Score=104.99  Aligned_cols=82  Identities=13%  Similarity=0.261  Sum_probs=62.7

Q ss_pred             ccccccceeccCCcccccCCCCCCccccCCCCcce------EEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHhCCCcc
Q 001613          543 TQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIED------ARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTI  616 (1044)
Q Consensus       543 a~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~------~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~~~~~i  616 (1044)
                      .....++|||||||+.+++++|+++|.+ |+....      ...+.+....  +.+|||||+|.+.++|..|+..++..+
T Consensus       171 ~~~~~r~lyVgnLp~~~t~~~l~~~F~~-~~~~~~~~~~~~~~~v~~~~~~--~~kg~afVeF~~~e~A~~Al~l~g~~~  247 (509)
T TIGR01642       171 ATRQARRLYVGGIPPEFVEEAVVDFFND-LMIATGYHKAEDGKHVSSVNIN--KEKNFAFLEFRTVEEATFAMALDSIIY  247 (509)
T ss_pred             CCccccEEEEeCCCCCCCHHHHHHHHHH-HHHhcCCCCCCCCCceEEEEEC--CCCCEEEEEeCCHHHHhhhhcCCCeEe
Confidence            3567789999999999999999999986 521111      1111111112  579999999999999999997799999


Q ss_pred             CCeEEEEcccC
Q 001613          617 MGKEVEIKSAV  627 (1044)
Q Consensus       617 ~Gr~i~v~~A~  627 (1044)
                      .|+.|.|.+..
T Consensus       248 ~g~~l~v~r~~  258 (509)
T TIGR01642       248 SNVFLKIRRPH  258 (509)
T ss_pred             eCceeEecCcc
Confidence            99999997543

Members of this subfamily are found in plants, metazoa and fungi.

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=97.98  E-value=1.5e-05  Score=91.75  Aligned_cols=92  Identities=24%  Similarity=0.300  Sum_probs=82.0

Q ss_pred             cHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCc
Q 001613          290 PPLILATQAGDEDVIEILLKSKNIDINDAD--ADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLT  367 (1044)
Q Consensus       290 TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~--~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~T  367 (1044)
                      .-|..|+...++..+-+||.+ |....+|.  .+.+|+|+||+||..|        ++.+.++|+=+|+|+-++|..|+|
T Consensus       626 qqLl~A~~~~Dl~t~~lLLAh-g~~~e~~~t~~~~~grt~LHLa~~~g--------nVvl~QLLiWyg~dv~~rda~g~t  696 (749)
T KOG0705|consen  626 QQLLRAVAAEDLQTAILLLAH-GSREEVNETCGEGDGRTALHLAARKG--------NVVLAQLLIWYGVDVMARDAHGRT  696 (749)
T ss_pred             HHHHHHHHHHHHHHHHHHHhc-cCchhhhccccCCCCcchhhhhhhhc--------chhHHHHHHHhCccceecccCCch
Confidence            357888889999999999998 76554343  4667899999999999        999999999999999999999999


Q ss_pred             HHHHHHHcCCHHHHHHHHhcCCC
Q 001613          368 ALHIAAGSGNSQALEDLIRKEPD  390 (1044)
Q Consensus       368 pLh~Aa~~g~~eiVklLL~~gad  390 (1044)
                      +|.||-..|.-+++.+||.+|..
T Consensus       697 ~l~yar~a~sqec~d~llq~gcp  719 (749)
T KOG0705|consen  697 ALFYARQAGSQECIDVLLQYGCP  719 (749)
T ss_pred             hhhhHhhcccHHHHHHHHHcCCC
Confidence            99999999999999999999865

>KOG0226 consensus RNA-binding proteins [General function prediction only]

Probab=97.94  E-value=3.4e-06  Score=88.45  Aligned_cols=84  Identities=25%  Similarity=0.388  Sum_probs=76.2

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~  622 (1044)
                      ++.-.+||.|-|..+++++.|...|.+ |-.-...++++|+.++  +++|||||.|.+.+++.+|+.+ +|..++.|+|.
T Consensus       187 ~~~DfRIfcgdlgNevnd~vl~raf~K-fpsf~~akviRdkRTg--KSkgygfVSf~~pad~~rAmrem~gkyVgsrpik  263 (290)
T KOG0226|consen  187 DEDDFRIFCGDLGNEVNDDVLARAFKK-FPSFQKAKVIRDKRTG--KSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIK  263 (290)
T ss_pred             ccccceeecccccccccHHHHHHHHHh-ccchhhcccccccccc--ccccceeeeecCHHHHHHHHHhhcccccccchhH
Confidence            455679999999999999999999998 9999999998887666  8999999999999999999999 99999999999


Q ss_pred             EcccCChh
Q 001613          623 IKSAVPKE  630 (1044)
Q Consensus       623 v~~A~~k~  630 (1044)
                      +....-|+
T Consensus       264 lRkS~wke  271 (290)
T KOG0226|consen  264 LRKSEWKE  271 (290)
T ss_pred             hhhhhHHh
Confidence            88776555

>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=97.91  E-value=4.3e-06  Score=98.74  Aligned_cols=85  Identities=25%  Similarity=0.441  Sum_probs=76.7

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~  622 (1044)
                      .....||+|.|+|++.+-.+++..|.. ||.+.+++|+.-  ++.+.+||||||+|-++.+|.+|+.+ ..+.+.||++.
T Consensus       610 kk~~tKIlVRNipFeAt~rEVr~LF~a-FGqlksvRlPKK--~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLV  686 (725)
T KOG0110|consen  610 KKKGTKILVRNIPFEATKREVRKLFTA-FGQLKSVRLPKK--IGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLV  686 (725)
T ss_pred             ccccceeeeeccchHHHHHHHHHHHhc-ccceeeeccchh--hcchhhccceeeeccCcHHHHHHHHhhcccceechhhh
Confidence            344689999999999999999999998 999999999765  55567899999999999999999999 88999999999


Q ss_pred             EcccCChhH
Q 001613          623 IKSAVPKEV  631 (1044)
Q Consensus       623 v~~A~~k~~  631 (1044)
                      +.||..-..
T Consensus       687 LEwA~~d~~  695 (725)
T KOG0110|consen  687 LEWAKSDNT  695 (725)
T ss_pred             eehhccchH
Confidence            999987654

>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.90  E-value=8.7e-06  Score=88.61  Aligned_cols=80  Identities=20%  Similarity=0.259  Sum_probs=73.9

Q ss_pred             ceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEcccC
Q 001613          549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSAV  627 (1044)
Q Consensus       549 kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~A~  627 (1044)
                      -|||-.|.+-+++++|.-.|+. ||.|.+|.|++|+.++  -+-.||||+|++.++.++|.-. ++..|+.|+|.|+++.
T Consensus       241 VLFVCKLNPVTtDeDLeiIFSr-FG~i~sceVIRD~ktg--dsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQ  317 (479)
T KOG0415|consen  241 VLFVCKLNPVTTDEDLEIIFSR-FGKIVSCEVIRDRKTG--DSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQ  317 (479)
T ss_pred             eEEEEecCCcccccchhhHHhh-cccceeeeEEeccccc--chhheeeeeecchhhHHHHHhhhcceeeccceEEeehhh
Confidence            4899999999999999999998 9999999999998776  7999999999999999999988 9999999999999987


Q ss_pred             ChhH
Q 001613          628 PKEV  631 (1044)
Q Consensus       628 ~k~~  631 (1044)
                      +-..
T Consensus       318 SVsk  321 (479)
T KOG0415|consen  318 SVSK  321 (479)
T ss_pred             hhhh
Confidence            6544

>KOG3609 consensus Receptor-activated Ca2+-permeable cation channels (STRPC family) [Inorganic ion transport and metabolism; Signal transduction mechanisms]

Probab=97.89  E-value=2.5e-05  Score=94.69  Aligned_cols=120  Identities=23%  Similarity=0.217  Sum_probs=97.2

Q ss_pred             CchHHHHHHHcCCCCCcchhHHHHHhhHHHHHHHHHcCCC--CCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCC
Q 001613          239 RATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAV--ANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDIN  316 (1044)
Q Consensus       239 g~t~L~~A~~~g~~~~~~~~~~~~~~l~~~velLl~~GAd--in~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn  316 (1044)
                      +..-...|+++|+...              |+..++.-..  .|.+|.|.-|+++|+.|+.+.+.+++++|+++ +..+ 
T Consensus        25 ~e~~fL~a~E~gd~~~--------------V~k~l~~~~~~~lninc~d~lGr~al~iai~nenle~~eLLl~~-~~~~-   88 (822)
T KOG3609|consen   25 GEKGFLLAHENGDVPL--------------VAKALEYKAVSKLNINCRDPLGRLALHIAIDNENLELQELLLDT-SSEE-   88 (822)
T ss_pred             hhHHHHHHHHcCChHH--------------HHHHHHhccccccchhccChHhhhceecccccccHHHHHHHhcC-cccc-
Confidence            4455667888888877              6666665444  78889999999999999999999999999998 3222 


Q ss_pred             CCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCee----------eecCCCCCcHHHHHHHcCCHHHHHHHHh
Q 001613          317 DADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIV----------SQQNKLGLTALHIAAGSGNSQALEDLIR  386 (1044)
Q Consensus       317 ~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdv----------n~~d~~G~TpLh~Aa~~g~~eiVklLL~  386 (1044)
                              ..+|.+|+..|        .+++|++++.+-...          ...-.-+.|||.+||..+|+||+++||.
T Consensus        89 --------gdALL~aI~~~--------~v~~VE~ll~~~~~~~~~~~~~d~~~~~ft~ditPliLAAh~NnyEil~~Ll~  152 (822)
T KOG3609|consen   89 --------GDALLLAIAVG--------SVPLVELLLVHFVDAPYLERSGDANSPHFTPDITPLMLAAHLNNFEILQCLLT  152 (822)
T ss_pred             --------chHHHHHHHHH--------HHHHHHHHHhcccccchhccccccCcccCCCCccHHHHHHHhcchHHHHHHHH
Confidence                    45899999999        999999999863322          1223457899999999999999999999


Q ss_pred             cCCC
Q 001613          387 KEPD  390 (1044)
Q Consensus       387 ~gad  390 (1044)
                      +|+.
T Consensus       153 kg~~  156 (822)
T KOG3609|consen  153 RGHC  156 (822)
T ss_pred             cCCC
Confidence            9987

>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]

Probab=97.88  E-value=7.7e-06  Score=93.32  Aligned_cols=80  Identities=21%  Similarity=0.403  Sum_probs=71.9

Q ss_pred             ccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEE
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEI  623 (1044)
Q Consensus       545 ~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v  623 (1044)
                      ...+++||.+|+..+...+|+.+|++ ||.|..+.|+..-.+-  --|+||||++.+.++|-+||+. +.+++.||.|.|
T Consensus       403 ~~gRNlWVSGLSstTRAtDLKnlFSK-yGKVvGAKVVTNaRsP--GaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISV  479 (940)
T KOG4661|consen  403 TLGRNLWVSGLSSTTRATDLKNLFSK-YGKVVGAKVVTNARSP--GARCYGFVTMSTSAEATKCIEHLHRTELHGRMISV  479 (940)
T ss_pred             ccccceeeeccccchhhhHHHHHHHH-hcceeceeeeecCCCC--CcceeEEEEecchHHHHHHHHHhhhhhhcceeeee
Confidence            35689999999999999999999998 9999999998764332  3799999999999999999999 889999999999


Q ss_pred             cccC
Q 001613          624 KSAV  627 (1044)
Q Consensus       624 ~~A~  627 (1044)
                      ..|.
T Consensus       480 EkaK  483 (940)
T KOG4661|consen  480 EKAK  483 (940)
T ss_pred             eecc
Confidence            8874

>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]

Probab=97.87  E-value=7.7e-06  Score=97.13  Aligned_cols=78  Identities=28%  Similarity=0.471  Sum_probs=72.2

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~  622 (1044)
                      .-..+|||||+++..+++.+|+.+|+. ||+|.++.++        .+||+|||+.....+|.+|+.. .++.+.++.|+
T Consensus       418 sV~SrTLwvG~i~k~v~e~dL~~~fee-fGeiqSi~li--------~~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Ik  488 (894)
T KOG0132|consen  418 SVCSRTLWVGGIPKNVTEQDLANLFEE-FGEIQSIILI--------PPRGCAFIKMVRRQDAEKALQKLSNVKVADKTIK  488 (894)
T ss_pred             eEeeeeeeeccccchhhHHHHHHHHHh-cccceeEeec--------cCCceeEEEEeehhHHHHHHHHHhcccccceeeE
Confidence            445789999999999999999999998 9999999985        5899999999999999999999 99999999999


Q ss_pred             EcccCChh
Q 001613          623 IKSAVPKE  630 (1044)
Q Consensus       623 v~~A~~k~  630 (1044)
                      +.||..+-
T Consensus       489 i~Wa~g~G  496 (894)
T KOG0132|consen  489 IAWAVGKG  496 (894)
T ss_pred             EeeeccCC
Confidence            99998653

>KOG0521 consensus Putative GTPase activating proteins (GAPs) [Signal transduction mechanisms]

Probab=97.87  E-value=1.3e-05  Score=99.79  Aligned_cols=80  Identities=31%  Similarity=0.472  Sum_probs=73.0

Q ss_pred             CCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHHc
Q 001613          363 KLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQ  442 (1044)
Q Consensus       363 ~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~  442 (1044)
                      ..|.|+||.|+.+|..-++++||++|++ +|..|..|+||||.+...|+...+.+|+++||+.++.+.+|.+||++|...
T Consensus       654 ~~~~s~lh~a~~~~~~~~~e~ll~~ga~-vn~~d~~g~~plh~~~~~g~~~~~~~ll~~~a~~~a~~~~~~~~l~~a~~~  732 (785)
T KOG0521|consen  654 CIGCSLLHVAVGTGDSGAVELLLQNGAD-VNALDSKGRTPLHHATASGHTSIACLLLKRGADPNAFDPDGKLPLDIAMEA  732 (785)
T ss_pred             hcccchhhhhhccchHHHHHHHHhcCCc-chhhhccCCCcchhhhhhcccchhhhhccccccccccCccCcchhhHHhhh
Confidence            4678999999999999999999999998 999999999999999999999999999999999999999999999999766


Q ss_pred             C
Q 001613          443 D  443 (1044)
Q Consensus       443 g  443 (1044)
                      .
T Consensus       733 ~  733 (785)
T KOG0521|consen  733 A  733 (785)
T ss_pred             c
Confidence            5

>KOG0520 consensus Uncharacterized conserved protein, contains IPT/TIG domain [Function unknown]

Probab=97.81  E-value=2.9e-05  Score=95.95  Aligned_cols=124  Identities=21%  Similarity=0.126  Sum_probs=52.9

Q ss_pred             CCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHH-hcCCeeeecCCC
Q 001613          286 KKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILL-KHGAIVSQQNKL  364 (1044)
Q Consensus       286 ~~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLL-e~GAdvn~~d~~  364 (1044)
                      ..|++.||.++..++.-.++.+++..|...  ...|.+|.-.+|+++..|         .++.-+|+ -+|..++.+|..
T Consensus       572 ~r~~lllhL~a~~lyawLie~~~e~~~~~~--~eld~d~qgV~hfca~lg---------~ewA~ll~~~~~~ai~i~D~~  640 (975)
T KOG0520|consen  572 FRDMLLLHLLAELLYAWLIEKVIEWAGSGD--LELDRDGQGVIHFCAALG---------YEWAFLPISADGVAIDIRDRN  640 (975)
T ss_pred             CcchHHHHHHHHHhHHHHHHHHhcccccCc--hhhcccCCChhhHhhhcC---------CceeEEEEeecccccccccCC
Confidence            344455555555555555555544211111  233444444444433222         23332332 234444555555


Q ss_pred             CCcHHHHHHHcCCHHHHHHHHhcCCCC-----cccCCCCCCcHHHHHHHcCCHHHHHHHHH
Q 001613          365 GLTALHIAAGSGNSQALEDLIRKEPDC-----INLKTIMMETPLFFAVKNDHMVCAEVLLR  420 (1044)
Q Consensus       365 G~TpLh~Aa~~g~~eiVklLL~~gad~-----in~~d~~G~TpLh~Aa~~g~~~iVklLL~  420 (1044)
                      ||||||+|+..|+..++..|++.|++.     ++..+..|.|+-.+|-.+|+..+.-+|-+
T Consensus       641 G~tpL~wAa~~G~e~l~a~l~~lga~~~~~tdps~~~p~g~ta~~la~s~g~~gia~~lse  701 (975)
T KOG0520|consen  641 GWTPLHWAAFRGREKLVASLIELGADPGAVTDPSPETPGGKTAADLARANGHKGIAGYLSE  701 (975)
T ss_pred             CCcccchHhhcCHHHHHHHHHHhccccccccCCCCCCCCCCchhhhhhcccccchHHHHhh
Confidence            555555555555555555555444431     12222334444444444444444444433

>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]

Probab=97.80  E-value=1e-05  Score=93.12  Aligned_cols=83  Identities=30%  Similarity=0.388  Sum_probs=75.2

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~  622 (1044)
                      .-+..+||+-|++..++++.|++.|+. ||+|..++|+.+..+   +++|||||.|.+.++|.+|+.. ++..++|+++.
T Consensus       267 ~~~~~nl~vknld~~~~~e~L~~~f~~-~GeI~s~kv~~~~~g---~skG~gfV~fs~~eeA~~A~~~~n~~~i~~k~l~  342 (369)
T KOG0123|consen  267 SLQGANLYVKNLDETLSDEKLRKIFSS-FGEITSAKVMVDENG---KSKGFGFVEFSSPEEAKKAMTEMNGRLIGGKPLY  342 (369)
T ss_pred             cccccccccccCccccchhHHHHHHhc-ccceeeEEEEeccCC---CccceEEEEcCCHHHHHHHHHhhChhhhcCCchh
Confidence            346778999999999999999999998 999999999887655   5999999999999999999999 99999999999


Q ss_pred             EcccCChh
Q 001613          623 IKSAVPKE  630 (1044)
Q Consensus       623 v~~A~~k~  630 (1044)
                      |.++..++
T Consensus       343 vav~qr~~  350 (369)
T KOG0123|consen  343 VAVAQRKE  350 (369)
T ss_pred             hhHHhhhc
Confidence            99887444

>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]

Probab=97.74  E-value=3.3e-05  Score=91.48  Aligned_cols=92  Identities=28%  Similarity=0.444  Sum_probs=75.9

Q ss_pred             ccccccc-cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCC-CCCcccEEEEEeCCHHHHHHHHHh-CC
Q 001613          537 CMIHAST-QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEK-QSVSRGFGFVTFKHEKSAAAAVQA-RF  613 (1044)
Q Consensus       537 tpLh~aa-~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~-~g~srGfgFV~F~~~e~a~~A~~~-~~  613 (1044)
                      ...+.+. .+...+||+.|+.++.+.+.+...|.+ .|.|.++.|.+.++.. .-.|.|||||+|.+.++|++|++. +|
T Consensus       504 s~a~~a~~~~~~t~lfvkNlnf~Tt~e~l~~~F~k-~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqg  582 (725)
T KOG0110|consen  504 SLARVAEDEETETKLFVKNLNFDTTLEDLEDLFSK-QGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQG  582 (725)
T ss_pred             cchhhhhccccchhhhhhcCCcccchhHHHHHHHh-cCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcC
Confidence            3334444 344555999999999999999999998 9999999997665443 113569999999999999999999 99


Q ss_pred             CccCCeEEEEcccCCh
Q 001613          614 VTIMGKEVEIKSAVPK  629 (1044)
Q Consensus       614 ~~i~Gr~i~v~~A~~k  629 (1044)
                      +.|+|+.|+|+.+..+
T Consensus       583 tvldGH~l~lk~S~~k  598 (725)
T KOG0110|consen  583 TVLDGHKLELKISENK  598 (725)
T ss_pred             ceecCceEEEEeccCc
Confidence            9999999999998743

>KOG2384 consensus Major histocompatibility complex protein BAT4, contains G-patch and ankyrin domains [General function prediction only]

Probab=97.72  E-value=5.5e-05  Score=76.69  Aligned_cols=76  Identities=16%  Similarity=0.128  Sum_probs=65.3

Q ss_pred             CCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccC
Q 001613          355 GAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNL  430 (1044)
Q Consensus       355 GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~  430 (1044)
                      +.++|++|..|||||+.|+..|+.++|.+|+.+|+..+.+.|..|.+++.+|-+.|+.++|+.|.+.-.+-...++
T Consensus         2 e~~in~rD~fgWTalmcaa~eg~~eavsyllgrg~a~vgv~d~ssldaaqlaek~g~~~fvh~lfe~~~ets~p~n   77 (223)
T KOG2384|consen    2 EGNINARDAFGWTALMCAAMEGSNEAVSYLLGRGVAFVGVTDESSLDAAQLAEKGGAQAFVHSLFENDRETSHPMN   77 (223)
T ss_pred             CCCccchhhhcchHHHHHhhhcchhHHHHHhccCcccccccccccchHHHHHHhcChHHHHHHHHHHhccCCCccc
Confidence            4678999999999999999999999999999999555999999999999999999999999999987444433333

>KOG0520 consensus Uncharacterized conserved protein, contains IPT/TIG domain [Function unknown]

Probab=97.72  E-value=3.3e-05  Score=95.58  Aligned_cols=123  Identities=13%  Similarity=0.109  Sum_probs=102.1

Q ss_pred             CCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhc-CCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCC
Q 001613          318 ADADADGNSALHCALKTSMGLSQHILQNRIVGILLKH-GAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKT  396 (1044)
Q Consensus       318 n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~-GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d  396 (1044)
                      ......|+|.||+++..+        +...++.+++- |...+..|.+|...+|+ |..++++.+-+|+......++++|
T Consensus       568 ~~~~~r~~lllhL~a~~l--------yawLie~~~e~~~~~~~eld~d~qgV~hf-ca~lg~ewA~ll~~~~~~ai~i~D  638 (975)
T KOG0520|consen  568 SSVNFRDMLLLHLLAELL--------YAWLIEKVIEWAGSGDLELDRDGQGVIHF-CAALGYEWAFLPISADGVAIDIRD  638 (975)
T ss_pred             ccCCCcchHHHHHHHHHh--------HHHHHHHHhcccccCchhhcccCCChhhH-hhhcCCceeEEEEeeccccccccc
Confidence            445678999999999999        89999999985 77777888888889999 667777887777766555599999


Q ss_pred             CCCCcHHHHHHHcCCHHHHHHHHHCCCCcccc------cCCCCcHHHHHHHcChHHHHH
Q 001613          397 IMMETPLFFAVKNDHMVCAEVLLRWGANSEVL------NLRRERPIDFAKSQDMRFLLK  449 (1044)
Q Consensus       397 ~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~------d~~G~TpLh~Aa~~g~~~Ll~  449 (1044)
                      ..|+||||+|+.+|+..++..|++.|++.++.      +-.|.|+-.+|..+|+.-+-.
T Consensus       639 ~~G~tpL~wAa~~G~e~l~a~l~~lga~~~~~tdps~~~p~g~ta~~la~s~g~~gia~  697 (975)
T KOG0520|consen  639 RNGWTPLHWAAFRGREKLVASLIELGADPGAVTDPSPETPGGKTAADLARANGHKGIAG  697 (975)
T ss_pred             CCCCcccchHhhcCHHHHHHHHHHhccccccccCCCCCCCCCCchhhhhhcccccchHH
Confidence            99999999999999999999999998876543      346999999999888554433

>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]

Probab=97.69  E-value=2.1e-05  Score=85.75  Aligned_cols=79  Identities=22%  Similarity=0.444  Sum_probs=72.8

Q ss_pred             ccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEcc
Q 001613          547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKS  625 (1044)
Q Consensus       547 ~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~  625 (1044)
                      -.+|||..+-.+.+|++++..|+. ||+|..|.+.+++.+.  .+|||||++|.+..+...|+.. |-..++|.-++|-+
T Consensus       210 fnRiYVaSvHpDLSe~DiKSVFEA-FG~I~~C~LAr~pt~~--~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk  286 (544)
T KOG0124|consen  210 FNRIYVASVHPDLSETDIKSVFEA-FGEIVKCQLARAPTGR--GHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGK  286 (544)
T ss_pred             hheEEeeecCCCccHHHHHHHHHh-hcceeeEEeeccCCCC--CccceeeEEeccccchHHHhhhcchhhcccceEeccc
Confidence            357999999999999999999998 9999999998887776  7999999999999999999999 88999999999988


Q ss_pred             cCC
Q 001613          626 AVP  628 (1044)
Q Consensus       626 A~~  628 (1044)
                      +..
T Consensus       287 ~vT  289 (544)
T KOG0124|consen  287 CVT  289 (544)
T ss_pred             ccC
Confidence            753

>KOG0521 consensus Putative GTPase activating proteins (GAPs) [Signal transduction mechanisms]

Probab=97.68  E-value=2.6e-05  Score=97.18  Aligned_cols=100  Identities=27%  Similarity=0.205  Sum_probs=87.3

Q ss_pred             CCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCCC
Q 001613          312 NIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDC  391 (1044)
Q Consensus       312 gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad~  391 (1044)
                      ++++|....-..|.|+||.|+..+        ..-++++|+++|+++|.+|..|+||||.+...|+...+..|+++|++ 
T Consensus       644 ~~~~n~~~~~~~~~s~lh~a~~~~--------~~~~~e~ll~~ga~vn~~d~~g~~plh~~~~~g~~~~~~~ll~~~a~-  714 (785)
T KOG0521|consen  644 GCCENWPVVLCIGCSLLHVAVGTG--------DSGAVELLLQNGADVNALDSKGRTPLHHATASGHTSIACLLLKRGAD-  714 (785)
T ss_pred             hhhhccchhhhcccchhhhhhccc--------hHHHHHHHHhcCCcchhhhccCCCcchhhhhhcccchhhhhcccccc-
Confidence            455533334467889999999999        89999999999999999999999999999999999999999999999 


Q ss_pred             cccCCCCCCcHHHHHHHcCCHHHHHHHHH
Q 001613          392 INLKTIMMETPLFFAVKNDHMVCAEVLLR  420 (1044)
Q Consensus       392 in~~d~~G~TpLh~Aa~~g~~~iVklLL~  420 (1044)
                      .++.+.+|.+||++|....+.+++-+|.-
T Consensus       715 ~~a~~~~~~~~l~~a~~~~~~d~~~l~~l  743 (785)
T KOG0521|consen  715 PNAFDPDGKLPLDIAMEAANADIVLLLRL  743 (785)
T ss_pred             ccccCccCcchhhHHhhhccccHHHHHhh
Confidence            99999999999999988877777766554

>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]

Probab=97.62  E-value=2.4e-05  Score=81.63  Aligned_cols=80  Identities=28%  Similarity=0.429  Sum_probs=72.0

Q ss_pred             cceeccCCcccccCCCCCC----ccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 001613          548 SKIFVGGLPFFLDSDSLGG----YFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       548 ~kifVg~L~~~~te~~Lr~----~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~  622 (1044)
                      .+|||.||...+..++|+.    +|++ ||+|.+|...+     +.+.||=|||.|.+.+.|..|+.+ +|.-+-||+++
T Consensus        10 ~TlYInnLnekI~~~elkrsL~~LFsq-fG~ildI~a~k-----t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mr   83 (221)
T KOG4206|consen   10 GTLYINNLNEKIKKDELKRSLYLLFSQ-FGKILDISAFK-----TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMR   83 (221)
T ss_pred             ceEeehhccccccHHHHHHHHHHHHHh-hCCeEEEEecC-----CCCccCceEEEecChhHHHHHHHHhcCCcccCchhh
Confidence            3999999999999999988    9998 99999998853     347999999999999999999999 99999999999


Q ss_pred             EcccCChhHHH
Q 001613          623 IKSAVPKEVLF  633 (1044)
Q Consensus       623 v~~A~~k~~~~  633 (1044)
                      ++.|..+....
T Consensus        84 iqyA~s~sdii   94 (221)
T KOG4206|consen   84 IQYAKSDSDII   94 (221)
T ss_pred             eecccCccchh
Confidence            99998876443

>KOG0511 consensus Ankyrin repeat protein [General function prediction only]

Probab=97.58  E-value=0.00013  Score=80.55  Aligned_cols=77  Identities=26%  Similarity=0.232  Sum_probs=65.7

Q ss_pred             chHHHHHHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCchHHHHH
Q 001613           58 TKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELS  137 (1044)
Q Consensus        58 ~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~A  137 (1044)
                      .-=|.+||+.|.++.|++|++.|    .+||.+|. ...+||.+|+..||.++|++||++||-.+.-.-+|..   -||+
T Consensus        37 f~elceacR~GD~d~v~~LVetg----vnVN~vD~-fD~spL~lAsLcGHe~vvklLLenGAiC~rdtf~G~R---C~Yg  108 (516)
T KOG0511|consen   37 FGELCEACRAGDVDRVRYLVETG----VNVNAVDR-FDSSPLYLASLCGHEDVVKLLLENGAICSRDTFDGDR---CHYG  108 (516)
T ss_pred             hHHHHHHhhcccHHHHHHHHHhC----CCcchhhc-ccccHHHHHHHcCcHHHHHHHHHcCCcccccccCcch---hhhh
Confidence            34489999999999999999988    89999999 9999999999999999999999999977766667765   2455


Q ss_pred             HhCCC
Q 001613          138 LSSSR  142 (1044)
Q Consensus       138 a~~g~  142 (1044)
                      +.+.+
T Consensus       109 aLnd~  113 (516)
T KOG0511|consen  109 ALNDR  113 (516)
T ss_pred             hhhHH
Confidence            54443

>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]

Probab=97.55  E-value=4.2e-05  Score=88.54  Aligned_cols=78  Identities=27%  Similarity=0.472  Sum_probs=67.9

Q ss_pred             ceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHhCCCccCCeEEEEcccCC
Q 001613          549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVP  628 (1044)
Q Consensus       549 kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~~~~~i~Gr~i~v~~A~~  628 (1044)
                      .|||++||.+++.++|++.|.+ ||.|+...|..-...+  +..+||||+|.+.++++.|++++...|+|+++.|+.-.+
T Consensus       290 ~i~V~nlP~da~~~~l~~~Fk~-FG~Ik~~~I~vr~~~~--~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl~Veek~~  366 (419)
T KOG0116|consen  290 GIFVKNLPPDATPAELEEVFKQ-FGPIKEGGIQVRSPGG--KNPCFGFVEFENAAAVQNAIEASPLEIGGRKLNVEEKRP  366 (419)
T ss_pred             ceEeecCCCCCCHHHHHHHHhh-cccccccceEEeccCC--CcCceEEEEEeecchhhhhhhcCccccCCeeEEEEeccc
Confidence            3999999999999999999998 9999999886544222  344999999999999999999999999999999987554


Q ss_pred             h
Q 001613          629 K  629 (1044)
Q Consensus       629 k  629 (1044)
                      .
T Consensus       367 ~  367 (419)
T KOG0116|consen  367 G  367 (419)
T ss_pred             c
Confidence            3

>KOG2384 consensus Major histocompatibility complex protein BAT4, contains G-patch and ankyrin domains [General function prediction only]

Probab=97.51  E-value=0.00016  Score=73.38  Aligned_cols=68  Identities=29%  Similarity=0.397  Sum_probs=63.6

Q ss_pred             CCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcC-CeeeecCCCCCcHHHHHHHcCCHHHHHHHHhcCCC
Q 001613          313 IDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHG-AIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPD  390 (1044)
Q Consensus       313 advn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~G-Advn~~d~~G~TpLh~Aa~~g~~eiVklLL~~gad  390 (1044)
                      .+|  |.+|..|+|||+.|+..|        ..+.+.+|+.+| +.|-+.|..|.+++.+|-..|..++|+.|.+...+
T Consensus         3 ~~i--n~rD~fgWTalmcaa~eg--------~~eavsyllgrg~a~vgv~d~ssldaaqlaek~g~~~fvh~lfe~~~e   71 (223)
T KOG2384|consen    3 GNI--NARDAFGWTALMCAAMEG--------SNEAVSYLLGRGVAFVGVTDESSLDAAQLAEKGGAQAFVHSLFENDRE   71 (223)
T ss_pred             CCc--cchhhhcchHHHHHhhhc--------chhHHHHHhccCcccccccccccchHHHHHHhcChHHHHHHHHHHhcc
Confidence            355  999999999999999999        999999999999 99999999999999999999999999999988655

>KOG0511 consensus Ankyrin repeat protein [General function prediction only]

Probab=97.48  E-value=0.00029  Score=77.99  Aligned_cols=78  Identities=21%  Similarity=0.210  Sum_probs=66.4

Q ss_pred             cHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHHcChH
Q 001613          367 TALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMR  445 (1044)
Q Consensus       367 TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~  445 (1044)
                      --|..||+.|+.+.|++|++.|.+ +|..|....+||.+|+..||.++|++|+++||-...-.-+|...+.-|..-..+
T Consensus        38 ~elceacR~GD~d~v~~LVetgvn-VN~vD~fD~spL~lAsLcGHe~vvklLLenGAiC~rdtf~G~RC~YgaLnd~IR  115 (516)
T KOG0511|consen   38 GELCEACRAGDVDRVRYLVETGVN-VNAVDRFDSSPLYLASLCGHEDVVKLLLENGAICSRDTFDGDRCHYGALNDRIR  115 (516)
T ss_pred             HHHHHHhhcccHHHHHHHHHhCCC-cchhhcccccHHHHHHHcCcHHHHHHHHHcCCcccccccCcchhhhhhhhHHHH
Confidence            358899999999999999999988 999999999999999999999999999999997766556677665544444444

>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]

Probab=97.40  E-value=0.0001  Score=82.47  Aligned_cols=76  Identities=21%  Similarity=0.316  Sum_probs=66.8

Q ss_pred             cccccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeE
Q 001613          542 STQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKE  620 (1044)
Q Consensus       542 aa~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~  620 (1044)
                      ++..+..+|||.|||++.|++.||+-|.. ||+|..+.||-     .|+++|  .|.|.++++|++|+.. ++..++||.
T Consensus       531 gaarKa~qIiirNlP~dfTWqmlrDKfre-~G~v~yadime-----~GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~  602 (608)
T KOG4212|consen  531 GAARKACQIIIRNLPFDFTWQMLRDKFRE-IGHVLYADIME-----NGKSKG--VVRFFSPEDAERACALMNGSRLDGRN  602 (608)
T ss_pred             cccccccEEEEecCCccccHHHHHHHHHh-ccceehhhhhc-----cCCccc--eEEecCHHHHHHHHHHhccCcccCce
Confidence            33455667999999999999999999997 99999998842     346787  8999999999999999 999999999


Q ss_pred             EEEcc
Q 001613          621 VEIKS  625 (1044)
Q Consensus       621 i~v~~  625 (1044)
                      |.|..
T Consensus       603 I~V~y  607 (608)
T KOG4212|consen  603 IKVTY  607 (608)
T ss_pred             eeeee
Confidence            99975

>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]

Probab=97.28  E-value=0.00033  Score=75.52  Aligned_cols=81  Identities=20%  Similarity=0.294  Sum_probs=74.2

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHhCCCccCCeEEEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEI  623 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~~~~~i~Gr~i~v  623 (1044)
                      ....+.+|+|++.+.++.+++..+|+. +|.|..+.+..|+..+  ++|||+||+|.+.+.+..|+..++..|.|+.+.|
T Consensus        98 ~~d~~sv~v~nvd~~~t~~~~e~hf~~-Cg~i~~~ti~~d~~~~--~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~i~v  174 (231)
T KOG4209|consen   98 EVDAPSVWVGNVDFLVTLTKIELHFES-CGGINRVTVPKDKFRG--HPKGFAYVEFSSYELVEEAYKLDGSEIPGPAIEV  174 (231)
T ss_pred             ccCCceEEEeccccccccchhhheeec-cCCccceeeeccccCC--CcceeEEEecccHhhhHHHhhcCCccccccccee
Confidence            345678999999999999999999998 9999999998888776  6999999999999999999999999999999999


Q ss_pred             cccC
Q 001613          624 KSAV  627 (1044)
Q Consensus       624 ~~A~  627 (1044)
                      .+..
T Consensus       175 t~~r  178 (231)
T KOG4209|consen  175 TLKR  178 (231)
T ss_pred             eeee
Confidence            8753

>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]

Probab=97.23  E-value=0.0001  Score=77.70  Aligned_cols=71  Identities=28%  Similarity=0.597  Sum_probs=66.0

Q ss_pred             cceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEccc
Q 001613          548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSA  626 (1044)
Q Consensus       548 ~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~A  626 (1044)
                      .++|||.+++.+.+.++..+|.+ ||.+.++.+          ..|||||+|.+..+|..|+.. ++.++.|..+.|.+|
T Consensus         2 ~rv~vg~~~~~~~~~d~E~~f~~-yg~~~d~~m----------k~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~   70 (216)
T KOG0106|consen    2 PRVYIGRLPYRARERDVERFFKG-YGKIPDADM----------KNGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHA   70 (216)
T ss_pred             CceeecccCCccchhHHHHHHhh-cccccccee----------ecccceeccCchhhhhcccchhcCceecceeeeeecc
Confidence            47899999999999999999998 999999988          689999999999999999999 999999999888888


Q ss_pred             CCh
Q 001613          627 VPK  629 (1044)
Q Consensus       627 ~~k  629 (1044)
                      ...
T Consensus        71 r~~   73 (216)
T KOG0106|consen   71 RGK   73 (216)
T ss_pred             ccc
Confidence            754

>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]

Probab=97.01  E-value=0.00014  Score=74.96  Aligned_cols=80  Identities=19%  Similarity=0.235  Sum_probs=72.2

Q ss_pred             cccccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeE
Q 001613          542 STQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKE  620 (1044)
Q Consensus       542 aa~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~  620 (1044)
                      ++.+..++|||+++...++++-|.++|-+ -|+|.++.|..+++.+   .| |+||.|.++-.+.-|++. ||..+.++.
T Consensus         4 aaae~drtl~v~n~~~~v~eelL~Elfiq-aGPV~kv~ip~~~d~~---~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e   78 (267)
T KOG4454|consen    4 AAAEMDRTLLVQNMYSGVSEELLSELFIQ-AGPVYKVGIPSGQDQE---QK-FAYVFFPNENSVQLAGQLENGDDLEEDE   78 (267)
T ss_pred             CCcchhhHHHHHhhhhhhhHHHHHHHhhc-cCceEEEeCCCCccCC---Cc-eeeeecccccchhhhhhhcccchhccch
Confidence            34566789999999999999999999998 9999999998888776   56 999999999999999999 999999999


Q ss_pred             EEEccc
Q 001613          621 VEIKSA  626 (1044)
Q Consensus       621 i~v~~A  626 (1044)
                      +.++..
T Consensus        79 ~q~~~r   84 (267)
T KOG4454|consen   79 EQRTLR   84 (267)
T ss_pred             hhcccc
Confidence            888754

>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]

Probab=96.98  E-value=0.00068  Score=80.26  Aligned_cols=83  Identities=24%  Similarity=0.404  Sum_probs=75.1

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecC-CCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQT-EKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEV  621 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~-~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i  621 (1044)
                      +.+++++|+||++..++++.|-..|.. ||+|..+++|..+. ....+.+-+|||-|-+..++++|+.. +|..+.+..+
T Consensus       171 DP~TTNlyv~Nlnpsv~E~~ll~tfGr-fgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~  249 (877)
T KOG0151|consen  171 DPQTTNLYVGNLNPSVDENFLLRTFGR-FGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEM  249 (877)
T ss_pred             CCcccceeeecCCccccHHHHHHHhcc-cCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeee
Confidence            668899999999999999999999997 99999999998773 33336788999999999999999999 9999999999


Q ss_pred             EEcccC
Q 001613          622 EIKSAV  627 (1044)
Q Consensus       622 ~v~~A~  627 (1044)
                      ++-|+.
T Consensus       250 K~gWgk  255 (877)
T KOG0151|consen  250 KLGWGK  255 (877)
T ss_pred             eecccc
Confidence            999984

>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2

Probab=96.86  E-value=0.0011  Score=61.49  Aligned_cols=79  Identities=20%  Similarity=0.245  Sum_probs=65.7

Q ss_pred             ccceeccCCcccccCCCCCCccccCC-CCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccC----CeE
Q 001613          547 KSKIFVGGLPFFLDSDSLGGYFEKHF-GPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIM----GKE  620 (1044)
Q Consensus       547 ~~kifVg~L~~~~te~~Lr~~F~~~f-G~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~----Gr~  620 (1044)
                      .++|.+.|+|...+.+.|.+.+...+ |...-+.++.|..++  .+.|||||.|.+++.|.+-.+. +|..+.    .|.
T Consensus         1 RTTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~--~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kv   78 (97)
T PF04059_consen    1 RTTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNK--CNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKV   78 (97)
T ss_pred             CeeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCC--CceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcE
Confidence            36899999999999998888776423 677777888887666  6999999999999999999999 998874    677


Q ss_pred             EEEcccC
Q 001613          621 VEIKSAV  627 (1044)
Q Consensus       621 i~v~~A~  627 (1044)
                      ++|.+|.
T Consensus        79 c~i~yAr   85 (97)
T PF04059_consen   79 CEISYAR   85 (97)
T ss_pred             EEEehhH
Confidence            7888884

It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).

>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]

Probab=96.81  E-value=0.001  Score=71.77  Aligned_cols=80  Identities=24%  Similarity=0.306  Sum_probs=71.0

Q ss_pred             cccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEc
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~  624 (1044)
                      ...+|+|.||++.+.+++|+++|.+ ||.+..+-|-.++.+   ++.|-|=|+|...++|.+|++. ++.-++|+++.+.
T Consensus        82 ~~~~v~v~NL~~~V~~~Dl~eLF~~-~~~~~r~~vhy~~~G---~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~  157 (243)
T KOG0533|consen   82 RSTKVNVSNLPYGVIDADLKELFAE-FGELKRVAVHYDRAG---RSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIE  157 (243)
T ss_pred             CcceeeeecCCcCcchHHHHHHHHH-hccceEEeeccCCCC---CCCccceeeecchHhHHHHHHHhcCcccCCceeeeE
Confidence            4478999999999999999999998 998888888666544   6999999999999999999999 9999999999888


Q ss_pred             ccCCh
Q 001613          625 SAVPK  629 (1044)
Q Consensus       625 ~A~~k  629 (1044)
                      ...+.
T Consensus       158 ~i~~~  162 (243)
T KOG0533|consen  158 IISSP  162 (243)
T ss_pred             EecCc
Confidence            76543

>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]

Probab=96.63  E-value=0.0026  Score=65.99  Aligned_cols=85  Identities=24%  Similarity=0.323  Sum_probs=65.8

Q ss_pred             cccccccceeccCCcccccCCCCCCccccCCCCcceEEEe-eecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccC--
Q 001613          542 STQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA-EFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIM--  617 (1044)
Q Consensus       542 aa~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~-~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~--  617 (1044)
                      .+.+.++++||.|||.++..-++..+|.. |-.-+.+.+- .++...  -.+-+|||+|.+..+|.+|+.+ ||..++  
T Consensus        29 ~~~~~VRTLFVSGLP~DvKpREiynLFR~-f~GYEgslLK~Tsk~~~--~~~pvaFatF~s~q~A~aamnaLNGvrFDpE  105 (284)
T KOG1457|consen   29 DEPGAVRTLFVSGLPNDVKPREIYNLFRR-FHGYEGSLLKYTSKGDQ--VCKPVAFATFTSHQFALAAMNALNGVRFDPE  105 (284)
T ss_pred             ccccccceeeeccCCcccCHHHHHHHhcc-CCCccceeeeeccCCCc--cccceEEEEecchHHHHHHHHHhcCeeeccc
Confidence            33567999999999999999999999997 7555555442 222221  4568999999999999999999 998875  


Q ss_pred             -CeEEEEcccCCh
Q 001613          618 -GKEVEIKSAVPK  629 (1044)
Q Consensus       618 -Gr~i~v~~A~~k  629 (1044)
                       +..+++..|++.
T Consensus       106 ~~stLhiElAKSN  118 (284)
T KOG1457|consen  106 TGSTLHIELAKSN  118 (284)
T ss_pred             cCceeEeeehhcC
Confidence             567777777653

>PF12872 OST-HTH: OST-HTH/LOTUS domain; PDB: 2KPM_A 3S93_B 3RCO_A 2KZV_A

Probab=96.58  E-value=0.00076  Score=59.45  Aligned_cols=49  Identities=31%  Similarity=0.587  Sum_probs=41.1

Q ss_pred             CCCccccccccchhhhccccccccccCchhhhHHHhhccccceeeeeecC
Q 001613          753 EGKYALSSLKTDFKAVCGLELDHASLGYSKLSDFLRTLPDLCHVKAGPIG  802 (1044)
Q Consensus       753 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  802 (1044)
                      .|..++|.+...|+..+ -.+|...+||.+|++|++++|++++|.-.+=|
T Consensus        21 ~g~v~ls~l~~~~~~~~-~~f~~~~yG~~~l~~ll~~~~~~~~i~~~~~g   69 (74)
T PF12872_consen   21 DGWVSLSQLGQEYKKKY-PDFDPRDYGFSSLSELLESLPDVVEIEERQHG   69 (74)
T ss_dssp             TSSEEHHHHHHHHHHHH-TT--TCCTTSSSHHHHHHT-TTTEEEEEEECC
T ss_pred             CceEEHHHHHHHHHHHC-CCCCccccCCCcHHHHHHhCCCeEEEeeeCCC
Confidence            35799999999999999 99999999999999999999999999654433

>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]

Probab=96.56  E-value=0.00091  Score=78.60  Aligned_cols=84  Identities=25%  Similarity=0.505  Sum_probs=78.4

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~  622 (1044)
                      .+..-+||+|+||...+++++++.... ||.+....++.+..++  .++||+|.+|.+......|+.. ||..++++.+.
T Consensus       286 ~~~~~ki~v~~lp~~l~~~q~~Ell~~-fg~lk~f~lv~d~~~g--~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lv  362 (500)
T KOG0120|consen  286 PDSPNKIFVGGLPLYLTEDQVKELLDS-FGPLKAFRLVKDSATG--NSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLV  362 (500)
T ss_pred             ccccchhhhccCcCccCHHHHHHHHHh-cccchhheeecccccc--cccceeeeeeeCCcchhhhhcccchhhhcCceeE
Confidence            667889999999999999999999997 9999999999888774  7999999999999999999999 99999999999


Q ss_pred             EcccCChh
Q 001613          623 IKSAVPKE  630 (1044)
Q Consensus       623 v~~A~~k~  630 (1044)
                      |+.|.+..
T Consensus       363 vq~A~~g~  370 (500)
T KOG0120|consen  363 VQRAIVGA  370 (500)
T ss_pred             eehhhccc
Confidence            99997654

>smart00248 ANK ankyrin repeats

Probab=96.32  E-value=0.0057  Score=41.58  Aligned_cols=29  Identities=48%  Similarity=0.607  Sum_probs=25.1

Q ss_pred             CCChHHHHHHHcCCHHHHHHHHHcCCCCC
Q 001613           94 SGMTALHLAAESHTARCVELLLKKRARTD  122 (1044)
Q Consensus        94 ~G~TpLH~Aa~~G~~eiVklLL~~GAdvn  122 (1044)
                      .|.||||+|+..|+.+++++|+++|.+++
T Consensus         1 ~~~~~l~~~~~~~~~~~~~~ll~~~~~~~   29 (30)
T smart00248        1 DGRTPLHLAAENGNLEVVKLLLDKGADIN   29 (30)
T ss_pred             CCCCHHHHHHHcCCHHHHHHHHHcCCCCC
Confidence            36799999999999999999999888764

Ankyrin repeats are about 33 amino acids long and occur in at least four consecutive copies. They are involved in protein-protein interactions. The core of the repeat seems to be an helix-loop-helix structure.

>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]

Probab=96.07  E-value=0.0043  Score=71.37  Aligned_cols=79  Identities=18%  Similarity=0.269  Sum_probs=66.4

Q ss_pred             cccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHhCCCccCCeEEEEcc
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKS  625 (1044)
Q Consensus       546 ~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~~~~~i~Gr~i~v~~  625 (1044)
                      ...-|-+.+|||++|++++.++|+.  -.|+.+.+  .+.  +||..|-|||+|.++|++++|++.+-..+..|-|+|-.
T Consensus         9 ~~~~vr~rGLPwsat~~ei~~Ff~~--~~I~~~~~--~r~--~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEVf~   82 (510)
T KOG4211|consen    9 TAFEVRLRGLPWSATEKEILDFFSN--CGIENLEI--PRR--NGRPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEVFT   82 (510)
T ss_pred             cceEEEecCCCccccHHHHHHHHhc--CceeEEEE--ecc--CCCcCcceEEEeechHHHHHHHHhhHHHhCCceEEEEc
Confidence            3445677999999999999999995  46777555  333  35899999999999999999999999999999999998


Q ss_pred             cCChh
Q 001613          626 AVPKE  630 (1044)
Q Consensus       626 A~~k~  630 (1044)
                      +.+.+
T Consensus        83 ~~~~e   87 (510)
T KOG4211|consen   83 AGGAE   87 (510)
T ss_pred             cCCcc
Confidence            87655

>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]

Probab=96.04  E-value=0.0026  Score=74.01  Aligned_cols=81  Identities=20%  Similarity=0.301  Sum_probs=74.9

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHhCCCccCCeEEEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEI  623 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~~~~~i~Gr~i~v  623 (1044)
                      +-..+++|+.-+....+.-+|.++|+. +|+|.+|+++.|+.+.  +++|-+||+|.+.+.+..|+...|..+.|-+|.|
T Consensus       176 ERd~Rtvf~~qla~r~~pRdL~efFs~-~gkVrdVriI~Dr~s~--rskgi~Yvef~D~~sVp~aiaLsGqrllg~pv~v  252 (549)
T KOG0147|consen  176 ERDQRTVFCMQLARRNPPRDLEEFFSI-VGKVRDVRIIGDRNSR--RSKGIAYVEFCDEQSVPLAIALSGQRLLGVPVIV  252 (549)
T ss_pred             HHhHHHHHHHHHhhcCCchhHHHHHHh-hcCcceeEeeccccch--hhcceeEEEEecccchhhHhhhcCCcccCceeEe
Confidence            445789999999999999999999998 9999999999999887  7999999999999999999988999999999999


Q ss_pred             cccC
Q 001613          624 KSAV  627 (1044)
Q Consensus       624 ~~A~  627 (1044)
                      +...
T Consensus       253 q~sE  256 (549)
T KOG0147|consen  253 QLSE  256 (549)
T ss_pred             cccH
Confidence            8653

>KOG2505 consensus Ankyrin repeat protein [General function prediction only]

Probab=95.88  E-value=0.0095  Score=68.61  Aligned_cols=70  Identities=16%  Similarity=0.280  Sum_probs=57.4

Q ss_pred             HHHHHHHHhcCCCCcccC------CCCCCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHHcChHHHH
Q 001613          378 SQALEDLIRKEPDCINLK------TIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLL  448 (1044)
Q Consensus       378 ~eiVklLL~~gad~in~~------d~~G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~Ll  448 (1044)
                      ...+++|.+++.+ .|..      +..--|+||||+..|..++|.+||+.|+|+..+|..|+||..++....++.+.
T Consensus       404 p~~ie~lken~ls-gnf~~~pe~~~~ltsT~LH~aa~qg~~k~v~~~Leeg~Dp~~kd~~Grtpy~ls~nkdVk~~F  479 (591)
T KOG2505|consen  404 PDSIEALKENLLS-GNFDVTPEANDYLTSTFLHYAAAQGARKCVKYFLEEGCDPSTKDGAGRTPYSLSANKDVKSIF  479 (591)
T ss_pred             hhHHHHHHhcCCc-ccccccccccccccchHHHHHHhcchHHHHHHHHHhcCCchhcccCCCCcccccccHHHHHHH
Confidence            5678888888776 5432      33457999999999999999999999999999999999999999855544443

>smart00248 ANK ankyrin repeats

Probab=95.87  E-value=0.013  Score=39.75  Aligned_cols=28  Identities=32%  Similarity=0.480  Sum_probs=19.3

Q ss_pred             CCcHHHHHHHcCCHHHHHHHHHCCCCcc
Q 001613          399 METPLFFAVKNDHMVCAEVLLRWGANSE  426 (1044)
Q Consensus       399 G~TpLh~Aa~~g~~~iVklLL~~GAdin  426 (1044)
                      |.||||+|+..++.+++++|+++|.+++
T Consensus         2 ~~~~l~~~~~~~~~~~~~~ll~~~~~~~   29 (30)
T smart00248        2 GRTPLHLAAENGNLEVVKLLLDKGADIN   29 (30)
T ss_pred             CCCHHHHHHHcCCHHHHHHHHHcCCCCC
Confidence            5677777777777777777777766553

Ankyrin repeats are about 33 amino acids long and occur in at least four consecutive copies. They are involved in protein-protein interactions. The core of the repeat seems to be an helix-loop-helix structure.

>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]

Probab=95.79  E-value=0.0067  Score=66.92  Aligned_cols=80  Identities=18%  Similarity=0.315  Sum_probs=68.5

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcce--------EEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCC
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIED--------ARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFV  614 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~--------~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~  614 (1044)
                      ....+.|||.|||.++|.+++.++|++ +|-|..        |.+-++.+   |+.||=|.+.|-..+++.-|++. ++.
T Consensus       131 ~~~Nt~VYVsgLP~DiT~dE~~~~~sK-cGiI~~d~~t~epk~KlYrd~~---G~lKGDaLc~y~K~ESVeLA~~ilDe~  206 (382)
T KOG1548|consen  131 PKVNTSVYVSGLPLDITVDEFAEVMSK-CGIIMRDPQTGEPKVKLYRDNQ---GKLKGDALCCYIKRESVELAIKILDED  206 (382)
T ss_pred             cccCceEEecCCCCcccHHHHHHHHHh-cceEeccCCCCCeeEEEEecCC---CCccCceEEEeecccHHHHHHHHhCcc
Confidence            445667999999999999999999998 887643        44544433   67999999999999999999999 999


Q ss_pred             ccCCeEEEEcccC
Q 001613          615 TIMGKEVEIKSAV  627 (1044)
Q Consensus       615 ~i~Gr~i~v~~A~  627 (1044)
                      .+.|+.|+|.+|.
T Consensus       207 ~~rg~~~rVerAk  219 (382)
T KOG1548|consen  207 ELRGKKLRVERAK  219 (382)
T ss_pred             cccCcEEEEehhh
Confidence            9999999999884

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=95.71  E-value=0.021  Score=62.59  Aligned_cols=82  Identities=18%  Similarity=0.351  Sum_probs=62.7

Q ss_pred             cccceeccCCcccccCCCC------CCccccCCCCcceEEEeeecCCCCCCccc-EE-EEEeCCHHHHHHHHHh-CCCcc
Q 001613          546 FKSKIFVGGLPFFLDSDSL------GGYFEKHFGPIEDARVAEFQTEKQSVSRG-FG-FVTFKHEKSAAAAVQA-RFVTI  616 (1044)
Q Consensus       546 ~~~kifVg~L~~~~te~~L------r~~F~~~fG~v~~~~v~~d~~~~~g~srG-fg-FV~F~~~e~a~~A~~~-~~~~i  616 (1044)
                      |+.-+||-+++..+-+++.      .++|.| ||.|..+.|-+.-.... --.+ +| |++|.+.|+|.+|+.+ +|..+
T Consensus       113 QKNLvYVigi~pkva~Ee~~~vLk~~eyFGQ-yGkI~KIvvNkkt~s~n-st~~h~gvYITy~~kedAarcIa~vDgs~~  190 (480)
T COG5175         113 QKNLVYVIGIPPKVADEEVAPVLKRHEYFGQ-YGKIKKIVVNKKTSSLN-STASHAGVYITYSTKEDAARCIAEVDGSLL  190 (480)
T ss_pred             ecceeEEecCCCCCCcccccccccchhhhhh-ccceeEEEecccccccc-cccccceEEEEecchHHHHHHHHHhccccc
Confidence            4555899999998888773      458998 99999998843321111 1122 32 9999999999999999 99999


Q ss_pred             CCeEEEEcccCCh
Q 001613          617 MGKEVEIKSAVPK  629 (1044)
Q Consensus       617 ~Gr~i~v~~A~~k  629 (1044)
                      +||.++.....-|
T Consensus       191 DGr~lkatYGTTK  203 (480)
T COG5175         191 DGRVLKATYGTTK  203 (480)
T ss_pred             cCceEeeecCchH
Confidence            9999998876544

>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A

Probab=95.55  E-value=0.0056  Score=49.75  Aligned_cols=49  Identities=24%  Similarity=0.654  Sum_probs=42.4

Q ss_pred             cceeecccccccccccCcccchhhcchhhHHHHHhhhcCcceeeeecccccce
Q 001613          973 QKICFRCKKEEMQWANNPCQHLLWCNVCKRETIEAAAGSEHLCVICDKKVEDI 1025 (1044)
Q Consensus       973 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1025 (1044)
                      ...|.-|..+...+.-.||.|...|..|.....+    ...+|.+|.+.|+++
T Consensus         2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~----~~~~CP~Cr~~i~~V   50 (50)
T PF13920_consen    2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLK----RKKKCPICRQPIESV   50 (50)
T ss_dssp             HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHH----TTSBBTTTTBB-SEE
T ss_pred             cCCCccCCccCCceEEeCCCChHHHHHHhHHhcc----cCCCCCcCChhhcCC
Confidence            3578999999989999999999999999999988    788999999999875

...

>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]

Probab=95.32  E-value=0.0037  Score=72.97  Aligned_cols=71  Identities=28%  Similarity=0.396  Sum_probs=63.2

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~  622 (1044)
                      .-..++|+|-+|+..+++++|+..|+. ||+|++++-     +.  ..+|--||+|-+..+|++|+++ ++.+|.|+.+.
T Consensus        72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~-yGeir~ir~-----t~--~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k  143 (549)
T KOG4660|consen   72 DMNQGTLVVFNLPRSVSNDTLLRIFGA-YGEIREIRE-----TP--NKRGIVFVEFYDVRDAERALKALNRREIAGKRIK  143 (549)
T ss_pred             cCccceEEEEecCCcCCHHHHHHHHHh-hcchhhhhc-----cc--ccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence            345688999999999999999999998 999999554     22  5799999999999999999999 99999999888

>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]

Probab=95.30  E-value=0.0097  Score=69.04  Aligned_cols=102  Identities=28%  Similarity=0.350  Sum_probs=77.8

Q ss_pred             cccccccccccccccccCCCccccccccccccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccE
Q 001613          515 IRGSKCFYALGEEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGF  594 (1044)
Q Consensus       515 ~eivk~Ll~~GAd~~~~d~~G~tpLh~aa~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGf  594 (1044)
                      ++|+-|.+...-.+..    +..+     -+.+++||||+||.-++.++|-..|+..||.|.-+-|=.|++-+  -++|-
T Consensus       347 VQIrPW~laDs~fv~d----~sq~-----lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~K--YPkGa  415 (520)
T KOG0129|consen  347 VQIRPWVLADSDFVLD----HNQP-----IDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLK--YPKGA  415 (520)
T ss_pred             eeEEeeEeccchhhhc----cCcc-----cCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccC--CCCCc
Confidence            4555566654433321    2222     45689999999999999999999999779999998885554444  79999


Q ss_pred             EEEEeCCHHHHHHHHHhCCCcc----CCeEEEEcccC
Q 001613          595 GFVTFKHEKSAAAAVQARFVTI----MGKEVEIKSAV  627 (1044)
Q Consensus       595 gFV~F~~~e~a~~A~~~~~~~i----~Gr~i~v~~A~  627 (1044)
                      |=|+|.+..+-.+||.+...+|    -.|+|+|+.-.
T Consensus       416 GRVtFsnqqsYi~AIsarFvql~h~d~~KRVEIkPYv  452 (520)
T KOG0129|consen  416 GRVTFSNQQAYIKAISARFVQLDHTDIDKRVEIKPYV  452 (520)
T ss_pred             ceeeecccHHHHHHHhhheEEEeccccceeeeeccee
Confidence            9999999999999999976555    34678887543

>KOG2505 consensus Ankyrin repeat protein [General function prediction only]

Probab=95.20  E-value=0.042  Score=63.57  Aligned_cols=67  Identities=24%  Similarity=0.280  Sum_probs=46.7

Q ss_pred             CHHHHHHHHhCCCCCccccccc--cCCCCChHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCchHHHHHH
Q 001613           69 SVSCATSLVNGDLGPVALVNEV--EESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSL  138 (1044)
Q Consensus        69 ~~eivk~LL~~g~~~~adiN~~--d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdvn~~d~~G~T~lpLh~Aa  138 (1044)
                      -.+.+++|.+++...+.++--.  +. .--|+||||+..|..++|.+||+.|+|+.++|..|+|  |..++.
T Consensus       403 ~p~~ie~lken~lsgnf~~~pe~~~~-ltsT~LH~aa~qg~~k~v~~~Leeg~Dp~~kd~~Grt--py~ls~  471 (591)
T KOG2505|consen  403 EPDSIEALKENLLSGNFDVTPEANDY-LTSTFLHYAAAQGARKCVKYFLEEGCDPSTKDGAGRT--PYSLSA  471 (591)
T ss_pred             chhHHHHHHhcCCccccccccccccc-ccchHHHHHHhcchHHHHHHHHHhcCCchhcccCCCC--cccccc
Confidence            3557777877763332222222  22 3458888888888888888888888888888888888  666665

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=94.96  E-value=0.0091  Score=66.67  Aligned_cols=82  Identities=28%  Similarity=0.437  Sum_probs=72.9

Q ss_pred             ccccee-ccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHhCCCccCCeEEEEc
Q 001613          546 FKSKIF-VGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kif-Vg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~~~~~i~Gr~i~v~  624 (1044)
                      ...++| ++++++.+++++++.+|.. +|.|..+++..++.++  .++|||||.|........++..+...+.|+++.+.
T Consensus       183 ~s~~~~~~~~~~f~~~~d~~~~~~~~-~~~i~~~r~~~~~~s~--~~kg~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  259 (285)
T KOG4210|consen  183 PSDTIFFVGELDFSLTRDDLKEHFVS-SGEITSVRLPTDEESG--DSKGFAYVDFSAGNSKKLALNDQTRSIGGRPLRLE  259 (285)
T ss_pred             ccccceeecccccccchHHHhhhccC-cCcceeeccCCCCCcc--chhhhhhhhhhhchhHHHHhhcccCcccCcccccc
Confidence            445666 9999999999999999997 9999999998777766  89999999999999999999887788999999999


Q ss_pred             ccCChh
Q 001613          625 SAVPKE  630 (1044)
Q Consensus       625 ~A~~k~  630 (1044)
                      ...++.
T Consensus       260 ~~~~~~  265 (285)
T KOG4210|consen  260 EDEPRP  265 (285)
T ss_pred             cCCCCc
Confidence            987764

>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]

Probab=94.76  E-value=0.022  Score=65.73  Aligned_cols=76  Identities=21%  Similarity=0.290  Sum_probs=62.6

Q ss_pred             ceeccCCcccccCCCCCCccccCCCCcce-EEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHhCCCccCCeEEEEcccC
Q 001613          549 KIFVGGLPFFLDSDSLGGYFEKHFGPIED-ARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAV  627 (1044)
Q Consensus       549 kifVg~L~~~~te~~Lr~~F~~~fG~v~~-~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~~~~~i~Gr~i~v~~A~  627 (1044)
                      -|-+.+||+.++++++.++|+. .--|.+ +-++.++   +||+-|-|||.|++.+.|++|+..+...|+-|-|+|.++.
T Consensus       105 vVRLRGLPfscte~dI~~FFaG-L~Iv~~gi~l~~d~---rgR~tGEAfVqF~sqe~ae~Al~rhre~iGhRYIEvF~Ss  180 (510)
T KOG4211|consen  105 VVRLRGLPFSCTEEDIVEFFAG-LEIVPDGILLPMDQ---RGRPTGEAFVQFESQESAEIALGRHRENIGHRYIEVFRSS  180 (510)
T ss_pred             eEEecCCCccCcHHHHHHHhcC-CcccccceeeeccC---CCCcccceEEEecCHHHHHHHHHHHHHhhccceEEeehhH
Confidence            4667899999999999999986 544444 3333443   4479999999999999999999999999999999999875


Q ss_pred             C
Q 001613          628 P  628 (1044)
Q Consensus       628 ~  628 (1044)
                      -
T Consensus       181 ~  181 (510)
T KOG4211|consen  181 R  181 (510)
T ss_pred             H
Confidence            3

>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]

Probab=93.42  E-value=0.028  Score=59.60  Aligned_cols=71  Identities=18%  Similarity=0.337  Sum_probs=61.6

Q ss_pred             ccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEE
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEI  623 (1044)
Q Consensus       545 ~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v  623 (1044)
                      .....+++-+++..+.+.+|.++|.+ ||.+.....          .++|+||.|+++++|.+|++. ++..+.|+.|.+
T Consensus        97 ~s~~r~~~~~~~~r~~~qdl~d~~~~-~g~~~~~~~----------~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~  165 (216)
T KOG0106|consen   97 RTHFRLIVRNLSLRVSWQDLKDHFRP-AGEVTYVDA----------RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISV  165 (216)
T ss_pred             cccceeeeccchhhhhHHHHhhhhcc-cCCCchhhh----------hccccceeehhhhhhhhcchhccchhhcCceeee
Confidence            34567888999999999999999998 999954433          588999999999999999999 999999999999


Q ss_pred             ccc
Q 001613          624 KSA  626 (1044)
Q Consensus       624 ~~A  626 (1044)
                      ..+
T Consensus       166 ~~~  168 (216)
T KOG0106|consen  166 EKN  168 (216)
T ss_pred             ccc
Confidence            443

>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]

Probab=92.77  E-value=0.048  Score=60.03  Aligned_cols=79  Identities=19%  Similarity=0.296  Sum_probs=61.1

Q ss_pred             ccccceeccCCcccccCCCCCCccccCCC--CcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEE
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFG--PIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEV  621 (1044)
Q Consensus       545 ~~~~kifVg~L~~~~te~~Lr~~F~~~fG--~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i  621 (1044)
                      ..+.-+|||||-|.+++++|.+.+.. -|  .+.++++...+.  .|+||||+.|...+..+.++.++. -..+|.|..-
T Consensus        78 Grk~~~YvGNL~W~TTD~DL~~A~~S-~G~~~~~dmKFFENR~--NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P  154 (498)
T KOG4849|consen   78 GRKYCCYVGNLLWYTTDADLLKALQS-TGLAQFADMKFFENRT--NGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSP  154 (498)
T ss_pred             CceEEEEecceeEEeccHHHHHHHHh-hhHHHHhhhhhhhccc--CCcccceEEEEecchHHHHHHHHhcccceecCCCC
Confidence            34456899999999999999887764 55  344555544443  458999999999999999999999 8888988766


Q ss_pred             EEccc
Q 001613          622 EIKSA  626 (1044)
Q Consensus       622 ~v~~A  626 (1044)
                      .|..-
T Consensus       155 ~V~~~  159 (498)
T KOG4849|consen  155 TVLSY  159 (498)
T ss_pred             eeecc
Confidence            66543

>PF06128 Shigella_OspC: Shigella flexneri OspC protein; InterPro: IPR010366 This family consists of the Shigella flexneri specific protein OspC

Probab=92.60  E-value=0.23  Score=52.36  Aligned_cols=47  Identities=28%  Similarity=0.222  Sum_probs=34.5

Q ss_pred             CHHHHHHHHhcCCCCcccC---CCCCCcHHHHHHHcCCHHHHHHHHHCCC
Q 001613          377 NSQALEDLIRKEPDCINLK---TIMMETPLFFAVKNDHMVCAEVLLRWGA  423 (1044)
Q Consensus       377 ~~eiVklLL~~gad~in~~---d~~G~TpLh~Aa~~g~~~iVklLL~~GA  423 (1044)
                      +..+++++|++|-.++|.+   -..|.|-|.-|+++++.+++.+||++||
T Consensus       229 ~~kvL~~Fi~~Glv~vN~~F~~~NSGdtMLDNA~Ky~~~emi~~Llk~GA  278 (284)
T PF06128_consen  229 SYKVLEYFINRGLVDVNKKFQKVNSGDTMLDNAMKYKNSEMIAFLLKYGA  278 (284)
T ss_pred             cHHHHHHHHhccccccchhhhccCCcchHHHhHHhcCcHHHHHHHHHcCc
Confidence            3467777777776666643   3567888888888888888888888887

The function of this family is unknown but it is thought that Osp proteins may be involved in postinvasion events related to virulence. Since bacterial pathogens adapt to multiple environments during the course of infecting a host, it has been proposed that Shigella evolved a mechanism to take advantage of a unique intracellular cue, which is mediated through MxiE, to express proteins when the organism reaches the eukaryotic cytosol [].

>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]

Probab=92.49  E-value=0.089  Score=61.37  Aligned_cols=67  Identities=24%  Similarity=0.564  Sum_probs=51.2

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCccc---EEEEEeCCHHHHHHHHHh
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRG---FGFVTFKHEKSAAAAVQA  611 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srG---fgFV~F~~~e~a~~A~~~  611 (1044)
                      .-..+|||||+||++++|+.+...|.+ ||.+..=.=.+....+.-.++|   |.|..|+++..+..-+.+
T Consensus       256 ~~~S~KVFvGGlp~dise~~i~~~F~~-FGs~~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~a  325 (520)
T KOG0129|consen  256 PRYSRKVFVGGLPWDITEAQINASFGQ-FGSVKVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSA  325 (520)
T ss_pred             cccccceeecCCCccccHHHHHhhccc-ccceEeecCCCccccccCCCCCcccEEEEEecchHHHHHHHHH
Confidence            445789999999999999999999998 9987632221122222224677   999999999999988877

>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]

Probab=92.26  E-value=0.044  Score=57.17  Aligned_cols=65  Identities=14%  Similarity=0.192  Sum_probs=50.4

Q ss_pred             ccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCcc
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTI  616 (1044)
Q Consensus       545 ~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i  616 (1044)
                      ....++||.||...++|++|+..|+. |-....+++   +..+   .-..+||+|++.+.|-.||.. +|..|
T Consensus       208 ~acstlfianl~~~~~ed~l~~~~~~-~~gf~~l~~---~~~~---g~~vaf~~~~~~~~at~am~~lqg~~~  273 (284)
T KOG1457|consen  208 RACSTLFIANLGPNCTEDELKQLLSR-YPGFHILKI---RARG---GMPVAFADFEEIEQATDAMNHLQGNLL  273 (284)
T ss_pred             hhhhhHhhhccCCCCCHHHHHHHHHh-CCCceEEEE---ecCC---CcceEeecHHHHHHHHHHHHHhhccee
Confidence            34679999999999999999999997 876666665   2222   245889999999988888877 65443

>PF06128 Shigella_OspC: Shigella flexneri OspC protein; InterPro: IPR010366 This family consists of the Shigella flexneri specific protein OspC

Probab=91.92  E-value=0.87  Score=48.20  Aligned_cols=120  Identities=14%  Similarity=0.049  Sum_probs=75.4

Q ss_pred             HHHHHHhcCHHHHHHHHHhhccccccccccccccccchHHHHHHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHHH
Q 001613           22 IINSLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHL  101 (1044)
Q Consensus        22 ll~AIl~dD~~~L~~li~~~~~~~~l~~~~~~~~~~~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~  101 (1044)
                      +=+||..-|.+++-.++.+             ..+..++|-+|...+..+++-+|+.+.     .....|-         
T Consensus       157 ledAV~AsN~~~i~~~Vtd-------------KkdA~~Am~~si~~~K~dva~~lls~f-----~ft~~dv---------  209 (284)
T PF06128_consen  157 LEDAVKASNYEEISNLVTD-------------KKDAHQAMWLSIGNAKEDVALYLLSKF-----NFTKQDV---------  209 (284)
T ss_pred             HHHHHhhcCHHHHHHHhcc-------------hHHHHHHHHHHhcccHHHHHHHHHhhc-----ceecchh---------
Confidence            4457777777777665532             234478899999888888999999763     2333333         


Q ss_pred             HHHcCCHHHHHHHHHc-CCCCCcccCCCCCchHHHHHHhCCCcceec--CCCCCchhHHHHHHhcCCHHHHHHHHHcCCC
Q 001613          102 AAESHTARCVELLLKK-RARTDIRSKDGRRLLPLELSLSSSRMDVIW--NPDEYSVEDLVVILGQKNLTTVKLLSQKTKE  178 (1044)
Q Consensus       102 Aa~~G~~eiVklLL~~-GAdvn~~d~~G~T~lpLh~Aa~~g~~eIv~--~~~~~~~t~L~~Ai~~g~~eivklLl~~gad  178 (1044)
                      |-..-.+.=|+|||+. ||+..          .|.+-+.+|-.++-.  ...+.|.|.|.-|+..++.+++.+|+++|+-
T Consensus       210 ~~~~~~~ydieY~LS~h~a~~k----------vL~~Fi~~Glv~vN~~F~~~NSGdtMLDNA~Ky~~~emi~~Llk~GA~  279 (284)
T PF06128_consen  210 ASMEKELYDIEYLLSEHSASYK----------VLEYFINRGLVDVNKKFQKVNSGDTMLDNAMKYKNSEMIAFLLKYGAI  279 (284)
T ss_pred             hhcCcchhhHHHHHhhcCCcHH----------HHHHHHhccccccchhhhccCCcchHHHhHHhcCcHHHHHHHHHcCcc
Confidence            2222233344555442 44322          344444444444432  2234488899999999999999999999974

The function of this family is unknown but it is thought that Osp proteins may be involved in postinvasion events related to virulence. Since bacterial pathogens adapt to multiple environments during the course of infecting a host, it has been proposed that Shigella evolved a mechanism to take advantage of a unique intracellular cue, which is mediated through MxiE, to express proteins when the organism reaches the eukaryotic cytosol [].

>PF03158 DUF249: Multigene family 530 protein; InterPro: IPR004858 This entry represents multigene family 530 proteins from African swine fever virus (ASFV) viruses

Probab=91.87  E-value=0.68  Score=47.71  Aligned_cols=111  Identities=15%  Similarity=0.170  Sum_probs=72.9

Q ss_pred             CCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHH----HHHHhcCCeeeecC
Q 001613          287 KVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIV----GILLKHGAIVSQQN  362 (1044)
Q Consensus       287 ~G~TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iV----klLLe~GAdvn~~d  362 (1044)
                      ..++.+-.||+..+.++|+++-+.  ..+      .+-.+-+-+|....        +.++.    .+++++...-...|
T Consensus        75 ~~q~LFElAC~~qkydiV~WI~qn--L~i------~~~~~iFdIA~~~k--------DlsLyslGY~l~~~~~~~~~~~d  138 (192)
T PF03158_consen   75 LNQELFELACEEQKYDIVKWIGQN--LHI------YNPEDIFDIAFAKK--------DLSLYSLGYKLLFNRMMSEHNED  138 (192)
T ss_pred             HHHHHHHHHHHHccccHHHHHhhc--cCC------CCchhhhhhhhhcc--------chhHHHHHHHHHHhhcccccccC
Confidence            556788999999999999999542  222      33445667777766        44432    22333322110011


Q ss_pred             C--CCCcHHHHHHHcCCHHHHHHHHhcCCCCcccCCCCCCcHHHHHHHcCCHHHHHHHHH
Q 001613          363 K--LGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLR  420 (1044)
Q Consensus       363 ~--~G~TpLh~Aa~~g~~eiVklLL~~gad~in~~d~~G~TpLh~Aa~~g~~~iVklLL~  420 (1044)
                      .  .-..-|..|+..|-...|...|++|.+ ++.      ++|..|+++++..|+.+++.
T Consensus       139 ~~~ll~~hl~~a~~kgll~F~letlkygg~-~~~------~vls~Av~ynhRkIL~yfi~  191 (192)
T PF03158_consen  139 PTSLLTQHLEKAAAKGLLPFVLETLKYGGN-VDI------IVLSQAVKYNHRKILDYFIR  191 (192)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHcCCc-ccH------HHHHHHHHhhHHHHHHHhhc
Confidence            0  001235678999999999999999888 543      88999999999999988875

These proteins may be involved in promoting survival of infected macrophages [].

>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=91.55  E-value=0.075  Score=56.57  Aligned_cols=46  Identities=26%  Similarity=0.692  Sum_probs=37.6

Q ss_pred             cceeecccccccccccCcccchhhcchhhHHHHHhhhcCcceeeeeccccccee
Q 001613          973 QKICFRCKKEEMQWANNPCQHLLWCNVCKRETIEAAAGSEHLCVICDKKVEDIM 1026 (1044)
Q Consensus       973 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1026 (1044)
                      .++|+.|+++++-=.=-||+|+-||+.|-.-        -..|.+|.-.+..-+
T Consensus       158 ~~~Cr~C~~~~~~VlllPCrHl~lC~~C~~~--------~~~CPiC~~~~~s~~  203 (207)
T KOG1100|consen  158 MRSCRKCGEREATVLLLPCRHLCLCGICDES--------LRICPICRSPKTSSV  203 (207)
T ss_pred             cccceecCcCCceEEeecccceEeccccccc--------CccCCCCcChhhcee
Confidence            4459999999999999999999999999531        456999987766543

>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]

Probab=91.47  E-value=0.069  Score=59.77  Aligned_cols=84  Identities=18%  Similarity=0.262  Sum_probs=71.8

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcce--------EEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCC
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIED--------ARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFV  614 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~--------~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~  614 (1044)
                      ..+..+|||-+|+..+++..+.++|.+ .|.|..        +.+-+|+  .|+++||=|-|+|.+.-.|++|++- ++.
T Consensus        63 ~s~~~ti~v~g~~d~~~~~~~~~~f~q-cg~ikrnK~t~kPki~~y~dk--eT~~~KGeatvS~~D~~~akaai~~~agk  139 (351)
T KOG1995|consen   63 KSDNETIFVWGCPDSVCENDNADFFLQ-CGVIKRNKRTGKPKIKIYTDK--ETGAPKGEATVSYEDPPAAKAAIEWFAGK  139 (351)
T ss_pred             ccccccceeeccCccchHHHHHHHHhh-cceeccCCCCCCcchhccccc--cccCcCCceeeeecChhhhhhhhhhhccc
Confidence            456789999999999999999999998 887753        3444444  5569999999999999999999999 999


Q ss_pred             ccCCeEEEEcccCChh
Q 001613          615 TIMGKEVEIKSAVPKE  630 (1044)
Q Consensus       615 ~i~Gr~i~v~~A~~k~  630 (1044)
                      .+.|..|+|..|..+.
T Consensus       140 df~gn~ikvs~a~~r~  155 (351)
T KOG1995|consen  140 DFCGNTIKVSLAERRT  155 (351)
T ss_pred             cccCCCchhhhhhhcc
Confidence            9999999998887554

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=90.62  E-value=0.14  Score=57.15  Aligned_cols=83  Identities=19%  Similarity=0.304  Sum_probs=64.6

Q ss_pred             cccceeccCCcccccCCCC---CCccccCCCCcceEEEeeecC--CCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCe
Q 001613          546 FKSKIFVGGLPFFLDSDSL---GGYFEKHFGPIEDARVAEFQT--EKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGK  619 (1044)
Q Consensus       546 ~~~kifVg~L~~~~te~~L---r~~F~~~fG~v~~~~v~~d~~--~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr  619 (1044)
                      ++..+|+.+|+....++.+   .++|.+ ||.|..+.+-++..  ...|..- -++|+|...++|..|+.. +|..++|+
T Consensus        76 qknlvyvvgl~~~~ade~~l~~~eyfgq-ygki~ki~~~~~~S~~s~~~~~~-s~yITy~~~eda~rci~~v~g~~~dg~  153 (327)
T KOG2068|consen   76 QKNLVYVVGLPLDLADESVLERTEYFGQ-YGKINKIVKNKDPSSSSSSGGTC-SVYITYEEEEDADRCIDDVDGFVDDGR  153 (327)
T ss_pred             hhhhhhhhCCCccccchhhhhCcccccc-cccceEEeecCCcccccCCCCCC-cccccccchHhhhhHHHHhhhHHhhhh
Confidence            4566888899988766655   458998 99999999877662  1211122 289999999999999999 99999999


Q ss_pred             EEEEcccCChh
Q 001613          620 EVEIKSAVPKE  630 (1044)
Q Consensus       620 ~i~v~~A~~k~  630 (1044)
                      .++......+-
T Consensus       154 ~lka~~gttky  164 (327)
T KOG2068|consen  154 ALKASLGTTKY  164 (327)
T ss_pred             hhHHhhCCCcc
Confidence            98888777664

>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation

Probab=90.31  E-value=0.13  Score=48.78  Aligned_cols=68  Identities=24%  Similarity=0.351  Sum_probs=40.1

Q ss_pred             eeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh---C---CCccCCeEEEE
Q 001613          550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA---R---FVTIMGKEVEI  623 (1044)
Q Consensus       550 ifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~---~---~~~i~Gr~i~v  623 (1044)
                      |.+.|+...++.++|++.|++ ||.|.-|.+.        +.-.-|||.|.++++|++|++.   .   +..|.+..+.+
T Consensus         4 l~~~g~~~~~~re~iK~~f~~-~g~V~yVD~~--------~G~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~   74 (105)
T PF08777_consen    4 LKFSGLGEPTSREDIKEAFSQ-FGEVAYVDFS--------RGDTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTL   74 (105)
T ss_dssp             EEEEE--SS--HHHHHHHT-S-S--EEEEE----------TT-SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEE
T ss_pred             EEEecCCCCcCHHHHHHHHHh-cCCcceEEec--------CCCCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEE
Confidence            455668888889999999998 9998888773        2234789999999999999986   3   35677776666


Q ss_pred             ccc
Q 001613          624 KSA  626 (1044)
Q Consensus       624 ~~A  626 (1044)
                      ..-
T Consensus        75 ~vL   77 (105)
T PF08777_consen   75 EVL   77 (105)
T ss_dssp             E--
T ss_pred             EEC
Confidence            543

It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.

>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]

Probab=88.54  E-value=0.087  Score=56.30  Aligned_cols=72  Identities=15%  Similarity=0.314  Sum_probs=58.8

Q ss_pred             cceeccCCcccccCCCCCCccccCCCCcceEEEeeecCC------CCCCccc----EEEEEeCCHHHHHHHHHh-CCCcc
Q 001613          548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTE------KQSVSRG----FGFVTFKHEKSAAAAVQA-RFVTI  616 (1044)
Q Consensus       548 ~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~------~~g~srG----fgFV~F~~~e~a~~A~~~-~~~~i  616 (1044)
                      --||++++|..++...||+.|++ ||.|-.|.+-.....      +.|..++    -|.|+|.+...|+++.+. |+..|
T Consensus        75 GVvylS~IPp~m~~~rlReil~~-yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~I  153 (278)
T KOG3152|consen   75 GVVYLSNIPPYMDPVRLREILSQ-YGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPI  153 (278)
T ss_pred             eEEEeccCCCccCHHHHHHHHHh-ccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCcc
Confidence            34899999999999999999998 999999988544333      1122333    378999999999999999 99999


Q ss_pred             CCeE
Q 001613          617 MGKE  620 (1044)
Q Consensus       617 ~Gr~  620 (1044)
                      +|++
T Consensus       154 ggkk  157 (278)
T KOG3152|consen  154 GGKK  157 (278)
T ss_pred             CCCC
Confidence            9986

>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]

Probab=88.15  E-value=0.3  Score=57.40  Aligned_cols=72  Identities=19%  Similarity=0.251  Sum_probs=53.6

Q ss_pred             ceeccCCcccccC------CCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCC-eE
Q 001613          549 KIFVGGLPFFLDS------DSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMG-KE  620 (1044)
Q Consensus       549 kifVg~L~~~~te------~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~G-r~  620 (1044)
                      -|+|.|+|---.+      .-+...|++ +|++....+..+..++   ++||.|++|++..+|+.|++. +|+.++- ..
T Consensus        60 vVvv~g~PvV~~~rl~klk~vl~kvfsk-~gk~vn~~~P~~e~gg---tkG~lf~E~~~~~~A~~aVK~l~G~~ldknHt  135 (698)
T KOG2314|consen   60 VVVVDGAPVVGPARLEKLKKVLTKVFSK-AGKIVNMYYPIDEEGG---TKGYLFVEYASMRDAKKAVKSLNGKRLDKNHT  135 (698)
T ss_pred             EEEECCCcccChhHHHHHHHHHHHHHHh-hccccceeeccCccCC---eeeEEEEEecChhhHHHHHHhcccceecccce
Confidence            3555665542221      223568898 9999999998887776   999999999999999999999 8877754 34


Q ss_pred             EEEc
Q 001613          621 VEIK  624 (1044)
Q Consensus       621 i~v~  624 (1044)
                      ..|.
T Consensus       136 f~v~  139 (698)
T KOG2314|consen  136 FFVR  139 (698)
T ss_pred             EEee
Confidence            4443

>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]

Probab=87.94  E-value=0.5  Score=56.20  Aligned_cols=64  Identities=16%  Similarity=0.210  Sum_probs=54.0

Q ss_pred             CCCCCccccCCCCcceEEEeee-cCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEccc
Q 001613          562 DSLGGYFEKHFGPIEDARVAEF-QTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSA  626 (1044)
Q Consensus       562 ~~Lr~~F~~~fG~v~~~~v~~d-~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~A  626 (1044)
                      ++++..+.+ ||.|.+|.+.++ ......-.-|--||+|++.+++++|+++ .|..+.||.|....-
T Consensus       424 Edvr~ec~k-~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYy  489 (500)
T KOG0120|consen  424 EDVRTECAK-FGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYY  489 (500)
T ss_pred             HHHHHHhcc-cCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEec
Confidence            455667887 999999999888 5555556678889999999999999999 999999999977653

>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]

Probab=86.92  E-value=0.53  Score=53.46  Aligned_cols=79  Identities=24%  Similarity=0.375  Sum_probs=61.2

Q ss_pred             cceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CC-CccCCeEEEEcc
Q 001613          548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RF-VTIMGKEVEIKS  625 (1044)
Q Consensus       548 ~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~-~~i~Gr~i~v~~  625 (1044)
                      .++|+|+|+..++..+++..|...--.... .++        -.-||+||.+.+..-|.+|++. ++ .++.|++++|..
T Consensus         2 nklyignL~p~~~psdl~svfg~ak~~~~g-~fl--------~k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~   72 (584)
T KOG2193|consen    2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSG-QFL--------VKSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEH   72 (584)
T ss_pred             CcccccccCCCCChHHHHHHhccccCCCCc-cee--------eecceeeccCCchhhhhhhHHhhchhhhhcCceeeccc
Confidence            478999999999999999999741101111 111        1468999999999999999999 44 789999999999


Q ss_pred             cCChhHHHHH
Q 001613          626 AVPKEVLFAE  635 (1044)
Q Consensus       626 A~~k~~~~~~  635 (1044)
                      ..++.+...+
T Consensus        73 sv~kkqrsrk   82 (584)
T KOG2193|consen   73 SVPKKQRSRK   82 (584)
T ss_pred             hhhHHHHhhh
Confidence            9887765544

>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]

Probab=86.91  E-value=1.3  Score=53.40  Aligned_cols=82  Identities=17%  Similarity=0.163  Sum_probs=65.9

Q ss_pred             ccccceeccCCcccccCCCCCCccccCCCCcce-EEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIED-ARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       545 ~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~-~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~  622 (1044)
                      +..--|||..||..+++......|.+ .-.|++ +.+..-+.   ++.++-|||.|..++++.+|..- ..+.++.|.|+
T Consensus       432 ~ag~~lyv~~lP~~t~~~~~v~~f~~-~~~Ved~I~lt~~P~---~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~ir  507 (944)
T KOG4307|consen  432 GAGGALYVFQLPVMTPIVPPVNKFMG-AAAVEDFIELTRLPT---DLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIR  507 (944)
T ss_pred             CccceEEeccCCccccccchhhhhhh-hhhhhheeEeccCCc---ccccchhhheeccccccchhhhcccccccCceEEE
Confidence            34556999999999999999999997 667777 55533332   36899999999999999888887 77889999999


Q ss_pred             EcccCChh
Q 001613          623 IKSAVPKE  630 (1044)
Q Consensus       623 v~~A~~k~  630 (1044)
                      |.....+.
T Consensus       508 v~si~~~~  515 (944)
T KOG4307|consen  508 VDSIADYA  515 (944)
T ss_pred             eechhhHH
Confidence            98765444

>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif

Probab=86.46  E-value=0.28  Score=40.47  Aligned_cols=51  Identities=31%  Similarity=0.423  Sum_probs=38.0

Q ss_pred             ceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHH
Q 001613          549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV  609 (1044)
Q Consensus       549 kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~  609 (1044)
                      .|-|.|.+.+.. +.++.+|.+ ||+|.+..+.        ...-+.||+|.++.+|++|+
T Consensus         3 wI~V~Gf~~~~~-~~vl~~F~~-fGeI~~~~~~--------~~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    3 WISVSGFPPDLA-EEVLEHFAS-FGEIVDIYVP--------ESTNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             EEEEEeECchHH-HHHHHHHHh-cCCEEEEEcC--------CCCcEEEEEECCHHHHHhhC
Confidence            355556665544 344559997 9999998883        24568999999999999985

>PF03158 DUF249: Multigene family 530 protein; InterPro: IPR004858 This entry represents multigene family 530 proteins from African swine fever virus (ASFV) viruses

Probab=85.69  E-value=6.3  Score=40.88  Aligned_cols=135  Identities=12%  Similarity=0.027  Sum_probs=93.2

Q ss_pred             cHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCchHHHHHHhcCCCcccccchHHHHHHHHhcCCeeeecCCCCCcHH
Q 001613          290 PPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTAL  369 (1044)
Q Consensus       290 TpLh~Aa~~G~~eiVk~LL~~~gadvn~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~iVklLLe~GAdvn~~d~~G~TpL  369 (1044)
                      -.|..|+..+-+.|++.+=+.    +  ...-...++.+-.||+..        +.+||+|+-++=.   .  .+-.+..
T Consensus        48 CLl~HAVk~nmL~ILqkyke~----L--~~~~~~~q~LFElAC~~q--------kydiV~WI~qnL~---i--~~~~~iF  108 (192)
T PF03158_consen   48 CLLYHAVKYNMLSILQKYKED----L--ENERYLNQELFELACEEQ--------KYDIVKWIGQNLH---I--YNPEDIF  108 (192)
T ss_pred             HHHHHHHHcCcHHHHHHHHHH----h--hcchhHHHHHHHHHHHHc--------cccHHHHHhhccC---C--CCchhhh
Confidence            467889999999999887664    1  111245678888999988        9999999954311   1  2233556


Q ss_pred             HHHHHcCCHHHHH----HHHhcCCCCcccCCCC--CCcHHHHHHHcCCHHHHHHHHHCCCCcccccCCCCcHHHHHHHcC
Q 001613          370 HIAAGSGNSQALE----DLIRKEPDCINLKTIM--METPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQD  443 (1044)
Q Consensus       370 h~Aa~~g~~eiVk----lLL~~gad~in~~d~~--G~TpLh~Aa~~g~~~iVklLL~~GAdin~~d~~G~TpLh~Aa~~g  443 (1044)
                      .+|....+.++..    +++++... -.-.|..  =..-|..|+..|.+..|...+++|.+++.      +.|-.|++++
T Consensus       109 dIA~~~kDlsLyslGY~l~~~~~~~-~~~~d~~~ll~~hl~~a~~kgll~F~letlkygg~~~~------~vls~Av~yn  181 (192)
T PF03158_consen  109 DIAFAKKDLSLYSLGYKLLFNRMMS-EHNEDPTSLLTQHLEKAAAKGLLPFVLETLKYGGNVDI------IVLSQAVKYN  181 (192)
T ss_pred             hhhhhccchhHHHHHHHHHHhhccc-ccccCHHHHHHHHHHHHHHCCCHHHHHHHHHcCCcccH------HHHHHHHHhh
Confidence            7888888877632    23333322 1011100  01246799999999999999999988864      8999999999


Q ss_pred             hHHHHHH
Q 001613          444 MRFLLKA  450 (1044)
Q Consensus       444 ~~~Ll~~  450 (1044)
                      ++.||..
T Consensus       182 hRkIL~y  188 (192)
T PF03158_consen  182 HRKILDY  188 (192)
T ss_pred             HHHHHHH
Confidence            9998863

These proteins may be involved in promoting survival of infected macrophages [].

>PF11929 DUF3447: Domain of unknown function (DUF3447); InterPro: IPR020683 This entry represents the ankyrin repeat-containing domain

Probab=85.63  E-value=1.3  Score=39.34  Aligned_cols=48  Identities=17%  Similarity=0.204  Sum_probs=40.8

Q ss_pred             chHHHHHHHcCCHHHHHHHHhCCCCCccccccccCCCCChHHHHHHHcCCHHHHHHHHHc
Q 001613           58 TKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKK  117 (1044)
Q Consensus        58 ~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~  117 (1044)
                      .+.|..|+..|+.|+++.+++.+            ..-...|..|+...+.+++++|++.
T Consensus         7 ~~tl~~Ai~GGN~eII~~c~~~~------------~~~~~~l~~AI~~H~n~i~~~l~~~   54 (76)
T PF11929_consen    7 KKTLEYAIIGGNFEIINICLKKN------------KPDNDCLEYAIKSHNNEIADWLIEN   54 (76)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHh------------ccHHHHHHHHHHHhhHHHHHHHHHh
Confidence            56689999999999999999754            1224679999999999999999996

These domains contain multiple repeats of a beta(2)-alpha(2) motif. The ankyrin repeat is one of the most common protein-protein interaction motifs in nature. Ankyrin repeats are tandemly repeated modules of about 33 amino acids. They occur in a large number of functionally diverse proteins mainly from eukaryotes. The few known examples from prokaryotes and viruses may be the result of horizontal gene transfers []. The repeat has been found in proteins of diverse function such as transcriptional initiators, cell-cycle regulators, cytoskeletal, ion transporters and signal transducers. The ankyrin fold appears to be defined by its structure rather than its function since there is no specific sequence or structure which is universally recognised by it. The conserved fold of the ankyrin repeat unit is known from several crystal and solution structures [, , , ]. Each repeat folds into a helix-loop-helix structure with a beta-hairpin/loop region projecting out from the helices at a 90o angle. The repeats stack together to form an L-shaped structure [, ].

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=85.62  E-value=0.26  Score=60.69  Aligned_cols=81  Identities=19%  Similarity=0.228  Sum_probs=71.4

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~  622 (1044)
                      ...+.++|+.|.|+..|.+.++..+.+ +|.+.+.+++..+.+   +++|-+||.|.++.++.++... +...+.-+.+.
T Consensus       733 ~~gK~~v~i~g~pf~gt~e~~k~l~~~-~gn~~~~~~vt~r~g---kpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~  808 (881)
T KOG0128|consen  733 FFGKISVAISGPPFQGTKEELKSLASK-TGNVTSLRLVTVRAG---KPKGKARVDYNTEADASRKVASVDVAGKRENNGE  808 (881)
T ss_pred             hhhhhhhheeCCCCCCchHHHHhhccc-cCCccccchhhhhcc---ccccceeccCCCcchhhhhcccchhhhhhhcCcc
Confidence            334778999999999999999999998 999999998887766   4999999999999999999998 87888888888


Q ss_pred             EcccCC
Q 001613          623 IKSAVP  628 (1044)
Q Consensus       623 v~~A~~  628 (1044)
                      |....|
T Consensus       809 v~vsnp  814 (881)
T KOG0128|consen  809 VQVSNP  814 (881)
T ss_pred             ccccCC
Confidence            777655

>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]

Probab=85.44  E-value=1.1  Score=51.17  Aligned_cols=72  Identities=14%  Similarity=0.238  Sum_probs=61.8

Q ss_pred             cceeccCCcc-cccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEcc
Q 001613          548 SKIFVGGLPF-FLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKS  625 (1044)
Q Consensus       548 ~kifVg~L~~-~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~  625 (1044)
                      ..|.|.+|.. .+|.+.|-.+|.- ||.|..+.++..+..       -|.|.|.+...|+-|++. +|+.|.||+|+|..
T Consensus       298 ~vllvsnln~~~VT~d~LftlFgv-YGdVqRVkil~nkkd-------~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~  369 (492)
T KOG1190|consen  298 VVLLVSNLNEEAVTPDVLFTLFGV-YGDVQRVKILYNKKD-------NALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTL  369 (492)
T ss_pred             eEEEEecCchhccchhHHHHHHhh-hcceEEEEeeecCCc-------ceeeeecchhHHHHHHHHhhcceecCceEEEee
Confidence            4456666544 6889999999996 999999999986543       589999999999999999 99999999999987


Q ss_pred             cC
Q 001613          626 AV  627 (1044)
Q Consensus       626 A~  627 (1044)
                      ++
T Consensus       370 SK  371 (492)
T KOG1190|consen  370 SK  371 (492)
T ss_pred             cc
Confidence            64

>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]

Probab=85.41  E-value=0.34  Score=55.32  Aligned_cols=77  Identities=16%  Similarity=0.218  Sum_probs=63.0

Q ss_pred             ccccccccc--cccceeccCCcccccCCCCCCccccCCCCcceEEEeee---cCCCCCCccc--------EEEEEeCCHH
Q 001613          537 CMIHASTQE--FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEF---QTEKQSVSRG--------FGFVTFKHEK  603 (1044)
Q Consensus       537 tpLh~aa~~--~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d---~~~~~g~srG--------fgFV~F~~~e  603 (1044)
                      +|+..-..+  +.++|.+-+||.+-.-+.|.+.|.. +|.|..|+|..-   +...+|.+++        +|||+|+..+
T Consensus       219 sPlp~~~~eel~srtivaenLP~Dh~~enl~kiFg~-~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~  297 (484)
T KOG1855|consen  219 SPLPEFDEEELPSRTIVAENLPLDHSYENLSKIFGT-VGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVE  297 (484)
T ss_pred             CCCCCccccccccceEEEecCCcchHHHHHHHHhhc-ccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhH
Confidence            444444433  7899999999999999999999998 999999999877   5555555554        6999999999


Q ss_pred             HHHHHHHhCCC
Q 001613          604 SAAAAVQARFV  614 (1044)
Q Consensus       604 ~a~~A~~~~~~  614 (1044)
                      .|.+|.+..+.
T Consensus       298 ~A~KA~e~~~~  308 (484)
T KOG1855|consen  298 AARKARELLNP  308 (484)
T ss_pred             HHHHHHHhhch
Confidence            99999998543

>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]

Probab=84.50  E-value=0.91  Score=48.11  Aligned_cols=76  Identities=26%  Similarity=0.373  Sum_probs=63.8

Q ss_pred             cccccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccC-CeEE
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIM-GKEV  621 (1044)
Q Consensus       544 ~~~~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~-Gr~i  621 (1044)
                      ......+|+-++|.+++.+.+...|.+ |....+++++..       -+|.+||+|.+...+..|... ++..|- ...+
T Consensus       143 ~ppn~ilf~~niP~es~~e~l~~lf~q-f~g~keir~i~~-------~~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m  214 (221)
T KOG4206|consen  143 APPNNILFLTNIPSESESEMLSDLFEQ-FPGFKEIRLIPP-------RSGIAFVEFLSDRQASAAQQALQGFKITKKNTM  214 (221)
T ss_pred             CCCceEEEEecCCcchhHHHHHHHHhh-CcccceeEeccC-------CCceeEEecchhhhhHHHhhhhccceeccCceE
Confidence            445677999999999999999999998 999999998643       578999999999999999988 776665 7777


Q ss_pred             EEcccC
Q 001613          622 EIKSAV  627 (1044)
Q Consensus       622 ~v~~A~  627 (1044)
                      .|..|.
T Consensus       215 ~i~~a~  220 (221)
T KOG4206|consen  215 QITFAK  220 (221)
T ss_pred             EecccC
Confidence            776653

>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]

Probab=84.41  E-value=0.98  Score=50.46  Aligned_cols=57  Identities=21%  Similarity=0.269  Sum_probs=48.6

Q ss_pred             CCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEEEEcc
Q 001613          562 DSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKS  625 (1044)
Q Consensus       562 ~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i~v~~  625 (1044)
                      ++|++.-++ ||.|..+.|. |+     ++.|-+-|.|.+.++|..|++. +|..++||.|.-..
T Consensus       291 edl~eec~K-~G~v~~vvv~-d~-----hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgRql~A~i  348 (382)
T KOG1548|consen  291 EDLTEECEK-FGQVRKVVVY-DR-----HPDGVVTVSFRNNEEADQCIQTMDGRWFDGRQLTASI  348 (382)
T ss_pred             HHHHHHHHH-hCCcceEEEe-cc-----CCCceeEEEeCChHHHHHHHHHhcCeeecceEEEEEE
Confidence            456666777 9999999884 32     5789999999999999999999 99999999998654

>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]

Probab=84.37  E-value=0.34  Score=54.36  Aligned_cols=78  Identities=21%  Similarity=0.220  Sum_probs=60.9

Q ss_pred             ceeccCCcccccCCCCCCccccC---CCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHhCCCccCCeEEEEcc
Q 001613          549 KIFVGGLPFFLDSDSLGGYFEKH---FGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKS  625 (1044)
Q Consensus       549 kifVg~L~~~~te~~Lr~~F~~~---fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~~~~~i~Gr~i~v~~  625 (1044)
                      -|-..|||++.++.++.++|.+.   -|.++++-++...++   |.-|=|||-|..+++|+.|+..+...|+-|-|++-+
T Consensus       163 ivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdg---rpTGdAFvlfa~ee~aq~aL~khrq~iGqRYIElFR  239 (508)
T KOG1365|consen  163 IVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDG---RPTGDAFVLFACEEDAQFALRKHRQNIGQRYIELFR  239 (508)
T ss_pred             EEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCC---CcccceEEEecCHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            35668999999999999999531   134555555544333   699999999999999999999988888888888877


Q ss_pred             cCCh
Q 001613          626 AVPK  629 (1044)
Q Consensus       626 A~~k  629 (1044)
                      +..-
T Consensus       240 STaa  243 (508)
T KOG1365|consen  240 STAA  243 (508)
T ss_pred             HhHH
Confidence            6543

>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes

Probab=82.52  E-value=0.43  Score=42.86  Aligned_cols=67  Identities=19%  Similarity=0.313  Sum_probs=43.1

Q ss_pred             cceeccCCcccccCCCCCC----ccccCCC-CcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHh-CCCccCCeEE
Q 001613          548 SKIFVGGLPFFLDSDSLGG----YFEKHFG-PIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEV  621 (1044)
Q Consensus       548 ~kifVg~L~~~~te~~Lr~----~F~~~fG-~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~-~~~~i~Gr~i  621 (1044)
                      .-|+|.|||...+...++.    ++.. +| .|..+            +.|-|.|.|.+++.|.+|... +|-.+-|++|
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdN-CGGkVl~v------------~~~tAilrF~~~~~A~RA~KRmegEdVfG~kI   69 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDN-CGGKVLSV------------SGGTAILRFPNQEFAERAQKRMEGEDVFGNKI   69 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHT-TT--EEE--------------TT-EEEEESSHHHHHHHHHHHTT--SSSS--
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhc-cCCEEEEE------------eCCEEEEEeCCHHHHHHHHHhhcccccccceE
Confidence            3578899998877655544    4444 54 33332            467899999999999999999 9999999999


Q ss_pred             EEcccC
Q 001613          622 EIKSAV  627 (1044)
Q Consensus       622 ~v~~A~  627 (1044)
                      .|++..
T Consensus        70 ~v~~~~   75 (90)
T PF11608_consen   70 SVSFSP   75 (90)
T ss_dssp             EEESS-
T ss_pred             EEEEcC
Confidence            999873

Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.

>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []

Probab=82.15  E-value=1  Score=42.27  Aligned_cols=77  Identities=22%  Similarity=0.223  Sum_probs=49.0

Q ss_pred             cceeccCCcccccCCCCCCccccCCCCcceEE-EeeecCC----CCCCcccEEEEEeCCHHHHHHHHHhCCCccCCe-EE
Q 001613          548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDAR-VAEFQTE----KQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGK-EV  621 (1044)
Q Consensus       548 ~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~-v~~d~~~----~~g~srGfgFV~F~~~e~a~~A~~~~~~~i~Gr-~i  621 (1044)
                      .-|.|-|.|.. ....+.++|++ ||+|.+.. +.++..+    .......+--|+|+++.+|.+|+..||..+.|. .+
T Consensus         7 ~wVtVFGfp~~-~~~~Vl~~F~~-~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~~g~~mv   84 (100)
T PF05172_consen    7 TWVTVFGFPPS-ASNQVLRHFSS-FGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIFSGSLMV   84 (100)
T ss_dssp             CEEEEE---GG-GHHHHHHHHHC-CS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTEEETTCEEE
T ss_pred             eEEEEEccCHH-HHHHHHHHHHh-cceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEEcCcEEE
Confidence            34667777776 34556678997 99988764 1111000    000245688999999999999999999999885 55


Q ss_pred             EEccc
Q 001613          622 EIKSA  626 (1044)
Q Consensus       622 ~v~~A  626 (1044)
                      -|.+.
T Consensus        85 GV~~~   89 (100)
T PF05172_consen   85 GVKPC   89 (100)
T ss_dssp             EEEE-
T ss_pred             EEEEc
Confidence            67766

This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=80.49  E-value=0.32  Score=59.90  Aligned_cols=69  Identities=29%  Similarity=0.367  Sum_probs=58.5

Q ss_pred             ccceeccCCcccccCCCCCCccccCCCCcceEEEeeecCCCCCCcccEEEEEeCCHHHHHHHHHhCCCccCC
Q 001613          547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMG  618 (1044)
Q Consensus       547 ~~kifVg~L~~~~te~~Lr~~F~~~fG~v~~~~v~~d~~~~~g~srGfgFV~F~~~e~a~~A~~~~~~~i~G  618 (1044)
                      .-++|+.+|+..+.+.++...|.. +|.+..+.+..  ..++++.||+|||.|.+++++.+|+..+...+-|
T Consensus       667 ~~~~fvsnl~~~~~~~dl~~~~~~-~~~~e~vqi~~--h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g  735 (881)
T KOG0128|consen  667 LIKIFVSNLSPKMSEEDLSERFSP-SGTIEVVQIVI--HKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG  735 (881)
T ss_pred             HHHHHHhhcchhhcCchhhhhcCc-cchhhhHHHHH--HhhccccccceeeEeecCCchhhhhhhhhhhhhh
Confidence            457999999999999999999998 99999888863  3344589999999999999999999985544444

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	1044
2dgs_A	99	Solution Structure Of The Second Rna Binding Domain		2e-10
2p2c_P	169	Inhibition Of Caspase-2 By A Designed Ankyrin Repea		3e-10
2p2c_P	169	Inhibition Of Caspase-2 By A Designed Ankyrin Repea		1e-05
2v5q_C	167	Crystal Structure Of Wild-type Plk-1 Kinase Domain		1e-09
2v5q_C	167	Crystal Structure Of Wild-type Plk-1 Kinase Domain		3e-07
4f6r_D	169	Tubulin:stathmin-Like Domain Complex Length = 169		1e-09
4f6r_D	169	Tubulin:stathmin-Like Domain Complex Length = 169		4e-05
3noc_D	169	Designed Ankyrin Repeat Protein (Darpin) Binders To		3e-09
2xeh_A	157	Structural Determinants For Improved Thermal Stabil		5e-09
2xee_A	157	Structural Determinants For Improved Thermal Stabil		5e-09
3zu7_B	169	Crystal Structure Of A Designed Selected Ankyrin Re		8e-09
2bkg_A	166	Crystal Structure Of E3_19 An Designed Ankyrin Repe		2e-08
2qyj_A	166	Crystal Structure Of A Designed Full Consensus Anky		3e-08
3nog_D	169	Designed Ankyrin Repeat Protein (Darpin) Binders To		3e-08
1mj0_A	166	Sank E3_5: An Artificial Ankyrin Repeat Protein Len		4e-08
1mj0_A	166	Sank E3_5: An Artificial Ankyrin Repeat Protein Len		2e-05
1svx_A	169	Crystal Structure Of A Designed Selected Ankyrin Re		4e-08
1svx_A	169	Crystal Structure Of A Designed Selected Ankyrin Re		3e-05
2j8s_D	169	Drug Export Pathway Of Multidrug Exporter Acrb Reve		7e-08
2bkk_B	169	Crystal Structure Of Aminoglycoside Phosphotransfer		2e-07
2bkk_B	169	Crystal Structure Of Aminoglycoside Phosphotransfer		9e-06
4drx_E	169	Gtp-Tubulin In Complex With A Darpin Length = 169		2e-07
4drx_E	169	Gtp-Tubulin In Complex With A Darpin Length = 169		6e-07
3utm_A	351	Crystal Structure Of A Mouse Tankyrase-Axin Complex		3e-07
4atz_D	154	Ad5 Knob In Complex With A Designed Ankyrin Repeat		3e-07
4dui_A	169	Darpin D1 Binding To Tubulin Beta Chain (not In Com		6e-07
4dui_A	169	Darpin D1 Binding To Tubulin Beta Chain (not In Com		4e-06
1n11_A	437	D34 Region Of Human Ankyrin-R And Linker Length = 4		6e-07
1n0r_A	126	4ank: A Designed Ankyrin Repeat Protein With Four I		7e-07
3c5r_A	137	Crystal Structure Of The Bard1 Ankyrin Repeat Domai		1e-06
4hb5_A	169	Crystal Structure Of Engineered Protein. Northeast		1e-06
1x4b_A	116	Solution Structure Of Rrm Domain In Heterogeneous N		2e-06
3q9u_C	158	In Silico And In Vitro Co-Evolution Of A High Affin		2e-06
3q9u_C	158	In Silico And In Vitro Co-Evolution Of A High Affin		2e-05
2y0b_G	136	Caspase-3 In Complex With An Inhibitory Darpin-3.4_		3e-06
2y1l_E	169	Caspase-8 In Complex With Darpin-8.4 Length = 169		3e-06
2y1l_E	169	Caspase-8 In Complex With Darpin-8.4 Length = 169		3e-04
4gpm_A	169	Crystal Structure Of Engineered Protein. Northeast		4e-06
4hqd_A	169	Crystal Structure Of Engineered Protein. Northeast		4e-06
4gmr_A	169	Crystal Structure Of Engineered Protein. Northeast		5e-06
2xzd_G	136	Caspase-3 In Complex With An Inhibitory Darpin-3.4		6e-06
3hg0_D	136	Crystal Structure Of A Darpin In Complex With Orf49		7e-06
2cqd_A	116	Solution Structure Of The Rna Recognition Motif In		1e-05
1l3k_A	196	Up1, The Two Rna-Recognition Motif Domain Of Hnrnp		1e-05
1pgz_A	195	Crystal Structure Of Up1 Complexed With D(Ttagggtta		1e-05
1ha1_A	184	Hnrnp A1 (Rbd1,2) From Homo Sapiens Length = 184		1e-05
1up1_A	182	Up1, The Two Rna-Recognition Motif Domain Of Hnrnp		1e-05
2up1_A	183	Structure Of Up1-Telomeric Dna Complex Length = 183		1e-05
2lyv_A	197	Solution Structure Of The Two Rrm Domains Of Hnrnp		1e-05
2dh8_A	105	Solution Structure Of The N-Terminal Rna Binding Do		2e-05
2jab_A	136	A Designed Ankyrin Repeat Protein Evolved To Picomo		3e-05
2jab_A	136	A Designed Ankyrin Repeat Protein Evolved To Picomo		8e-05
2xzt_G	136	Caspase-3 In Complex With Darpin-3.4_i78s Length =		3e-05
2xzt_G	136	Caspase-3 In Complex With Darpin-3.4_i78s Length =		4e-05
1n0q_A	93	3ank: A Designed Ankyrin Repeat Protein With Three		5e-05
2mss_A	75	Musashi1 Rbd2, Nmr Length = 75		1e-04
3zuv_B	136	Crystal Structure Of A Designed Selected Ankyrin Re		1e-04
3zuv_B	136	Crystal Structure Of A Designed Selected Ankyrin Re		2e-04
2v4h_C	136	Nemo Cc2-Lz Domain - 1d5 Darpin Complex Length = 13		1e-04
2cjk_A	167	Structure Of The Rna Binding Domain Of Hrp1 In Comp		2e-04
4grg_A	135	Crystal Structure Of Ige Complexed With E2_79, An A		2e-04
4grg_A	135	Crystal Structure Of Ige Complexed With E2_79, An A		3e-04
3twu_A	167	Crystal Structure Of Arc4 From Human Tankyrase 2 In		6e-04
3twr_A	165	Crystal Structure Of Arc4 From Human Tankyrase 2 In		6e-04
3twq_A	175	Crystal Structure Of Arc4 From Human Tankyrase 2 (A		7e-04
1awc_B	153	Mouse Gabp AlphaBETA DOMAIN BOUND TO DNA Length = 1		8e-04

>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In Daz- Associated Protein 1 Length = 99

Iteration: 1
 Score = 65.1 bits (157), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 38/83 (45%), Positives = 51/83 (61%), Gaps = 3/83 (3%)
Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           +KIFVGG+P       L  YF+K FG + +  V  +  EKQ   RGFGF+TF+ E+S   
Sbjct: 11  NKIFVGGIPHNCGETELREYFKK-FGVVTEV-VMIYDAEKQR-PRGFGFITFEDEQSVDQ 67
Query: 608 AVQARFVTIMGKEVEIKSAVPKE 630
           AV   F  IMGK+VE+K A P++
Sbjct: 68  AVNMHFHDIMGKKVEVKRAEPRD 90

>pdb|2P2C|P Chain P, Inhibition Of Caspase-2 By A Designed Ankyrin Repeat Protein (Darpin) Length = 169

Iteration: 1
 Score = 64.3 bits (155), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 46/137 (33%), Positives = 73/137 (53%), Gaps = 12/137 (8%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ A +AG +D + IL+ +             G++ LH A KT      H+    I
Sbjct: 14  LGKKLLEAARAGQDDEVRILMANGADVNATDWL---GHTPLHLAAKTG-----HL---EI 62
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V +LLK+GA V+  +  G T LH+AA +G+ + +E L++   D +N K     TPL  A 
Sbjct: 63  VEVLLKYGADVNAWDNYGATPLHLAADNGHLEIVEVLLKHGAD-VNAKDYEGFTPLHLAA 121
Query: 408 KNDHMVCAEVLLRWGAN 424
            + H+   EVLL++GA+
Sbjct: 122 YDGHLEIVEVLLKYGAD 138

>pdb|2P2C|P Chain P, Inhibition Of Caspase-2 By A Designed Ankyrin Repeat Protein (Darpin) Length = 169

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 33/96 (34%), Positives = 51/96 (53%), Gaps = 1/96 (1%)
Query: 344 QNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPL 403
           Q+  V IL+ +GA V+  + LG T LH+AA +G+ + +E L++   D +N       TPL
Sbjct: 26  QDDEVRILMANGADVNATDWLGHTPLHLAAKTGHLEIVEVLLKYGAD-VNAWDNYGATPL 84
Query: 404 FFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFA 439
             A  N H+   EVLL+ GA+    +     P+  A
Sbjct: 85  HLAADNGHLEIVEVLLKHGADVNAKDYEGFTPLHLA 120

>pdb|2V5Q|C Chain C, Crystal Structure Of Wild-type Plk-1 Kinase Domain In Complex With A Selective Darpin Length = 167

Iteration: 1
 Score = 62.8 bits (151), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 45/137 (32%), Positives = 70/137 (51%), Gaps = 12/137 (8%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ A +AG +D + IL+ +             G + LH A      +S H+    I
Sbjct: 14  LGKKLLEAARAGQDDEVRILIANGADVNAVDNT---GLTPLHLA-----AVSGHL---EI 62
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V +LLKHGA V   +  G T LH+AA +G+ + +E L++   D +N   +   TPL  A 
Sbjct: 63  VEVLLKHGADVDAADVYGFTPLHLAAMTGHLEIVEVLLKYGAD-VNAFDMTGSTPLHLAA 121
Query: 408 KNDHMVCAEVLLRWGAN 424
              H+   EVLL++GA+
Sbjct: 122 DEGHLEIVEVLLKYGAD 138

>pdb|2V5Q|C Chain C, Crystal Structure Of Wild-type Plk-1 Kinase Domain In Complex With A Selective Darpin Length = 167

Iteration: 1
 Score = 54.7 bits (130), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 32/99 (32%), Positives = 54/99 (54%), Gaps = 1/99 (1%)
Query: 344 QNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPL 403
           Q+  V IL+ +GA V+  +  GLT LH+AA SG+ + +E L++   D ++   +   TPL
Sbjct: 26  QDDEVRILIANGADVNAVDNTGLTPLHLAAVSGHLEIVEVLLKHGAD-VDAADVYGFTPL 84
Query: 404 FFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQ 442
             A    H+   EVLL++GA+    ++    P+  A  +
Sbjct: 85  HLAAMTGHLEIVEVLLKYGADVNAFDMTGSTPLHLAADE 123

>pdb|4F6R|D Chain D, Tubulin:stathmin-Like Domain Complex Length = 169

Iteration: 1
 Score = 62.4 bits (150), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 45/137 (32%), Positives = 70/137 (51%), Gaps = 12/137 (8%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ A +AG +D + IL+ +             G + LH A      +  H+    I
Sbjct: 14  LGKKLLEAARAGQDDEVRILMANGADVNAEDDS---GKTPLHLA-----AIKGHL---EI 62
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V +LLKHGA V+  +K+G T LH+AA  G+ + +E L++   D +N       TPL  A 
Sbjct: 63  VEVLLKHGADVNAADKMGDTPLHLAALYGHLEIVEVLLKNGAD-VNATDTYGFTPLHLAA 121
Query: 408 KNDHMVCAEVLLRWGAN 424
              H+   EVLL++GA+
Sbjct: 122 DAGHLEIVEVLLKYGAD 138

>pdb|4F6R|D Chain D, Tubulin:stathmin-Like Domain Complex Length = 169

Iteration: 1
 Score = 47.4 bits (111), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 32/96 (33%), Positives = 51/96 (53%), Gaps = 1/96 (1%)
Query: 344 QNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPL 403
           Q+  V IL+ +GA V+ ++  G T LH+AA  G+ + +E L++   D +N    M +TPL
Sbjct: 26  QDDEVRILMANGADVNAEDDSGKTPLHLAAIKGHLEIVEVLLKHGAD-VNAADKMGDTPL 84
Query: 404 FFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFA 439
             A    H+   EVLL+ GA+    +     P+  A
Sbjct: 85  HLAALYGHLEIVEVLLKNGADVNATDTYGFTPLHLA 120

>pdb|3NOC|D Chain D, Designed Ankyrin Repeat Protein (Darpin) Binders To Acrb: Plasticity Of The Interface Length = 169

Iteration: 1
 Score = 60.8 bits (146), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 45/137 (32%), Positives = 70/137 (51%), Gaps = 12/137 (8%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ A +AG +D + IL+ +             G + LH        L+ H     I
Sbjct: 14  LGKKLLEAARAGQDDEVRILMANGADVNARDFT---GWTPLH--------LAAHFGHLEI 62
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V +LLK+GA V+ ++ LG+T LH+AA  G+ + +E L++   D +N       TPL  A 
Sbjct: 63  VEVLLKNGADVNAKDSLGVTPLHLAARRGHLEIVEVLLKNGAD-VNASDSHGFTPLHLAA 121
Query: 408 KNDHMVCAEVLLRWGAN 424
           K  H+   EVLL+ GA+
Sbjct: 122 KRGHLEIVEVLLKNGAD 138

>pdb|2XEH|A Chain A, Structural Determinants For Improved Thermal Stability Of Designed Ankyrin Repeat Proteins With A Redesigned C- Capping Module. Length = 157

Iteration: 1
 Score = 60.5 bits (145), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 48/152 (31%), Positives = 75/152 (49%), Gaps = 12/152 (7%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ A +AG +D + IL+ +             G + LH A +       H+    I
Sbjct: 2   LGKKLLEAARAGQDDEVRILMANGADVNAKDKD---GYTPLHLAAREG-----HL---EI 50
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V +LLK GA V+ ++K G T LH+AA  G+ + +E L++   D +N K     TPL  A 
Sbjct: 51  VEVLLKAGADVNAKDKDGYTPLHLAAREGHLEIVEVLLKAGAD-VNAKDKDGYTPLHLAA 109
Query: 408 KNDHMVCAEVLLRWGANSEVLNLRRERPIDFA 439
           +  H+   EVLL+ GA+    +   + P D A
Sbjct: 110 REGHLEIVEVLLKAGADVNAQDKFGKTPFDLA 141

>pdb|2XEE|A Chain A, Structural Determinants For Improved Thermal Stability Of Designed Ankyrin Repeat Proteins With A Redesigned C- Capping Module. Length = 157

Iteration: 1
 Score = 60.5 bits (145), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 48/152 (31%), Positives = 75/152 (49%), Gaps = 12/152 (7%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ A +AG +D + IL+ +             G + LH A +       H+    I
Sbjct: 2   LGKKLLEAARAGQDDEVRILMANGADVNAKDKD---GYTPLHLAAREG-----HL---EI 50
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V +LLK GA V+ ++K G T LH+AA  G+ + +E L++   D +N K     TPL  A 
Sbjct: 51  VEVLLKAGADVNAKDKDGYTPLHLAAREGHLEIVEVLLKAGAD-VNAKDKDGYTPLHLAA 109
Query: 408 KNDHMVCAEVLLRWGANSEVLNLRRERPIDFA 439
           +  H+   EVLL+ GA+    +   + P D A
Sbjct: 110 REGHLEIVEVLLKAGADVNAQDKFGKTPFDLA 141

>pdb|3ZU7|B Chain B, Crystal Structure Of A Designed Selected Ankyrin Repeat Protein In Complex With The Map Kinase Erk2 Length = 169

Iteration: 1
 Score = 59.7 bits (143), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 44/137 (32%), Positives = 70/137 (51%), Gaps = 12/137 (8%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ A +AG +D + IL+ +             G++ LH        L+  I    I
Sbjct: 14  LGKKLLEAARAGQDDEVRILMANGADVNAHDDQ---GSTPLH--------LAAWIGHPEI 62
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V +LLKHGA V+ ++  G T LH+AA +G+ + +E L++   D +N +     TPL  A 
Sbjct: 63  VEVLLKHGADVNARDTDGWTPLHLAADNGHLEIVEVLLKYGAD-VNAQDAYGLTPLHLAA 121
Query: 408 KNDHMVCAEVLLRWGAN 424
              H+   EVLL+ GA+
Sbjct: 122 DRGHLEIVEVLLKHGAD 138

>pdb|2BKG|A Chain A, Crystal Structure Of E3_19 An Designed Ankyrin Repeat Protein Length = 166

Iteration: 1
 Score = 58.5 bits (140), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 43/137 (31%), Positives = 70/137 (51%), Gaps = 12/137 (8%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ A +AG +D + IL+ +             G++ LH A +       H+    I
Sbjct: 14  LGKKLLEAARAGQDDEVRILMANGADVNAEDTY---GDTPLHLAARVG-----HL---EI 62
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V +LLK+GA V+  +  G T LH+AA  G+ + +E L++   D +N    +  TPL  A 
Sbjct: 63  VEVLLKNGADVNALDFSGSTPLHLAAKRGHLEIVEVLLKYGAD-VNADDTIGSTPLHLAA 121
Query: 408 KNDHMVCAEVLLRWGAN 424
              H+   EVLL++GA+
Sbjct: 122 DTGHLEIVEVLLKYGAD 138

>pdb|2QYJ|A Chain A, Crystal Structure Of A Designed Full Consensus Ankyrin Length = 166

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 45/137 (32%), Positives = 70/137 (51%), Gaps = 12/137 (8%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ A +AG +D + IL+ +             G + LH A +       H+    I
Sbjct: 14  LGKKLLEAARAGQDDEVRILMANGADVNAKDKD---GYTPLHLAAREG-----HL---EI 62
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V +LLK GA V+ ++K G T LH+AA  G+ + +E L++   D +N K     TPL  A 
Sbjct: 63  VEVLLKAGADVNAKDKDGYTPLHLAAREGHLEIVEVLLKAGAD-VNAKDKDGYTPLHLAA 121
Query: 408 KNDHMVCAEVLLRWGAN 424
           +  H+   EVLL+ GA+
Sbjct: 122 REGHLEIVEVLLKAGAD 138

>pdb|3NOG|D Chain D, Designed Ankyrin Repeat Protein (Darpin) Binders To Acrb: Plasticity Of The Interface Length = 169

Iteration: 1
 Score = 57.8 bits (138), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 43/137 (31%), Positives = 70/137 (51%), Gaps = 12/137 (8%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ A +AG +D + IL+ +              N++ H    T + L+ +     I
Sbjct: 14  LGKKLLEAARAGQDDEVRILMANGADV----------NASDHVGW-TPLHLAAYFGHLEI 62
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V +LLK+GA V+  + LG+T LH+AA  G+ + +E L++   D +N       TPL  A 
Sbjct: 63  VEVLLKNGADVNADDSLGVTPLHLAADRGHLEVVEVLLKNGAD-VNANDHNGFTPLHLAA 121
Query: 408 KNDHMVCAEVLLRWGAN 424
              H+   EVLL+ GA+
Sbjct: 122 NIGHLEIVEVLLKHGAD 138

>pdb|1MJ0|A Chain A, Sank E3_5: An Artificial Ankyrin Repeat Protein Length = 166

Iteration: 1
 Score = 57.4 bits (137), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 44/137 (32%), Positives = 69/137 (50%), Gaps = 12/137 (8%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ A +AG +D + IL+ +             G + LH A         H+    I
Sbjct: 14  LGKKLLEAARAGQDDEVRILMANGADVNATDND---GYTPLHLAASNG-----HL---EI 62
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V +LLK+GA V+  +  G+T LH+AA +G+ + +E L++   D +N       TPL  A 
Sbjct: 63  VEVLLKNGADVNASDLTGITPLHLAAATGHLEIVEVLLKHGAD-VNAYDNDGHTPLHLAA 121
Query: 408 KNDHMVCAEVLLRWGAN 424
           K  H+   EVLL+ GA+
Sbjct: 122 KYGHLEIVEVLLKHGAD 138

>pdb|1MJ0|A Chain A, Sank E3_5: An Artificial Ankyrin Repeat Protein Length = 166

Iteration: 1
 Score = 48.5 bits (114), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 31/96 (32%), Positives = 50/96 (52%), Gaps = 1/96 (1%)
Query: 344 QNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPL 403
           Q+  V IL+ +GA V+  +  G T LH+AA +G+ + +E L++   D +N   +   TPL
Sbjct: 26  QDDEVRILMANGADVNATDNDGYTPLHLAASNGHLEIVEVLLKNGAD-VNASDLTGITPL 84
Query: 404 FFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFA 439
             A    H+   EVLL+ GA+    +     P+  A
Sbjct: 85  HLAAATGHLEIVEVLLKHGADVNAYDNDGHTPLHLA 120

>pdb|1SVX|A Chain A, Crystal Structure Of A Designed Selected Ankyrin Repeat Protein In Complex With The Maltose Binding Protein Length = 169

Iteration: 1
 Score = 57.4 bits (137), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 45/137 (32%), Positives = 68/137 (49%), Gaps = 12/137 (8%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ A +AG +D + IL+ +             G + LH A       S H+    I
Sbjct: 14  LGRKLLEAARAGQDDEVRILMANGADVNAADNT---GTTPLHLA-----AYSGHL---EI 62
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V +LLKHGA V   +  G T LH+AA  G+ + +E L++   D   + +  M TPL  A 
Sbjct: 63  VEVLLKHGADVDASDVFGYTPLHLAAYWGHLEIVEVLLKNGADVNAMDSDGM-TPLHLAA 121
Query: 408 KNDHMVCAEVLLRWGAN 424
           K  ++   EVLL+ GA+
Sbjct: 122 KWGYLEIVEVLLKHGAD 138

>pdb|1SVX|A Chain A, Crystal Structure Of A Designed Selected Ankyrin Repeat Protein In Complex With The Maltose Binding Protein Length = 169

Iteration: 1
 Score = 47.8 bits (112), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 31/96 (32%), Positives = 51/96 (53%), Gaps = 1/96 (1%)
Query: 344 QNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPL 403
           Q+  V IL+ +GA V+  +  G T LH+AA SG+ + +E L++   D ++   +   TPL
Sbjct: 26  QDDEVRILMANGADVNAADNTGTTPLHLAAYSGHLEIVEVLLKHGAD-VDASDVFGYTPL 84
Query: 404 FFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFA 439
             A    H+   EVLL+ GA+   ++     P+  A
Sbjct: 85  HLAAYWGHLEIVEVLLKNGADVNAMDSDGMTPLHLA 120

>pdb|2J8S|D Chain D, Drug Export Pathway Of Multidrug Exporter Acrb Revealed By Darpin Inhibitors Length = 169

Iteration: 1
 Score = 56.6 bits (135), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 44/137 (32%), Positives = 69/137 (50%), Gaps = 12/137 (8%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ A +AG +D + IL+ +             G + LH        L+ +     I
Sbjct: 14  LGKKLLEAARAGRDDEVRILMANGADVNAADVV---GWTPLH--------LAAYWGHLEI 62
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V +LLK+GA V+  + LG T LH+AA  G+ + +E L++   D +N K     TPL  A 
Sbjct: 63  VEVLLKNGADVNAYDTLGSTPLHLAAHFGHLEIVEVLLKNGAD-VNAKDDNGITPLHLAA 121
Query: 408 KNDHMVCAEVLLRWGAN 424
              H+   EVLL++GA+
Sbjct: 122 NRGHLEIVEVLLKYGAD 138

>pdb|2BKK|B Chain B, Crystal Structure Of Aminoglycoside Phosphotransferase Aph (3')-Iiia In Complex With The Inhibitor Ar_3a Length = 169

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 41/137 (29%), Positives = 69/137 (50%), Gaps = 12/137 (8%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ A +AG +D + IL+ +             G + LH  +        H+    I
Sbjct: 14  LGKKLLEAARAGQDDEVRILMANGADVNANDWF---GITPLHLVVNNG-----HL---EI 62
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           + +LLK+ A V+  +K G T LH+AA  G+ + +E L++   D +N       TPL  A 
Sbjct: 63  IEVLLKYAADVNASDKSGWTPLHLAAYRGHLEIVEVLLKYGAD-VNAMDYQGYTPLHLAA 121
Query: 408 KNDHMVCAEVLLRWGAN 424
           ++ H+   EVLL++GA+
Sbjct: 122 EDGHLEIVEVLLKYGAD 138

>pdb|2BKK|B Chain B, Crystal Structure Of Aminoglycoside Phosphotransferase Aph (3')-Iiia In Complex With The Inhibitor Ar_3a Length = 169

Iteration: 1
 Score = 49.7 bits (117), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 29/96 (30%), Positives = 51/96 (53%), Gaps = 1/96 (1%)
Query: 344 QNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPL 403
           Q+  V IL+ +GA V+  +  G+T LH+   +G+ + +E L++   D +N       TPL
Sbjct: 26  QDDEVRILMANGADVNANDWFGITPLHLVVNNGHLEIIEVLLKYAAD-VNASDKSGWTPL 84
Query: 404 FFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFA 439
             A    H+   EVLL++GA+   ++ +   P+  A
Sbjct: 85  HLAAYRGHLEIVEVLLKYGADVNAMDYQGYTPLHLA 120

>pdb|4DRX|E Chain E, Gtp-Tubulin In Complex With A Darpin Length = 169

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 45/137 (32%), Positives = 70/137 (51%), Gaps = 12/137 (8%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ A +AG +D + IL+ +             G + LH  L  + G   H+    I
Sbjct: 14  LGKKLLEAARAGQDDEVRILMANGADVNATDAS---GLTPLH--LAATYG---HL---EI 62
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V +LLKHGA V+  + +G T LH+AA  G+ + +E L++   D +N      +TPL  A 
Sbjct: 63  VEVLLKHGADVNAIDIMGSTPLHLAALIGHLEIVEVLLKHGAD-VNAVDTWGDTPLHLAA 121
Query: 408 KNDHMVCAEVLLRWGAN 424
              H+   EVLL+ GA+
Sbjct: 122 IMGHLEIVEVLLKHGAD 138

>pdb|4DRX|E Chain E, Gtp-Tubulin In Complex With A Darpin Length = 169

Iteration: 1
 Score = 53.5 bits (127), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 34/96 (35%), Positives = 53/96 (55%), Gaps = 1/96 (1%)
Query: 344 QNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPL 403
           Q+  V IL+ +GA V+  +  GLT LH+AA  G+ + +E L++   D +N   IM  TPL
Sbjct: 26  QDDEVRILMANGADVNATDASGLTPLHLAATYGHLEIVEVLLKHGAD-VNAIDIMGSTPL 84
Query: 404 FFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFA 439
             A    H+   EVLL+ GA+   ++   + P+  A
Sbjct: 85  HLAALIGHLEIVEVLLKHGADVNAVDTWGDTPLHLA 120

>pdb|3UTM|A Chain A, Crystal Structure Of A Mouse Tankyrase-Axin Complex Length = 351

Iteration: 1
 Score = 54.7 bits (130), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/100 (33%), Positives = 53/100 (53%), Gaps = 1/100 (1%)
Query: 346 RIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFF 405
           RIV +LL+HGA V  ++K GL  LH A   G+ +  E L+ K   C+N   +   TPL  
Sbjct: 72  RIVQLLLQHGADVHAKDKGGLVPLHNACSYGHYEVTE-LLLKHGACVNAMDLWQFTPLHE 130
Query: 406 AVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMR 445
           A   + +    +LL  GA+  ++N   +  +D A + ++R
Sbjct: 131 AASKNRVEVCSLLLSHGADPTLVNCHGKSAVDMAPTPELR 170

>pdb|4ATZ|D Chain D, Ad5 Knob In Complex With A Designed Ankyrin Repeat Protein Length = 154

Iteration: 1
 Score = 54.3 bits (129), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 41/137 (29%), Positives = 70/137 (51%), Gaps = 12/137 (8%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ A +AG +D + IL+ +              N+  H   +T + ++  +    I
Sbjct: 2   LGKKLLEAARAGQDDEVRILMANGAD----------ANAYDHYG-RTPLHMAAAVGHLEI 50
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V +LL++GA V+  +  G T LH+AA  G+ + +E L++   D +N K     TPL+ A 
Sbjct: 51  VEVLLRNGADVNAVDTNGTTPLHLAASLGHLEIVEVLLKYGAD-VNAKDATGITPLYLAA 109
Query: 408 KNDHMVCAEVLLRWGAN 424
              H+   EVLL+ GA+
Sbjct: 110 YWGHLEIVEVLLKHGAD 126

>pdb|4DUI|A Chain A, Darpin D1 Binding To Tubulin Beta Chain (not In Complex) Length = 169

Iteration: 1
 Score = 53.5 bits (127), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 45/137 (32%), Positives = 69/137 (50%), Gaps = 12/137 (8%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ A +AG +D + IL+ +             G + LH  L  + G   H+    I
Sbjct: 14  LGKKLLEAARAGQDDEVRILMANGADVNATDAS---GLTPLH--LAATYG---HL---EI 62
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V +LLKHGA V+  +  G T LH+AA  G+ + +E L++   D +N      +TPL  A 
Sbjct: 63  VEVLLKHGADVNAIDIXGSTPLHLAALIGHLEIVEVLLKHGAD-VNAVDTWGDTPLHLAA 121
Query: 408 KNDHMVCAEVLLRWGAN 424
              H+   EVLL+ GA+
Sbjct: 122 IMGHLEIVEVLLKHGAD 138

>pdb|4DUI|A Chain A, Darpin D1 Binding To Tubulin Beta Chain (not In Complex) Length = 169

Iteration: 1
 Score = 50.8 bits (120), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 33/96 (34%), Positives = 52/96 (54%), Gaps = 1/96 (1%)
Query: 344 QNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPL 403
           Q+  V IL+ +GA V+  +  GLT LH+AA  G+ + +E L++   D +N   I   TPL
Sbjct: 26  QDDEVRILMANGADVNATDASGLTPLHLAATYGHLEIVEVLLKHGAD-VNAIDIXGSTPL 84
Query: 404 FFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFA 439
             A    H+   EVLL+ GA+   ++   + P+  A
Sbjct: 85  HLAALIGHLEIVEVLLKHGADVNAVDTWGDTPLHLA 120

>pdb|1N11|A Chain A, D34 Region Of Human Ankyrin-R And Linker Length = 437

Iteration: 1
 Score = 53.5 bits (127), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 43/166 (25%), Positives = 76/166 (45%), Gaps = 14/166 (8%)
Query: 275 FGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKT 334
           +G  AN          PL LA Q G  +++ +LL  +            G + LH   + 
Sbjct: 234 YGGSANAESVQGVT--PLHLAAQEGHAEMVALLLSKQANGNLGNKS---GLTPLHLVAQE 288
Query: 335 SMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINL 394
                 H+    +  +L+KHG +V    ++G T LH+A+  GN + ++ L++ + D +N 
Sbjct: 289 G-----HV---PVADVLIKHGVMVDATTRMGYTPLHVASHYGNIKLVKFLLQHQAD-VNA 339
Query: 395 KTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAK 440
           KT +  +PL  A +  H     +LL+ GA+   ++     P+  AK
Sbjct: 340 KTKLGYSPLHQAAQQGHTDIVTLLLKNGASPNEVSSDGTTPLAIAK 385

>pdb|1N0R|A Chain A, 4ank: A Designed Ankyrin Repeat Protein With Four Identical Consensus Repeats Length = 126

Iteration: 1
 Score = 53.1 bits (126), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 41/133 (30%), Positives = 69/133 (51%), Gaps = 12/133 (9%)
Query: 291 PLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL LA + G  +V+++LL++             G + LH A +       H+    +V +
Sbjct: 5   PLHLAARNGHLEVVKLLLEAGADVNAKDKN---GRTPLHLAARNG-----HL---EVVKL 53
Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LL+ GA V+ ++K G T LH+AA +G+ + ++ L+    D +N K     TPL  A +N 
Sbjct: 54  LLEAGADVNAKDKNGRTPLHLAARNGHLEVVKLLLEAGAD-VNAKDKNGRTPLHLAARNG 112
Query: 411 HMVCAEVLLRWGA 423
           H+   ++LL  GA
Sbjct: 113 HLEVVKLLLEAGA 125

>pdb|3C5R|A Chain A, Crystal Structure Of The Bard1 Ankyrin Repeat Domain And Its Functional Consequences Length = 137

Iteration: 1
 Score = 52.4 bits (124), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 30/101 (29%), Positives = 56/101 (55%), Gaps = 1/101 (0%)
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V  LL++G+  + ++  G T LH A   G+ + +E L++ +   +N      ++PL  A 
Sbjct: 26  VEYLLQNGSDPNVKDHAGWTPLHEACNHGHLKVVELLLQHKA-LVNTTGYQNDSPLHDAA 84
Query: 408 KNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLL 448
           KN H+   ++LL +GA+   +N+   RP+D+   + M+ LL
Sbjct: 85  KNGHVDIVKLLLSYGASRNAVNIFGLRPVDYTDDESMKSLL 125

>pdb|4HB5|A Chain A, Crystal Structure Of Engineered Protein. Northeast Structural Genomics Consortium Target Or267. Length = 169

Iteration: 1
 Score = 52.4 bits (124), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 44/163 (26%), Positives = 75/163 (46%), Gaps = 12/163 (7%)
Query: 287 KVGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNR 346
           ++G  LI A + G++D ++ LL++             G + LH A +             
Sbjct: 3   ELGKRLIEAAENGNKDRVKDLLEN---GADPNASDSDGRTPLHYAAENG--------HKE 51
Query: 347 IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFA 406
           IV +LL  GA  + ++  G T LH AA +G+ + ++ L+ K  D  N K     TPL +A
Sbjct: 52  IVKLLLSKGADPNAKDSDGRTPLHYAAENGHKEIVKLLLSKGADP-NAKDSDGRTPLHYA 110
Query: 407 VKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLK 449
            +N H    ++LL  GA+    +     P+D A+      ++K
Sbjct: 111 AENGHKEIVKLLLSKGADPNTSDSDGRTPLDLAREHGNEEIVK 153

>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear Ribonucleaoproteins A2B1 Length = 116

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 36/87 (41%), Positives = 50/87 (57%), Gaps = 4/87 (4%)
Query: 544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEK 603
           ++F+ K+F+GGL F    +SL  Y+E  +G + D  V      K+S  RGFGFVTF    
Sbjct: 25  EQFR-KLFIGGLSFETTEESLRNYYE-QWGKLTDCVVMRDPASKRS--RGFGFVTFSSMA 80
Query: 604 SAAAAVQARFVTIMGKEVEIKSAVPKE 630
              AA+ AR  +I G+ VE K AV +E
Sbjct: 81  EVDAAMAARPHSIDGRVVEPKRAVARE 107

>pdb|3Q9U|C Chain C, In Silico And In Vitro Co-Evolution Of A High Affinity Complementary Protein-Protein Interface Length = 158

Iteration: 1
 Score = 51.6 bits (122), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 42/139 (30%), Positives = 66/139 (47%), Gaps = 12/139 (8%)
Query: 286 KKVGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQN 345
           + +G  L+ A  AG +D + IL+ +             G + LH A            Q 
Sbjct: 4   QDLGKKLLEAAAAGQDDEVRILMANGADVNATDDN---GLTPLHLAAANG--------QL 52
Query: 346 RIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFF 405
            IV +LLK+GA V+  +  G+T LH+AA  G+ + +E L++   D +N       TPL  
Sbjct: 53  EIVEVLLKNGADVNASDSAGITPLHLAAYDGHLEIVEVLLKHGAD-VNAYDRAGWTPLHL 111
Query: 406 AVKNDHMVCAEVLLRWGAN 424
           A  +  +   EVLL+ GA+
Sbjct: 112 AALSGQLEIVEVLLKHGAD 130

>pdb|3Q9U|C Chain C, In Silico And In Vitro Co-Evolution Of A High Affinity Complementary Protein-Protein Interface Length = 158

Iteration: 1
 Score = 48.5 bits (114), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 32/96 (33%), Positives = 50/96 (52%), Gaps = 1/96 (1%)
Query: 344 QNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPL 403
           Q+  V IL+ +GA V+  +  GLT LH+AA +G  + +E L++   D +N       TPL
Sbjct: 18  QDDEVRILMANGADVNATDDNGLTPLHLAAANGQLEIVEVLLKNGAD-VNASDSAGITPL 76
Query: 404 FFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFA 439
             A  + H+   EVLL+ GA+    +     P+  A
Sbjct: 77  HLAAYDGHLEIVEVLLKHGADVNAYDRAGWTPLHLA 112

>pdb|2Y0B|G Chain G, Caspase-3 In Complex With An Inhibitory Darpin-3.4_s76r Length = 136

Iteration: 1
 Score = 51.2 bits (121), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 30/81 (37%), Positives = 47/81 (58%), Gaps = 1/81 (1%)
Query: 344 QNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPL 403
           Q+  V IL+ +GA V+  +  G+T LH+AA  G+ + +E L++   D +N + I   TPL
Sbjct: 26  QDDEVRILMANGADVNAMDDAGVTPLHLAAKRGHLEIVEVLLKHGAD-VNARDIWGRTPL 84
Query: 404 FFAVKNDHMVCAEVLLRWGAN 424
             A    H+   EVLL +GA+
Sbjct: 85  HLAATVGHLEIVEVLLEYGAD 105

>pdb|2Y1L|E Chain E, Caspase-8 In Complex With Darpin-8.4 Length = 169

Iteration: 1
 Score = 50.8 bits (120), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 42/137 (30%), Positives = 68/137 (49%), Gaps = 12/137 (8%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ A +AG +D + IL+ +             G + LH A       + H+    I
Sbjct: 14  LGKKLLEAARAGRDDEVRILMANGADVNAEDAS---GWTPLHLA-----AFNGHL---EI 62
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V +LLK+GA V+  +  G+T L +AA  G+ + +E L++   D +N   +   TPL  A 
Sbjct: 63  VEVLLKNGADVNAVDHAGMTPLRLAALFGHLEIVEVLLKNGAD-VNANDMEGHTPLHLAA 121
Query: 408 KNDHMVCAEVLLRWGAN 424
              H+   EVLL+ GA+
Sbjct: 122 MFGHLEIVEVLLKNGAD 138

>pdb|2Y1L|E Chain E, Caspase-8 In Complex With Darpin-8.4 Length = 169

Iteration: 1
 Score = 44.3 bits (103), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 30/92 (32%), Positives = 49/92 (53%), Gaps = 1/92 (1%)
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V IL+ +GA V+ ++  G T LH+AA +G+ + +E L++   D +N       TPL  A 
Sbjct: 30  VRILMANGADVNAEDASGWTPLHLAAFNGHLEIVEVLLKNGAD-VNAVDHAGMTPLRLAA 88
Query: 408 KNDHMVCAEVLLRWGANSEVLNLRRERPIDFA 439
              H+   EVLL+ GA+    ++    P+  A
Sbjct: 89  LFGHLEIVEVLLKNGADVNANDMEGHTPLHLA 120

>pdb|4GPM|A Chain A, Crystal Structure Of Engineered Protein. Northeast Structural Genomics Consortium Target Or264. Length = 169

Iteration: 1
 Score = 50.8 bits (120), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 42/163 (25%), Positives = 76/163 (46%), Gaps = 12/163 (7%)
Query: 287 KVGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNR 346
           ++G  LI A + G++D ++ L+++             G + LH A +             
Sbjct: 3   ELGKRLIEAAENGNKDRVKDLIEN---GADVNASDSDGRTPLHHAAENG--------HKE 51
Query: 347 IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFA 406
           +V +L+  GA V+ ++  G T LH AA +G+ + ++ LI K  D +N K     TPL  A
Sbjct: 52  VVKLLISKGADVNAKDSDGRTPLHHAAENGHKEVVKLLISKGAD-VNAKDSDGRTPLHHA 110
Query: 407 VKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLK 449
            +N H    ++L+  GA+    +     P+D A+      ++K
Sbjct: 111 AENGHKEVVKLLISKGADVNTSDSDGRTPLDLAREHGNEEVVK 153

>pdb|4HQD|A Chain A, Crystal Structure Of Engineered Protein. Northeast Structural Genomics Consortium Target Or265. Length = 169

Iteration: 1
 Score = 50.8 bits (120), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 44/163 (26%), Positives = 75/163 (46%), Gaps = 12/163 (7%)
Query: 287 KVGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNR 346
           ++G  LI A + G++D ++ L+++             G + LH A K             
Sbjct: 3   ELGKRLIEAAENGNKDRVKDLIENGADVNASDSD---GRTPLHYAAKEG--------HKE 51
Query: 347 IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFA 406
           IV +L+  GA V+ ++  G T LH AA  G+ + ++ LI K  D +N K     TPL +A
Sbjct: 52  IVKLLISKGADVNAKDSDGRTPLHYAAKEGHKEIVKLLISKGAD-VNAKDSDGRTPLHYA 110
Query: 407 VKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLK 449
            K  H    ++L+  GA+    +     P+D A+      ++K
Sbjct: 111 AKEGHKEIVKLLISKGADVNTSDSDGRTPLDLAREHGNEEIVK 153

>pdb|4GMR|A Chain A, Crystal Structure Of Engineered Protein. Northeast Structural Genomics Consortium Target Or266. Length = 169

Iteration: 1
 Score = 50.4 bits (119), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 42/163 (25%), Positives = 76/163 (46%), Gaps = 12/163 (7%)
Query: 287 KVGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNR 346
           ++G  LI A + G++D ++ LL++             G + LH A +             
Sbjct: 3   ELGKRLIEAAENGNKDRVKDLLEN---GADVNASDSDGKTPLHLAAENG--------HKE 51
Query: 347 IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFA 406
           +V +LL  GA  + ++  G T LH+AA +G+ + ++ L+ +  D  N K    +TPL  A
Sbjct: 52  VVKLLLSQGADPNAKDSDGKTPLHLAAENGHKEVVKLLLSQGADP-NAKDSDGKTPLHLA 110
Query: 407 VKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLK 449
            +N H    ++LL  GA+    +     P+D A+      ++K
Sbjct: 111 AENGHKEVVKLLLSQGADPNTSDSDGRTPLDLAREHGNEEVVK 153

>pdb|2XZD|G Chain G, Caspase-3 In Complex With An Inhibitory Darpin-3.4 Length = 136

Iteration: 1
 Score = 50.1 bits (118), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 30/81 (37%), Positives = 46/81 (56%), Gaps = 1/81 (1%)
Query: 344 QNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPL 403
           Q+  V IL+ +GA V+  +  G+T LH+AA  G+ + +E L++   D +N   I   TPL
Sbjct: 26  QDDEVRILMANGADVNAMDDAGVTPLHLAAKRGHLEIVEVLLKHGAD-VNASDIWGRTPL 84
Query: 404 FFAVKNDHMVCAEVLLRWGAN 424
             A    H+   EVLL +GA+
Sbjct: 85  HLAATVGHLEIVEVLLEYGAD 105

>pdb|3HG0|D Chain D, Crystal Structure Of A Darpin In Complex With Orf49 From Lactococcal Phage Tp901-1 Length = 136

Iteration: 1
 Score = 50.1 bits (118), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 30/81 (37%), Positives = 49/81 (60%), Gaps = 1/81 (1%)
Query: 344 QNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPL 403
           Q+  V IL+ +GA V+ ++K+GLT LH+AA + + + +E L++   D +N    + ETPL
Sbjct: 26  QDDEVRILMANGADVNAEDKVGLTPLHLAAMNDHLEIVEVLLKNGAD-VNAIDAIGETPL 84
Query: 404 FFAVKNDHMVCAEVLLRWGAN 424
                  H+   EVLL+ GA+
Sbjct: 85  HLVAMYGHLEIVEVLLKHGAD 105

>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna- Binding Region Containing Protein 1 Length = 116

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 33/80 (41%), Positives = 45/80 (56%), Gaps = 5/80 (6%)
Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAA 606
           +KIFVGGLP+     SL  YFE  FG IE+A V    T++Q+  SRG+GFVT     +A 
Sbjct: 18  TKIFVGGLPYHTTDASLRKYFEG-FGDIEEAVVI---TDRQTGKSRGYGFVTMADRAAAE 73
Query: 607 AAVQARFVTIMGKEVEIKSA 626
            A +     I G++  +  A
Sbjct: 74  RACKDPNPIIDGRKANVNLA 93

>pdb|1L3K|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1 Length = 196

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 33/82 (40%), Positives = 47/82 (57%), Gaps = 3/82 (3%)
Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+F+GGL F    +SL  +FE+ +G + D  V      K+S  RGFGFVT+   +   AA
Sbjct: 15  KLFIGGLSFETTDESLRSHFEQ-WGTLTDCVVMRDPNTKRS--RGFGFVTYATVEEVDAA 71
Query: 609 VQARFVTIMGKEVEIKSAVPKE 630
           + AR   + G+ VE K AV +E
Sbjct: 72  MNARPHKVDGRVVEPKRAVSRE 93

>pdb|1PGZ|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(6-Mi) G); A Human Telomeric Repeat Containing 6-Methyl-8-(2- Deoxy-Beta-Ribofuranosyl)isoxanthopteridine (6-Mi) Length = 195

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 33/82 (40%), Positives = 47/82 (57%), Gaps = 3/82 (3%)
Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+F+GGL F    +SL  +FE+ +G + D  V      K+S  RGFGFVT+   +   AA
Sbjct: 14  KLFIGGLSFETTDESLRSHFEQ-WGTLTDCVVMRDPNTKRS--RGFGFVTYATVEEVDAA 70
Query: 609 VQARFVTIMGKEVEIKSAVPKE 630
           + AR   + G+ VE K AV +E
Sbjct: 71  MNARPHKVDGRVVEPKRAVSRE 92

>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens Length = 184

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 33/82 (40%), Positives = 47/82 (57%), Gaps = 3/82 (3%)
Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+F+GGL F    +SL  +FE+ +G + D  V      K+S  RGFGFVT+   +   AA
Sbjct: 15  KLFIGGLSFETTDESLRSHFEQ-WGTLTDCVVMRDPNTKRS--RGFGFVTYATVEEVDAA 71
Query: 609 VQARFVTIMGKEVEIKSAVPKE 630
           + AR   + G+ VE K AV +E
Sbjct: 72  MNARPHKVDGRVVEPKRAVSRE 93

>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1 Length = 182

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 33/82 (40%), Positives = 47/82 (57%), Gaps = 3/82 (3%)
Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+F+GGL F    +SL  +FE+ +G + D  V      K+S  RGFGFVT+   +   AA
Sbjct: 13  KLFIGGLSFETTDESLRSHFEQ-WGTLTDCVVMRDPNTKRS--RGFGFVTYATVEEVDAA 69
Query: 609 VQARFVTIMGKEVEIKSAVPKE 630
           + AR   + G+ VE K AV +E
Sbjct: 70  MNARPHKVDGRVVEPKRAVSRE 91

>pdb|2UP1|A Chain A, Structure Of Up1-Telomeric Dna Complex Length = 183

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 33/82 (40%), Positives = 47/82 (57%), Gaps = 3/82 (3%)
Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+F+GGL F    +SL  +FE+ +G + D  V      K+S  RGFGFVT+   +   AA
Sbjct: 8   KLFIGGLSFETTDESLRSHFEQ-WGTLTDCVVMRDPNTKRS--RGFGFVTYATVEEVDAA 64
Query: 609 VQARFVTIMGKEVEIKSAVPKE 630
           + AR   + G+ VE K AV +E
Sbjct: 65  MNARPHKVDGRVVEPKRAVSRE 86

>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1 (up1) Using Segmental Isotope Labeling Length = 197

Iteration: 1
 Score = 48.9 bits (115), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 33/82 (40%), Positives = 47/82 (57%), Gaps = 3/82 (3%)
Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+F+GGL F    +SL  +FE+ +G + D  V      K+S  RGFGFVT+   +   AA
Sbjct: 16  KLFIGGLSFETTDESLRSHFEQ-WGTLTDCVVMRDPNTKRS--RGFGFVTYATVEEVDAA 72
Query: 609 VQARFVTIMGKEVEIKSAVPKE 630
           + AR   + G+ VE K AV +E
Sbjct: 73  MNARPHKVDGRVVEPKRAVSRE 94

>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In Daz-Associated Protein 1 Length = 105

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 27/81 (33%), Positives = 44/81 (54%), Gaps = 3/81 (3%)
Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+FVGGL +    ++L  YF + +G + D  + + +T  QS  RGFGFV FK        
Sbjct: 18  KLFVGGLDWSTTQETLRSYFSQ-YGEVVDCVIMKDKTTNQS--RGFGFVKFKDPNCVGTV 74
Query: 609 VQARFVTIMGKEVEIKSAVPK 629
           + +R  T+ G+ ++ K   P+
Sbjct: 75  LASRPHTLDGRNIDPKPCTPR 95

>pdb|2JAB|A Chain A, A Designed Ankyrin Repeat Protein Evolved To Picomolar Affinity To Her2 Length = 136

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 33/94 (35%), Positives = 47/94 (50%), Gaps = 11/94 (11%)
Query: 291 PLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL LAT  G  +++E+LLK+               +A+     T + L+  I    I  +
Sbjct: 50  PLYLATAHGHLEIVEVLLKNGADV-----------NAVDAIGFTPLHLAAFIGHLEIAEV 98
Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDL 384
           LLKHGA V+ Q+K G TA  I+ G+GN    E L
Sbjct: 99  LLKHGADVNAQDKFGKTAFDISIGNGNEDLAEIL 132

>pdb|2JAB|A Chain A, A Designed Ankyrin Repeat Protein Evolved To Picomolar Affinity To Her2 Length = 136

Iteration: 1
 Score = 46.6 bits (109), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 29/81 (35%), Positives = 48/81 (59%), Gaps = 1/81 (1%)
Query: 344 QNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPL 403
           Q+  V IL+ +GA V+ +++ GLT L++A   G+ + +E L++   D +N    +  TPL
Sbjct: 26  QDDEVRILMANGADVNAKDEYGLTPLYLATAHGHLEIVEVLLKNGAD-VNAVDAIGFTPL 84
Query: 404 FFAVKNDHMVCAEVLLRWGAN 424
             A    H+  AEVLL+ GA+
Sbjct: 85  HLAAFIGHLEIAEVLLKHGAD 105

>pdb|2XZT|G Chain G, Caspase-3 In Complex With Darpin-3.4_i78s Length = 136

Iteration: 1
 Score = 47.8 bits (112), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 40/131 (30%), Positives = 64/131 (48%), Gaps = 12/131 (9%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ AT+AG +D + IL+ +             G + LH A K       H+    I
Sbjct: 14  LGKKLLEATRAGQDDEVRILMANGADVNAMDDA---GVTPLHLAAKRG-----HL---EI 62
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V +LLKHGA V+  +  G T LH+AA  G+ + +E L+    D +N +    +T    ++
Sbjct: 63  VEVLLKHGADVNASDSWGRTPLHLAATVGHLEIVEVLLEYGAD-VNAQDKFGKTAFDISI 121
Query: 408 KNDHMVCAEVL 418
            N +   AE+L
Sbjct: 122 DNGNEDLAEIL 132

>pdb|2XZT|G Chain G, Caspase-3 In Complex With Darpin-3.4_i78s Length = 136

Iteration: 1
 Score = 47.4 bits (111), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 1/81 (1%)
Query: 344 QNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPL 403
           Q+  V IL+ +GA V+  +  G+T LH+AA  G+ + +E L++   D +N       TPL
Sbjct: 26  QDDEVRILMANGADVNAMDDAGVTPLHLAAKRGHLEIVEVLLKHGAD-VNASDSWGRTPL 84
Query: 404 FFAVKNDHMVCAEVLLRWGAN 424
             A    H+   EVLL +GA+
Sbjct: 85  HLAATVGHLEIVEVLLEYGAD 105

>pdb|1N0Q|A Chain A, 3ank: A Designed Ankyrin Repeat Protein With Three Identical Consensus Repeats Length = 93

Iteration: 1
 Score = 47.4 bits (111), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 33/100 (33%), Positives = 54/100 (54%), Gaps = 9/100 (9%)
Query: 324 GNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALED 383
           G + LH A +       H+    +V +LL+ GA V+ ++K G T LH+AA +G+ + ++ 
Sbjct: 2   GRTPLHLAARNG-----HL---EVVKLLLEAGADVNAKDKNGRTPLHLAARNGHLEVVKL 53
Query: 384 LIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGA 423
           L+    D +N K     TPL  A +N H+   ++LL  GA
Sbjct: 54  LLEAGAD-VNAKDKNGRTPLHLAARNGHLEVVKLLLEAGA 92

>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr Length = 75

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 30/77 (38%), Positives = 40/77 (51%), Gaps = 3/77 (3%)
Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           IFVGGL      + +  YFE+ FG ++DA +   +T  +   RGFGFVTF+ E       
Sbjct: 2   IFVGGLSVNTTVEDVKHYFEQ-FGKVDDAMLMFDKTTNRH--RGFGFVTFESEDIVEKVC 58
Query: 610 QARFVTIMGKEVEIKSA 626
           +  F  I  K VE K A
Sbjct: 59  EIHFHEINNKMVECKKA 75

>pdb|3ZUV|B Chain B, Crystal Structure Of A Designed Selected Ankyrin Repeat Protein In Complex With The Phosphorylated Map Kinase Erk2 Length = 136

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 36/131 (27%), Positives = 66/131 (50%), Gaps = 12/131 (9%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ A +AG +D + IL+ +               +AL     T + L+  +    I
Sbjct: 14  LGKKLLEAARAGQDDEVRILMANGADV-----------NALDEDGLTPLHLAAQLGHLEI 62
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V +LLK+GA V+ ++  G+T LH+AA  G+ + +E L++   D +N +    +T    ++
Sbjct: 63  VEVLLKYGADVNAEDNFGITPLHLAAIRGHLEIVEVLLKHGAD-VNAQDKFGKTAFDISI 121
Query: 408 KNDHMVCAEVL 418
            N +   AE+L
Sbjct: 122 DNGNEDLAEIL 132

>pdb|3ZUV|B Chain B, Crystal Structure Of A Designed Selected Ankyrin Repeat Protein In Complex With The Phosphorylated Map Kinase Erk2 Length = 136

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 30/81 (37%), Positives = 47/81 (58%), Gaps = 1/81 (1%)
Query: 344 QNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPL 403
           Q+  V IL+ +GA V+  ++ GLT LH+AA  G+ + +E L++   D +N +     TPL
Sbjct: 26  QDDEVRILMANGADVNALDEDGLTPLHLAAQLGHLEIVEVLLKYGAD-VNAEDNFGITPL 84
Query: 404 FFAVKNDHMVCAEVLLRWGAN 424
             A    H+   EVLL+ GA+
Sbjct: 85  HLAAIRGHLEIVEVLLKHGAD 105

>pdb|2V4H|C Chain C, Nemo Cc2-Lz Domain - 1d5 Darpin Complex Length = 136

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 39/131 (29%), Positives = 64/131 (48%), Gaps = 12/131 (9%)
Query: 288 VGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRI 347
           +G  L+ A +AG +D + IL+ +             GN+ LH A         H+    I
Sbjct: 14  LGKKLLEAARAGQDDEVRILMANGADVNANDRK---GNTPLHLAADYD-----HL---EI 62
Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           V +LLKHGA V+  +  G T LH+AA  G+ + +E L++   D +N +    +T    ++
Sbjct: 63  VEVLLKHGADVNAHDNDGSTPLHLAALFGHLEIVEVLLKHGAD-VNAQDKFGKTAFDISI 121
Query: 408 KNDHMVCAEVL 418
            N +   AE+L
Sbjct: 122 DNGNEDLAEIL 132

>pdb|2CJK|A Chain A, Structure Of The Rna Binding Domain Of Hrp1 In Complex With Rna Length = 167

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 26/82 (31%), Positives = 47/82 (57%), Gaps = 4/82 (4%)
Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+F+GGL +    D+L  YF K +G + D ++   +      SRGFGF++F+   S    
Sbjct: 5   KMFIGGLNWDTTEDNLREYFGK-YGTVTDLKI--MKDPATGRSRGFGFLSFEKPSSVDEV 61
Query: 609 VQARFVTIMGKEVEIKSAVPKE 630
           V+ + + + GK ++ K A+P++
Sbjct: 62  VKTQHI-LDGKVIDPKRAIPRD 82

>pdb|4GRG|A Chain A, Crystal Structure Of Ige Complexed With E2_79, An Anti-Ige Inhibitor Length = 135

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 33/94 (35%), Positives = 46/94 (48%), Gaps = 11/94 (11%)
Query: 291 PLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL LA   G  +++E+LLK+             G + LH A       + H+    IV +
Sbjct: 50  PLHLAAMLGHLEIVEVLLKNGADVNATGNT---GRTPLHLA-----AWADHL---EIVEV 98
Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDL 384
           LLKHGA V+ Q+K G TA  I+  +GN    E L
Sbjct: 99  LLKHGADVNAQDKFGKTAFDISIDNGNEDLAEIL 132

>pdb|4GRG|A Chain A, Crystal Structure Of Ige Complexed With E2_79, An Anti-Ige Inhibitor Length = 135

Iteration: 1
 Score = 44.7 bits (104), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 30/81 (37%), Positives = 44/81 (54%), Gaps = 1/81 (1%)
Query: 344 QNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPL 403
           Q+  V IL  +GA V+  +  G T LH+AA  G+ + +E L++   D +N       TPL
Sbjct: 26  QDDEVRILTANGADVNANDYWGHTPLHLAAMLGHLEIVEVLLKNGAD-VNATGNTGRTPL 84
Query: 404 FFAVKNDHMVCAEVLLRWGAN 424
             A   DH+   EVLL+ GA+
Sbjct: 85  HLAAWADHLEIVEVLLKHGAD 105

>pdb|3TWU|A Chain A, Crystal Structure Of Arc4 From Human Tankyrase 2 In Complex With Peptide From Human Mcl1 Length = 167

Iteration: 1
 Score = 43.5 bits (101), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 33/98 (33%), Positives = 50/98 (51%), Gaps = 3/98 (3%)
Query: 347 IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLF-F 405
           +V  LL+HGA V  ++K GL  LH A   G+ +  E L+ K    +N+  +   TPL   
Sbjct: 59  VVEYLLQHGADVHAKDKGGLVPLHNACSYGHYEVAE-LLVKHGAVVNVADLWKFTPLHEA 117
Query: 406 AVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQD 443
           A K  + +C ++LL+ GA+    N     P+D  K  D
Sbjct: 118 AAKGKYEIC-KLLLQHGADPTKKNRDGNTPLDLVKDGD 154

>pdb|3TWR|A Chain A, Crystal Structure Of Arc4 From Human Tankyrase 2 In Complex With Peptide From Human 3bp2 Length = 165

Iteration: 1
 Score = 43.5 bits (101), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 33/98 (33%), Positives = 50/98 (51%), Gaps = 3/98 (3%)
Query: 347 IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLF-F 405
           +V  LL+HGA V  ++K GL  LH A   G+ +  E L+ K    +N+  +   TPL   
Sbjct: 57  VVEYLLQHGADVHAKDKGGLVPLHNACSYGHYEVAE-LLVKHGAVVNVADLWKFTPLHEA 115
Query: 406 AVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQD 443
           A K  + +C ++LL+ GA+    N     P+D  K  D
Sbjct: 116 AAKGKYEIC-KLLLQHGADPTKKNRDGNTPLDLVKDGD 152

>pdb|3TWQ|A Chain A, Crystal Structure Of Arc4 From Human Tankyrase 2 (Apo Form) Length = 175

Iteration: 1
 Score = 43.5 bits (101), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 33/98 (33%), Positives = 50/98 (51%), Gaps = 3/98 (3%)
Query: 347 IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLF-F 405
           +V  LL+HGA V  ++K GL  LH A   G+ +  E L+ K    +N+  +   TPL   
Sbjct: 61  VVEYLLQHGADVHAKDKGGLVPLHNACSYGHYEVAE-LLVKHGAVVNVADLWKFTPLHEA 119
Query: 406 AVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQD 443
           A K  + +C ++LL+ GA+    N     P+D  K  D
Sbjct: 120 AAKGKYEIC-KLLLQHGADPTKKNRDGNTPLDLVKDGD 156

>pdb|1AWC|B Chain B, Mouse Gabp AlphaBETA DOMAIN BOUND TO DNA Length = 153

Iteration: 1
 Score = 43.1 bits (100), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 43/143 (30%), Positives = 67/143 (46%), Gaps = 14/143 (9%)
Query: 278 VANGS--CTDKKVGPPLILATQAGDEDVIEILLKSKXXXXXXXXXXXXGNSALHCALKTS 335
           +ANG+   TD     PL LA Q G     E+LL++               + LH A   S
Sbjct: 22  MANGAPFTTDWLGTSPLHLAAQYGHFSTTEVLLRAGVSRDARTKVD---RTPLHMA--AS 76
Query: 336 MGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLK 395
            G         IV +LLKHGA V+ ++ L +TALH A    + + +E LI+   D ++ +
Sbjct: 77  EG------HANIVEVLLKHGADVNAKDMLKMTALHWATEHNHQEVVELLIKYGAD-VHTQ 129
Query: 396 TIMMETPLFFAVKNDHMVCAEVL 418
           +   +T    ++ N +   AE+L
Sbjct: 130 SKFCKTAFDISIDNGNEDLAEIL 152

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	1044
1n11_A	437	Ankyrin; clathrin, BAND 3, anion exchanger, struct	7e-28
1n11_A	437	Ankyrin; clathrin, BAND 3, anion exchanger, struct	4e-26
1n11_A	437	Ankyrin; clathrin, BAND 3, anion exchanger, struct	1e-25
1n11_A	437	Ankyrin; clathrin, BAND 3, anion exchanger, struct	2e-22
1n11_A	437	Ankyrin; clathrin, BAND 3, anion exchanger, struct	4e-21
1n11_A	437	Ankyrin; clathrin, BAND 3, anion exchanger, struct	4e-17
1n11_A	437	Ankyrin; clathrin, BAND 3, anion exchanger, struct	3e-16
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	1e-24
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	9e-24
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	1e-23
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	2e-20
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	1e-19
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	7e-16
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	3e-10
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	2e-08
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	1e-23
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	2e-22
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	3e-18
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	3e-15
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	8e-14
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	9e-08
3twr_A	165	Tankyrase-2; ankyrin repeat, protein-protein inter	2e-23
3twr_A	165	Tankyrase-2; ankyrin repeat, protein-protein inter	4e-17
3twr_A	165	Tankyrase-2; ankyrin repeat, protein-protein inter	1e-05
3f6q_A	179	Integrin-linked protein kinase; ILK, integrin-link	3e-23
3f6q_A	179	Integrin-linked protein kinase; ILK, integrin-link	2e-22
3f6q_A	179	Integrin-linked protein kinase; ILK, integrin-link	2e-16
3f6q_A	179	Integrin-linked protein kinase; ILK, integrin-link	3e-14
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	4e-23
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	2e-21
2dzn_A	228	Probable 26S proteasome regulatory subunit P28; an	4e-23
2dzn_A	228	Probable 26S proteasome regulatory subunit P28; an	4e-20
2dzn_A	228	Probable 26S proteasome regulatory subunit P28; an	4e-11
2dzn_A	228	Probable 26S proteasome regulatory subunit P28; an	1e-06
1awc_B	153	Protein (GA binding protein beta 1); complex (tran	6e-23
1awc_B	153	Protein (GA binding protein beta 1); complex (tran	1e-19
1awc_B	153	Protein (GA binding protein beta 1); complex (tran	3e-14
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	8e-23
3ljn_A	364	Hypothetical protein; ankyrin, structural genomics	9e-23
3ljn_A	364	Hypothetical protein; ankyrin, structural genomics	3e-16
3ljn_A	364	Hypothetical protein; ankyrin, structural genomics	1e-15
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	1e-22
3v31_A	167	Ankyrin repeat family A protein 2; structural geno	1e-22
3v31_A	167	Ankyrin repeat family A protein 2; structural geno	7e-22
3v31_A	167	Ankyrin repeat family A protein 2; structural geno	8e-15
3v31_A	167	Ankyrin repeat family A protein 2; structural geno	7e-08
3v31_A	167	Ankyrin repeat family A protein 2; structural geno	1e-06
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	1e-22
2f8y_A	223	Notch homolog 1, translocation-associated (drosoph	1e-22
2f8y_A	223	Notch homolog 1, translocation-associated (drosoph	4e-22
2f8y_A	223	Notch homolog 1, translocation-associated (drosoph	1e-20
2f8y_A	223	Notch homolog 1, translocation-associated (drosoph	2e-18
2f8y_A	223	Notch homolog 1, translocation-associated (drosoph	4e-10
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	2e-22
1d9s_A	136	Cyclin-dependent kinase 4 inhibitor B; helix-turn-	2e-22
1d9s_A	136	Cyclin-dependent kinase 4 inhibitor B; helix-turn-	6e-14
1d9s_A	136	Cyclin-dependent kinase 4 inhibitor B; helix-turn-	4e-08
1d9s_A	136	Cyclin-dependent kinase 4 inhibitor B; helix-turn-	4e-05
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	2e-22
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	1e-20
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	2e-20
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	9e-15
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	1e-12
3v30_A	172	DNA-binding protein rfxank; structural genomics co	3e-22
3v30_A	172	DNA-binding protein rfxank; structural genomics co	7e-22
3v30_A	172	DNA-binding protein rfxank; structural genomics co	2e-15
3v30_A	172	DNA-binding protein rfxank; structural genomics co	1e-09
1oy3_D	282	Transcription factor inhibitor I-kappa-B-beta; pro	4e-22
1oy3_D	282	Transcription factor inhibitor I-kappa-B-beta; pro	2e-21
1oy3_D	282	Transcription factor inhibitor I-kappa-B-beta; pro	2e-19
1oy3_D	282	Transcription factor inhibitor I-kappa-B-beta; pro	2e-15
1oy3_D	282	Transcription factor inhibitor I-kappa-B-beta; pro	6e-15
1oy3_D	282	Transcription factor inhibitor I-kappa-B-beta; pro	8e-09
1oy3_D	282	Transcription factor inhibitor I-kappa-B-beta; pro	8e-05
1oy3_D	282	Transcription factor inhibitor I-kappa-B-beta; pro	3e-04
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	4e-22
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	1e-20
3b7b_A	237	Euchromatic histone-lysine N-methyltransferase 1;	5e-22
3b7b_A	237	Euchromatic histone-lysine N-methyltransferase 1;	7e-22
3b7b_A	237	Euchromatic histone-lysine N-methyltransferase 1;	5e-16
3b7b_A	237	Euchromatic histone-lysine N-methyltransferase 1;	4e-09
3b7b_A	237	Euchromatic histone-lysine N-methyltransferase 1;	7e-07
3utm_A	351	Tankyrase-1; tankyrase, TNKS, ankryin repeat clust	6e-22
3utm_A	351	Tankyrase-1; tankyrase, TNKS, ankryin repeat clust	1e-21
3utm_A	351	Tankyrase-1; tankyrase, TNKS, ankryin repeat clust	8e-18
3utm_A	351	Tankyrase-1; tankyrase, TNKS, ankryin repeat clust	1e-13
2xai_A	261	ASB-9, ankyrin repeat and SOCS box protein 9; tran	6e-22
2xai_A	261	ASB-9, ankyrin repeat and SOCS box protein 9; tran	8e-22
2xai_A	261	ASB-9, ankyrin repeat and SOCS box protein 9; tran	2e-20
2xai_A	261	ASB-9, ankyrin repeat and SOCS box protein 9; tran	7e-04
1bi7_B	156	P16INK4A, MTS1, multiple tumor suppressor; cyclin	1e-21
1bi7_B	156	P16INK4A, MTS1, multiple tumor suppressor; cyclin	3e-13
1bi7_B	156	P16INK4A, MTS1, multiple tumor suppressor; cyclin	1e-11
1yyh_A	253	HN1;, notch 1, ankyrin domain; ankyrin repeats, ce	1e-21
1yyh_A	253	HN1;, notch 1, ankyrin domain; ankyrin repeats, ce	3e-18
1yyh_A	253	HN1;, notch 1, ankyrin domain; ankyrin repeats, ce	1e-17
1yyh_A	253	HN1;, notch 1, ankyrin domain; ankyrin repeats, ce	2e-07
1yyh_A	253	HN1;, notch 1, ankyrin domain; ankyrin repeats, ce	1e-06
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	1e-21
3deo_A	183	Signal recognition particle 43 kDa protein; chloro	1e-21
3deo_A	183	Signal recognition particle 43 kDa protein; chloro	2e-17
3deo_A	183	Signal recognition particle 43 kDa protein; chloro	8e-15
3deo_A	183	Signal recognition particle 43 kDa protein; chloro	3e-06
3deo_A	183	Signal recognition particle 43 kDa protein; chloro	6e-05
3d9h_A	285	CDNA FLJ77766, highly similar to HOMO sapiens anky	2e-21
3d9h_A	285	CDNA FLJ77766, highly similar to HOMO sapiens anky	2e-21
3d9h_A	285	CDNA FLJ77766, highly similar to HOMO sapiens anky	4e-18
3d9h_A	285	CDNA FLJ77766, highly similar to HOMO sapiens anky	6e-18
3d9h_A	285	CDNA FLJ77766, highly similar to HOMO sapiens anky	5e-12
1bd8_A	156	P19INK4D CDK4/6 inhibitor; tumor suppressor, ankyr	3e-21
1bd8_A	156	P19INK4D CDK4/6 inhibitor; tumor suppressor, ankyr	1e-17
1bd8_A	156	P19INK4D CDK4/6 inhibitor; tumor suppressor, ankyr	1e-12
1bd8_A	156	P19INK4D CDK4/6 inhibitor; tumor suppressor, ankyr	5e-04
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	4e-21
3ehr_A	222	Osteoclast-stimulating factor 1; beta barrel, heli	5e-21
3ehr_A	222	Osteoclast-stimulating factor 1; beta barrel, heli	1e-20
3ehr_A	222	Osteoclast-stimulating factor 1; beta barrel, heli	3e-18
3ehr_A	222	Osteoclast-stimulating factor 1; beta barrel, heli	7e-14
3ehr_A	222	Osteoclast-stimulating factor 1; beta barrel, heli	1e-05
3c5r_A	137	BARD-1, BRCA1-associated ring domain protein 1; an	6e-21
3c5r_A	137	BARD-1, BRCA1-associated ring domain protein 1; an	3e-17
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	7e-21
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	1e-19
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	6e-18
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	1e-16
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	8e-15
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	5e-14
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	8e-21
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	9e-21
2y1l_E	169	Darpin-8.4; hydrolase-inhibitor complex, DEVD darp	1e-20
2y1l_E	169	Darpin-8.4; hydrolase-inhibitor complex, DEVD darp	2e-19
2y1l_E	169	Darpin-8.4; hydrolase-inhibitor complex, DEVD darp	2e-15
2y1l_E	169	Darpin-8.4; hydrolase-inhibitor complex, DEVD darp	4e-13
2y1l_E	169	Darpin-8.4; hydrolase-inhibitor complex, DEVD darp	2e-07
1n0r_A	126	4ANK, 4 ankyrin repeats; structural protein; 1.50A	1e-20
1n0r_A	126	4ANK, 4 ankyrin repeats; structural protein; 1.50A	3e-13
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	1e-20
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	1e-20
2jab_A	136	H10-2-G3; HER2, darpin, ankyrin repeat protein, me	3e-20
2jab_A	136	H10-2-G3; HER2, darpin, ankyrin repeat protein, me	9e-16
2jab_A	136	H10-2-G3; HER2, darpin, ankyrin repeat protein, me	1e-12
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	4e-20
3t8k_A	186	Uncharacterized protein; structural genomics, PSI-	4e-20
3t8k_A	186	Uncharacterized protein; structural genomics, PSI-	6e-17
3t8k_A	186	Uncharacterized protein; structural genomics, PSI-	4e-12
3t8k_A	186	Uncharacterized protein; structural genomics, PSI-	2e-04
3aji_A	231	26S proteasome non-ATPase regulatory subunit 10; g	4e-20
3aji_A	231	26S proteasome non-ATPase regulatory subunit 10; g	2e-05
2fo1_E	373	LIN-12 protein; beta-barrel, protein-DNA complex,	6e-20
2fo1_E	373	LIN-12 protein; beta-barrel, protein-DNA complex,	4e-12
1ycs_B	239	53BP2, P53BP2; ankyrin repeats, SH3, tumor suppres	8e-20
1ycs_B	239	53BP2, P53BP2; ankyrin repeats, SH3, tumor suppres	2e-19
1ycs_B	239	53BP2, P53BP2; ankyrin repeats, SH3, tumor suppres	1e-12
1ycs_B	239	53BP2, P53BP2; ankyrin repeats, SH3, tumor suppres	5e-10
1s70_B	299	130 kDa myosin-binding subunit of smooth muscle my	1e-19
1s70_B	299	130 kDa myosin-binding subunit of smooth muscle my	2e-17
1s70_B	299	130 kDa myosin-binding subunit of smooth muscle my	2e-16
1s70_B	299	130 kDa myosin-binding subunit of smooth muscle my	8e-12
1s70_B	299	130 kDa myosin-binding subunit of smooth muscle my	1e-10
1s70_B	299	130 kDa myosin-binding subunit of smooth muscle my	1e-06
3ui2_A	244	Signal recognition particle 43 kDa protein, chlor;	2e-19
3ui2_A	244	Signal recognition particle 43 kDa protein, chlor;	1e-16
3ui2_A	244	Signal recognition particle 43 kDa protein, chlor;	3e-05
3ui2_A	244	Signal recognition particle 43 kDa protein, chlor;	3e-05
3ui2_A	244	Signal recognition particle 43 kDa protein, chlor;	9e-05
1ikn_D	236	Protein (I-kappa-B-alpha), protein (NF-kappa-B P50	2e-19
1ikn_D	236	Protein (I-kappa-B-alpha), protein (NF-kappa-B P50	3e-18
1ikn_D	236	Protein (I-kappa-B-alpha), protein (NF-kappa-B P50	1e-17
1ikn_D	236	Protein (I-kappa-B-alpha), protein (NF-kappa-B P50	6e-17
1ikn_D	236	Protein (I-kappa-B-alpha), protein (NF-kappa-B P50	3e-09
1ikn_D	236	Protein (I-kappa-B-alpha), protein (NF-kappa-B P50	8e-09
1ikn_D	236	Protein (I-kappa-B-alpha), protein (NF-kappa-B P50	2e-05
1ikn_D	236	Protein (I-kappa-B-alpha), protein (NF-kappa-B P50	2e-05
1ihb_A	162	P18-INK4C(INK6), cyclin-dependent kinase 6 inhibit	5e-19
1ihb_A	162	P18-INK4C(INK6), cyclin-dependent kinase 6 inhibit	2e-12
3hra_A	201	Ankyrin repeat family protein; structural protein;	6e-19
3hra_A	201	Ankyrin repeat family protein; structural protein;	3e-17
3hra_A	201	Ankyrin repeat family protein; structural protein;	8e-17
3hra_A	201	Ankyrin repeat family protein; structural protein;	8e-15
3hra_A	201	Ankyrin repeat family protein; structural protein;	3e-06
2rfa_A	232	Transient receptor potential cation channel subfa	6e-19
2rfa_A	232	Transient receptor potential cation channel subfa	3e-18
2rfa_A	232	Transient receptor potential cation channel subfa	9e-14
2rfa_A	232	Transient receptor potential cation channel subfa	1e-08
2rfa_A	232	Transient receptor potential cation channel subfa	2e-06
2rfm_A	192	Putative ankyrin repeat protein TV1425; ANK repeat	8e-19
2rfm_A	192	Putative ankyrin repeat protein TV1425; ANK repeat	2e-18
2rfm_A	192	Putative ankyrin repeat protein TV1425; ANK repeat	8e-16
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	1e-18
3aaa_C	123	Myotrophin, protein V-1; actin capping protein, ba	2e-18
3aaa_C	123	Myotrophin, protein V-1; actin capping protein, ba	2e-16
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	3e-16
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	3e-16
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	3e-16
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	2e-11
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	9e-16
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	5e-15
2l6b_A	115	NR1C; ankyrin, consensus, repeat protein, ising mo	1e-15
2l6b_A	115	NR1C; ankyrin, consensus, repeat protein, ising mo	2e-14
2l6b_A	115	NR1C; ankyrin, consensus, repeat protein, ising mo	3e-10
2l6b_A	115	NR1C; ankyrin, consensus, repeat protein, ising mo	6e-08
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	2e-15
2pnn_A	273	Transient receptor potential cation channel subfa	2e-15
2pnn_A	273	Transient receptor potential cation channel subfa	3e-13
2pnn_A	273	Transient receptor potential cation channel subfa	1e-11
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	8e-15
2zgd_A	110	3 repeat synthetic ankyrin; ankyrin repeat, hydrox	9e-15
2zgd_A	110	3 repeat synthetic ankyrin; ankyrin repeat, hydrox	2e-11
2zgd_A	110	3 repeat synthetic ankyrin; ankyrin repeat, hydrox	5e-11
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	1e-14
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	1e-14
3jxi_A	260	Vanilloid receptor-related osmotically activated p	2e-14
3jxi_A	260	Vanilloid receptor-related osmotically activated p	2e-13
3jxi_A	260	Vanilloid receptor-related osmotically activated p	9e-12
2vge_A	229	RELA-associated inhibitor; iaspp, nucleus, apoptos	2e-14
2vge_A	229	RELA-associated inhibitor; iaspp, nucleus, apoptos	1e-13
2vge_A	229	RELA-associated inhibitor; iaspp, nucleus, apoptos	2e-13
2vge_A	229	RELA-associated inhibitor; iaspp, nucleus, apoptos	2e-06
1sw6_A	327	Regulatory protein SWI6; transcription regulation,	2e-14
1sw6_A	327	Regulatory protein SWI6; transcription regulation,	1e-13
1sw6_A	327	Regulatory protein SWI6; transcription regulation,	1e-09
1sw6_A	327	Regulatory protein SWI6; transcription regulation,	5e-05
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	2e-14
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	3e-14
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	3e-14
2etb_A	256	Transient receptor potential cation channel subfam	3e-14
2etb_A	256	Transient receptor potential cation channel subfam	8e-13
2etb_A	256	Transient receptor potential cation channel subfam	1e-11
1n0q_A	93	3ANK, 3 ankyrin repeats; structural protein; 1.26A	3e-14
1n0q_A	93	3ANK, 3 ankyrin repeats; structural protein; 1.26A	2e-13
1n0q_A	93	3ANK, 3 ankyrin repeats; structural protein; 1.26A	1e-06
1n0q_A	93	3ANK, 3 ankyrin repeats; structural protein; 1.26A	5e-05
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	4e-14
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	4e-14
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	5e-14
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	5e-14
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	5e-14
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	6e-14
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	7e-14
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	8e-14
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	2e-13
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	8e-14
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	1e-13
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	1e-13
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	2e-12
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	1e-13
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	2e-13
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	2e-13
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	2e-13
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	3e-13
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	3e-13
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	3e-13
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	2e-10
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	3e-13
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	3e-13
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	4e-13
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	4e-13
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	4e-13
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	5e-13
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	6e-13
2dis_A	109	Unnamed protein product; structural genomics, RRM	7e-13
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	8e-13
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	8e-13
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	8e-13
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	8e-13
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	9e-13
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	1e-12
1x4e_A	85	RNA binding motif, single-stranded interacting pro	1e-12
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	1e-12
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	3e-11
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	3e-07
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	1e-12
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	2e-12
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	2e-12
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	2e-12
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	3e-12
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	4e-12
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	4e-12
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	4e-12
1x5o_A	114	RNA binding motif, single-stranded interacting pro	5e-12
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	5e-12
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	6e-12
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	7e-12
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	7e-12
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	8e-12
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	6e-11
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	9e-12
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	1e-11
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	1e-11
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	4e-10
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	1e-11
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	1e-11
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	2e-11
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens} Len	2e-11
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	3e-11
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	4e-11
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	4e-11
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	4e-11
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	5e-11
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	6e-11
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	7e-11
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	9e-10
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	2e-09
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	7e-11
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	7e-11
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	9e-11
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	9e-11
2aja_A	376	Ankyrin repeat family protein; NESG, Q5ZSV0, struc	9e-11
2aja_A	376	Ankyrin repeat family protein; NESG, Q5ZSV0, struc	1e-07
2aja_A	376	Ankyrin repeat family protein; NESG, Q5ZSV0, struc	1e-07
2aja_A	376	Ankyrin repeat family protein; NESG, Q5ZSV0, struc	4e-07
2aja_A	376	Ankyrin repeat family protein; NESG, Q5ZSV0, struc	1e-04
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	1e-10
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	1e-10
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	2e-10
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	2e-10
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	2e-10
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	3e-10
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	8e-04
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	4e-10
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	4e-10
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	5e-10
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	5e-10
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	7e-09
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	6e-10
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	5e-08
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	6e-10
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	6e-10
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	7e-10
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	7e-10
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	7e-10
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	7e-10
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	1e-09
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	1e-09
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	1e-09
2b0o_E	301	UPLC1; arfgap, structural genomics, structural gen	1e-09
2b0o_E	301	UPLC1; arfgap, structural genomics, structural gen	7e-08
2b0o_E	301	UPLC1; arfgap, structural genomics, structural gen	1e-07
2b0o_E	301	UPLC1; arfgap, structural genomics, structural gen	7e-04
1dcq_A	278	PYK2-associated protein beta; zinc-binding module,	2e-09
1dcq_A	278	PYK2-associated protein beta; zinc-binding module,	9e-09
1dcq_A	278	PYK2-associated protein beta; zinc-binding module,	2e-08
1dcq_A	278	PYK2-associated protein beta; zinc-binding module,	9e-04
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	2e-09
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	2e-09
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	3e-09
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	4e-09
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	5e-09
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	5e-09
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	5e-09
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	7e-09
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	9e-09
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	1e-08
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	1e-08
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	3e-08
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	4e-08
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	4e-08
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	9e-08
1x5p_A	97	Negative elongation factor E; structure genomics,	9e-08
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	1e-07
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	1e-07
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	2e-07
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	2e-07
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	3e-07
3rco_A	89	Tudor domain-containing protein 7; structural geno	4e-07
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	4e-07
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	4e-07
3jue_A	368	Arfgap with coiled-coil, ANK repeat and PH domain	5e-07
3jue_A	368	Arfgap with coiled-coil, ANK repeat and PH domain	6e-06
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	5e-07
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	6e-07
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	7e-07
2div_A	99	TRNA selenocysteine associated protein; structural	9e-07
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	1e-06
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	1e-06
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	2e-06
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	2e-06
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	2e-06
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	2e-06
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	3e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-05
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	7e-06
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	7e-06
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	8e-06
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	1e-05
3s93_A	102	Tudor domain-containing protein 5; structural geno	2e-05
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	2e-05
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	2e-05
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	3e-05
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	5e-05
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	5e-05
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	5e-05
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	5e-05
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	7e-05
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	8e-05
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	1e-04
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	1e-04
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	2e-04
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	2e-04
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	2e-04
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	3e-04
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	3e-04
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	4e-04
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	5e-04

>1n11_A Ankyrin; clathrin, BAND 3, anion exchanger, structural protein; 2.70A {Homo sapiens} SCOP: d.211.1.1 Length = 437

 Score =  116 bits (294), Expect = 7e-28
 Identities = 83/348 (23%), Positives = 130/348 (37%), Gaps = 90/348 (25%)

Query: 85  ALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMD 144
           A  N    + G T LH+AA       V  LL+K A     +K G    PL ++    ++ 
Sbjct: 104 ANPNLATTA-GHTPLHIAAREGHVETVLALLEKEASQACMTKKGFT--PLHVAAKYGKVR 160

Query: 145 VIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVG--GRIVALAALLIVA 202
           V                        +LL      L+  A+ NA G  G        L VA
Sbjct: 161 V-----------------------AELL------LERDAHPNAAGKNGLTP-----LHVA 186

Query: 203 ADKVNESI---LVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSA 259
               N  I   L+       +                 G  T L  A K+N         
Sbjct: 187 VHHNNLDIVKLLLPRGGSPHSPAWN-------------GY-TPLHIAAKQNQ-------- 224

Query: 260 EKRKLLLLEI-ELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDA 318
                  +E+   L  +G  AN      +   PL LA Q G  +++ +LL SK  + N  
Sbjct: 225 -------VEVARSLLQYGGSAN--AESVQGVTPLHLAAQEGHAEMVALLL-SKQANGN-- 272

Query: 319 DADADGNSALHCALKTSMGLSQHILQNR--IVGILLKHGAIVSQQNKLGLTALHIAAGSG 376
             +  G + LH         +Q        +  +L+KHG +V    ++G T LH+A+  G
Sbjct: 273 LGNKSGLTPLHLV-------AQE---GHVPVADVLIKHGVMVDATTRMGYTPLHVASHYG 322

Query: 377 NSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
           N + ++ L++ + D +N KT +  +PL  A +  H     +LL+ GA+
Sbjct: 323 NIKLVKFLLQHQAD-VNAKTKLGYSPLHQAAQQGHTDIVTLLLKNGAS 369

>1n11_A Ankyrin; clathrin, BAND 3, anion exchanger, structural protein; 2.70A {Homo sapiens} SCOP: d.211.1.1 Length = 437

 Score =  111 bits (281), Expect = 4e-26
 Identities = 72/346 (20%), Positives = 121/346 (34%), Gaps = 86/346 (24%)

Query: 85  ALVNEVEESSGMTALHLAAES-HTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRM 143
           A  N        T LH+AA + HT    + LL+ +A+ + ++KD                
Sbjct: 38  ASPNV-SNVKVETPLHMAARAGHTE-VAKYLLQNKAKVNAKAKDD--------------- 80

Query: 144 DVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVG--GRIVALAALLIV 201
                P   +           +   VKLL      L+  A  N     G        L +
Sbjct: 81  ---QTPLHCAAR-------IGHTNMVKLL------LENNANPNLATTAGHTP-----LHI 119

Query: 202 AADKVNESI---LVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQS 258
           AA + +      L+  ++      K              G  T L  A K          
Sbjct: 120 AAREGHVETVLALLEKEASQACMTKK-------------GF-TPLHVAAKYGKVRVA--- 162

Query: 259 AEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDA 318
               +LLL          A  N     K    PL +A    + D++++LL  +    +  
Sbjct: 163 ----ELLLER-------DAHPN--AAGKNGLTPLHVAVHHNNLDIVKLLL-PRGGSPH-- 206

Query: 319 DADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNS 378
               +G + LH A            Q  +   LL++G   + ++  G+T LH+AA  G++
Sbjct: 207 SPAWNGYTPLHIA--AKQN------QVEVARSLLQYGGSANAESVQGVTPLHLAAQEGHA 258

Query: 379 QALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
           + +  L+ K+ +  NL      TPL    +  H+  A+VL++ G  
Sbjct: 259 EMVALLLSKQAN-GNLGNKSGLTPLHLVAQEGHVPVADVLIKHGVM 303

>1n11_A Ankyrin; clathrin, BAND 3, anion exchanger, structural protein; 2.70A {Homo sapiens} SCOP: d.211.1.1 Length = 437

 Score =  110 bits (277), Expect = 1e-25
 Identities = 71/344 (20%), Positives = 113/344 (32%), Gaps = 86/344 (25%)

Query: 87  VNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVI 146
                ES G+T LH+A+       V+ LL++ A  ++ +       PL ++  +   +V 
Sbjct: 7   GGGGGES-GLTPLHVASFMGHLPIVKNLLQRGASPNVSNVKVET--PLHMAARAGHTEV- 62

Query: 147 WNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVG--GRIVALAALLIVAAD 204
                                  K L      L   A  NA     +       L  AA 
Sbjct: 63  ----------------------AKYL------LQNKAKVNAKAKDDQTP-----LHCAAR 89

Query: 205 KVNESI---LVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEK 261
             + ++   L+ ++++                    G  T L  A +             
Sbjct: 90  IGHTNMVKLLLENNANPNLATTA-------------GH-TPLHIAAREGH---------- 125

Query: 262 RKLLLLEI-ELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADA 320
                +E    L    A     C  KK   PL +A + G   V E+LL  ++   N A  
Sbjct: 126 -----VETVLALLEKEASQA--CMTKKGFTPLHVAAKYGKVRVAELLL-ERDAHPNAAGK 177

Query: 321 DADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQA 380
           +  G + LH A         ++    IV +LL  G         G T LHIAA     + 
Sbjct: 178 N--GLTPLHVA--VHHN---NL---DIVKLLLPRGGSPHSPAWNGYTPLHIAAKQNQVEV 227

Query: 381 LEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
              L++      N +++   TPL  A +  H     +LL   AN
Sbjct: 228 ARSLLQYGGS-ANAESVQGVTPLHLAAQEGHAEMVALLLSKQAN 270

>1n11_A Ankyrin; clathrin, BAND 3, anion exchanger, structural protein; 2.70A {Homo sapiens} SCOP: d.211.1.1 Length = 437

 Score =  100 bits (252), Expect = 2e-22
 Identities = 37/149 (24%), Positives = 63/149 (42%), Gaps = 12/149 (8%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL +A + G  + +  LL  K            G + LH A K   G    +   R+  +
Sbjct: 116 PLHIAAREGHVETVLALL-EKEASQACMTKK--GFTPLHVAAK--YG---KV---RVAEL 164

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LL+  A  +   K GLT LH+A    N   ++ L+ +     +       TPL  A K +
Sbjct: 165 LLERDAHPNAAGKNGLTPLHVAVHHNNLDIVKLLLPRGGS-PHSPAWNGYTPLHIAAKQN 223

Query: 411 HMVCAEVLLRWGANSEVLNLRRERPIDFA 439
            +  A  LL++G ++   +++   P+  A
Sbjct: 224 QVEVARSLLQYGGSANAESVQGVTPLHLA 252

>1n11_A Ankyrin; clathrin, BAND 3, anion exchanger, structural protein; 2.70A {Homo sapiens} SCOP: d.211.1.1 Length = 437

 Score = 96.8 bits (242), Expect = 4e-21
 Identities = 39/173 (22%), Positives = 70/173 (40%), Gaps = 19/173 (10%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL L  Q G   V ++L+    + ++       G + LH A  +  G   +I    +V  
Sbjct: 281 PLHLVAQEGHVPVADVLI-KHGVMVDATTRM--GYTPLHVA--SHYG---NIK---LVKF 329

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LL+H A V+ + KLG + LH AA  G++  +  L++      N  +    TPL  A +  
Sbjct: 330 LLQHQADVNAKTKLGYSPLHQAAQQGHTDIVTLLLKNGAS-PNEVSSDGTTPLAIAKRLG 388

Query: 411 HMVCAEVLLRW---GANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHTNLAF 460
           ++   +VL       +   V +  R    +         L  + +     ++F
Sbjct: 389 YISVTDVLKVVTDETSFVLVSDKHRMSFPETVDE----ILDVSEDEGEELISF 437

>1n11_A Ankyrin; clathrin, BAND 3, anion exchanger, structural protein; 2.70A {Homo sapiens} SCOP: d.211.1.1 Length = 437

 Score = 84.5 bits (210), Expect = 4e-17
 Identities = 34/115 (29%), Positives = 53/115 (46%), Gaps = 11/115 (9%)

Query: 310 SKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTAL 369
           S  I          G + LH A  + MG   H+    IV  LL+ GA  +  N    T L
Sbjct: 2   SPGISGGGGGES--GLTPLHVA--SFMG---HL---PIVKNLLQRGASPNVSNVKVETPL 51

Query: 370 HIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
           H+AA +G+++  + L++ +   +N K    +TPL  A +  H    ++LL   AN
Sbjct: 52  HMAARAGHTEVAKYLLQNKAK-VNAKAKDDQTPLHCAARIGHTNMVKLLLENNAN 105

>1n11_A Ankyrin; clathrin, BAND 3, anion exchanger, structural protein; 2.70A {Homo sapiens} SCOP: d.211.1.1 Length = 437

 Score = 81.8 bits (203), Expect = 3e-16
 Identities = 70/369 (18%), Positives = 124/369 (33%), Gaps = 91/369 (24%)

Query: 85  ALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMD 144
           A    + +  G T LH+AA+    R  ELLL++ A  +   K+G    PL +++  + +D
Sbjct: 137 ASQACMTKK-GFTPLHVAAKYGKVRVAELLLERDAHPNAAGKNGLT--PLHVAVHHNNLD 193

Query: 145 VIW-------NPDEYSVED-----LVVILGQKNLTTVKLLSQKTKELDEVAYANAVG--G 190
           ++        +P   +        +     Q      + L      L     ANA    G
Sbjct: 194 IVKLLLPRGGSPHSPAWNGYTPLHIAAKQNQVE--VARSL------LQYGGSANAESVQG 245

Query: 191 RIVALAALLIVAADKVNESI---LVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAV 247
                   L +AA + +  +   L+   ++     K+             G  T L    
Sbjct: 246 VTP-----LHLAAQEGHAEMVALLLSKQANGNLGNKS-------------GL-TPLHLVA 286

Query: 248 KRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEIL 307
           +    P          +L+         G + +   T +    PL +A+  G+  +++ L
Sbjct: 287 QEGHVPVA-------DVLIKH-------GVMVD--ATTRMGYTPLHVASHYGNIKLVKFL 330

Query: 308 LKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR--IVGILLKHGAIVSQQNKLG 365
           L     D+N       G S LH A            Q    IV +LLK+GA  ++ +  G
Sbjct: 331 L-QHQADVN--AKTKLGYSPLHQA----------AQQGHTDIVTLLLKNGASPNEVSSDG 377

Query: 366 LTALHIAAGSGNSQALEDLIR--KEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGA 423
            T L IA   G     + L     E   + +      +           V  + +L    
Sbjct: 378 TTPLAIAKRLGYISVTDVLKVVTDETSFVLVSDKHRMSFP-------ETV--DEILDVSE 428

Query: 424 --NSEVLNL 430
               E+++ 
Sbjct: 429 DEGEELISF 437

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 99

 Score = 98.0 bits (245), Expect = 1e-24
 Identities = 35/91 (38%), Positives = 51/91 (56%), Gaps = 5/91 (5%)

Query: 541 ASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSV-SRGFGFVTF 599
            S+    +KIFVGG+P       L  YF+K FG + +  +     + +    RGFGF+TF
Sbjct: 4   GSSGSKSNKIFVGGIPHNCGETELREYFKK-FGVVTEVVMI---YDAEKQRPRGFGFITF 59

Query: 600 KHEKSAAAAVQARFVTIMGKEVEIKSAVPKE 630
           + E+S   AV   F  IMGK+VE+K A P++
Sbjct: 60  EDEQSVDQAVNMHFHDIMGKKVEVKRAEPRD 90

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus} Length = 109

 Score = 96.2 bits (240), Expect = 9e-24
 Identities = 28/109 (25%), Positives = 48/109 (44%), Gaps = 6/109 (5%)

Query: 524 LGEEQHRKMNPGMCMIHASTQEFKS-KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARV-A 581
           +G   H   +    +   S       K+F+GGL +    + L  YF + FG +++  V  
Sbjct: 1   MGSSHHHHHHSSGLVPRGSHMGSSGCKMFIGGLSWQTTQEGLREYFGQ-FGEVKECLVMR 59

Query: 582 EFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKE 630
           +  T++   SRGFGFVTF  +      +      +  K ++ K A P+ 
Sbjct: 60  DPLTKR---SRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKVAFPRR 105

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A Length = 241

 Score =  100 bits (251), Expect = 1e-23
 Identities = 36/134 (26%), Positives = 60/134 (44%), Gaps = 11/134 (8%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            L +A     ++ +++LL  +  DI+  D    G S L  A++     +  +    +V +
Sbjct: 119 ALHVAVNTECQETVQLLL-ERGADIDAVDIK-SGRSPLIHAVE-----NNSL---SMVQL 168

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LL+HGA V+ Q   G +ALH A+G G    +  L+R   D  +LK    +TPL  A    
Sbjct: 169 LLQHGANVNAQMYSGSSALHSASGRGLLPLVRTLVRSGAD-SSLKNCHNDTPLMVARSRR 227

Query: 411 HMVCAEVLLRWGAN 424
            +          A+
Sbjct: 228 VIDILRGKATRPAS 241

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A Length = 241

 Score = 91.0 bits (227), Expect = 2e-20
 Identities = 27/140 (19%), Positives = 52/140 (37%), Gaps = 16/140 (11%)

Query: 291 PLILATQAGDEDVIEILLK---SKNIDINDADADADGNSALHCALKTSMGLSQHILQNRI 347
           PL +A   G+   +  L+        +++  +      + LH A+      +       +
Sbjct: 12  PLHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNL--RQTPLHLAVI-----TTLP---SV 61

Query: 348 VGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRK---EPDCINLKTIMMETPLF 404
           V +L+  GA     ++ G TA H+A    +   L  L+         +  +     T L 
Sbjct: 62  VRLLVTAGASPMALDRHGQTAAHLACEHRSPTCLRALLDSAAPGTLDLEARNYDGLTALH 121

Query: 405 FAVKNDHMVCAEVLLRWGAN 424
            AV  +     ++LL  GA+
Sbjct: 122 VAVNTECQETVQLLLERGAD 141

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A Length = 241

 Score = 88.3 bits (220), Expect = 1e-19
 Identities = 32/153 (20%), Positives = 60/153 (39%), Gaps = 15/153 (9%)

Query: 291 PLILATQAGDEDVIEILLK---SKNIDINDADADADGNSALHCALKTSMGLSQHILQNRI 347
              LA +      +  LL       +D+   + D  G +ALH A   +            
Sbjct: 82  AAHLACEHRSPTCLRALLDSAAPGTLDLEARNYD--GLTALHVA--VNTE---CQ---ET 131

Query: 348 VGILLKHGAIVSQQN-KLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFA 406
           V +LL+ GA +   + K G + L  A  + +   ++ L++   + +N +     + L  A
Sbjct: 132 VQLLLERGADIDAVDIKSGRSPLIHAVENNSLSMVQLLLQHGAN-VNAQMYSGSSALHSA 190

Query: 407 VKNDHMVCAEVLLRWGANSEVLNLRRERPIDFA 439
                +     L+R GA+S + N   + P+  A
Sbjct: 191 SGRGLLPLVRTLVRSGADSSLKNCHNDTPLMVA 223

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A Length = 241

 Score = 77.5 bits (192), Expect = 7e-16
 Identities = 23/108 (21%), Positives = 40/108 (37%), Gaps = 5/108 (4%)

Query: 320 ADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQ 379
           AD DG++ LH A    +  +   +  R+V +  + G  +   N L  T LH+A  +    
Sbjct: 5   ADEDGDTPLHIA---VVQGNLPAVH-RLVNLFQQGGRELDIYNNLRQTPLHLAVITTLPS 60

Query: 380 ALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEV 427
            +  L+              +T    A ++    C   LL   A   +
Sbjct: 61  VVRLLVTAGAS-PMALDRHGQTAAHLACEHRSPTCLRALLDSAAPGTL 107

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A Length = 241

 Score = 60.5 bits (148), Expect = 3e-10
 Identities = 18/71 (25%), Positives = 33/71 (46%), Gaps = 3/71 (4%)

Query: 357 IVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDC---INLKTIMMETPLFFAVKNDHMV 413
           + ++ ++ G T LHIA   GN  A+  L+         +++   + +TPL  AV      
Sbjct: 1   MATRADEDGDTPLHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNLRQTPLHLAVITTLPS 60

Query: 414 CAEVLLRWGAN 424
              +L+  GA+
Sbjct: 61  VVRLLVTAGAS 71

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A Length = 241

 Score = 55.2 bits (134), Expect = 2e-08
 Identities = 53/318 (16%), Positives = 90/318 (28%), Gaps = 82/318 (25%)

Query: 43  IDNSLDNADQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLA 102
           +    D  D  T      L ++ +  ++     LVN        ++        T LHLA
Sbjct: 1   MATRADE-DGDTP-----LHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNL-RQTPLHLA 53

Query: 103 AESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILG 162
             +     V LL+   A      + G+      L+        +                
Sbjct: 54  VITTLPSVVRLLVTAGASPMALDRHGQT--AAHLACEHRSPTCL----RA---------- 97

Query: 163 QKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESI---LVLHDSDLG 219
                   LL        ++   N  G     L A L VA +   +     L+   +D+ 
Sbjct: 98  --------LLDSAAPGTLDLEARNYDG-----LTA-LHVAVNTECQETVQLLLERGADID 143

Query: 220 AKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEI-ELLQLFGAV 278
           A +  +            GR + L  AV+ NS               L + +LL   GA 
Sbjct: 144 AVDIKS------------GR-SPLIHAVENNS---------------LSMVQLLLQHGAN 175

Query: 279 ANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGL 338
            N           L  A+  G   ++  L+     D +    +   ++ L  A       
Sbjct: 176 VN--AQMYSGSSALHSASGRGLLPLVRTLV-RSGADSS--LKNCHNDTPLMVARS----- 225

Query: 339 SQHILQNRIVGILLKHGA 356
            + I    I+       A
Sbjct: 226 RRVI---DILRGKATRPA 240

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1 Length = 285

 Score =  101 bits (253), Expect = 1e-23
 Identities = 40/134 (29%), Positives = 63/134 (47%), Gaps = 6/134 (4%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            L+ A + G  +V++ILL     D+N  D    G +AL  AL +S           I  +
Sbjct: 151 ALMDAAEKGHVEVLKILLDEMGADVNACDNM--GRNALIHALLSS----DDSDVEAITHL 204

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LL HGA V+ + + G T L +A    +   ++ L+ +E   IN      +T L  AV+  
Sbjct: 205 LLDHGADVNVRGERGKTPLILAVEKKHLGLVQRLLEQEHIEINDTDSDGKTALLLAVELK 264

Query: 411 HMVCAEVLLRWGAN 424
               AE+L + GA+
Sbjct: 265 LKKIAELLCKRGAS 278

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1 Length = 285

 Score = 97.5 bits (244), Expect = 2e-22
 Identities = 38/136 (27%), Positives = 60/136 (44%), Gaps = 15/136 (11%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR--IV 348
            LI A Q  D D+++ LL     ++N  + +  G + LH A        Q    +R  IV
Sbjct: 8   LLIKAVQNEDVDLVQQLL-EGGANVNFQEEE-GGWTPLHNA-------VQM---SREDIV 55

Query: 349 GILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVK 408
            +LL+HGA    + K G T   +AA +G+ + L+  + K  D +N       T    A  
Sbjct: 56  ELLLRHGADPVLRKKNGATPFLLAAIAGSVKLLKLFLSKGAD-VNECDFYGFTAFMEAAV 114

Query: 409 NDHMVCAEVLLRWGAN 424
              +   + L + GAN
Sbjct: 115 YGKVKALKFLYKRGAN 130

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1 Length = 285

 Score = 85.6 bits (213), Expect = 3e-18
 Identities = 37/150 (24%), Positives = 60/150 (40%), Gaps = 29/150 (19%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR--IV 348
           P +LA  AG   ++++ L SK  D+N+ D    G +A   A           +  +   +
Sbjct: 75  PFLLAAIAGSVKLLKLFL-SKGADVNECDFY--GFTAFMEA----------AVYGKVKAL 121

Query: 349 GILLKHGAIVSQQNK----------LGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIM 398
             L K GA V+ + K           G TAL  AA  G+ + L+ L+ +    +N    M
Sbjct: 122 KFLYKRGANVNLRRKTKEDQERLRKGGATALMDAAEKGHVEVLKILLDEMGADVNACDNM 181

Query: 399 METPLFFAVKNDHMVC----AEVLLRWGAN 424
               L  A+ +           +LL  GA+
Sbjct: 182 GRNALIHALLSSDDSDVEAITHLLLDHGAD 211

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1 Length = 285

 Score = 76.4 bits (189), Expect = 3e-15
 Identities = 65/323 (20%), Positives = 101/323 (31%), Gaps = 81/323 (25%)

Query: 85  ALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMD 144
           A VN  EE  G T LH A +      VELLL+  A   +R K+G    P         + 
Sbjct: 29  ANVNFQEEEGGWTPLHNAVQMSREDIVELLLRHGADPVLRKKNGAT--PF--------LL 78

Query: 145 VIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVG--GRIVALAALLIVA 202
                               ++  +KL       L + A  N     G         + A
Sbjct: 79  AAIA---------------GSVKLLKLF------LSKGADVNECDFYGFTA-----FMEA 112

Query: 203 ADKVNESI---LVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSA 259
           A          L    +++  + K    +         G  T L  A ++          
Sbjct: 113 AVYGKVKALKFLYKRGANVNLRRK---TKEDQERLRKGGA-TALMDAAEKGHVEVL---- 164

Query: 260 EKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGD----EDVIEILLKSKNIDI 315
              K+LL E+      GA  N    D      LI A  + D    E +  +LL     D+
Sbjct: 165 ---KILLDEM------GADVN--ACDNMGRNALIHALLSSDDSDVEAITHLLL-DHGADV 212

Query: 316 NDADADADGNSALHCALKTSMGLSQ--HILQNRIVGILL-KHGAIVSQQNKLGLTALHIA 372
           N       G + L  A        +  H+    +V  LL +    ++  +  G TAL +A
Sbjct: 213 N--VRGERGKTPLILA-------VEKKHL---GLVQRLLEQEHIEINDTDSDGKTALLLA 260

Query: 373 AGSGNSQALEDLIRKEPDCINLK 395
                 +  E L ++     +  
Sbjct: 261 VELKLKKIAELLCKRGAS-TDCG 282

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1 Length = 285

 Score = 72.1 bits (178), Expect = 8e-14
 Identities = 26/106 (24%), Positives = 44/106 (41%), Gaps = 10/106 (9%)

Query: 320 ADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGA-IVSQQNKLGLTALHIAAGSGNS 378
           A  + N  L  A++     ++ +    +V  LL+ GA +  Q+ + G T LH A      
Sbjct: 1   AAVEDNHLLIKAVQ-----NEDV---DLVQQLLEGGANVNFQEEEGGWTPLHNAVQMSRE 52

Query: 379 QALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
             +E L+R   D   L+     TP   A     +   ++ L  GA+
Sbjct: 53  DIVELLLRHGAD-PVLRKKNGATPFLLAAIAGSVKLLKLFLSKGAD 97

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1 Length = 285

 Score = 54.0 bits (131), Expect = 9e-08
 Identities = 58/291 (19%), Positives = 99/291 (34%), Gaps = 79/291 (27%)

Query: 85  ALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMD 144
           A     +++ G T   LAA + + + ++L L K A  D+   D               M+
Sbjct: 63  ADPVLRKKN-GATPFLLAAIAGSVKLLKLFLSKGA--DVNECDFYGFTAF--------ME 111

Query: 145 VIWNPDEYSVEDLVVILGQKNLTTVKLL-------SQKTKELDEVAYANAVGGRIVALAA 197
                                +  +K L       + + K  ++       G      A 
Sbjct: 112 AAVY---------------GKVKALKFLYKRGANVNLRRKTKEDQERLRKGG------AT 150

Query: 198 LLIVAADKVNESI---LVLHDSDLGA-KEKTTIYECVIREALALGRATKLQRAVKRNSTP 253
            L+ AA+K +  +   L+      GA                  GR   L  A+  +   
Sbjct: 151 ALMDAAEKGHVEVLKILLDEM---GADVNACDNM----------GR-NALIHALLSSDDS 196

Query: 254 TTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNI 313
                      LLL+       GA  N     ++   PLILA +     +++ LL+ ++I
Sbjct: 197 DVEAITH----LLLDH------GADVN--VRGERGKTPLILAVEKKHLGLVQRLLEQEHI 244

Query: 314 DINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKL 364
           +IND D+D  G +AL  A    + L +      I  +L K GA     + +
Sbjct: 245 EINDTDSD--GKTALLLA--VELKLKK------IAELLCKRGASTDCGDLV 285

>3twr_A Tankyrase-2; ankyrin repeat, protein-protein interaction, substrate recru poly(ADP-ribosyl)ation; HET: PE8; 1.55A {Homo sapiens} PDB: 3tws_A* 3twt_A* 3twv_A* 3tww_A 3twx_A 3twq_A 3twu_A 2y0i_S* Length = 165

 Score = 97.1 bits (243), Expect = 2e-23
 Identities = 44/167 (26%), Positives = 76/167 (45%), Gaps = 20/167 (11%)

Query: 276 GAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTS 335
           GA+ N      +    L+ A +AGD + ++ L   ++++  D +     ++ LH A    
Sbjct: 1   GAMGN-----SEADRQLLEAAKAGDVETVKKLCTVQSVNCRDIEGR--QSTPLHFA---- 49

Query: 336 MGLSQHILQNR--IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCIN 393
              + +   NR  +V  LL+HGA V  ++K GL  LH A   G+ +  E L++     +N
Sbjct: 50  ---AGY---NRVSVVEYLLQHGADVHAKDKGGLVPLHNACSYGHYEVAELLVKHGAV-VN 102

Query: 394 LKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAK 440
           +  +   TPL  A         ++LL+ GA+    N     P+D  K
Sbjct: 103 VADLWKFTPLHEAAAKGKYEICKLLLQHGADPTKKNRDGNTPLDLVK 149

>3twr_A Tankyrase-2; ankyrin repeat, protein-protein interaction, substrate recru poly(ADP-ribosyl)ation; HET: PE8; 1.55A {Homo sapiens} PDB: 3tws_A* 3twt_A* 3twv_A* 3tww_A 3twx_A 3twq_A 3twu_A 2y0i_S* Length = 165

 Score = 79.0 bits (196), Expect = 4e-17
 Identities = 43/183 (23%), Positives = 65/183 (35%), Gaps = 28/183 (15%)

Query: 241 TKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGD 300
            +L  A K     T              ++ L    +  N    + +   PL  A     
Sbjct: 10  RQLLEAAKAGDVET--------------VKKLCTVQS-VNCRDIEGRQSTPLHFAAGYNR 54

Query: 301 EDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQ 360
             V+E LL     D++  D    G   LH A   S G   H     +  +L+KHGA+V+ 
Sbjct: 55  VSVVEYLL-QHGADVHAKDKG--GLVPLHNA--CSYG---HY---EVAELLVKHGAVVNV 103

Query: 361 QNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLR 420
            +    T LH AA  G  +  + L++   D    K     TPL    K+      ++L  
Sbjct: 104 ADLWKFTPLHEAAAKGKYEICKLLLQHGAD-PTKKNRDGNTPLDLV-KDGDTDIQDLLRG 161

Query: 421 WGA 423
             A
Sbjct: 162 DAA 164

>3twr_A Tankyrase-2; ankyrin repeat, protein-protein interaction, substrate recru poly(ADP-ribosyl)ation; HET: PE8; 1.55A {Homo sapiens} PDB: 3tws_A* 3twt_A* 3twv_A* 3tww_A 3twx_A 3twq_A 3twu_A 2y0i_S* Length = 165

 Score = 45.5 bits (109), Expect = 1e-05
 Identities = 14/67 (20%), Positives = 22/67 (32%), Gaps = 12/67 (17%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL  A   G  ++ ++LL     D    + D  GN+ L                  I  +
Sbjct: 111 PLHEAAAKGKYEICKLLL-QHGADPTKKNRD--GNTPLDLVKDGD---------TDIQDL 158

Query: 351 LLKHGAI 357
           L    A+
Sbjct: 159 LRGDAAL 165

>3f6q_A Integrin-linked protein kinase; ILK, integrin-linked kinase, pinch, ankyrin repeat, ANK, IPP; 1.60A {Homo sapiens} PDB: 3ixe_A 2kbx_A Length = 179

 Score = 97.1 bits (243), Expect = 3e-23
 Identities = 39/149 (26%), Positives = 63/149 (42%), Gaps = 11/149 (7%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            +    + G+   + + L +   D+N    D  G S LH A     G         +V +
Sbjct: 8   DIFTQCREGNAVAVRLWLDNTENDLN--QGDDHGFSPLHWA--CREG---RS---AVVEM 57

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           L+  GA ++  N+   T LH+AA  G+   ++ L++ + D IN        PL +A    
Sbjct: 58  LIMRGARINVMNRGDDTPLHLAASHGHRDIVQKLLQYKAD-INAVNEHGNVPLHYACFWG 116

Query: 411 HMVCAEVLLRWGANSEVLNLRRERPIDFA 439
               AE L+  GA   + N   E P+D A
Sbjct: 117 QDQVAEDLVANGALVSICNKYGEMPVDKA 145

>3f6q_A Integrin-linked protein kinase; ILK, integrin-linked kinase, pinch, ankyrin repeat, ANK, IPP; 1.60A {Homo sapiens} PDB: 3ixe_A 2kbx_A Length = 179

 Score = 94.4 bits (236), Expect = 2e-22
 Identities = 36/134 (26%), Positives = 56/134 (41%), Gaps = 12/134 (8%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL  A + G   V+E+L+  +   IN  +     ++ LH A   S G   H     IV  
Sbjct: 42  PLHWACREGRSAVVEMLI-MRGARINVMNRG--DDTPLHLA--ASHG---HR---DIVQK 90

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LL++ A ++  N+ G   LH A   G  Q  EDL+      +++     E P+  A    
Sbjct: 91  LLQYKADINAVNEHGNVPLHYACFWGQDQVAEDLVANGAL-VSICNKYGEMPVDKAKAPL 149

Query: 411 HMVCAEVLLRWGAN 424
             +  E   + G N
Sbjct: 150 RELLRERAEKMGQN 163

>3f6q_A Integrin-linked protein kinase; ILK, integrin-linked kinase, pinch, ankyrin repeat, ANK, IPP; 1.60A {Homo sapiens} PDB: 3ixe_A 2kbx_A Length = 179

 Score = 77.1 bits (191), Expect = 2e-16
 Identities = 35/146 (23%), Positives = 54/146 (36%), Gaps = 21/146 (14%)

Query: 267 LEI-ELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGN 325
             + E+L + GA  N    ++    PL LA   G  D+++ LL     DIN  +    GN
Sbjct: 52  SAVVEMLIMRGARIN--VMNRGDDTPLHLAASHGHRDIVQKLL-QYKADINAVNEH--GN 106

Query: 326 SALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLI 385
             LH A     G      Q+++   L+ +GA+VS  NK G   +  A         E   
Sbjct: 107 VPLHYA--CFWG------QDQVAEDLVANGALVSICNKYGEMPVDKAKAPLRELLRERAE 158

Query: 386 RKEPDCINLKTIMMETPLFFAVKNDH 411
           +   + +N        P         
Sbjct: 159 KMGQN-LN------RIPYKDTFWKGT 177

>3f6q_A Integrin-linked protein kinase; ILK, integrin-linked kinase, pinch, ankyrin repeat, ANK, IPP; 1.60A {Homo sapiens} PDB: 3ixe_A 2kbx_A Length = 179

 Score = 70.9 bits (175), Expect = 3e-14
 Identities = 22/106 (20%), Positives = 41/106 (38%), Gaps = 10/106 (9%)

Query: 320 ADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAI-VSQQNKLGLTALHIAAGSGNS 378
              +    +    +       +      V + L +    ++Q +  G + LH A   G S
Sbjct: 1   GSPEFMDDIFTQCR-----EGNA---VAVRLWLDNTENDLNQGDDHGFSPLHWACREGRS 52

Query: 379 QALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
             +E LI +    IN+     +TPL  A  + H    + LL++ A+
Sbjct: 53  AVVEMLIMRGAR-INVMNRGDDTPLHLAASHGHRDIVQKLLQYKAD 97

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A Length = 196

 Score = 97.4 bits (243), Expect = 4e-23
 Identities = 31/97 (31%), Positives = 48/97 (49%), Gaps = 9/97 (9%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARV-AEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           KIFVGG+    +   L  YFE+ +G IE   +  +  + K    RGF FVTF    S   
Sbjct: 106 KIFVGGIKEDTEEHHLRDYFEQ-YGKIEVIEIMTDRGSGK---KRGFAFVTFDDHDSVDK 161

Query: 608 AVQARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQ 644
            V  ++ T+ G   E++ A+ K+    E+   S+ Q+
Sbjct: 162 IVIQKYHTVNGHNCEVRKALSKQ----EMASASSSQR 194

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A Length = 196

 Score = 92.4 bits (230), Expect = 2e-21
 Identities = 32/83 (38%), Positives = 47/83 (56%), Gaps = 5/83 (6%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAAA 607
           K+F+GGL F    +SL  +FE+ +G + D  V     +  +  SRGFGFVT+   +   A
Sbjct: 15  KLFIGGLSFETTDESLRSHFEQ-WGTLTDCVVM---RDPNTKRSRGFGFVTYATVEEVDA 70

Query: 608 AVQARFVTIMGKEVEIKSAVPKE 630
           A+ AR   + G+ VE K AV +E
Sbjct: 71  AMNARPHKVDGRVVEPKRAVSRE 93

>2dzn_A Probable 26S proteasome regulatory subunit P28; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} SCOP: d.211.1.1 PDB: 2dzo_A 1ixv_A 1wg0_A Length = 228

 Score = 98.3 bits (246), Expect = 4e-23
 Identities = 41/188 (21%), Positives = 75/188 (39%), Gaps = 18/188 (9%)

Query: 267 LEI-ELLQLFGAVANGSCTDKKVGP-PLILATQAGDEDVIEILL-KSKNIDINDADADAD 323
            EI   L       N        G  P  +A   G+ +V++ L  +    D+N       
Sbjct: 49  HEITSFLLSKMENVNLDDYPDDSGWTPFHIACSVGNLEVVKSLYDRPLKPDLNKITNQ-- 106

Query: 324 GNSALHCALKTSMGLSQHILQNR--IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQAL 381
           G + LH A                 +   L+++GA V  ++K     LH AA  G+ + +
Sbjct: 107 GVTCLHLA-------VGK---KWFEVSQFLIENGASVRIKDKFNQIPLHRAASVGSLKLI 156

Query: 382 EDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLL-RWGANSEVLNLRRERPIDFAK 440
           E L       +N +     TPLF A+   H   A +L+ ++GA  ++++ +  +  D A 
Sbjct: 157 ELLCGLGKSAVNWQDKQGWTPLFHALAEGHGDAAVLLVEKYGAEYDLVDNKGAKAEDVAL 216

Query: 441 SQDMRFLL 448
           ++ ++   
Sbjct: 217 NEQVKKFF 224

>2dzn_A Probable 26S proteasome regulatory subunit P28; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} SCOP: d.211.1.1 PDB: 2dzo_A 1ixv_A 1wg0_A Length = 228

 Score = 89.4 bits (223), Expect = 4e-20
 Identities = 33/138 (23%), Positives = 50/138 (36%), Gaps = 14/138 (10%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL  A    +   ++ LL SK   +     D DG   LH ++       Q      I   
Sbjct: 5   PLHQACMENEFFKVQELLHSKPSLLL--QKDQDGRIPLHWSVS-----FQAH---EITSF 54

Query: 351 LLKHGA---IVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDC-INLKTIMMETPLFFA 406
           LL       +    +  G T  HIA   GN + ++ L  +     +N  T    T L  A
Sbjct: 55  LLSKMENVNLDDYPDDSGWTPFHIACSVGNLEVVKSLYDRPLKPDLNKITNQGVTCLHLA 114

Query: 407 VKNDHMVCAEVLLRWGAN 424
           V       ++ L+  GA+
Sbjct: 115 VGKKWFEVSQFLIENGAS 132

>2dzn_A Probable 26S proteasome regulatory subunit P28; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} SCOP: d.211.1.1 PDB: 2dzo_A 1ixv_A 1wg0_A Length = 228

 Score = 63.2 bits (155), Expect = 4e-11
 Identities = 17/106 (16%), Positives = 36/106 (33%), Gaps = 13/106 (12%)

Query: 324 GNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALED 383
            N  LH A              ++  +L    +++ Q+++ G   LH +      +    
Sbjct: 2   SNYPLHQA-------CMENEFFKVQELLHSKPSLLLQKDQDGRIPLHWSVSFQAHEITSF 54

Query: 384 LIRKEPDCINLKTIMME---TPLFFAVKNDHMVCAEVLL--RWGAN 424
           L+ K  + +NL     +   TP   A    ++   + L       +
Sbjct: 55  LLSKMEN-VNLDDYPDDSGWTPFHIACSVGNLEVVKSLYDRPLKPD 99

>2dzn_A Probable 26S proteasome regulatory subunit P28; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} SCOP: d.211.1.1 PDB: 2dzo_A 1ixv_A 1wg0_A Length = 228

 Score = 49.4 bits (119), Expect = 1e-06
 Identities = 12/61 (19%), Positives = 21/61 (34%)

Query: 364 LGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGA 423
           +    LH A        +++L+  +P  +  K      PL ++V          LL    
Sbjct: 1   MSNYPLHQACMENEFFKVQELLHSKPSLLLQKDQDGRIPLHWSVSFQAHEITSFLLSKME 60

Query: 424 N 424
           N
Sbjct: 61  N 61

>1awc_B Protein (GA binding protein beta 1); complex (transcription regulation/DNA), DNA-binding, nuclear protein, ETS domain, ankyrin repeats; HET: DNA BRU CBR; 2.15A {Mus musculus} SCOP: d.211.1.1 Length = 153

 Score = 95.1 bits (238), Expect = 6e-23
 Identities = 37/136 (27%), Positives = 67/136 (49%), Gaps = 17/136 (12%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR--IV 348
            L+ A +AG +D + IL+ +          D  G S LH A       +Q+         
Sbjct: 5   KLLEAARAGQDDEVRILM-ANGAPFT---TDWLGTSPLHLA-------AQY---GHFSTT 50

Query: 349 GILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVK 408
            +LL+ G     + K+  T LH+AA  G++  +E L++   D +N K ++  T L +A +
Sbjct: 51  EVLLRAGVSRDARTKVDRTPLHMAASEGHANIVEVLLKHGAD-VNAKDMLKMTALHWATE 109

Query: 409 NDHMVCAEVLLRWGAN 424
           ++H    E+L+++GA+
Sbjct: 110 HNHQEVVELLIKYGAD 125

>1awc_B Protein (GA binding protein beta 1); complex (transcription regulation/DNA), DNA-binding, nuclear protein, ETS domain, ankyrin repeats; HET: DNA BRU CBR; 2.15A {Mus musculus} SCOP: d.211.1.1 Length = 153

 Score = 85.5 bits (213), Expect = 1e-19
 Identities = 44/180 (24%), Positives = 70/180 (38%), Gaps = 33/180 (18%)

Query: 241 TKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGD 300
            KL  A +                    + +L   GA      TD     PL LA Q G 
Sbjct: 4   KKLLEAARAGQDDE--------------VRILMANGAPFT---TDWLGTSPLHLAAQYGH 46

Query: 301 EDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR--IVGILLKHGAIV 358
               E+LL    +  +         + LH A       +         IV +LLKHGA V
Sbjct: 47  FSTTEVLL-RAGVSRDARTKV--DRTPLHMA-------ASE---GHANIVEVLLKHGADV 93

Query: 359 SQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVL 418
           + ++ L +TALH A    + + +E LI+   D ++ ++   +T    ++ N +   AE+L
Sbjct: 94  NAKDMLKMTALHWATEHNHQEVVELLIKYGAD-VHTQSKFCKTAFDISIDNGNEDLAEIL 152

>1awc_B Protein (GA binding protein beta 1); complex (transcription regulation/DNA), DNA-binding, nuclear protein, ETS domain, ankyrin repeats; HET: DNA BRU CBR; 2.15A {Mus musculus} SCOP: d.211.1.1 Length = 153

 Score = 70.1 bits (173), Expect = 3e-14
 Identities = 30/104 (28%), Positives = 45/104 (43%), Gaps = 14/104 (13%)

Query: 323 DGNSALHCALKTSMGLSQHILQNR--IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQA 380
           D    L  A +            +   V IL+ +GA  +  + LG + LH+AA  G+   
Sbjct: 1   DLGKKLLEAAR----------AGQDDEVRILMANGAPFT-TDWLGTSPLHLAAQYGHFST 49

Query: 381 LEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
            E L+R      + +T +  TPL  A    H    EVLL+ GA+
Sbjct: 50  TEVLLRAGVS-RDARTKVDRTPLHMAASEGHANIVEVLLKHGAD 92

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 116

 Score = 93.5 bits (233), Expect = 8e-23
 Identities = 33/84 (39%), Positives = 45/84 (53%), Gaps = 5/84 (5%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAA 606
           +KIFVGGLP+     SL  YFE  FG IE+A V    T++Q+  SRG+GFVT     +A 
Sbjct: 18  TKIFVGGLPYHTTDASLRKYFEG-FGDIEEAVVI---TDRQTGKSRGYGFVTMADRAAAE 73

Query: 607 AAVQARFVTIMGKEVEIKSAVPKE 630
            A +     I G++  +  A    
Sbjct: 74  RACKDPNPIIDGRKANVNLAYLGA 97

>3ljn_A Hypothetical protein; ankyrin, structural genomics, PSI, structural genomics of pathogenic protozoa consortium, SGPP, ANK repeat; 2.90A {Leishmania major} Length = 364

 Score =  100 bits (251), Expect = 9e-23
 Identities = 59/378 (15%), Positives = 102/378 (26%), Gaps = 79/378 (20%)

Query: 85  ALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMD 144
                     G TALHLA +       + L             G++  P+ L++ +++ D
Sbjct: 44  VSPTIQNRF-GCTALHLACKFGCVDTAKYLASVGE--VHSLWHGQK--PIHLAVMANKTD 98

Query: 145 VIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVA--YANAVGGRIVALAAL---- 198
           +                       V  L +  KE  ++     N    R V         
Sbjct: 99  L-----------------------VVALVEGAKERGQMPESLLNECDEREVNEIGSHVKH 135

Query: 199 ------LIVAADKVNESI-----LVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAV 247
                 L        E +     LV   +   AK+K                 T L RA+
Sbjct: 136 CKGQTALHWCVGLGPEYLEMIKILVQLGASPTAKDKA-------------DE-TPLMRAM 181

Query: 248 KRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEIL 307
           +  +            L++  +          +    +K+    L  A     EDV    
Sbjct: 182 EFRNREAL-------DLMMDTVPSKS--SLRLD--YANKQGNSHLHWAILINWEDVAMRF 230

Query: 308 LKSKNIDINDADADADGNSALHCA-----LKTSMGLSQHILQNRIVGILLKHGAIVSQQN 362
           +    ID+N  D +      L+ +     +  +  L Q      I      +G  V    
Sbjct: 231 V-EMGIDVNMEDNE--HTVPLYLSVRAAMVLLTKELLQKTDVFLIQACPYHNGTTVLPDR 287

Query: 363 KLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWG 422
            + L  +  AA     + L+ L  K  + +               K        + L   
Sbjct: 288 VVWLDFVPAAADPSKQEVLQLLQEKLDE-VVRSLNTGAGGAVKRKKKAAPAVKRMKLAPS 346

Query: 423 ANSEVLNLRRERPIDFAK 440
           A     +  R R    +K
Sbjct: 347 APVRTRSRSRARSSAVSK 364

>3ljn_A Hypothetical protein; ankyrin, structural genomics, PSI, structural genomics of pathogenic protozoa consortium, SGPP, ANK repeat; 2.90A {Leishmania major} Length = 364

 Score = 80.7 bits (200), Expect = 3e-16
 Identities = 22/118 (18%), Positives = 39/118 (33%), Gaps = 13/118 (11%)

Query: 307 LLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGL 366
           +     ++   +D +      +H A     G          V  L++ G   + QN+ G 
Sbjct: 5   MTDFPKLNRIKSDDE--NMEKIHVA--ARKG---QT---DEVRRLIETGVSPTIQNRFGC 54

Query: 367 TALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
           TALH+A   G     + L        +L     + P+  AV  +       L+     
Sbjct: 55  TALHLACKFGCVDTAKYLASVGEV-HSLWH--GQKPIHLAVMANKTDLVVALVEGAKE 109

>3ljn_A Hypothetical protein; ankyrin, structural genomics, PSI, structural genomics of pathogenic protozoa consortium, SGPP, ANK repeat; 2.90A {Leishmania major} Length = 364

 Score = 78.8 bits (195), Expect = 1e-15
 Identities = 31/208 (14%), Positives = 60/208 (28%), Gaps = 53/208 (25%)

Query: 241 TKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGD 300
            K+  A ++  T          + L+         G        ++     L LA + G 
Sbjct: 22  EKIHVAARKGQTDEV-------RRLIET-------GVSPT--IQNRFGCTALHLACKFGC 65

Query: 301 EDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGA---- 356
            D  + L  S     +       G   +H A               +V  L++       
Sbjct: 66  VDTAKYLA-SVGEVHSLWH----GQKPIHLA--VMAN---KT---DLVVALVEGAKERGQ 112

Query: 357 -----------------IVSQQNKLGLTALHIAAGSGNS--QALEDLIRKEPDCINLKTI 397
                                ++  G TALH   G G    + ++ L++        K  
Sbjct: 113 MPESLLNECDEREVNEIGSHVKHCKGQTALHWCVGLGPEYLEMIKILVQLGAS-PTAKDK 171

Query: 398 MMETPLFFAVKNDHMVCAEVLLRWGANS 425
             ETPL  A++  +    ++++    + 
Sbjct: 172 ADETPLMRAMEFRNREALDLMMDTVPSK 199

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 116

 Score = 93.1 bits (232), Expect = 1e-22
 Identities = 34/83 (40%), Positives = 49/83 (59%), Gaps = 5/83 (6%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARV-AEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           K+F+GGL F    +SL  Y+E+ +G + D  V  +  +++   SRGFGFVTF       A
Sbjct: 29  KLFIGGLSFETTEESLRNYYEQ-WGKLTDCVVMRDPASKR---SRGFGFVTFSSMAEVDA 84

Query: 608 AVQARFVTIMGKEVEIKSAVPKE 630
           A+ AR  +I G+ VE K AV +E
Sbjct: 85  AMAARPHSIDGRVVEPKRAVARE 107

>3v31_A Ankyrin repeat family A protein 2; structural genomics consortium, SGC, ankra2, ANK repeat, Pro binding, HDAC4; 1.57A {Homo sapiens} PDB: 3v2x_A 3v2o_A 3so8_A Length = 167

 Score = 94.8 bits (237), Expect = 1e-22
 Identities = 33/134 (24%), Positives = 57/134 (42%), Gaps = 12/134 (8%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            +      G+   +   +  +   IN  D +  G + L  A   + G    I    +V  
Sbjct: 6   SVHQLAAQGEMLYLATRI-EQENVINHTDEE--GFTPLMWA--AAHG---QI---AVVEF 54

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LL++GA      K   +AL +A   G +  ++ L+    D +N       TPL +AV  +
Sbjct: 55  LLQNGADPQLLGKGRESALSLACSKGYTDIVKMLLDCGVD-VNEYDWNGGTPLLYAVHGN 113

Query: 411 HMVCAEVLLRWGAN 424
           H+ C ++LL  GA+
Sbjct: 114 HVKCVKMLLESGAD 127

>3v31_A Ankyrin repeat family A protein 2; structural genomics consortium, SGC, ankra2, ANK repeat, Pro binding, HDAC4; 1.57A {Homo sapiens} PDB: 3v2x_A 3v2o_A 3so8_A Length = 167

 Score = 92.5 bits (231), Expect = 7e-22
 Identities = 31/134 (23%), Positives = 49/134 (36%), Gaps = 12/134 (8%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL+ A   G   V+E LL     D           SAL  A   S G   +     IV +
Sbjct: 39  PLMWAAAHGQIAVVEFLL-QNGADPQLLGKG--RESALSLA--CSKG---YT---DIVKM 87

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LL  G  V++ +  G T L  A    + + ++ L+    D   ++T      +  AV   
Sbjct: 88  LLDCGVDVNEYDWNGGTPLLYAVHGNHVKCVKMLLESGAD-PTIETDSGYNSMDLAVALG 146

Query: 411 HMVCAEVLLRWGAN 424
           +    +V+      
Sbjct: 147 YRSVQQVIESHLLK 160

>3v31_A Ankyrin repeat family A protein 2; structural genomics consortium, SGC, ankra2, ANK repeat, Pro binding, HDAC4; 1.57A {Homo sapiens} PDB: 3v2x_A 3v2o_A 3so8_A Length = 167

 Score = 72.4 bits (179), Expect = 8e-15
 Identities = 24/118 (20%), Positives = 46/118 (38%), Gaps = 12/118 (10%)

Query: 279 ANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGL 338
           A+     K     L LA   G  D++++LL    +D+N+ D +  G + L  A       
Sbjct: 60  ADPQLLGKGRESALSLACSKGYTDIVKMLL-DCGVDVNEYDWN--GGTPLLYA--VHGN- 113

Query: 339 SQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKT 396
             H+   + V +LL+ GA  + +   G  ++ +A   G     + +       +    
Sbjct: 114 --HV---KCVKMLLESGADPTIETDSGYNSMDLAVALGYRSVQQVIESHLLK-LLQNI 165

>3v31_A Ankyrin repeat family A protein 2; structural genomics consortium, SGC, ankra2, ANK repeat, Pro binding, HDAC4; 1.57A {Homo sapiens} PDB: 3v2x_A 3v2o_A 3so8_A Length = 167

 Score = 52.4 bits (127), Expect = 7e-08
 Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 1/60 (1%)

Query: 365 GLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
              ++H  A  G    L   I +E   IN       TPL +A  +  +   E LL+ GA+
Sbjct: 3   NSLSVHQLAAQGEMLYLATRIEQENV-INHTDEEGFTPLMWAAAHGQIAVVEFLLQNGAD 61

>3v31_A Ankyrin repeat family A protein 2; structural genomics consortium, SGC, ankra2, ANK repeat, Pro binding, HDAC4; 1.57A {Homo sapiens} PDB: 3v2x_A 3v2o_A 3so8_A Length = 167

 Score = 48.5 bits (117), Expect = 1e-06
 Identities = 12/73 (16%), Positives = 26/73 (35%), Gaps = 11/73 (15%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL+ A        +++LL     D         G +++  A   ++G   +     +  +
Sbjct: 105 PLLYAVHGNHVKCVKMLL-ESGADPTIETDS--GYNSMDLA--VALG---YR---SVQQV 153

Query: 351 LLKHGAIVSQQNK 363
           +  H   + Q  K
Sbjct: 154 IESHLLKLLQNIK 166

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 105

 Score = 92.7 bits (231), Expect = 1e-22
 Identities = 26/84 (30%), Positives = 43/84 (51%), Gaps = 5/84 (5%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARV-AEFQTEKQSVSRGFGFVTFKHEKSAA 606
            K+FVGGL +    ++L  YF + +G + D  +  +  T +   SRGFGFV FK      
Sbjct: 17  GKLFVGGLDWSTTQETLRSYFSQ-YGEVVDCVIMKDKTTNQ---SRGFGFVKFKDPNCVG 72

Query: 607 AAVQARFVTIMGKEVEIKSAVPKE 630
             + +R  T+ G+ ++ K   P+ 
Sbjct: 73  TVLASRPHTLDGRNIDPKPCTPRG 96

>2f8y_A Notch homolog 1, translocation-associated (drosophila); ankyrin repeats, transcription; 1.55A {Homo sapiens} PDB: 2qc9_A 1ymp_A Length = 223

 Score = 96.3 bits (241), Expect = 1e-22
 Identities = 42/156 (26%), Positives = 67/156 (42%), Gaps = 13/156 (8%)

Query: 269 IELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSAL 328
            + L    A AN    D     PL  A  A  + V +IL++++  D++      DG + L
Sbjct: 41  AKRLLEASADAN--IQDNMGRTPLHAAVSADAQGVFQILIRNRATDLD--ARMHDGTTPL 96

Query: 329 HCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKE 388
             A    +          ++  L+   A V+  + LG +ALH AA   N  A   L++  
Sbjct: 97  ILA--ARLA------VEGMLEDLINSHADVNAVDDLGKSALHWAAAVNNVDAAVVLLKNG 148

Query: 389 PDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
            +  +++    ETPLF A +      A+VLL   AN
Sbjct: 149 AN-KDMQNNREETPLFLAAREGSYETAKVLLDHFAN 183

>2f8y_A Notch homolog 1, translocation-associated (drosophila); ankyrin repeats, transcription; 1.55A {Homo sapiens} PDB: 2qc9_A 1ymp_A Length = 223

 Score = 95.2 bits (238), Expect = 4e-22
 Identities = 36/136 (26%), Positives = 57/136 (41%), Gaps = 16/136 (11%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR--IV 348
           PLILA +   E ++E L+ + + D+N  D    G SALH A       +     N     
Sbjct: 95  PLILAARLAVEGMLEDLI-NSHADVNAVDDL--GKSALHWA-------AAV---NNVDAA 141

Query: 349 GILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVK 408
            +LLK+GA    QN    T L +AA  G+ +  + L+    +  ++   M   P   A +
Sbjct: 142 VVLLKNGANKDMQNNREETPLFLAAREGSYETAKVLLDHFAN-RDITDHMDRLPRDIAQE 200

Query: 409 NDHMVCAEVLLRWGAN 424
             H     +L  +   
Sbjct: 201 RMHHDIVRLLDEYNLV 216

>2f8y_A Notch homolog 1, translocation-associated (drosophila); ankyrin repeats, transcription; 1.55A {Homo sapiens} PDB: 2qc9_A 1ymp_A Length = 223

 Score = 90.5 bits (226), Expect = 1e-20
 Identities = 43/160 (26%), Positives = 67/160 (41%), Gaps = 20/160 (12%)

Query: 269 IELLQLFGA-VANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSA 327
           I      GA + N   TD+     L LA +    D  + LL   + D N    D  G + 
Sbjct: 7   ISDFIYQGASLHNQ--TDRTGETALHLAARYSRSDAAKRLL-EASADAN--IQDNMGRTP 61

Query: 328 LHCALKTSMGLSQHILQNR--IVGILLKHGAI-VSQQNKLGLTALHIAAGSGNSQALEDL 384
           LH A          +  +   +  IL+++ A  +  +   G T L +AA       LEDL
Sbjct: 62  LHAA----------VSADAQGVFQILIRNRATDLDARMHDGTTPLILAARLAVEGMLEDL 111

Query: 385 IRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
           I    D +N    + ++ L +A   +++  A VLL+ GAN
Sbjct: 112 INSHAD-VNAVDDLGKSALHWAAAVNNVDAAVVLLKNGAN 150

>2f8y_A Notch homolog 1, translocation-associated (drosophila); ankyrin repeats, transcription; 1.55A {Homo sapiens} PDB: 2qc9_A 1ymp_A Length = 223

 Score = 84.4 bits (210), Expect = 2e-18
 Identities = 28/129 (21%), Positives = 47/129 (36%), Gaps = 14/129 (10%)

Query: 298 AGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR--IVGILLKHG 355
                VI   +  +   +++   D  G +ALH A             +R      LL+  
Sbjct: 1   GDAPAVISDFI-YQGASLHNQ-TDRTGETALHLA----------ARYSRSDAAKRLLEAS 48

Query: 356 AIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCA 415
           A  + Q+ +G T LH A  +      + LIR     ++ +     TPL  A +       
Sbjct: 49  ADANIQDNMGRTPLHAAVSADAQGVFQILIRNRATDLDARMHDGTTPLILAARLAVEGML 108

Query: 416 EVLLRWGAN 424
           E L+   A+
Sbjct: 109 EDLINSHAD 117

>2f8y_A Notch homolog 1, translocation-associated (drosophila); ankyrin repeats, transcription; 1.55A {Homo sapiens} PDB: 2qc9_A 1ymp_A Length = 223

 Score = 60.1 bits (147), Expect = 4e-10
 Identities = 54/291 (18%), Positives = 95/291 (32%), Gaps = 88/291 (30%)

Query: 85  ALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMD 144
           A ++   + +G TALHLAA    +   + LL+  A  +I+   GR   PL  ++S+    
Sbjct: 15  ASLHNQTDRTGETALHLAARYSRSDAAKRLLEASADANIQDNMGR--TPLHAAVSADAQG 72

Query: 145 VIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAAD 204
           V     +                   L+  +  +LD   +     G        LI+AA 
Sbjct: 73  VF----QI------------------LIRNRATDLDARMH----DGTTP-----LILAAR 101

Query: 205 KVNESI---LVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEK 261
              E +   L+   +D+ A +               G+ + L  A   N+          
Sbjct: 102 LAVEGMLEDLINSHADVNAVDDL-------------GK-SALHWAAAVNNVDAA------ 141

Query: 262 RKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADAD 321
             +LL         GA  +    + +   PL LA + G  +  ++LL     + +  D  
Sbjct: 142 -VVLLKN-------GANKD--MQNNREETPLFLAAREGSYETAKVLL-DHFANRDITDHM 190

Query: 322 ADGNSALHCALKTSMGLSQHILQNR--IVGILLKHGAIVSQQNKLGLTALH 370
                    A        +        IV +L ++  + S         LH
Sbjct: 191 --DRLPRDIA-------QER---MHHDIVRLLDEYNLVRS-------PQLH 222

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A Length = 75

 Score = 91.0 bits (227), Expect = 2e-22
 Identities = 31/79 (39%), Positives = 41/79 (51%), Gaps = 5/79 (6%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSV-SRGFGFVTFKHEKSAAA 607
           KIFVGGL      + +  YFE+ FG ++DA +     +K +   RGFGFVTF+ E     
Sbjct: 1   KIFVGGLSVNTTVEDVKHYFEQ-FGKVDDAMLM---FDKTTNRHRGFGFVTFESEDIVEK 56

Query: 608 AVQARFVTIMGKEVEIKSA 626
             +  F  I  K VE K A
Sbjct: 57  VCEIHFHEINNKMVECKKA 75

>1d9s_A Cyclin-dependent kinase 4 inhibitor B; helix-turn-helix, ankyrin repeat, signaling protein; NMR {Mus musculus} SCOP: i.11.1.1 Length = 136

 Score = 93.3 bits (233), Expect = 2e-22
 Identities = 29/135 (21%), Positives = 45/135 (33%), Gaps = 14/135 (10%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            L  A   G  + +  LL     D N    +  G   +       MG        ++  +
Sbjct: 15  GLATAAARGQVETVRQLL-EAGADPN--ALNRFGRRPIQVM---MMG---SA---QVAEL 62

Query: 351 LLKHGAIVSQQNKLGLT-ALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKN 409
           LL HGA  +  +   LT  +H AA  G    L  L R     +++       P+  A + 
Sbjct: 63  LLLHGAEPNCADPATLTRPVHDAAREGFLDTLVVLHRAGAR-LDVCDAWGRLPVDLAEEQ 121

Query: 410 DHMVCAEVLLRWGAN 424
            H   A  L     +
Sbjct: 122 GHRDIARYLHAATGD 136

>1d9s_A Cyclin-dependent kinase 4 inhibitor B; helix-turn-helix, ankyrin repeat, signaling protein; NMR {Mus musculus} SCOP: i.11.1.1 Length = 136

 Score = 68.6 bits (169), Expect = 6e-14
 Identities = 32/145 (22%), Positives = 55/145 (37%), Gaps = 18/145 (12%)

Query: 314 DINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAA 373
            I+        ++ L  A   + G    +     V  LL+ GA  +  N+ G   + +  
Sbjct: 4   GIHMLGGS--SDAGLATA--AARG---QV---ETVRQLLEAGADPNALNRFGRRPIQVMM 53

Query: 374 GSGNSQALEDLIRKEPDCINLKTIMMET-PLFFAVKNDHMVCAEVLLRWGANSEVLNLRR 432
             G++Q  E L+    +  N       T P+  A +   +    VL R GA  +V +   
Sbjct: 54  -MGSAQVAELLLLHGAE-PNCADPATLTRPVHDAAREGFLDTLVVLHRAGARLDVCDAWG 111

Query: 433 ERPIDFAKSQD----MRFLLKA-AN 452
             P+D A+ Q      R+L  A  +
Sbjct: 112 RLPVDLAEEQGHRDIARYLHAATGD 136

>1d9s_A Cyclin-dependent kinase 4 inhibitor B; helix-turn-helix, ankyrin repeat, signaling protein; NMR {Mus musculus} SCOP: i.11.1.1 Length = 136

 Score = 52.1 bits (126), Expect = 4e-08
 Identities = 14/70 (20%), Positives = 21/70 (30%), Gaps = 2/70 (2%)

Query: 355 GAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVC 414
              +          L  AA  G  + +  L+    D  N        P+   +       
Sbjct: 2   SPGIHMLGGSSDAGLATAAARGQVETVRQLLEAGAD-PNALNRFGRRPIQVMMMG-SAQV 59

Query: 415 AEVLLRWGAN 424
           AE+LL  GA 
Sbjct: 60  AELLLLHGAE 69

>1d9s_A Cyclin-dependent kinase 4 inhibitor B; helix-turn-helix, ankyrin repeat, signaling protein; NMR {Mus musculus} SCOP: i.11.1.1 Length = 136

 Score = 43.6 bits (104), Expect = 4e-05
 Identities = 22/92 (23%), Positives = 31/92 (33%), Gaps = 15/92 (16%)

Query: 267 LEI-ELLQLFGAVANGSCTDKKVG-PPLILATQAGDEDVIEILLKSKNIDINDADADADG 324
            ++ ELL L GA  N  C D      P+  A + G  D + +L       ++    DA G
Sbjct: 57  AQVAELLLLHGAEPN--CADPATLTRPVHDAAREGFLDTLVVLH-RAGARLD--VCDAWG 111

Query: 325 NSALHCALKTSMGLSQHILQNRIVGILLKHGA 356
              +  A     G   H     I   L     
Sbjct: 112 RLPVDLA--EEQG---HR---DIARYLHAATG 135

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens} Length = 240

 Score = 96.3 bits (241), Expect = 2e-22
 Identities = 29/140 (20%), Positives = 54/140 (38%), Gaps = 12/140 (8%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            + LA Q G   ++  L+ +K  D++  D +  G + L  A       +          +
Sbjct: 112 CIHLAAQFGHTSIVAYLI-AKGQDVDMMDQN--GMTPLMWA-------AYRTHSVDPTRL 161

Query: 351 LLKHGAIVSQQNKL-GLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKN 409
           LL     V+  +K    TALH A  +GN+  +  L+    + ++ + I  E+ L  A + 
Sbjct: 162 LLTFNVSVNLGDKYHKNTALHWAVLAGNTTVISLLLEAGAN-VDAQNIKGESALDLAKQR 220

Query: 410 DHMVCAEVLLRWGANSEVLN 429
            ++     L          N
Sbjct: 221 KNVWMINHLQEARQAKGYDN 240

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens} Length = 240

 Score = 91.3 bits (228), Expect = 1e-20
 Identities = 30/137 (21%), Positives = 51/137 (37%), Gaps = 17/137 (12%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR--IV 348
            ++ ATQ G  +    L+     D+     D +  + LH A       + +   NR  +V
Sbjct: 12  DIVKATQYGIYERCRELV-EAGYDVR--QPDKENVTLLHWA-------AIN---NRIDLV 58

Query: 349 GILLKHGAIV-SQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
              +  GAIV      L  T LH A   G+   +  L++   D  +L      + +  A 
Sbjct: 59  KYYISKGAIVDQLGGDLNSTPLHWATRQGHLSMVVQLMKYGAD-PSLIDGEGCSCIHLAA 117

Query: 408 KNDHMVCAEVLLRWGAN 424
           +  H      L+  G +
Sbjct: 118 QFGHTSIVAYLIAKGQD 134

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens} Length = 240

 Score = 90.6 bits (226), Expect = 2e-20
 Identities = 35/135 (25%), Positives = 61/135 (45%), Gaps = 12/135 (8%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            L  A      D+++  + SK   ++    D   ++ LH A  T  G   H+    +V  
Sbjct: 45  LLHWAAINNRIDLVKYYI-SKGAIVDQLGGD-LNSTPLHWA--TRQG---HL---SMVVQ 94

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           L+K+GA  S  +  G + +H+AA  G++  +  LI K  D +++      TPL +A    
Sbjct: 95  LMKYGADPSLIDGEGCSCIHLAAQFGHTSIVAYLIAKGQD-VDMMDQNGMTPLMWAAYRT 153

Query: 411 HMV-CAEVLLRWGAN 424
           H V    +LL +  +
Sbjct: 154 HSVDPTRLLLTFNVS 168

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens} Length = 240

 Score = 74.0 bits (183), Expect = 9e-15
 Identities = 49/303 (16%), Positives = 99/303 (32%), Gaps = 78/303 (25%)

Query: 87  VNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVI 146
           +  +++      +  A +         L++         K+      L  +  ++R+D+ 
Sbjct: 2   MTHIDDY-STWDIVKATQYGIYERCRELVEAGYDVRQPDKENVT--LLHWAAINNRIDL- 57

Query: 147 WNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKV 206
                                 VK        + + A  + +GG + +    L  A  + 
Sbjct: 58  ----------------------VKYY------ISKGAIVDQLGGDLNSTP--LHWATRQG 87

Query: 207 NESI---LVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRK 263
           + S+   L+ + +D    +               G  + +  A +   T           
Sbjct: 88  HLSMVVQLMKYGADPSLIDGE-------------GC-SCIHLAAQFGHTSIV-------A 126

Query: 264 LLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDE-DVIEILLKSKNIDINDADADA 322
            L+ +       G   +    D+    PL+ A       D   +LL + N+ +N  D   
Sbjct: 127 YLIAK-------GQDVD--MMDQNGMTPLMWAAYRTHSVDPTRLLL-TFNVSVNLGD-KY 175

Query: 323 DGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALE 382
             N+ALH A+      + +     ++ +LL+ GA V  QN  G +AL +A    N   + 
Sbjct: 176 HKNTALHWAVL-----AGNT---TVISLLLEAGANVDAQNIKGESALDLAKQRKNVWMIN 227

Query: 383 DLI 385
            L 
Sbjct: 228 HLQ 230

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens} Length = 240

 Score = 67.8 bits (167), Expect = 1e-12
 Identities = 24/114 (21%), Positives = 44/114 (38%), Gaps = 14/114 (12%)

Query: 312 NIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHI 371
           ++       D      +  A  T  G             L++ G  V Q +K  +T LH 
Sbjct: 1   HMT----HIDDYSTWDIVKA--TQYG---IY---ERCRELVEAGYDVRQPDKENVTLLHW 48

Query: 372 AAGSGNSQALEDLIRKEPDCINLKTI-MMETPLFFAVKNDHMVCAEVLLRWGAN 424
           AA +     ++  I K    ++     +  TPL +A +  H+     L+++GA+
Sbjct: 49  AAINNRIDLVKYYISKGAI-VDQLGGDLNSTPLHWATRQGHLSMVVQLMKYGAD 101

>3v30_A DNA-binding protein rfxank; structural genomics consortium, SGC, rfxank, ANK repeat, Pro binding; 1.57A {Homo sapiens} PDB: 3uxg_A Length = 172

 Score = 94.0 bits (235), Expect = 3e-22
 Identities = 31/139 (22%), Positives = 56/139 (40%), Gaps = 12/139 (8%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PLI A+  G+ + +  LL     D +    +    SAL  A  ++ G   +     IVG+
Sbjct: 39  PLIWASAFGEIETVRFLL-EWGADPHILAKE--RESALSLA--STGG---YT---DIVGL 87

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LL+    ++  +  G T L  A    + + +E L+ +  D +  +     TP+  AV   
Sbjct: 88  LLERDVDINIYDWNGGTPLLYAVRGNHVKCVEALLARGAD-LTTEADSGYTPMDLAVALG 146

Query: 411 HMVCAEVLLRWGANSEVLN 429
           +    +V+          N
Sbjct: 147 YRKVQQVIENHILKLFQSN 165

>3v30_A DNA-binding protein rfxank; structural genomics consortium, SGC, rfxank, ANK repeat, Pro binding; 1.57A {Homo sapiens} PDB: 3uxg_A Length = 172

 Score = 92.9 bits (232), Expect = 7e-22
 Identities = 36/134 (26%), Positives = 61/134 (45%), Gaps = 11/134 (8%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            +      G+ D ++  L  K  ++ +   D  G + L  A  ++ G    I     V  
Sbjct: 5   SIHQLAAQGELDQLKEHL-RKGDNLVNK-PDERGFTPLIWA--SAFG---EI---ETVRF 54

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LL+ GA      K   +AL +A+  G +  +  L+ ++ D IN+      TPL +AV+ +
Sbjct: 55  LLEWGADPHILAKERESALSLASTGGYTDIVGLLLERDVD-INIYDWNGGTPLLYAVRGN 113

Query: 411 HMVCAEVLLRWGAN 424
           H+ C E LL  GA+
Sbjct: 114 HVKCVEALLARGAD 127

>3v30_A DNA-binding protein rfxank; structural genomics consortium, SGC, rfxank, ANK repeat, Pro binding; 1.57A {Homo sapiens} PDB: 3uxg_A Length = 172

 Score = 74.4 bits (184), Expect = 2e-15
 Identities = 25/114 (21%), Positives = 48/114 (42%), Gaps = 16/114 (14%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQ--HILQNRIV 348
            L LA+  G  D++ +LL  +++DIN  D +  G + L  A        +  H+   + V
Sbjct: 72  ALSLASTGGYTDIVGLLL-ERDVDINIYDWN--GGTPLLYA-------VRGNHV---KCV 118

Query: 349 GILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETP 402
             LL  GA ++ +   G T + +A   G  +  + +       +    ++   P
Sbjct: 119 EALLARGADLTTEADSGYTPMDLAVALGYRKVQQVIENHILK-LFQSNLVPADP 171

>3v30_A DNA-binding protein rfxank; structural genomics consortium, SGC, rfxank, ANK repeat, Pro binding; 1.57A {Homo sapiens} PDB: 3uxg_A Length = 172

 Score = 57.4 bits (140), Expect = 1e-09
 Identities = 17/65 (26%), Positives = 28/65 (43%)

Query: 365 GLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
              ++H  A  G    L++ +RK  + +N       TPL +A     +     LL WGA+
Sbjct: 2   DSLSIHQLAAQGELDQLKEHLRKGDNLVNKPDERGFTPLIWASAFGEIETVRFLLEWGAD 61

Query: 425 SEVLN 429
             +L 
Sbjct: 62  PHILA 66

>1oy3_D Transcription factor inhibitor I-kappa-B-beta; protein-protein complex, transcription factors, nuclear localization, DNA binding protein; 2.05A {Mus musculus} SCOP: d.211.1.1 PDB: 1k3z_D Length = 282

 Score = 96.8 bits (242), Expect = 4e-22
 Identities = 48/340 (14%), Positives = 85/340 (25%), Gaps = 68/340 (20%)

Query: 86  LVNEVEESSGMTALHLAAESHTARCVELLLKKRA-RTDIRSKDGRRLLPLELSLSSSRMD 144
           +   V E  G TALHLA        ++ LL   A    +  ++      L L+       
Sbjct: 1   VFGYVTED-GDTALHLAVIHQHEPFLDFLLGFSAGHEYLDLQNDLGQTALHLAAILGEAS 59

Query: 145 VIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAV--GGRIVALAALLIVA 202
            +    E                   L +         A       GG        L +A
Sbjct: 60  TV----EK------------------LYAAG-------AGVLVAERGGHTA-----LHLA 85

Query: 203 ADKVNESI---LVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSA 259
                 +    L+                                     +  P    S 
Sbjct: 86  CRVRAHTCACVLLQPRPSHPRDASD------------TYLTQSQDCTPDTSHAPAAVDSQ 133

Query: 260 EKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDAD 319
              +         + +         +     PL +A    D +++ +L      D+N  +
Sbjct: 134 PNPENEE--EPRDEDWRLQLE--AENYDGHTPLHVAVIHKDAEMVRLLR-DAGADLNKPE 188

Query: 320 ADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQ 379
               G + LH A++     +Q      ++ +LLK GA  + +   G T L  A    N  
Sbjct: 189 PT-CGRTPLHLAVE-----AQAA---SVLELLLKAGADPTARMYGGRTPLGSALLRPNPI 239

Query: 380 ALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLL 419
               L                +P   +  +      +   
Sbjct: 240 LARLLRAHGAP-EPEDGGDKLSPCSSSGSDSDSDNRDEGD 278

>1oy3_D Transcription factor inhibitor I-kappa-B-beta; protein-protein complex, transcription factors, nuclear localization, DNA binding protein; 2.05A {Mus musculus} SCOP: d.211.1.1 PDB: 1k3z_D Length = 282

 Score = 94.9 bits (237), Expect = 2e-21
 Identities = 32/143 (22%), Positives = 55/143 (38%), Gaps = 12/143 (8%)

Query: 283 CTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHI 342
           CT      P  + +Q   E+  E   +   + +   + D  G++ LH A           
Sbjct: 119 CTPDTSHAPAAVDSQPNPENEEEPRDEDWRLQLEAENYD--GHTPLHVA--VIHK---DA 171

Query: 343 LQNRIVGILLKHGAIV-SQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMET 401
               +V +L   GA +   +   G T LH+A  +  +  LE L++   D    +     T
Sbjct: 172 ---EMVRLLRDAGADLNKPEPTCGRTPLHLAVEAQAASVLELLLKAGAD-PTARMYGGRT 227

Query: 402 PLFFAVKNDHMVCAEVLLRWGAN 424
           PL  A+   + + A +L   GA 
Sbjct: 228 PLGSALLRPNPILARLLRAHGAP 250

>1oy3_D Transcription factor inhibitor I-kappa-B-beta; protein-protein complex, transcription factors, nuclear localization, DNA binding protein; 2.05A {Mus musculus} SCOP: d.211.1.1 PDB: 1k3z_D Length = 282

 Score = 88.8 bits (221), Expect = 2e-19
 Identities = 29/139 (20%), Positives = 46/139 (33%), Gaps = 7/139 (5%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR---- 346
            L LA +        +LL           +D     +  C   TS   +    Q      
Sbjct: 81  ALHLACRVRAHTCACVLL-QPRPSHPRDASDTYLTQSQDCTPDTSHAPAAVDSQPNPENE 139

Query: 347 IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMM-ETPLFF 405
                      +  +N  G T LH+A    +++ +  L     D +N        TPL  
Sbjct: 140 EEPRDEDWRLQLEAENYDGHTPLHVAVIHKDAEMVRLLRDAGAD-LNKPEPTCGRTPLHL 198

Query: 406 AVKNDHMVCAEVLLRWGAN 424
           AV+       E+LL+ GA+
Sbjct: 199 AVEAQAASVLELLLKAGAD 217

>1oy3_D Transcription factor inhibitor I-kappa-B-beta; protein-protein complex, transcription factors, nuclear localization, DNA binding protein; 2.05A {Mus musculus} SCOP: d.211.1.1 PDB: 1k3z_D Length = 282

 Score = 77.2 bits (191), Expect = 2e-15
 Identities = 28/149 (18%), Positives = 40/149 (26%), Gaps = 25/149 (16%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADA-DADGNSALHCALKTSMGLSQHILQNRIVG 349
            L LA     E  ++ LL   +      D  +  G +ALH A    +G      +   V 
Sbjct: 12  ALHLAVIHQHEPFLDFLL-GFSAGHEYLDLQNDLGQTALHLA--AILG------EASTVE 62

Query: 350 ILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETP------- 402
            L   GA V    + G TALH+A           L++  P                    
Sbjct: 63  KLYAAGAGVLVAERGGHTALHLACRVRAHTCACVLLQPRPS-HPRDASDTYLTQSQDCTP 121

Query: 403 -------LFFAVKNDHMVCAEVLLRWGAN 424
                     +  N           W   
Sbjct: 122 DTSHAPAAVDSQPNPENEEEPRDEDWRLQ 150

>1oy3_D Transcription factor inhibitor I-kappa-B-beta; protein-protein complex, transcription factors, nuclear localization, DNA binding protein; 2.05A {Mus musculus} SCOP: d.211.1.1 PDB: 1k3z_D Length = 282

 Score = 75.7 bits (187), Expect = 6e-15
 Identities = 31/107 (28%), Positives = 43/107 (40%), Gaps = 12/107 (11%)

Query: 321 DADGNSALHCALKTSMGLSQHILQNRIVGILLKHGA---IVSQQNKLGLTALHIAAGSGN 377
             DG++ALH A         H      +  LL   A    +  QN LG TALH+AA  G 
Sbjct: 6   TEDGDTALHLA--VIHQ---HE---PFLDFLLGFSAGHEYLDLQNDLGQTALHLAAILGE 57

Query: 378 SQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
           +  +E L       + +      T L  A +     CA VLL+   +
Sbjct: 58  ASTVEKLYAAGAG-VLVAERGGHTALHLACRVRAHTCACVLLQPRPS 103

>1oy3_D Transcription factor inhibitor I-kappa-B-beta; protein-protein complex, transcription factors, nuclear localization, DNA binding protein; 2.05A {Mus musculus} SCOP: d.211.1.1 PDB: 1k3z_D Length = 282

 Score = 57.2 bits (139), Expect = 8e-09
 Identities = 16/70 (22%), Positives = 28/70 (40%), Gaps = 2/70 (2%)

Query: 357 IVSQQNKLGLTALHIAAGSGNSQALEDLIRK--EPDCINLKTIMMETPLFFAVKNDHMVC 414
           +     + G TALH+A    +   L+ L+      + ++L+  + +T L  A        
Sbjct: 1   VFGYVTEDGDTALHLAVIHQHEPFLDFLLGFSAGHEYLDLQNDLGQTALHLAAILGEAST 60

Query: 415 AEVLLRWGAN 424
            E L   GA 
Sbjct: 61  VEKLYAAGAG 70

>1oy3_D Transcription factor inhibitor I-kappa-B-beta; protein-protein complex, transcription factors, nuclear localization, DNA binding protein; 2.05A {Mus musculus} SCOP: d.211.1.1 PDB: 1k3z_D Length = 282

 Score = 44.8 bits (107), Expect = 8e-05
 Identities = 20/45 (44%), Positives = 25/45 (55%)

Query: 85  ALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGR 129
           A +N+ E + G T LHLA E+  A  +ELLLK  A    R   GR
Sbjct: 182 ADLNKPEPTCGRTPLHLAVEAQAASVLELLLKAGADPTARMYGGR 226

>1oy3_D Transcription factor inhibitor I-kappa-B-beta; protein-protein complex, transcription factors, nuclear localization, DNA binding protein; 2.05A {Mus musculus} SCOP: d.211.1.1 PDB: 1k3z_D Length = 282

 Score = 43.3 bits (103), Expect = 3e-04
 Identities = 23/109 (21%), Positives = 29/109 (26%), Gaps = 14/109 (12%)

Query: 45  NSLDNADQQTAIVTKLLRVSCIFDSVSCATSLV-NGDLGPVALVNEVEESSGMTALHLAA 103
           N  +    +T      L ++    + S    L+  G     A         G T L  A 
Sbjct: 185 NKPEPTCGRTP-----LHLAVEAQAASVLELLLKAG-----ADPTARMYG-GRTPLGSAL 233

Query: 104 ESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEY 152
                    LL    A       D     P   S S S  D     DEY
Sbjct: 234 LRPNPILARLLRAHGAPEPEDGGDKL--SPCSSSGSDSDSDNRDEGDEY 280

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C Length = 167

 Score = 93.4 bits (233), Expect = 4e-22
 Identities = 28/87 (32%), Positives = 46/87 (52%), Gaps = 5/87 (5%)

Query: 544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHE 602
           Q+   KIFVGG+   +       +F + +G I DA++     +K +  SRGFGFVT+   
Sbjct: 84  QDKTGKIFVGGIGPDVRPKEFEEFFSQ-WGTIIDAQLM---LDKDTGQSRGFGFVTYDSA 139

Query: 603 KSAAAAVQARFVTIMGKEVEIKSAVPK 629
            +     Q +F+    +++EIK A P+
Sbjct: 140 DAVDRVCQNKFIDFKDRKIEIKRAEPR 166

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C Length = 167

 Score = 88.7 bits (221), Expect = 1e-20
 Identities = 26/84 (30%), Positives = 48/84 (57%), Gaps = 6/84 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAA 606
            K+F+GGL +    D+L  YF K +G + D ++     +  +  SRGFGF++F+   S  
Sbjct: 4   CKMFIGGLNWDTTEDNLREYFGK-YGTVTDLKIM---KDPATGRSRGFGFLSFEKPSSVD 59

Query: 607 AAVQARFVTIMGKEVEIKSAVPKE 630
             V+ + + + GK ++ K A+P++
Sbjct: 60  EVVKTQHI-LDGKVIDPKRAIPRD 82

>3b7b_A Euchromatic histone-lysine N-methyltransferase 1; ankyrin repeat, alternative splicing, ANK repeat, chromatin regulator, nucleus, phosphorylation; 2.99A {Homo sapiens} SCOP: k.37.1.1 PDB: 3b95_A* Length = 237

 Score = 95.2 bits (238), Expect = 5e-22
 Identities = 34/134 (25%), Positives = 64/134 (47%), Gaps = 11/134 (8%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL  A +AG  D+  +L+     +I+    D    + L  A +     + H+     V  
Sbjct: 14  PLHAAAEAGHVDICHMLV-QAGANIDTCSED--QRTPLMEAAE-----NNHL---EAVKY 62

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           L+K GA+V  ++  G T LH+AA  G+ + ++ L+      +N +     TP+ +A +  
Sbjct: 63  LIKAGALVDPKDAEGSTCLHLAAKKGHYEVVQYLLSNGQMDVNCQDDGGWTPMIWATEYK 122

Query: 411 HMVCAEVLLRWGAN 424
           H+   ++LL  G++
Sbjct: 123 HVDLVKLLLSKGSD 136

>3b7b_A Euchromatic histone-lysine N-methyltransferase 1; ankyrin repeat, alternative splicing, ANK repeat, chromatin regulator, nucleus, phosphorylation; 2.99A {Homo sapiens} SCOP: k.37.1.1 PDB: 3b95_A* Length = 237

 Score = 94.8 bits (237), Expect = 7e-22
 Identities = 40/135 (29%), Positives = 59/135 (43%), Gaps = 12/135 (8%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           P+I AT+    D++++LL SK  DIN  D +   N  LH A     G    +    I  I
Sbjct: 114 PMIWATEYKHVDLVKLLL-SKGSDINIRDNE--ENICLHWA--AFSG---CV---DIAEI 162

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LL     +   N  G + LHIAA       +   + ++ D + LK    ETPL  A  N 
Sbjct: 163 LLAAKCDLHAVNIHGDSPLHIAARENRYDCVVLFLSRDSD-VTLKNKEGETPLQCASLNS 221

Query: 411 HMVCAEVLLRWGANS 425
            +  A  + +   +S
Sbjct: 222 QVWSALQMSKALQDS 236

>3b7b_A Euchromatic histone-lysine N-methyltransferase 1; ankyrin repeat, alternative splicing, ANK repeat, chromatin regulator, nucleus, phosphorylation; 2.99A {Homo sapiens} SCOP: k.37.1.1 PDB: 3b95_A* Length = 237

 Score = 77.8 bits (193), Expect = 5e-16
 Identities = 26/112 (23%), Positives = 46/112 (41%), Gaps = 11/112 (9%)

Query: 312 NIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHI 371
           +++      +    S LH A     G   H+    I  +L++ GA +   ++   T L  
Sbjct: 1   HMNFKMEHQN--KRSPLHAA--AEAG---HV---DICHMLVQAGANIDTCSEDQRTPLME 50

Query: 372 AAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGA 423
           AA + + +A++ LI+     ++ K     T L  A K  H    + LL  G 
Sbjct: 51  AAENNHLEAVKYLIKAGAL-VDPKDAEGSTCLHLAAKKGHYEVVQYLLSNGQ 101

>3b7b_A Euchromatic histone-lysine N-methyltransferase 1; ankyrin repeat, alternative splicing, ANK repeat, chromatin regulator, nucleus, phosphorylation; 2.99A {Homo sapiens} SCOP: k.37.1.1 PDB: 3b95_A* Length = 237

 Score = 57.4 bits (140), Expect = 4e-09
 Identities = 16/67 (23%), Positives = 33/67 (49%), Gaps = 1/67 (1%)

Query: 358 VSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEV 417
              +++   + LH AA +G+      L++   + I+  +    TPL  A +N+H+   + 
Sbjct: 4   FKMEHQNKRSPLHAAAEAGHVDICHMLVQAGAN-IDTCSEDQRTPLMEAAENNHLEAVKY 62

Query: 418 LLRWGAN 424
           L++ GA 
Sbjct: 63  LIKAGAL 69

>3b7b_A Euchromatic histone-lysine N-methyltransferase 1; ankyrin repeat, alternative splicing, ANK repeat, chromatin regulator, nucleus, phosphorylation; 2.99A {Homo sapiens} SCOP: k.37.1.1 PDB: 3b95_A* Length = 237

 Score = 50.5 bits (122), Expect = 7e-07
 Identities = 43/277 (15%), Positives = 81/277 (29%), Gaps = 82/277 (29%)

Query: 85  ALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMD 144
           A ++   E    T L  AAE++    V+ L+K  A  D +  +G     L          
Sbjct: 35  ANIDTCSED-QRTPLMEAAENNHLEAVKYLIKAGALVDPKDAEGS--TCL--------HL 83

Query: 145 VIWNPDEYSVEDLVVILGQKNLTTVK-LLSQKTKELDEVAYANAVGGRIVALAALLIVAA 203
                               +   V+ LLS    +++        GG        +I A 
Sbjct: 84  AAKK---------------GHYEVVQYLLSNGQMDVNCQDD----GGWTP-----MIWAT 119

Query: 204 DKVNESI---LVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAE 260
           +  +  +   L+   SD+  ++                    L  A              
Sbjct: 120 EYKHVDLVKLLLSKGSDINIRDNE-------------EN-ICLHWAAFSGC--------- 156

Query: 261 KRKLLLLEI-ELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDAD 319
                 ++I E+L       +    +     PL +A +    D + + L S++ D+    
Sbjct: 157 ------VDIAEILLAAKCDLH--AVNIHGDSPLHIAARENRYDCVVLFL-SRDSDVT--L 205

Query: 320 ADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGA 356
            + +G + L CA   S      +        + K   
Sbjct: 206 KNKEGETPLQCASLNS-----QV---WSALQMSKALQ 234

>3utm_A Tankyrase-1; tankyrase, TNKS, ankryin repeat clusters, WNT signaling, POL ribosylation, transferase-signaling protein complex; 2.00A {Mus musculus} Length = 351

 Score = 97.6 bits (244), Expect = 6e-22
 Identities = 43/172 (25%), Positives = 73/172 (42%), Gaps = 13/172 (7%)

Query: 268 EIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSA 327
               L    A A     + K    L  A    +E ++ +L    N++ + +D     ++ 
Sbjct: 6   SALDLADPSAKAV-LTGEYKKDELLEAARSGNEEKLMALLT-PLNVNCHASDGR--KSTP 61

Query: 328 LHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRK 387
           LH A          +   RIV +LL+HGA V  ++K GL  LH A   G+ +  E L++ 
Sbjct: 62  LHLAAG-----YNRV---RIVQLLLQHGADVHAKDKGGLVPLHNACSYGHYEVTELLLKH 113

Query: 388 EPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFA 439
               +N   +   TPL  A   + +    +LL  GA+  ++N   +  +D A
Sbjct: 114 GAC-VNAMDLWQFTPLHEAASKNRVEVCSLLLSHGADPTLVNCHGKSAVDMA 164

>3utm_A Tankyrase-1; tankyrase, TNKS, ankryin repeat clusters, WNT signaling, POL ribosylation, transferase-signaling protein complex; 2.00A {Mus musculus} Length = 351

 Score = 96.4 bits (241), Expect = 1e-21
 Identities = 70/356 (19%), Positives = 115/356 (32%), Gaps = 87/356 (24%)

Query: 85  ALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMD 144
              +  +     T LHLAA  +  R V+LLL+  A    + K G    PL  + S    +
Sbjct: 49  VNCHASDGR-KSTPLHLAAGYNRVRIVQLLLQHGADVHAKDKGGLV--PLHNACSYGHYE 105

Query: 145 VIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVG--GRIVALAALLIVA 202
           V                        +LL      L   A  NA+            L  A
Sbjct: 106 V-----------------------TELL------LKHGACVNAMDLWQFTP-----LHEA 131

Query: 203 ADKVNESI---LVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSA 259
           A K    +   L+ H +D                    G+ + +  A         +   
Sbjct: 132 ASKNRVEVCSLLLSHGADPTLVNCH-------------GK-SAVDMAPTPELRERLTYEF 177

Query: 260 EKRKLL-------LLEI-ELLQLFGAVANGSCTDKKVGPPLILATQAGDE---DVIEILL 308
           +   LL       L ++ + L L           +     L  A  +       V E+LL
Sbjct: 178 KGHSLLQAAREADLAKVKKTLALEIINFK---QPQSHETALHCAVASLHPKRKQVAELLL 234

Query: 309 KSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTA 368
             K  ++N+ + D    + LH A         H     ++ +L KHGA ++  + LG TA
Sbjct: 235 -RKGANVNEKNKD--FMTPLHVA--AERA---HN---DVMEVLHKHGAKMNALDSLGQTA 283

Query: 369 LHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
           LH AA +G+ Q    L+    D  ++ ++   T      +       + +L     
Sbjct: 284 LHRAALAGHLQTCRLLLSYGSD-PSIISLQGFTAAQMGNEA-----VQQILSESTP 333

>3utm_A Tankyrase-1; tankyrase, TNKS, ankryin repeat clusters, WNT signaling, POL ribosylation, transferase-signaling protein complex; 2.00A {Mus musculus} Length = 351

 Score = 85.2 bits (212), Expect = 8e-18
 Identities = 53/326 (16%), Positives = 99/326 (30%), Gaps = 92/326 (28%)

Query: 85  ALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMD 144
           A VN ++     T LH AA  +      LLL   A   + +  G+    ++++ +    +
Sbjct: 115 ACVNAMDLW-QFTPLHEAASKNRVEVCSLLLSHGADPTLVNCHGKS--AVDMAPTPELRE 171

Query: 145 VIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAAD 204
                                   +    +    L     A+     +  +   L +   
Sbjct: 172 R-----------------------LTYEFKGHSLLQAAREAD-----LAKVKKTLALEII 203

Query: 205 KVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKL 264
              +              +T           AL  A                        
Sbjct: 204 NFKQPQ----------SHET-----------ALHCA------------------VASLHP 224

Query: 265 LLLEI-ELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADAD 323
              ++ ELL   GA  N    +K    PL +A +    DV+E+L       +N    D+ 
Sbjct: 225 KRKQVAELLLRKGANVN--EKNKDFMTPLHVAAERAHNDVMEVLH-KHGAKMN--ALDSL 279

Query: 324 GNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALED 383
           G +ALH A       + H+       +LL +G+  S  +  G TA  +       +A++ 
Sbjct: 280 GQTALHRAAL-----AGHLQ---TCRLLLSYGSDPSIISLQGFTAAQMGN-----EAVQQ 326

Query: 384 LIRKEPDCINLKTIMMETPLFFAVKN 409
           ++ +    +    +  +  L  A K 
Sbjct: 327 ILSESTP-MRTSDV--DYRLLEASKA 349

>3utm_A Tankyrase-1; tankyrase, TNKS, ankryin repeat clusters, WNT signaling, POL ribosylation, transferase-signaling protein complex; 2.00A {Mus musculus} Length = 351

 Score = 72.5 bits (179), Expect = 1e-13
 Identities = 52/328 (15%), Positives = 87/328 (26%), Gaps = 93/328 (28%)

Query: 85  ALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMD 144
           A V+  ++  G+  LH A         ELLLK  A  +          PL  + S +R++
Sbjct: 82  ADVHAKDKG-GLVPLHNACSYGHYEVTELLLKHGACVNAMDLWQFT--PLHEAASKNRVE 138

Query: 145 VI------------WNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRI 192
           V              N    S  D+      +    +    +    L     A+     +
Sbjct: 139 VCSLLLSHGADPTLVNCHGKSAVDMAPTPELRE--RLTYEFKGHSLLQAAREAD-----L 191

Query: 193 VALAALLIVAADKVNES-----------------------ILVLHDSDLGAKEKTTIYEC 229
             +   L +      +                        +L+   +++  K K      
Sbjct: 192 AKVKKTLALEIINFKQPQSHETALHCAVASLHPKRKQVAELLLRKGANVNEKNKD----- 246

Query: 230 VIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVG 289
                      T L  A +R                   +E+L   GA  N    D    
Sbjct: 247 --------FM-TPLHVAAERAHNDV--------------MEVLHKHGAKMN--ALDSLGQ 281

Query: 290 PPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVG 349
             L  A  AG      +LL S   D +       G +A                 N  V 
Sbjct: 282 TALHRAALAGHLQTCRLLL-SYGSDPS--IISLQGFTAAQMG-------------NEAVQ 325

Query: 350 ILLKHGAIVSQQNKLGLTALHIAAGSGN 377
            +L     +   +      L  A+ +G+
Sbjct: 326 QILSESTPMRTSDVDY--RLLEASKAGD 351

>1bi7_B P16INK4A, MTS1, multiple tumor suppressor; cyclin dependent kinase, cyclin dependent kinase inhibitory protein, CDK, cell cycle; 3.40A {Homo sapiens} SCOP: d.211.1.1 PDB: 1a5e_A 1dc2_A 2a5e_A Length = 156

 Score = 91.8 bits (229), Expect = 1e-21
 Identities = 29/135 (21%), Positives = 46/135 (34%), Gaps = 14/135 (10%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            L  A   G  + +  LL     + N  ++   G   +       MG        R+  +
Sbjct: 15  WLATAAARGRVEEVRALL-EAGANPNAPNSY--GRRPIQVM---MMG---SA---RVAEL 62

Query: 351 LLKHGAIVSQQNKLGLT-ALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKN 409
           LL HGA  +  +   LT  +H AA  G    L  L R     ++++      P+  A + 
Sbjct: 63  LLLHGAEPNCADPATLTRPVHDAAREGFLDTLVVLHRAGAR-LDVRDAWGRLPVDLAEEL 121

Query: 410 DHMVCAEVLLRWGAN 424
            H   A  L      
Sbjct: 122 GHRDVARYLRAAAGG 136

>1bi7_B P16INK4A, MTS1, multiple tumor suppressor; cyclin dependent kinase, cyclin dependent kinase inhibitory protein, CDK, cell cycle; 3.40A {Homo sapiens} SCOP: d.211.1.1 PDB: 1a5e_A 1dc2_A 2a5e_A Length = 156

 Score = 67.5 bits (166), Expect = 3e-13
 Identities = 27/126 (21%), Positives = 45/126 (35%), Gaps = 12/126 (9%)

Query: 316 NDADADA-DGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAG 374
             A +        L  A   + G    +     V  LL+ GA  +  N  G   + +   
Sbjct: 3   PAAGSSMEPSADWLATA--AARG---RV---EEVRALLEAGANPNAPNSYGRRPIQVMM- 53

Query: 375 SGNSQALEDLIRKEPDCINLKTIMMET-PLFFAVKNDHMVCAEVLLRWGANSEVLNLRRE 433
            G+++  E L+    +  N       T P+  A +   +    VL R GA  +V +    
Sbjct: 54  MGSARVAELLLLHGAE-PNCADPATLTRPVHDAAREGFLDTLVVLHRAGARLDVRDAWGR 112

Query: 434 RPIDFA 439
            P+D A
Sbjct: 113 LPVDLA 118

>1bi7_B P16INK4A, MTS1, multiple tumor suppressor; cyclin dependent kinase, cyclin dependent kinase inhibitory protein, CDK, cell cycle; 3.40A {Homo sapiens} SCOP: d.211.1.1 PDB: 1a5e_A 1dc2_A 2a5e_A Length = 156

 Score = 62.5 bits (153), Expect = 1e-11
 Identities = 19/121 (15%), Positives = 34/121 (28%), Gaps = 17/121 (14%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           P+ +    G   V E+LL     + N AD        +H A     G    +     + +
Sbjct: 48  PIQVMMM-GSARVAELLL-LHGAEPNCADPA-TLTRPVHDA--AREG---FL---DTLVV 96

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           L + GA +  ++  G   + +A   G+      L                          
Sbjct: 97  LHRAGARLDVRDAWGRLPVDLAEELGHRDVARYLRAAAGG-TRGS-----NHARIDAAEG 150

Query: 411 H 411
            
Sbjct: 151 P 151

>1yyh_A HN1;, notch 1, ankyrin domain; ankyrin repeats, cell cycle,transcription; 1.90A {Homo sapiens} PDB: 2he0_A 2f8x_K 3nbn_B 3v79_K* 1ot8_A Length = 253

 Score = 94.8 bits (237), Expect = 1e-21
 Identities = 35/134 (26%), Positives = 57/134 (42%), Gaps = 12/134 (8%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PLILA +   E ++E L+ + + D+N  D    G SALH A         ++       +
Sbjct: 127 PLILAARLAVEGMLEDLI-NSHADVNAVDDL--GKSALHWAAA-----VNNV---DAAVV 175

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LLK+GA    QN    T L +AA  G+ +  + L+    +  ++   M   P   A +  
Sbjct: 176 LLKNGANKDMQNNREETPLFLAAREGSYETAKVLLDHFAN-RDITDHMDRLPRDIAQERM 234

Query: 411 HMVCAEVLLRWGAN 424
           H     +L     +
Sbjct: 235 HHDIVRLLDLEHHH 248

>1yyh_A HN1;, notch 1, ankyrin domain; ankyrin repeats, cell cycle,transcription; 1.90A {Homo sapiens} PDB: 2he0_A 2f8x_K 3nbn_B 3v79_K* 1ot8_A Length = 253

 Score = 84.8 bits (211), Expect = 3e-18
 Identities = 30/150 (20%), Positives = 55/150 (36%), Gaps = 19/150 (12%)

Query: 277 AVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSM 336
           A  +G   +           +     VI   +  +   +++   D  G +ALH A     
Sbjct: 17  ASCSGGGLE-----TGNSEEEEDAPAVISDFI-YQGASLHNQ-TDRTGETALHLA----- 64

Query: 337 GLSQHILQNR--IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINL 394
             +++   +R      LL+  A  + Q+ +G T LH A  +      + LIR     ++ 
Sbjct: 65  --ARY---SRSDAAKRLLEASADANIQDNMGRTPLHAAVSADAQGVFQILIRNRATDLDA 119

Query: 395 KTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
           +     TPL  A +       E L+   A+
Sbjct: 120 RMHDGTTPLILAARLAVEGMLEDLINSHAD 149

>1yyh_A HN1;, notch 1, ankyrin domain; ankyrin repeats, cell cycle,transcription; 1.90A {Homo sapiens} PDB: 2he0_A 2f8x_K 3nbn_B 3v79_K* 1ot8_A Length = 253

 Score = 82.5 bits (205), Expect = 1e-17
 Identities = 33/117 (28%), Positives = 53/117 (45%), Gaps = 9/117 (7%)

Query: 313 IDINDADADADGNSALHCALKTSMGLSQHILQNR-----IVGILLKHGA-IVSQQNKLGL 366
           +D+N    D  G + L  A  +  GL     +       ++   +  GA + +Q ++ G 
Sbjct: 1   MDVNVRGPD--GFTPLMIASCSGGGLETGNSEEEEDAPAVISDFIYQGASLHNQTDRTGE 58

Query: 367 TALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGA 423
           TALH+AA    S A + L+    D  N++  M  TPL  AV  D     ++L+R  A
Sbjct: 59  TALHLAARYSRSDAAKRLLEASAD-ANIQDNMGRTPLHAAVSADAQGVFQILIRNRA 114

>1yyh_A HN1;, notch 1, ankyrin domain; ankyrin repeats, cell cycle,transcription; 1.90A {Homo sapiens} PDB: 2he0_A 2f8x_K 3nbn_B 3v79_K* 1ot8_A Length = 253

 Score = 52.5 bits (127), Expect = 2e-07
 Identities = 53/280 (18%), Positives = 91/280 (32%), Gaps = 78/280 (27%)

Query: 86  LVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDV 145
           L N+ + + G TALHLAA    +   + LL+  A  +I+   GR   PL  ++S+    V
Sbjct: 49  LHNQTDRT-GETALHLAARYSRSDAAKRLLEASADANIQDNMGR--TPLHAAVSADAQGV 105

Query: 146 IWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADK 205
                +                   L+  +  +LD   +     G        LI+AA  
Sbjct: 106 F----QI------------------LIRNRATDLDARMH----DGTTP-----LILAARL 134

Query: 206 VNESI---LVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKR 262
             E +   L+   +D+ A +               G+ + L  A   N+           
Sbjct: 135 AVEGMLEDLINSHADVNAVDDL-------------GK-SALHWAAAVNNVDAA------- 173

Query: 263 KLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADA 322
            +LL         GA  +    + +   PL LA + G  +  ++LL     + +    D 
Sbjct: 174 VVLLKN-------GANKD--MQNNREETPLFLAAREGSYETAKVLL-DHFANRD--ITDH 221

Query: 323 DGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQN 362
                   A +       H     IV +L          +
Sbjct: 222 MDRLPRDIAQE-----RMHH---DIVRLLDLEHHHHHHHH 253

>1yyh_A HN1;, notch 1, ankyrin domain; ankyrin repeats, cell cycle,transcription; 1.90A {Homo sapiens} PDB: 2he0_A 2f8x_K 3nbn_B 3v79_K* 1ot8_A Length = 253

 Score = 50.2 bits (121), Expect = 1e-06
 Identities = 19/80 (23%), Positives = 26/80 (32%), Gaps = 13/80 (16%)

Query: 358 VSQQNKLGLTALHIAAGSGNSQAL-------------EDLIRKEPDCINLKTIMMETPLF 404
           V+ +   G T L IA+ SG                   D I +     N      ET L 
Sbjct: 3   VNVRGPDGFTPLMIASCSGGGLETGNSEEEEDAPAVISDFIYQGASLHNQTDRTGETALH 62

Query: 405 FAVKNDHMVCAEVLLRWGAN 424
            A +      A+ LL   A+
Sbjct: 63  LAARYSRSDAAKRLLEASAD 82

>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding protein, hnRNP, telomere, DNA-binding protein, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wtb_A 1x0f_A Length = 75

 Score = 88.7 bits (221), Expect = 1e-21
 Identities = 24/79 (30%), Positives = 39/79 (49%), Gaps = 5/79 (6%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAAA 607
           KIFVGGL      + +  YF   FG +E   +     + ++   RGF F+TFK E+    
Sbjct: 1   KIFVGGLSPDTPEEKIREYFGG-FGEVESIELP---MDNKTNKRRGFCFITFKEEEPVKK 56

Query: 608 AVQARFVTIMGKEVEIKSA 626
            ++ ++  +   + EIK A
Sbjct: 57  IMEKKYHNVGLSKCEIKVA 75

>3deo_A Signal recognition particle 43 kDa protein; chloroplast SRP system, signal sequence, ankyrin repeat, chromodomain, type I turn; 1.50A {Arabidopsis thaliana} SCOP: b.34.13.2 k.37.1.1 PDB: 3dep_A 1x32_A Length = 183

 Score = 92.6 bits (231), Expect = 1e-21
 Identities = 33/135 (24%), Positives = 59/135 (43%), Gaps = 14/135 (10%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           P   A +  DE  +  LL+ +++D      D +G +AL       +G        + V +
Sbjct: 47  PWWTAARKADEQALSQLLEDRDVDA----VDENGRTALLFV--AGLG---SD---KCVRL 94

Query: 351 LLKHGAIVSQQN-KLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKN 409
           L + GA +  ++ + GLTALH+AAG    + +E L+    D I ++     T L  A + 
Sbjct: 95  LAEAGADLDHRDMRGGLTALHMAAGYVRPEVVEALVELGAD-IEVEDERGLTALELAREI 153

Query: 410 DHMVCAEVLLRWGAN 424
                    +++G  
Sbjct: 154 LKTTPKGNPMQFGRR 168

>3deo_A Signal recognition particle 43 kDa protein; chloroplast SRP system, signal sequence, ankyrin repeat, chromodomain, type I turn; 1.50A {Arabidopsis thaliana} SCOP: b.34.13.2 k.37.1.1 PDB: 3dep_A 1x32_A Length = 183

 Score = 80.6 bits (200), Expect = 2e-17
 Identities = 23/135 (17%), Positives = 42/135 (31%), Gaps = 17/135 (12%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
             ++  + G                  AD  ++  +    A              + +  
Sbjct: 17  EYLIEWKDGHSPSWVPSSY------IAADVVSEYETPWWTA--ARKA---DE---QALSQ 62

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMM-ETPLFFAVKN 409
           LL     V   ++ G TAL   AG G+ + +  L     D ++ + +    T L  A   
Sbjct: 63  LL-EDRDVDAVDENGRTALLFVAGLGSDKCVRLLAEAGAD-LDHRDMRGGLTALHMAAGY 120

Query: 410 DHMVCAEVLLRWGAN 424
                 E L+  GA+
Sbjct: 121 VRPEVVEALVELGAD 135

>3deo_A Signal recognition particle 43 kDa protein; chloroplast SRP system, signal sequence, ankyrin repeat, chromodomain, type I turn; 1.50A {Arabidopsis thaliana} SCOP: b.34.13.2 k.37.1.1 PDB: 3dep_A 1x32_A Length = 183

 Score = 72.9 bits (180), Expect = 8e-15
 Identities = 22/107 (20%), Positives = 43/107 (40%), Gaps = 11/107 (10%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            L+     G +  + +L      D++  D    G +ALH A               +V  
Sbjct: 79  ALLFVAGLGSDKCVRLLA-EAGADLDHRDMR-GGLTALHMA--AGYV---RP---EVVEA 128

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTI 397
           L++ GA +  +++ GLTAL +A     +    + ++     I L+ +
Sbjct: 129 LVELGADIEVEDERGLTALELAREILKTTPKGNPMQFGRR-IGLEKV 174

>3deo_A Signal recognition particle 43 kDa protein; chloroplast SRP system, signal sequence, ankyrin repeat, chromodomain, type I turn; 1.50A {Arabidopsis thaliana} SCOP: b.34.13.2 k.37.1.1 PDB: 3dep_A 1x32_A Length = 183

 Score = 47.9 bits (115), Expect = 3e-06
 Identities = 13/70 (18%), Positives = 21/70 (30%), Gaps = 5/70 (7%)

Query: 355 GAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVC 414
             I S+    G     I    G+S +         D +  +    ETP + A +      
Sbjct: 4   KIIGSRTAGEGAMEYLIEWKDGHSPSWVPSSYIAAD-VVSEY---ETPWWTAARKADEQA 59

Query: 415 AEVLLRWGAN 424
              LL    +
Sbjct: 60  LSQLL-EDRD 68

>3deo_A Signal recognition particle 43 kDa protein; chloroplast SRP system, signal sequence, ankyrin repeat, chromodomain, type I turn; 1.50A {Arabidopsis thaliana} SCOP: b.34.13.2 k.37.1.1 PDB: 3dep_A 1x32_A Length = 183

 Score = 44.0 bits (105), Expect = 6e-05
 Identities = 13/45 (28%), Positives = 23/45 (51%)

Query: 85  ALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGR 129
           A ++  +   G+TALH+AA       VE L++  A  ++  + G 
Sbjct: 100 ADLDHRDMRGGLTALHMAAGYVRPEVVEALVELGADIEVEDERGL 144

>3d9h_A CDNA FLJ77766, highly similar to HOMO sapiens ankyrin repeat and SOCS box-containing...; ASB9, ANK repeat, L-shaped, structural protein; 2.20A {Homo sapiens} Length = 285

 Score = 94.9 bits (237), Expect = 2e-21
 Identities = 36/134 (26%), Positives = 58/134 (43%), Gaps = 13/134 (9%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           P+  A   G +  +  L+ S+   +N   AD    S LH A     G   H+     V I
Sbjct: 62  PMHEAAIHGHQLSLRNLI-SQGWAVNIITAD--HVSPLHEA--CLGG---HL---SCVKI 110

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LLKHGA V+       T L  A  SG+   +  L++     +  ++  + +P+  A +  
Sbjct: 111 LLKHGAQVNGVTADWHTPLFNACVSGSWDCVNLLLQHGAS-VQPES-DLASPIHEAARRG 168

Query: 411 HMVCAEVLLRWGAN 424
           H+ C   L+ +G N
Sbjct: 169 HVECVNSLIAYGGN 182

>3d9h_A CDNA FLJ77766, highly similar to HOMO sapiens ankyrin repeat and SOCS box-containing...; ASB9, ANK repeat, L-shaped, structural protein; 2.20A {Homo sapiens} Length = 285

 Score = 94.9 bits (237), Expect = 2e-21
 Identities = 32/149 (21%), Positives = 64/149 (42%), Gaps = 14/149 (9%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL  A  +G  D + +LL      +     ++D  S +H A     G   H+     V  
Sbjct: 128 PLFNACVSGSWDCVNLLL-QHGASVQ---PESDLASPIHEA--ARRG---HV---ECVNS 175

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           L+ +G  +  +     T L++A  +     ++ L+    D +N +    ++PL   V+  
Sbjct: 176 LIAYGGNIDHKISHLGTPLYLACENQQRACVKKLLESGAD-VN-QGKGQDSPLHAVVRTA 233

Query: 411 HMVCAEVLLRWGANSEVLNLRRERPIDFA 439
               A +L+ +GA+++  N   +RP++  
Sbjct: 234 SEELACLLMDFGADTQAKNAEGKRPVELV 262

>3d9h_A CDNA FLJ77766, highly similar to HOMO sapiens ankyrin repeat and SOCS box-containing...; ASB9, ANK repeat, L-shaped, structural protein; 2.20A {Homo sapiens} Length = 285

 Score = 84.9 bits (211), Expect = 4e-18
 Identities = 25/134 (18%), Positives = 46/134 (34%), Gaps = 20/134 (14%)

Query: 294 LATQAGDEDVIEILLKSKNIDINDAD---ADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           + +          L+  +   +   D      DG+                       GI
Sbjct: 1   MGSSHHHHHHSSGLV-PRGSHMASMDGKQGGMDGSKPAGPRD--------------FPGI 45

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
            L    ++        + +H AA  G+  +L +LI +    +N+ T    +PL  A    
Sbjct: 46  RLLSNPLM-GDAVSDWSPMHEAAIHGHQLSLRNLISQGWA-VNIITADHVSPLHEACLGG 103

Query: 411 HMVCAEVLLRWGAN 424
           H+ C ++LL+ GA 
Sbjct: 104 HLSCVKILLKHGAQ 117

>3d9h_A CDNA FLJ77766, highly similar to HOMO sapiens ankyrin repeat and SOCS box-containing...; ASB9, ANK repeat, L-shaped, structural protein; 2.20A {Homo sapiens} Length = 285

 Score = 84.5 bits (210), Expect = 6e-18
 Identities = 26/134 (19%), Positives = 49/134 (36%), Gaps = 14/134 (10%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           P+  A + G  + +  L+ +   +I+   +     + L+ A +     +Q       V  
Sbjct: 160 PIHEAARRGHVECVNSLI-AYGGNIDHKISH--LGTPLYLACE-----NQQR---ACVKK 208

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LL+ GA V  Q K   + LH    + + +    L+    D    K    + P+       
Sbjct: 209 LLESGADV-NQGKGQDSPLHAVVRTASEELACLLMDFGAD-TQAKNAEGKRPVELVPPES 266

Query: 411 HMVCAEVLLRWGAN 424
            +     L R GA+
Sbjct: 267 PLA-QLFLEREGAS 279

>3d9h_A CDNA FLJ77766, highly similar to HOMO sapiens ankyrin repeat and SOCS box-containing...; ASB9, ANK repeat, L-shaped, structural protein; 2.20A {Homo sapiens} Length = 285

 Score = 66.7 bits (164), Expect = 5e-12
 Identities = 21/112 (18%), Positives = 39/112 (34%), Gaps = 15/112 (13%)

Query: 267 LEI-ELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGN 325
           +E    L  +G   +       +G PL LA +      ++ LL     D+N        +
Sbjct: 170 VECVNSLIAYGGNID--HKISHLGTPLYLACENQQRACVKKLL-ESGADVN---QGKGQD 223

Query: 326 SALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGN 377
           S LH  ++T+           +  +L+  GA    +N  G   + +      
Sbjct: 224 SPLHAVVRTA-----SE---ELACLLMDFGADTQAKNAEGKRPVELVPPESP 267

>1bd8_A P19INK4D CDK4/6 inhibitor; tumor suppressor, ankyrin motif; 1.80A {Homo sapiens} SCOP: d.211.1.1 PDB: 1bi8_B 1ap7_A 1blx_B Length = 156

 Score = 90.5 bits (226), Expect = 3e-21
 Identities = 31/134 (23%), Positives = 50/134 (37%), Gaps = 13/134 (9%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            L  A   GD   +  LL  + +  +    +  G +AL        G         I   
Sbjct: 5   RLSGAAARGDVQEVRRLLHRELVHPD--ALNRFGKTALQVM---MFG---ST---AIALE 53

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LLK GA  + Q+  G + +H AA +G    L+ L+    D +N+       P+  AV+  
Sbjct: 54  LLKQGASPNVQDTSGTSPVHDAARTGFLDTLKVLVEHGAD-VNVPDGTGALPIHLAVQEG 112

Query: 411 HMVCAEVLLRWGAN 424
           H      L    ++
Sbjct: 113 HTAVVSFLAA-ESD 125

>1bd8_A P19INK4D CDK4/6 inhibitor; tumor suppressor, ankyrin motif; 1.80A {Homo sapiens} SCOP: d.211.1.1 PDB: 1bi8_B 1ap7_A 1blx_B Length = 156

 Score = 79.8 bits (198), Expect = 1e-17
 Identities = 30/150 (20%), Positives = 56/150 (37%), Gaps = 16/150 (10%)

Query: 270 ELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALH 329
            LL       +    ++     L +    G   +   LL  +    N  D    G S +H
Sbjct: 20  RLLHRELVHPD--ALNRFGKTALQVM-MFGSTAIALELL-KQGASPNVQDTS--GTSPVH 73

Query: 330 CALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEP 389
            A     G    +     + +L++HGA V+  +  G   +H+A   G++  +  L   E 
Sbjct: 74  DA--ARTG---FL---DTLKVLVEHGADVNVPDGTGALPIHLAVQEGHTAVVSFLA-AES 124

Query: 390 DCINLKTIMMETPLFFAVKNDHMVCAEVLL 419
           D ++ +     TPL  A++       ++L 
Sbjct: 125 D-LHRRDARGLTPLELALQRGAQDLVDILQ 153

>1bd8_A P19INK4D CDK4/6 inhibitor; tumor suppressor, ankyrin motif; 1.80A {Homo sapiens} SCOP: d.211.1.1 PDB: 1bi8_B 1ap7_A 1blx_B Length = 156

 Score = 65.5 bits (161), Expect = 1e-12
 Identities = 17/101 (16%), Positives = 38/101 (37%), Gaps = 9/101 (8%)

Query: 324 GNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALED 383
               L  A       +       +  +L +        N+ G TAL +    G++    +
Sbjct: 2   AGDRLSGA-------AARGDVQEVRRLLHRELVHPDALNRFGKTALQVMM-FGSTAIALE 53

Query: 384 LIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
           L+++     N++     +P+  A +   +   +VL+  GA+
Sbjct: 54  LLKQGAS-PNVQDTSGTSPVHDAARTGFLDTLKVLVEHGAD 93

>1bd8_A P19INK4D CDK4/6 inhibitor; tumor suppressor, ankyrin motif; 1.80A {Homo sapiens} SCOP: d.211.1.1 PDB: 1bi8_B 1ap7_A 1blx_B Length = 156

 Score = 40.9 bits (97), Expect = 5e-04
 Identities = 11/45 (24%), Positives = 18/45 (40%), Gaps = 2/45 (4%)

Query: 85  ALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGR 129
              + +    G TAL +     TA     LLK+ A  +++   G 
Sbjct: 27  VHPDALNRF-GKTALQVMMFGSTA-IALELLKQGASPNVQDTSGT 69

>1wf0_A TDP-43, TAR DNA-binding protein-43; structural genomics, RRM domain, riken structural genomics/proteomics initiative RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 88

 Score = 87.7 bits (218), Expect = 4e-21
 Identities = 24/83 (28%), Positives = 36/83 (43%), Gaps = 9/83 (10%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           S +FVG     +  D L  +F + +G + D  +      K    R F FVTF  ++ A +
Sbjct: 6   SGVFVGRCTGDMTEDELREFFSQ-YGDVMDVFIP-----KPF--RAFAFVTFADDQIAQS 57

Query: 608 AVQARFVTIMGKEVEIKSAVPKE 630
                 + I G  V I +A PK 
Sbjct: 58  LCG-EDLIIKGISVHISNAEPKH 79

>3ehr_A Osteoclast-stimulating factor 1; beta barrel, helix-turn-helix, SH3, ankyrin repeat, signaling protein, ANK repeat, cytoplasm, phosphoprotein; 1.95A {Homo sapiens} PDB: 3ehq_A Length = 222

 Score = 91.9 bits (229), Expect = 5e-21
 Identities = 33/186 (17%), Positives = 61/186 (32%), Gaps = 23/186 (12%)

Query: 284 TDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCA-LKTSMGLSQHI 342
             K     +  A    +    + L   +  DI         ++       K   GL    
Sbjct: 8   PVKPGQVKVFRALYTFEPRTPDELY-IEEGDIIYITDM--SDTNWWKGTSKGRTGLIPSN 64

Query: 343 LQNR-------------------IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALED 383
                                   +   L +   V+  +K G TAL+ A   G+   +E 
Sbjct: 65  YVAEQAESIDNPLHEAAKRGNLSWLRECLDNRVGVNGLDKAGSTALYWACHGGHKDIVEM 124

Query: 384 LIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQD 443
           L  +    +N +  + +T L  A    +    ++LL  GA +++ N+ ++   D A +  
Sbjct: 125 LFTQPNIELNQQNKLGDTALHAAAWKGYADIVQLLLAKGARTDLRNIEKKLAFDMATNAA 184

Query: 444 MRFLLK 449
              LLK
Sbjct: 185 CASLLK 190

>3ehr_A Osteoclast-stimulating factor 1; beta barrel, helix-turn-helix, SH3, ankyrin repeat, signaling protein, ANK repeat, cytoplasm, phosphoprotein; 1.95A {Homo sapiens} PDB: 3ehq_A Length = 222

 Score = 90.8 bits (226), Expect = 1e-20
 Identities = 36/152 (23%), Positives = 59/152 (38%), Gaps = 13/152 (8%)

Query: 279 ANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGL 338
              +   + +  PL  A + G+   +   L    + +N  D    G++AL+ A     G 
Sbjct: 64  NYVAEQAESIDNPLHEAAKRGNLSWLRECL-DNRVGVNGLDKA--GSTALYWA--CHGG- 117

Query: 339 SQHILQNRIVGILLKH-GAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTI 397
             H     IV +L       ++QQNKLG TALH AA  G +  ++ L+ K     +L+ I
Sbjct: 118 --HK---DIVEMLFTQPNIELNQQNKLGDTALHAAAWKGYADIVQLLLAKGAR-TDLRNI 171

Query: 398 MMETPLFFAVKNDHMVCAEVLLRWGANSEVLN 429
             +     A         +      A   + N
Sbjct: 172 EKKLAFDMATNAACASLLKKKQGTDAVRTLSN 203

>3ehr_A Osteoclast-stimulating factor 1; beta barrel, helix-turn-helix, SH3, ankyrin repeat, signaling protein, ANK repeat, cytoplasm, phosphoprotein; 1.95A {Homo sapiens} PDB: 3ehq_A Length = 222

 Score = 83.8 bits (208), Expect = 3e-18
 Identities = 27/121 (22%), Positives = 45/121 (37%), Gaps = 11/121 (9%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            L  A   G +D++E+L    NI++N  +    G++ALH A     G   +     IV +
Sbjct: 109 ALYWACHGGHKDIVEMLFTQPNIELNQQNKL--GDTALHAA--AWKG---YA---DIVQL 158

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LL  GA    +N     A  +A  +  +  L+     +     L           +    
Sbjct: 159 LLAKGARTDLRNIEKKLAFDMATNAACASLLKKKQGTDAV-RTLSNAEDYLDDEDSDLEH 217

Query: 411 H 411
           H
Sbjct: 218 H 218

>3ehr_A Osteoclast-stimulating factor 1; beta barrel, helix-turn-helix, SH3, ankyrin repeat, signaling protein, ANK repeat, cytoplasm, phosphoprotein; 1.95A {Homo sapiens} PDB: 3ehq_A Length = 222

 Score = 71.1 bits (175), Expect = 7e-14
 Identities = 32/285 (11%), Positives = 65/285 (22%), Gaps = 82/285 (28%)

Query: 95  GMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSV 154
           G   +  A  +   R  + L  +       +             S  R  +        +
Sbjct: 12  GQVKVFRALYTFEPRTPDELYIEEGDIIYITDMSDT--NWWKGTSKGRTGL--------I 61

Query: 155 EDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESI---L 211
               V    +++                                L  AA + N S     
Sbjct: 62  PSNYVAEQAESIDNP-----------------------------LHEAAKRGNLSWLREC 92

Query: 212 VLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIEL 271
           + +   +   +K              G  T L  A                ++L  +   
Sbjct: 93  LDNRVGVNGLDKA-------------GS-TALYWACHGGHKDIV-------EMLFTQP-- 129

Query: 272 LQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCA 331
                   N    +K     L  A   G  D++++LL +K    +    + +   A   A
Sbjct: 130 ----NIELN--QQNKLGDTALHAAAWKGYADIVQLLL-AKGARTD--LRNIEKKLAFDMA 180

Query: 332 LKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSG 376
             T+           ++       A+ +  N         +    
Sbjct: 181 --TNAA---CA---SLLKKKQGTDAVRTLSNAEDYLDDEDSDLEH 217

>3ehr_A Osteoclast-stimulating factor 1; beta barrel, helix-turn-helix, SH3, ankyrin repeat, signaling protein, ANK repeat, cytoplasm, phosphoprotein; 1.95A {Homo sapiens} PDB: 3ehq_A Length = 222

 Score = 46.5 bits (111), Expect = 1e-05
 Identities = 10/53 (18%), Positives = 19/53 (35%), Gaps = 1/53 (1%)

Query: 360 QQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHM 412
           +  K G   +  A  +   +  ++L  +E D I   T M +T  +        
Sbjct: 7   KPVKPGQVKVFRALYTFEPRTPDELYIEEGD-IIYITDMSDTNWWKGTSKGRT 58

>3c5r_A BARD-1, BRCA1-associated ring domain protein 1; ankyrin repeat, helix, extended loop, four repeat, PR ANK repeat, disease mutation, metal-binding; 2.00A {Homo sapiens} SCOP: k.37.1.1 Length = 137

 Score = 89.0 bits (222), Expect = 6e-21
 Identities = 31/137 (22%), Positives = 52/137 (37%), Gaps = 16/137 (11%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR--IV 348
            L +A+  GD   +E LL     D N  D    G + LH A         H       +V
Sbjct: 13  LLHIASIKGDIPSVEYLL-QNGSDPNVKDHA--GWTPLHEA-------CNH---GHLKVV 59

Query: 349 GILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVK 408
            +LL+H A+V+       + LH AA +G+   ++ L+       N   I    P+ +   
Sbjct: 60  ELLLQHKALVNTTGYQNDSPLHDAAKNGHVDIVKLLLSYGAS-RNAVNIFGLRPVDYTDD 118

Query: 409 NDHMVCAEVLLRWGANS 425
                   +  +  ++S
Sbjct: 119 ESMKSLLLLPEKNESSS 135

>3c5r_A BARD-1, BRCA1-associated ring domain protein 1; ankyrin repeat, helix, extended loop, four repeat, PR ANK repeat, disease mutation, metal-binding; 2.00A {Homo sapiens} SCOP: k.37.1.1 Length = 137

 Score = 78.2 bits (194), Expect = 3e-17
 Identities = 37/144 (25%), Positives = 67/144 (46%), Gaps = 16/144 (11%)

Query: 313 IDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIA 372
           ID      +  G + LH A  +  G    I     V  LL++G+  + ++  G T LH A
Sbjct: 2   IDPF---TNHRGETLLHIA--SIKG---DI---PSVEYLLQNGSDPNVKDHAGWTPLHEA 50

Query: 373 AGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRR 432
              G+ + +E L++ +   +N      ++PL  A KN H+   ++LL +GA+   +N+  
Sbjct: 51  CNHGHLKVVELLLQHKAL-VNTTGYQNDSPLHDAAKNGHVDIVKLLLSYGASRNAVNIFG 109

Query: 433 ERPIDFAKSQDMR----FLLKAAN 452
            RP+D+   + M+       K  +
Sbjct: 110 LRPVDYTDDESMKSLLLLPEKNES 133

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus} Length = 285

 Score = 93.0 bits (232), Expect = 7e-21
 Identities = 29/137 (21%), Positives = 50/137 (36%), Gaps = 15/137 (10%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
               A    +  ++  LL +     N  +        LH A   ++         +IV I
Sbjct: 34  ASYYAIADNNVRLVCTLL-NAGALKNLLE----NEFPLHQA--ATLE---DT---KIVKI 80

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIM-METPLFFAVKN 409
           LL  G   SQ +  G TAL+ A  SGN Q ++  ++K    +        +T  + AV  
Sbjct: 81  LLFSGLDDSQFDDKGNTALYYAVDSGNMQTVKLFVKKNWR-LMFYGKTGWKTSFYHAVML 139

Query: 410 DHMVCAEVLLRWGANSE 426
           + +      L    ++ 
Sbjct: 140 NDVSIVSYFLSEIPSTF 156

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus} Length = 285

 Score = 89.1 bits (222), Expect = 1e-19
 Identities = 27/135 (20%), Positives = 55/135 (40%), Gaps = 14/135 (10%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL  A    D  +++ILL    +D +  D    GN+AL+ A     G   ++   + V +
Sbjct: 65  PLHQAATLEDTKIVKILL-FSGLDDSQFDDK--GNTALYYA--VDSG---NM---QTVKL 113

Query: 351 LLKHGAIVSQQNKLGL-TALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKN 409
            +K    +    K G  T+ + A    +   +   + + P        ++ + +   +KN
Sbjct: 114 FVKKNWRLMFYGKTGWKTSFYHAVMLNDVSIVSYFLSEIPS--TFDLAILLSCIHITIKN 171

Query: 410 DHMVCAEVLLRWGAN 424
            H+    +LL +  +
Sbjct: 172 GHVDMMILLLDYMTS 186

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus} Length = 285

 Score = 84.5 bits (210), Expect = 6e-18
 Identities = 23/147 (15%), Positives = 51/147 (34%), Gaps = 13/147 (8%)

Query: 279 ANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGL 338
            + S  D K    L  A  +G+   +++ +  KN  +          ++ + A    +  
Sbjct: 86  LDDSQFDDKGNTALYYAVDSGNMQTVKLFV-KKNWRLMFYGKT-GWKTSFYHA--VMLN- 140

Query: 339 SQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIM 398
              +    IV   L           + L+ +HI   +G+   +  L+       N    +
Sbjct: 141 --DV---SIVSYFLSEIPST-FDLAILLSCIHITIKNGHVDMMILLLDYMTS-TNTNNSL 193

Query: 399 METP-LFFAVKNDHMVCAEVLLRWGAN 424
           +  P +  A+ N  +   + L ++  N
Sbjct: 194 LFIPDIKLAIDNKDIEMLQALFKYDIN 220

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus} Length = 285

 Score = 80.7 bits (200), Expect = 1e-16
 Identities = 26/132 (19%), Positives = 53/132 (40%), Gaps = 15/132 (11%)

Query: 293 ILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILL 352
           +          ++  L SK+       AD  G+SA + A   +     ++   R+V  LL
Sbjct: 4   LSRINTWKSKQLKSFLSSKDTFK----ADVHGHSASYYA--IADN---NV---RLVCTLL 51

Query: 353 KHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHM 412
             GA+ +         LH AA   +++ ++ L+    D  +       T L++AV + +M
Sbjct: 52  NAGALKNLLE--NEFPLHQAATLEDTKIVKILLFSGLD-DSQFDDKGNTALYYAVDSGNM 108

Query: 413 VCAEVLLRWGAN 424
              ++ ++    
Sbjct: 109 QTVKLFVKKNWR 120

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus} Length = 285

 Score = 75.3 bits (186), Expect = 8e-15
 Identities = 21/146 (14%), Positives = 44/146 (30%), Gaps = 27/146 (18%)

Query: 280 NGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLS 339
            G  T          A    D  ++   L             A   S +H       G  
Sbjct: 127 TGWKT------SFYHAVMLNDVSIVSYFLSEIPSTF----DLAILLSCIHIT--IKNG-- 172

Query: 340 QHILQNRIVGILLKHGAIVSQQNKLGLT-ALHIAAGSGNSQALEDLIRKEPDCINLKTIM 398
            H+    ++ +LL +    +  N L     + +A  + + + L+ L + + + I      
Sbjct: 173 -HV---DMMILLLDYMTSTNTNNSLLFIPDIKLAIDNKDIEMLQALFKYDIN-IY----- 222

Query: 399 METPLFFAVKNDHMVCAEVLLRWGAN 424
             +     V  D    A++++     
Sbjct: 223 --SANLENVLLDDAEIAKMIIEKHVE 246

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus} Length = 285

 Score = 72.9 bits (180), Expect = 5e-14
 Identities = 46/345 (13%), Positives = 88/345 (25%), Gaps = 94/345 (27%)

Query: 87  VNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVI 146
             + +   G +A + A   +  R V  LL   A       +     PL  + +     + 
Sbjct: 24  TFKADVH-GHSASYYAIADNNVRLVCTLLNAGA--LKNLLENEF--PLHQAATLEDTKI- 77

Query: 147 WNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVG--GRIVALAALLIVAAD 204
                                 VK+L      L      +     G        L  A D
Sbjct: 78  ----------------------VKIL------LFSGLDDSQFDDKGNTA-----LYYAVD 104

Query: 205 KVNESI---LVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEK 261
             N       V  +  L    KT             G  T    AV  N           
Sbjct: 105 SGNMQTVKLFVKKNWRLMFYGKT-------------GWKTSFYHAVMLNDVSIV------ 145

Query: 262 RKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADAD 321
               L E                   +   + +  + G  D++ +LL       N    +
Sbjct: 146 -SYFLSE-------IPSTF---DLAILLSCIHITIKNGHVDMMILLL-DYMTSTN--TNN 191

Query: 322 ADGNS-ALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQA 380
           +      +  A+      ++ I    ++  L K+   +        +A        +++ 
Sbjct: 192 SLLFIPDIKLAID-----NKDI---EMLQALFKYDINIY-------SANLENVLLDDAEI 236

Query: 381 LEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANS 425
            + +I K  +     +   +  +    K D ++     LR    +
Sbjct: 237 AKMIIEKHVE-YKSDSYTKDLDIVKNNKLDEIISKNKELRLMYVN 280

>3d2w_A TAR DNA-binding protein 43; DP-43 proteinopathy, TDP-43 inclusions, RNA recognition MOTI U, ALS, RRM; HET: DNA; 1.65A {Mus musculus} Length = 89

 Score = 86.9 bits (216), Expect = 8e-21
 Identities = 25/87 (28%), Positives = 38/87 (43%), Gaps = 9/87 (10%)

Query: 544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEK 603
               SK+FVG     + ++ L  +F + +G + D  +      K    R F FVTF  +K
Sbjct: 8   HHHGSKVFVGRCTEDMTAEELQQFFCQ-YGEVVDVFIP-----KPF--RAFAFVTFADDK 59

Query: 604 SAAAAVQARFVTIMGKEVEIKSAVPKE 630
            A +      + I G  V I +A PK 
Sbjct: 60  VAQSLCGEDLI-IKGISVHISNAEPKH 85

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A Length = 102

 Score = 87.3 bits (217), Expect = 9e-21
 Identities = 22/98 (22%), Positives = 52/98 (53%), Gaps = 9/98 (9%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           + +FVGG+   +D   +  +F + +G +++ ++    T++  VS+G+GFV+F ++     
Sbjct: 10  NTVFVGGIDVRMDETEIRSFFAR-YGSVKEVKII---TDRTGVSKGYGFVSFYNDVDVQK 65

Query: 608 AVQARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQE 645
            V++  +   GK++++  A+ K+     L     Q + 
Sbjct: 66  IVES-QINFHGKKLKLGPAIRKQ----NLSTYHVQPRP 98

>2y1l_E Darpin-8.4; hydrolase-inhibitor complex, DEVD darpin, ankyrin repeat Pro ribosome display, apoptosis; 1.80A {Synthetic source} PDB: 3noc_D* 4dx5_D* 2j8s_D* 4dx6_D* 4dx7_D* 3nog_D* 1mj0_A 1svx_A 2qyj_A 2bkg_A 2p2c_P 2bkk_B* 2v5q_C 2xee_A 2xeh_A 3q9n_C* 3q9u_C* Length = 169

 Score = 89.3 bits (223), Expect = 1e-20
 Identities = 46/134 (34%), Positives = 71/134 (52%), Gaps = 12/134 (8%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            L+ A +AG +D + IL+ +   D+N  DA   G + LH A     G   H+    IV +
Sbjct: 17  KLLEAARAGRDDEVRILM-ANGADVNAEDAS--GWTPLHLA--AFNG---HL---EIVEV 65

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LLK+GA V+  +  G+T L +AA  G+ + +E L++   D +N   +   TPL  A    
Sbjct: 66  LLKNGADVNAVDHAGMTPLRLAALFGHLEIVEVLLKNGAD-VNANDMEGHTPLHLAAMFG 124

Query: 411 HMVCAEVLLRWGAN 424
           H+   EVLL+ GA+
Sbjct: 125 HLEIVEVLLKNGAD 138

>2y1l_E Darpin-8.4; hydrolase-inhibitor complex, DEVD darpin, ankyrin repeat Pro ribosome display, apoptosis; 1.80A {Synthetic source} PDB: 3noc_D* 4dx5_D* 2j8s_D* 4dx6_D* 4dx7_D* 3nog_D* 1mj0_A 1svx_A 2qyj_A 2bkg_A 2p2c_P 2bkk_B* 2v5q_C 2xee_A 2xeh_A 3q9n_C* 3q9u_C* Length = 169

 Score = 85.9 bits (214), Expect = 2e-19
 Identities = 38/131 (29%), Positives = 62/131 (47%), Gaps = 16/131 (12%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR--IV 348
           PL LA   G  +++E+LL     D+N  D    G + L  A       +         IV
Sbjct: 50  PLHLAAFNGHLEIVEVLL-KNGADVNAVDHA--GMTPLRLA-------ALF---GHLEIV 96

Query: 349 GILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVK 408
            +LLK+GA V+  +  G T LH+AA  G+ + +E L++   D +N +    +T    ++ 
Sbjct: 97  EVLLKNGADVNANDMEGHTPLHLAAMFGHLEIVEVLLKNGAD-VNAQDKFGKTAFDISID 155

Query: 409 NDHMVCAEVLL 419
           N +   AE+L 
Sbjct: 156 NGNEDLAEILQ 166

>2y1l_E Darpin-8.4; hydrolase-inhibitor complex, DEVD darpin, ankyrin repeat Pro ribosome display, apoptosis; 1.80A {Synthetic source} PDB: 3noc_D* 4dx5_D* 2j8s_D* 4dx6_D* 4dx7_D* 3nog_D* 1mj0_A 1svx_A 2qyj_A 2bkg_A 2p2c_P 2bkk_B* 2v5q_C 2xee_A 2xeh_A 3q9n_C* 3q9u_C* Length = 169

 Score = 73.9 bits (183), Expect = 2e-15
 Identities = 32/111 (28%), Positives = 50/111 (45%), Gaps = 10/111 (9%)

Query: 314 DINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAA 373
             +     +D    L  A     G          V IL+ +GA V+ ++  G T LH+AA
Sbjct: 5   HHHHHH-GSDLGKKLLEA--ARAG---RD---DEVRILMANGADVNAEDASGWTPLHLAA 55

Query: 374 GSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
            +G+ + +E L++   D +N       TPL  A    H+   EVLL+ GA+
Sbjct: 56  FNGHLEIVEVLLKNGAD-VNAVDHAGMTPLRLAALFGHLEIVEVLLKNGAD 105

>2y1l_E Darpin-8.4; hydrolase-inhibitor complex, DEVD darpin, ankyrin repeat Pro ribosome display, apoptosis; 1.80A {Synthetic source} PDB: 3noc_D* 4dx5_D* 2j8s_D* 4dx6_D* 4dx7_D* 3nog_D* 1mj0_A 1svx_A 2qyj_A 2bkg_A 2p2c_P 2bkk_B* 2v5q_C 2xee_A 2xeh_A 3q9n_C* 3q9u_C* Length = 169

 Score = 67.4 bits (166), Expect = 4e-13
 Identities = 33/99 (33%), Positives = 49/99 (49%), Gaps = 15/99 (15%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR--IV 348
           PL LA   G  +++E+LL     D+N  D +  G++ LH A       +         IV
Sbjct: 83  PLRLAALFGHLEIVEVLL-KNGADVNANDME--GHTPLHLA-------AMF---GHLEIV 129

Query: 349 GILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRK 387
            +LLK+GA V+ Q+K G TA  I+  +GN    E L + 
Sbjct: 130 EVLLKNGADVNAQDKFGKTAFDISIDNGNEDLAEILQKL 168

>2y1l_E Darpin-8.4; hydrolase-inhibitor complex, DEVD darpin, ankyrin repeat Pro ribosome display, apoptosis; 1.80A {Synthetic source} PDB: 3noc_D* 4dx5_D* 2j8s_D* 4dx6_D* 4dx7_D* 3nog_D* 1mj0_A 1svx_A 2qyj_A 2bkg_A 2p2c_P 2bkk_B* 2v5q_C 2xee_A 2xeh_A 3q9n_C* 3q9u_C* Length = 169

 Score = 50.8 bits (123), Expect = 2e-07
 Identities = 19/73 (26%), Positives = 29/73 (39%), Gaps = 1/73 (1%)

Query: 352 LKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDH 411
           ++               L  AA +G    +  L+    D +N +     TPL  A  N H
Sbjct: 1   MRGSHHHHHHGSDLGKKLLEAARAGRDDEVRILMANGAD-VNAEDASGWTPLHLAAFNGH 59

Query: 412 MVCAEVLLRWGAN 424
           +   EVLL+ GA+
Sbjct: 60  LEIVEVLLKNGAD 72

>1n0r_A 4ANK, 4 ankyrin repeats; structural protein; 1.50A {} SCOP: k.37.1.1 Length = 126

 Score = 87.8 bits (219), Expect = 1e-20
 Identities = 45/133 (33%), Positives = 72/133 (54%), Gaps = 12/133 (9%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL LA + G  +V+++LL     D+N  D +  G + LH A     G   H+    +V +
Sbjct: 5   PLHLAARNGHLEVVKLLL-EAGADVNAKDKN--GRTPLHLA--ARNG---HL---EVVKL 53

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LL+ GA V+ ++K G T LH+AA +G+ + ++ L+    D +N K     TPL  A +N 
Sbjct: 54  LLEAGADVNAKDKNGRTPLHLAARNGHLEVVKLLLEAGAD-VNAKDKNGRTPLHLAARNG 112

Query: 411 HMVCAEVLLRWGA 423
           H+   ++LL  GA
Sbjct: 113 HLEVVKLLLEAGA 125

>1n0r_A 4ANK, 4 ankyrin repeats; structural protein; 1.50A {} SCOP: k.37.1.1 Length = 126

 Score = 66.6 bits (164), Expect = 3e-13
 Identities = 34/102 (33%), Positives = 56/102 (54%), Gaps = 9/102 (8%)

Query: 323 DGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALE 382
           +G + LH A     G   H+    +V +LL+ GA V+ ++K G T LH+AA +G+ + ++
Sbjct: 1   NGRTPLHLA--ARNG---HL---EVVKLLLEAGADVNAKDKNGRTPLHLAARNGHLEVVK 52

Query: 383 DLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
            L+    D +N K     TPL  A +N H+   ++LL  GA+
Sbjct: 53  LLLEAGAD-VNAKDKNGRTPLHLAARNGHLEVVKLLLEAGAD 93

>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 86.9 bits (216), Expect = 1e-20
 Identities = 23/84 (27%), Positives = 38/84 (45%), Gaps = 6/84 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAA 606
           S + V GLP+      L  YF   FG +   +V   + + ++  S+GFGFV F   ++  
Sbjct: 16  SDLIVLGLPWKTTEQDLKEYFST-FGEVLMVQV---KKDLKTGHSKGFGFVRFTEYETQV 71

Query: 607 AAVQARFVTIMGKEVEIKSAVPKE 630
             +  R   I G+  + K    K+
Sbjct: 72  KVMSQRH-MIDGRWCDCKLPNSKQ 94

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 Length = 77

 Score = 85.6 bits (213), Expect = 1e-20
 Identities = 24/79 (30%), Positives = 40/79 (50%), Gaps = 5/79 (6%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARV-AEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           K+F+GGL +    + L  YF + FG +++  V  +  T++   SRGFGFVTF  +     
Sbjct: 2   KMFIGGLSWQTTQEGLREYFGQ-FGEVKECLVMRDPLTKR---SRGFGFVTFMDQAGVDK 57

Query: 608 AVQARFVTIMGKEVEIKSA 626
            +      +  K ++ K A
Sbjct: 58  VLAQSRHELDSKTIDPKVA 76

>2jab_A H10-2-G3; HER2, darpin, ankyrin repeat protein, membrane protein, human epidermal growth factor receptor 2, de novo protein; 1.70A {} PDB: 3hg0_D 2xzt_G 2xzd_G 2y0b_G 2v4h_C Length = 136

 Score = 86.7 bits (216), Expect = 3e-20
 Identities = 38/131 (29%), Positives = 65/131 (49%), Gaps = 16/131 (12%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR--IV 348
            L+ A +AG +D + IL+ +   D+N  D    G + L+ A       + H       IV
Sbjct: 17  KLLEAARAGQDDEVRILM-ANGADVNAKDEY--GLTPLYLA-------TAH---GHLEIV 63

Query: 349 GILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVK 408
            +LLK+GA V+  + +G T LH+AA  G+ +  E L++   D +N +    +T    ++ 
Sbjct: 64  EVLLKNGADVNAVDAIGFTPLHLAAFIGHLEIAEVLLKHGAD-VNAQDKFGKTAFDISIG 122

Query: 409 NDHMVCAEVLL 419
           N +   AE+L 
Sbjct: 123 NGNEDLAEILQ 133

>2jab_A H10-2-G3; HER2, darpin, ankyrin repeat protein, membrane protein, human epidermal growth factor receptor 2, de novo protein; 1.70A {} PDB: 3hg0_D 2xzt_G 2xzd_G 2y0b_G 2v4h_C Length = 136

 Score = 74.0 bits (183), Expect = 9e-16
 Identities = 31/113 (27%), Positives = 53/113 (46%), Gaps = 14/113 (12%)

Query: 314 DINDADADADGNSALHCALKTSMGLSQHILQNR--IVGILLKHGAIVSQQNKLGLTALHI 371
             +     +D    L  A +            +   V IL+ +GA V+ +++ GLT L++
Sbjct: 5   HHHHHH-GSDLGKKLLEAAR----------AGQDDEVRILMANGADVNAKDEYGLTPLYL 53

Query: 372 AAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
           A   G+ + +E L++   D +N    +  TPL  A    H+  AEVLL+ GA+
Sbjct: 54  ATAHGHLEIVEVLLKNGAD-VNAVDAIGFTPLHLAAFIGHLEIAEVLLKHGAD 105

>2jab_A H10-2-G3; HER2, darpin, ankyrin repeat protein, membrane protein, human epidermal growth factor receptor 2, de novo protein; 1.70A {} PDB: 3hg0_D 2xzt_G 2xzd_G 2y0b_G 2v4h_C Length = 136

 Score = 65.1 bits (160), Expect = 1e-12
 Identities = 44/147 (29%), Positives = 60/147 (40%), Gaps = 31/147 (21%)

Query: 241 TKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGD 300
            KL  A +                    + +L   GA  N    D+    PL LAT  G 
Sbjct: 16  KKLLEAARAGQDDE--------------VRILMANGADVNA--KDEYGLTPLYLATAHGH 59

Query: 301 EDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR--IVGILLKHGAIV 358
            +++E+LL     D+N  DA   G + LH A       +         I  +LLKHGA V
Sbjct: 60  LEIVEVLL-KNGADVNAVDAI--GFTPLHLA-------AFI---GHLEIAEVLLKHGADV 106

Query: 359 SQQNKLGLTALHIAAGSGNSQALEDLI 385
           + Q+K G TA  I+ G+GN    E L 
Sbjct: 107 NAQDKFGKTAFDISIGNGNEDLAEILQ 133

>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A Length = 87

 Score = 84.9 bits (211), Expect = 4e-20
 Identities = 27/87 (31%), Positives = 42/87 (48%), Gaps = 5/87 (5%)

Query: 541 ASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARV-AEFQTEKQSVSRGFGFVTF 599
           +  +E   K+FVGGL +      L  YF K FG + D  +  +  T +   SRGFGF+ F
Sbjct: 5   SKNEEDAGKMFVGGLSWDTSKKDLKDYFTK-FGEVVDCTIKMDPNTGR---SRGFGFILF 60

Query: 600 KHEKSAAAAVQARFVTIMGKEVEIKSA 626
           K   S    +  +   + G+ ++ K A
Sbjct: 61  KDAASVEKVLDQKEHRLDGRVIDPKKA 87

>3t8k_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati midwest center F or structural genomics, MCSG; 1.77A {Leptotrichia buccalis} Length = 186

 Score = 88.2 bits (219), Expect = 4e-20
 Identities = 17/141 (12%), Positives = 38/141 (26%), Gaps = 13/141 (9%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            L          +   L+ +K  DI     +  G +          G +       +  I
Sbjct: 45  VLRNNNDEARYKISMFLI-NKGADIKSRTKE--GTTLFFPLF--QGGGNDITGTTELCKI 99

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALED-------LIRKEPDCINLKTIMMETPL 403
            L+ GA ++   K     +     +      E          +     + +K     T L
Sbjct: 100 FLEKGADITALYKPYKIVVFKNIFNYFVDENEMIPLYKLIFSQSGLQ-LLIKDKWGLTAL 158

Query: 404 FFAVKNDHMVCAEVLLRWGAN 424
            F  +    +  +++  +   
Sbjct: 159 EFVKRCQKPIALKMMEDYIKK 179

>3t8k_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati midwest center F or structural genomics, MCSG; 1.77A {Leptotrichia buccalis} Length = 186

 Score = 78.9 bits (195), Expect = 6e-17
 Identities = 22/162 (13%), Positives = 51/162 (31%), Gaps = 22/162 (13%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            +  A   G  +    L + K  +  +       ++ L+  L+ +   +++    +I   
Sbjct: 9   TVSAAAMLGTYEDFLELFE-KGYEDKE---SVLKSNILYDVLRNNNDEARY----KISMF 60

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALED------LIRKEPDCINLKTIMMETPLF 404
           L+  GA +  + K G T        G +            + K  D I       +  +F
Sbjct: 61  LINKGADIKSRTKEGTTLFFPLFQGGGNDITGTTELCKIFLEKGAD-ITALYKPYKIVVF 119

Query: 405 FAVKNDHMVCAE-------VLLRWGANSEVLNLRRERPIDFA 439
             + N  +   E       +  + G    + +      ++F 
Sbjct: 120 KNIFNYFVDENEMIPLYKLIFSQSGLQLLIKDKWGLTALEFV 161

>3t8k_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati midwest center F or structural genomics, MCSG; 1.77A {Leptotrichia buccalis} Length = 186

 Score = 65.1 bits (159), Expect = 4e-12
 Identities = 23/132 (17%), Positives = 39/132 (29%), Gaps = 11/132 (8%)

Query: 269 IELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEI-----LLKSKNIDINDADADAD 323
              L   GA        K+         Q G  D+        +   K  DI        
Sbjct: 58  SMFLINKGADIK--SRTKEGTTLFFPLFQGGGNDITGTTELCKIFLEKGADITALYKP-- 113

Query: 324 GNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALED 383
               +   +  +  + ++ +      I  + G  +  ++K GLTAL          AL+ 
Sbjct: 114 YKIVVFKNIF-NYFVDENEMIPLYKLIFSQSGLQLLIKDKWGLTALEFVKRCQKPIALKM 172

Query: 384 LIRKEPDCINLK 395
           +        NLK
Sbjct: 173 MEDYIKK-YNLK 183

>3t8k_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati midwest center F or structural genomics, MCSG; 1.77A {Leptotrichia buccalis} Length = 186

 Score = 42.7 bits (101), Expect = 2e-04
 Identities = 7/91 (7%), Positives = 25/91 (27%), Gaps = 16/91 (17%)

Query: 279 ANGSCTDKKVGPPLILATQAGDED------VIEILLKSKNIDINDADADADGNSALHCAL 332
           A+ +   K     +         D      + +++     + +   D    G +AL    
Sbjct: 105 ADITALYKPYKIVVFKNIFNYFVDENEMIPLYKLIFSQSGLQLLIKDKW--GLTALEFVK 162

Query: 333 KTSMGLSQHILQNRIVGILLKHGAIVSQQNK 363
           +          +   + ++  +    + +  
Sbjct: 163 RCQ--------KPIALKMMEDYIKKYNLKEN 185

>3aji_A 26S proteasome non-ATPase regulatory subunit 10; gankyrin, S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dvw_A 2dwz_A* 1tr4_A 1uoh_A 1qym_A Length = 231

 Score = 89.5 bits (222), Expect = 4e-20
 Identities = 45/232 (19%), Positives = 84/232 (36%), Gaps = 21/232 (9%)

Query: 283 CTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHI 342
           C          LA     +++ E +L +        D D    +ALH A       + H 
Sbjct: 4   CVSNI--MICNLAYSGKLDELKERIL-ADKSLATRTDQD--SRTALHWACS-----AGHT 53

Query: 343 LQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETP 402
               IV  LL+ G  V+ ++  G + LHIAA +G  + ++ L+ K    +N       TP
Sbjct: 54  ---EIVEFLLQLGVPVNDKDDAGWSPLHIAASAGXDEIVKALLVKGAH-VNAVNQNGCTP 109

Query: 403 LFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHTNLAFLN 462
           L +A   +    A +LL  GAN +  +      +  A ++    ++        +    +
Sbjct: 110 LHYAASKNRHEIAVMLLEGGANPDAKDHYDATAMHRAAAKGNLKMVHILLFYKASTNIQD 169

Query: 463 QEKQNA-SLESDEDISGTCEALLS------MVDDNSNTERICSGTKIEVCKY 507
            E      L  DE+     + L++      + +    T    +   + +   
Sbjct: 170 TEGNTPLHLACDEERVEEAKFLVTQGASIYIENKEEKTPLQVAKGGLGLILK 221

>3aji_A 26S proteasome non-ATPase regulatory subunit 10; gankyrin, S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dvw_A 2dwz_A* 1tr4_A 1uoh_A 1qym_A Length = 231

 Score = 46.0 bits (109), Expect = 2e-05
 Identities = 37/276 (13%), Positives = 76/276 (27%), Gaps = 67/276 (24%)

Query: 94  SGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYS 153
           S +   +LA         E +L  ++      +D R    L  + S+   +++    E+ 
Sbjct: 6   SNIMICNLAYSGKLDELKERILADKSLATRTDQDSRT--ALHWACSAGHTEIV----EF- 58

Query: 154 VEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVG--GRIVALAALLIVAADKVNESI- 210
                            LL             N     G        L +AA    + I 
Sbjct: 59  -----------------LLQLG-------VPVNDKDDAGWSP-----LHIAASAGXDEIV 89

Query: 211 --LVLHDSDLGAKEK--------TTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAE 260
             L++  + + A  +                   + L            ++T     +A+
Sbjct: 90  KALLVKGAHVNAVNQNGCTPLHYAASKNRHEIAVMLLEGGANPDAKDHYDATAMHRAAAK 149

Query: 261 KRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADA 320
               +   + +L  + A  N    D +   PL LA      +  + L+ ++   I     
Sbjct: 150 GNLKM---VHILLFYKASTNIQ--DTEGNTPLHLACDEERVEEAKFLV-TQGASIY--IE 201

Query: 321 DADGNSALHCALKTSMGLSQHILQNRIVGILLKHGA 356
           + +  + L  A               ++   L  G 
Sbjct: 202 NKEEKTPLQVAKG----------GLGLILKRLAEGE 227

>2fo1_E LIN-12 protein; beta-barrel, protein-DNA complex, double helix, ankyrin repeat, gene regulation/signalling protein/DNA complex; 3.12A {Caenorhabditis elegans} SCOP: d.211.1.1 Length = 373

 Score = 91.9 bits (229), Expect = 6e-20
 Identities = 50/367 (13%), Positives = 100/367 (27%), Gaps = 88/367 (23%)

Query: 76  LVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLE 135
           L     G +       +   +        +      +              +    + L 
Sbjct: 42  LEASYDGYIKRQRNELQHYSLYPNPQGYGNGNDFLGDFNHTNLQ--IPTEPEPESPIKLH 99

Query: 136 LSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVAL 195
                                        +    + +++++  + +  +      R V  
Sbjct: 100 TE------------------------AAGSYAITEPITRESVNIIDPRH-----NRTV-- 128

Query: 196 AALLIVAADKVNESI---LVLHDSDL----GA-KEKTTIYECVIREALALGRATKLQRAV 247
              L   A   +      L++H++      GA        E            T L  AV
Sbjct: 129 ---LHWIASNSSAEKSEDLIVHEAKECIAAGADVNAMDCDEN-----------TPLMLAV 174

Query: 248 KRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEIL 307
                            L+         GA       +K     L  A    D  ++  +
Sbjct: 175 LARRRRLV-------AYLMKA-------GADPT--IYNKSERSALHQAAANRDFGMMVYM 218

Query: 308 L--KSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIV------- 358
           L       DI + D +  G +AL          ++   Q     +L++ GA V       
Sbjct: 219 LNSTKLKGDIEELDRN--GMTALMIVAH-----NEGRDQVASAKLLVEKGAKVDYDGAAR 271

Query: 359 -SQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEV 417
              +   G TALH AA   N   ++ L+ ++    + +    +TP+  A +   +     
Sbjct: 272 KDSEKYKGRTALHYAAQVSNMPIVKYLVGEKGSNKDKQDEDGKTPIMLAAQEGRIEVVMY 331

Query: 418 LLRWGAN 424
           L++ GA+
Sbjct: 332 LIQQGAS 338

>2fo1_E LIN-12 protein; beta-barrel, protein-DNA complex, double helix, ankyrin repeat, gene regulation/signalling protein/DNA complex; 3.12A {Caenorhabditis elegans} SCOP: d.211.1.1 Length = 373

 Score = 68.1 bits (167), Expect = 4e-12
 Identities = 21/102 (20%), Positives = 41/102 (40%), Gaps = 14/102 (13%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR--IV 348
            L  A Q  +  +++ L+  K  + +  D D  G + +  A       +Q     R  +V
Sbjct: 282 ALHYAAQVSNMPIVKYLVGEKGSNKDKQDED--GKTPIMLA-------AQE---GRIEVV 329

Query: 349 GILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPD 390
             L++ GA V   +    TA  +A  + +   ++   R  P+
Sbjct: 330 MYLIQQGASVEAVDATDHTARQLAQANNHHNIVDIFDRCRPE 371

>1ycs_B 53BP2, P53BP2; ankyrin repeats, SH3, tumor suppressor, multigene family, nuclear protein, phosphorylation, disease mutation, polymorphism; 2.20A {Homo sapiens} SCOP: b.34.2.1 d.211.1.1 PDB: 4a63_B Length = 239

 Score = 88.8 bits (221), Expect = 8e-20
 Identities = 34/216 (15%), Positives = 65/216 (30%), Gaps = 34/216 (15%)

Query: 267 LEI-ELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGN 325
            +        G        +      L+ ++  G+ D+++ ++  +  D +  + +  G 
Sbjct: 18  RKTGSERIAHGMRVK---FNPLPLALLLDSSLEGEFDLVQRII-YEVDDPSLPNDE--GI 71

Query: 326 SALHCALKTSMGLSQ--HILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALED 383
           +ALH A           H     IV  L++ G  V+  +  G T LH AA   N Q  + 
Sbjct: 72  TALHNA-------VCAGHT---EIVKFLVQFGVNVNAADSDGWTPLHCAASCNNVQVCKF 121

Query: 384 LIRKEPDCINLKTI---MMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAK 440
           L+      +   T             ++  +  C++ L        ++N           
Sbjct: 122 LVESGAA-VFAMTYSDMQTAADKCEEMEEGYTQCSQFLYGVQEKMGIMNKGVIYA----- 175

Query: 441 SQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDI 476
                 L          L     +        DED 
Sbjct: 176 ------LWDYEPQNDDELPMKEGDCMTIIHREDEDE 205

>1ycs_B 53BP2, P53BP2; ankyrin repeats, SH3, tumor suppressor, multigene family, nuclear protein, phosphorylation, disease mutation, polymorphism; 2.20A {Homo sapiens} SCOP: b.34.2.1 d.211.1.1 PDB: 4a63_B Length = 239

 Score = 87.3 bits (217), Expect = 2e-19
 Identities = 22/136 (16%), Positives = 49/136 (36%), Gaps = 17/136 (12%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR--IV 348
            L    +          + +  + +     +    + L  +       S         +V
Sbjct: 8   SLPPGKRTNLRKTGSERI-AHGMRVK---FNPLPLALLLDS-------SLE---GEFDLV 53

Query: 349 GILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVK 408
             ++      S  N  G+TALH A  +G+++ ++ L++   + +N       TPL  A  
Sbjct: 54  QRIIYEVDDPSLPNDEGITALHNAVCAGHTEIVKFLVQFGVN-VNAADSDGWTPLHCAAS 112

Query: 409 NDHMVCAEVLLRWGAN 424
            +++   + L+  GA 
Sbjct: 113 CNNVQVCKFLVESGAA 128

>1ycs_B 53BP2, P53BP2; ankyrin repeats, SH3, tumor suppressor, multigene family, nuclear protein, phosphorylation, disease mutation, polymorphism; 2.20A {Homo sapiens} SCOP: b.34.2.1 d.211.1.1 PDB: 4a63_B Length = 239

 Score = 68.0 bits (167), Expect = 1e-12
 Identities = 22/104 (21%), Positives = 39/104 (37%), Gaps = 10/104 (9%)

Query: 321 DADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQA 380
           +  G  +L    +T+          +     + HG  V   N L L  L  ++  G    
Sbjct: 2   EITGQVSLPPGKRTN--------LRKTGSERIAHGMRVK-FNPLPLALLLDSSLEGEFDL 52

Query: 381 LEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
           ++ +I +  D  +L      T L  AV   H    + L+++G N
Sbjct: 53  VQRIIYEVDD-PSLPNDEGITALHNAVCAGHTEIVKFLVQFGVN 95

>1ycs_B 53BP2, P53BP2; ankyrin repeats, SH3, tumor suppressor, multigene family, nuclear protein, phosphorylation, disease mutation, polymorphism; 2.20A {Homo sapiens} SCOP: b.34.2.1 d.211.1.1 PDB: 4a63_B Length = 239

 Score = 59.9 bits (146), Expect = 5e-10
 Identities = 20/124 (16%), Positives = 39/124 (31%), Gaps = 16/124 (12%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDAD-ADADGNSALHCALKTSMGLSQHILQNRIVG 349
           PL  A    +  V + L+      +     +D    +     ++       +    +   
Sbjct: 106 PLHCAASCNNVQVCKFLV-ESGAAVFAMTYSDMQTAADKCEEMEEG-----YT---QCSQ 156

Query: 350 ILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIM--METPLFFAV 407
            L      +   NK  + AL       +    ++L  KE DC+ +       E   ++A 
Sbjct: 157 FLYGVQEKMGIMNKGVIYALWDYEPQND----DELPMKEGDCMTIIHREDEDEIEWWWAR 212

Query: 408 KNDH 411
            ND 
Sbjct: 213 LNDK 216

>1s70_B 130 kDa myosin-binding subunit of smooth muscle myosin phophatase (M130), serine/threonine protein phosphatase PP1-beta (OR delta) catalytic subunit; myosin phosphatase; HET: PGE; 2.70A {Gallus gallus} SCOP: d.211.1.1 Length = 299

 Score = 89.9 bits (224), Expect = 1e-19
 Identities = 33/158 (20%), Positives = 60/158 (37%), Gaps = 18/158 (11%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL +A +   E++++  +  + +DI  A  + +    +                      
Sbjct: 142 PLDIAEEEAMEELLQNEVNRQGVDIEAARKEEERI--MLRD---------------ARQW 184

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           L        +  K G TALH+AA  G ++ L+ LI+   D +N+K     TPL  A    
Sbjct: 185 LNSGHINDVRHAKSGGTALHVAAAKGYTEVLKLLIQARYD-VNIKDYDGWTPLHAAAHWG 243

Query: 411 HMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLL 448
                 +L+    + E +N   +   D A    + +L 
Sbjct: 244 KEEACRILVENLCDMEAVNKVGQTAFDVADEDILGYLE 281

>1s70_B 130 kDa myosin-binding subunit of smooth muscle myosin phophatase (M130), serine/threonine protein phosphatase PP1-beta (OR delta) catalytic subunit; myosin phosphatase; HET: PGE; 2.70A {Gallus gallus} SCOP: d.211.1.1 Length = 299

 Score = 82.9 bits (206), Expect = 2e-17
 Identities = 40/155 (25%), Positives = 57/155 (36%), Gaps = 13/155 (8%)

Query: 285 DKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQ 344
           D K      L    G E  +E  +  K           D  +    A   S G       
Sbjct: 5   DAKQKRNEQLKRWIGSETDLEPPV-VKRKKTKVKF---DDGAVFLAA--CSSG---DT-- 53

Query: 345 NRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLF 404
              V  LL+ GA ++  N  GLTALH A    N   ++ L+    + IN        PL 
Sbjct: 54  -EEVLRLLERGADINYANVDGLTALHQACIDDNVDMVKFLVENGAN-INQPDNEGWIPLH 111

Query: 405 FAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFA 439
            A    ++  AE L+  GA+   +N   + P+D A
Sbjct: 112 AAASCGYLDIAEYLISQGAHVGAVNSEGDTPLDIA 146

>1s70_B 130 kDa myosin-binding subunit of smooth muscle myosin phophatase (M130), serine/threonine protein phosphatase PP1-beta (OR delta) catalytic subunit; myosin phosphatase; HET: PGE; 2.70A {Gallus gallus} SCOP: d.211.1.1 Length = 299

 Score = 80.2 bits (199), Expect = 2e-16
 Identities = 28/134 (20%), Positives = 46/134 (34%), Gaps = 18/134 (13%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            L  A    + D+++ L+     +IN  D +  G   LH A   S G   ++    I   
Sbjct: 76  ALHQACIDDNVDMVKFLV-ENGANINQPDNE--GWIPLHAA--ASCG---YL---DIAEY 124

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           L+  GA V   N  G T L IA      + L++ + ++   I               +  
Sbjct: 125 LISQGAHVGAVNSEGDTPLDIAEEEAMEELLQNEVNRQGVDIE-------AARKEEERIM 177

Query: 411 HMVCAEVLLRWGAN 424
                + L     N
Sbjct: 178 LRDARQWLNSGHIN 191

>1s70_B 130 kDa myosin-binding subunit of smooth muscle myosin phophatase (M130), serine/threonine protein phosphatase PP1-beta (OR delta) catalytic subunit; myosin phosphatase; HET: PGE; 2.70A {Gallus gallus} SCOP: d.211.1.1 Length = 299

 Score = 66.4 bits (163), Expect = 8e-12
 Identities = 27/135 (20%), Positives = 48/135 (35%), Gaps = 19/135 (14%)

Query: 265 LLLEI-ELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADAD 323
           +L +  + L             K  G  L +A   G  +V+++L+     D+N  D D  
Sbjct: 177 MLRDARQWLNSGHINDVR--HAKSGGTALHVAAAKGYTEVLKLLI-QARYDVNIKDYD-- 231

Query: 324 GNSALHCALKTSMGLSQHILQNR--IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQAL 381
           G + LH A              +     IL+++   +   NK+G TA  +A         
Sbjct: 232 GWTPLHAAAH----------WGKEEACRILVENLCDMEAVNKVGQTAFDVADEDILGYLE 281

Query: 382 EDLIRKEPDCINLKT 396
           E   ++     + K 
Sbjct: 282 ELQKKQNLL-HSEKR 295

>1s70_B 130 kDa myosin-binding subunit of smooth muscle myosin phophatase (M130), serine/threonine protein phosphatase PP1-beta (OR delta) catalytic subunit; myosin phosphatase; HET: PGE; 2.70A {Gallus gallus} SCOP: d.211.1.1 Length = 299

 Score = 62.9 bits (154), Expect = 1e-10
 Identities = 19/105 (18%), Positives = 34/105 (32%), Gaps = 10/105 (9%)

Query: 320 ADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQ 379
           ADA                         +   +        +   G      A  SG+++
Sbjct: 4   ADAKQKRNEQLKR-----WIGSE---TDLEPPVVKRKKTKVKFDDG-AVFLAACSSGDTE 54

Query: 380 ALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
            +  L+ +  D IN   +   T L  A  +D++   + L+  GAN
Sbjct: 55  EVLRLLERGAD-INYANVDGLTALHQACIDDNVDMVKFLVENGAN 98

>1s70_B 130 kDa myosin-binding subunit of smooth muscle myosin phophatase (M130), serine/threonine protein phosphatase PP1-beta (OR delta) catalytic subunit; myosin phosphatase; HET: PGE; 2.70A {Gallus gallus} SCOP: d.211.1.1 Length = 299

 Score = 50.6 bits (122), Expect = 1e-06
 Identities = 40/279 (14%), Positives = 82/279 (29%), Gaps = 79/279 (28%)

Query: 85  ALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMD 144
           A +N+  ++ G   LH AA        E L+ + A     + +G    PL+++   +  +
Sbjct: 97  ANINQ-PDNEGWIPLHAAASCGYLDIAEYLISQGAHVGAVNSEGD--TPLDIAEEEAMEE 153

Query: 145 VIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAAD 204
           ++    +                    ++++  +++          R      +L  A  
Sbjct: 154 LL----QN------------------EVNRQGVDIEA--------ARKEEERIMLRDARQ 183

Query: 205 KVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKL 264
                 L     +     K+                T L  A  +  T          KL
Sbjct: 184 -----WLNSGHINDVRHAKS--------------GGTALHVAAAKGYTEVL-------KL 217

Query: 265 LLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADG 324
           L+             N    D     PL  A   G E+   IL+     D+     +  G
Sbjct: 218 LIQA-------RYDVN--IKDYDGWTPLHAAAHWGKEEACRILV-ENLCDME--AVNKVG 265

Query: 325 NSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNK 363
            +A   A      +  ++ +     +  K   + S++ +
Sbjct: 266 QTAFDVA---DEDILGYLEE-----LQKKQNLLHSEKRE 296

>3ui2_A Signal recognition particle 43 kDa protein, chlor; ankyrin repeat, chromodomain, aromatic CAGE, signal recognit particle, protein targeting; 3.18A {Arabidopsis thaliana} PDB: 1x3q_A 2hug_A Length = 244

 Score = 87.7 bits (218), Expect = 2e-19
 Identities = 28/155 (18%), Positives = 49/155 (31%), Gaps = 31/155 (20%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            L+     G +  + +L      D++  D    G +ALH A               +V  
Sbjct: 80  ALLFVAGLGSDKCVRLLA-EAGADLDHRDMR-GGLTALHMA--AGYV---RP---EVVEA 129

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRK---------------------EP 389
           L++ GA +  +++ GLTAL +A     +    + ++                      E 
Sbjct: 130 LVELGADIEVEDERGLTALELAREILKTTPKGNPMQFGRRIGLEKVINVLEGQVFEYAEV 189

Query: 390 DCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
           D I  K    +   +     D   C  V     A 
Sbjct: 190 DEIVEKRGKGKDVEYLVRWKDGGDCEWVKGVHVAE 224

>3ui2_A Signal recognition particle 43 kDa protein, chlor; ankyrin repeat, chromodomain, aromatic CAGE, signal recognit particle, protein targeting; 3.18A {Arabidopsis thaliana} PDB: 1x3q_A 2hug_A Length = 244

 Score = 80.0 bits (198), Expect = 1e-16
 Identities = 23/135 (17%), Positives = 42/135 (31%), Gaps = 17/135 (12%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
             ++  + G                  AD  ++  +    A              + +  
Sbjct: 18  EYLIEWKDGHSPSWVPSSY------IAADVVSEYETPWWTA--ARKA---DE---QALSQ 63

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMM-ETPLFFAVKN 409
           LL     V   ++ G TAL   AG G+ + +  L     D ++ + +    T L  A   
Sbjct: 64  LL-EDRDVDAVDENGRTALLFVAGLGSDKCVRLLAEAGAD-LDHRDMRGGLTALHMAAGY 121

Query: 410 DHMVCAEVLLRWGAN 424
                 E L+  GA+
Sbjct: 122 VRPEVVEALVELGAD 136

>3ui2_A Signal recognition particle 43 kDa protein, chlor; ankyrin repeat, chromodomain, aromatic CAGE, signal recognit particle, protein targeting; 3.18A {Arabidopsis thaliana} PDB: 1x3q_A 2hug_A Length = 244

 Score = 46.1 bits (110), Expect = 3e-05
 Identities = 13/69 (18%), Positives = 21/69 (30%), Gaps = 5/69 (7%)

Query: 356 AIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCA 415
            I S+    G     I    G+S +         D +  +    ETP + A +       
Sbjct: 6   IIGSRTAGEGAMEYLIEWKDGHSPSWVPSSYIAAD-VVSEY---ETPWWTAARKADEQAL 61

Query: 416 EVLLRWGAN 424
             LL    +
Sbjct: 62  SQLL-EDRD 69

>3ui2_A Signal recognition particle 43 kDa protein, chlor; ankyrin repeat, chromodomain, aromatic CAGE, signal recognit particle, protein targeting; 3.18A {Arabidopsis thaliana} PDB: 1x3q_A 2hug_A Length = 244

 Score = 45.7 bits (109), Expect = 3e-05
 Identities = 41/288 (14%), Positives = 74/288 (25%), Gaps = 97/288 (33%)

Query: 95  GMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSV 154
             T    AA     + +  LL+ R   D+ + D      L        + V         
Sbjct: 45  YETPWWTAARKADEQALSQLLEDR---DVDAVDENGRTAL--------LFVAGL------ 87

Query: 155 EDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESI---L 211
                     +   V+LL++   +LD     +  GG        L +AA  V   +   L
Sbjct: 88  ---------GSDKCVRLLAEAGADLDH---RDMRGGLTA-----LHMAAGYVRPEVVEAL 130

Query: 212 VLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIEL 271
           V   +D+  +++              G  T L+ A +   T                   
Sbjct: 131 VELGADIEVEDER-------------GL-TALELAREILKTTP--------------KGN 162

Query: 272 LQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCA 331
              FG          +    ++        +V EI+ K              G    +  
Sbjct: 163 PMQFGRRIG-----LEKVINVLEGQVFEYAEVDEIVEK-----------RGKGKDVEYLV 206

Query: 332 LKTSMGLSQHILQNR--IVGILLKHGA-IVSQQNKLGLTALHIAAGSG 376
                       ++      +   H A  V++  +     L  A    
Sbjct: 207 ----------RWKDGGDCEWVKGVHVAEDVAKDYE---DGLEYAVAES 241

>3ui2_A Signal recognition particle 43 kDa protein, chlor; ankyrin repeat, chromodomain, aromatic CAGE, signal recognit particle, protein targeting; 3.18A {Arabidopsis thaliana} PDB: 1x3q_A 2hug_A Length = 244

 Score = 44.1 bits (105), Expect = 9e-05
 Identities = 13/45 (28%), Positives = 23/45 (51%)

Query: 85  ALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGR 129
           A ++  +   G+TALH+AA       VE L++  A  ++  + G 
Sbjct: 101 ADLDHRDMRGGLTALHMAAGYVRPEVVEALVELGADIEVEDERGL 145

>1ikn_D Protein (I-kappa-B-alpha), protein (NF-kappa-B P50D subunit); transcription factor, IKB/NFKB complex; 2.30A {Homo sapiens} SCOP: d.211.1.1 PDB: 1nfi_E Length = 236

 Score = 87.6 bits (218), Expect = 2e-19
 Identities = 29/143 (20%), Positives = 50/143 (34%), Gaps = 20/143 (13%)

Query: 291 PLILATQAGD----EDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR 346
            L LA    +     +VI  +       +N  +      + LH A+ T+        Q  
Sbjct: 11  FLHLAIIHEEKALTMEVIRQVK-GDLAFLNFQNNL--QQTPLHLAVITN--------QPE 59

Query: 347 IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRK-----EPDCINLKTIMMET 401
           I   LL  G     ++  G T LH+A   G   ++  L +          +        T
Sbjct: 60  IAEALLGAGCDPELRDFRGNTPLHLACEQGCLASVGVLTQSCTTPHLHSILKATNYNGHT 119

Query: 402 PLFFAVKNDHMVCAEVLLRWGAN 424
            L  A  + ++   E+L+  GA+
Sbjct: 120 CLHLASIHGYLGIVELLVSLGAD 142

>1ikn_D Protein (I-kappa-B-alpha), protein (NF-kappa-B P50D subunit); transcription factor, IKB/NFKB complex; 2.30A {Homo sapiens} SCOP: d.211.1.1 PDB: 1nfi_E Length = 236

 Score = 84.5 bits (210), Expect = 3e-18
 Identities = 31/156 (19%), Positives = 54/156 (34%), Gaps = 19/156 (12%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADA----DADGNSALHCALKTSMGLSQHILQNR 346
           PL LA + G    + +L        +        + +G++ LH A           +   
Sbjct: 81  PLHLACEQGCLASVGVLT-QSCTTPHLHSILKATNYNGHTCLHLA----------SIHGY 129

Query: 347 --IVGILLKHGAIVSQQNKL-GLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPL 403
             IV +L+  GA V+ Q    G TALH+A    N   +  L++   D +N  T    +P 
Sbjct: 130 LGIVELLVSLGADVNAQEPCNGRTALHLAVDLQNPDLVSLLLKCGAD-VNRVTYQGYSPY 188

Query: 404 FFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFA 439
                       + L +    +  +    E    + 
Sbjct: 189 QLTWGRPSTRIQQQLGQLTLENLQMLPESEDEESYD 224

>1ikn_D Protein (I-kappa-B-alpha), protein (NF-kappa-B P50D subunit); transcription factor, IKB/NFKB complex; 2.30A {Homo sapiens} SCOP: d.211.1.1 PDB: 1nfi_E Length = 236

 Score = 82.2 bits (204), Expect = 1e-17
 Identities = 25/107 (23%), Positives = 42/107 (39%), Gaps = 5/107 (4%)

Query: 321 DADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQA 380
             DG+S LH A+       +  L   ++  +    A ++ QN L  T LH+A  +   + 
Sbjct: 5   TEDGDSFLHLAII----HEEKALTMEVIRQVKGDLAFLNFQNNLQQTPLHLAVITNQPEI 60

Query: 381 LEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEV 427
            E L+    D   L+     TPL  A +   +    VL +      +
Sbjct: 61  AEALLGAGCD-PELRDFRGNTPLHLACEQGCLASVGVLTQSCTTPHL 106

>1ikn_D Protein (I-kappa-B-alpha), protein (NF-kappa-B P50D subunit); transcription factor, IKB/NFKB complex; 2.30A {Homo sapiens} SCOP: d.211.1.1 PDB: 1nfi_E Length = 236

 Score = 80.3 bits (199), Expect = 6e-17
 Identities = 27/126 (21%), Positives = 54/126 (42%), Gaps = 11/126 (8%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            L LA+  G   ++E+L+ S   D+N  +   +G +ALH A+       Q+     +V +
Sbjct: 120 CLHLASIHGYLGIVELLV-SLGADVNAQE-PCNGRTALHLAVD-----LQNP---DLVSL 169

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LLK GA V++    G +   +  G  +++  + L +   +         E    +  +++
Sbjct: 170 LLKCGADVNRVTYQGYSPYQLTWGRPSTRIQQQLGQLTLE-NLQMLPESEDEESYDTESE 228

Query: 411 HMVCAE 416
                E
Sbjct: 229 FTEFTE 234

>1ikn_D Protein (I-kappa-B-alpha), protein (NF-kappa-B P50D subunit); transcription factor, IKB/NFKB complex; 2.30A {Homo sapiens} SCOP: d.211.1.1 PDB: 1nfi_E Length = 236

 Score = 57.6 bits (140), Expect = 3e-09
 Identities = 26/119 (21%), Positives = 35/119 (29%), Gaps = 15/119 (12%)

Query: 267 LEI-ELLQLFGAVANGSCTDKKVGP-PLILATQAGDEDVIEILLKSKNIDINDADADADG 324
           L I ELL   GA  N    +   G   L LA    + D++ +LL     D+N       G
Sbjct: 130 LGIVELLVSLGADVN--AQEPCNGRTALHLAVDLQNPDLVSLLL-KCGADVNRVTYQ--G 184

Query: 325 NSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALED 383
            S                   RI   L +      Q              S  ++  ED
Sbjct: 185 YSPYQLTWG-----RPST---RIQQQLGQLTLENLQMLPESEDEESYDTESEFTEFTED 235

>1ikn_D Protein (I-kappa-B-alpha), protein (NF-kappa-B P50D subunit); transcription factor, IKB/NFKB complex; 2.30A {Homo sapiens} SCOP: d.211.1.1 PDB: 1nfi_E Length = 236

 Score = 56.4 bits (137), Expect = 8e-09
 Identities = 18/68 (26%), Positives = 30/68 (44%), Gaps = 3/68 (4%)

Query: 360 QQNKLGLTALHIAAGSGNSQALEDLIR---KEPDCINLKTIMMETPLFFAVKNDHMVCAE 416
           Q  + G + LH+A          ++IR    +   +N +  + +TPL  AV  +    AE
Sbjct: 3   QLTEDGDSFLHLAIIHEEKALTMEVIRQVKGDLAFLNFQNNLQQTPLHLAVITNQPEIAE 62

Query: 417 VLLRWGAN 424
            LL  G +
Sbjct: 63  ALLGAGCD 70

>1ikn_D Protein (I-kappa-B-alpha), protein (NF-kappa-B P50D subunit); transcription factor, IKB/NFKB complex; 2.30A {Homo sapiens} SCOP: d.211.1.1 PDB: 1nfi_E Length = 236

 Score = 46.4 bits (111), Expect = 2e-05
 Identities = 18/45 (40%), Positives = 22/45 (48%)

Query: 85  ALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGR 129
           A VN  E  +G TALHLA +      V LLLK  A  +  +  G 
Sbjct: 141 ADVNAQEPCNGRTALHLAVDLQNPDLVSLLLKCGADVNRVTYQGY 185

>1ikn_D Protein (I-kappa-B-alpha), protein (NF-kappa-B P50D subunit); transcription factor, IKB/NFKB complex; 2.30A {Homo sapiens} SCOP: d.211.1.1 PDB: 1nfi_E Length = 236

 Score = 46.0 bits (110), Expect = 2e-05
 Identities = 41/251 (16%), Positives = 64/251 (25%), Gaps = 64/251 (25%)

Query: 85  ALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMD 144
           A +N        T LHLA  ++     E LL      ++R   G    PL L+     + 
Sbjct: 36  AFLNFQNNL-QQTPLHLAVITNQPEIAEALLGAGCDPELRDFRGNT--PLHLACEQGCLA 92

Query: 145 VIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAAD 204
                    V  L             +L                 G        L +A+ 
Sbjct: 93  S--------VGVL--TQSCTTPHLHSILKATNYN-----------GHTC-----LHLASI 126

Query: 205 KVNESI---LVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEK 261
                I   LV   +D+ A+E               GR T L  AV   +          
Sbjct: 127 HGYLGIVELLVSLGADVNAQEPCN------------GR-TALHLAVDLQNPDL------- 166

Query: 262 RKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADAD 321
                  + LL   GA  N      +   P  L        + + L     ++      +
Sbjct: 167 -------VSLLLKCGADVN--RVTYQGYSPYQLTWGRPSTRIQQQLG-QLTLENLQMLPE 216

Query: 322 ADGNSALHCAL 332
           ++         
Sbjct: 217 SE--DEESYDT 225

>1ihb_A P18-INK4C(INK6), cyclin-dependent kinase 6 inhibitor; cell cycle inhibitor, ankyrin repeat, CDK 4/6 inhibitor; 1.95A {Homo sapiens} SCOP: d.211.1.1 PDB: 1bu9_A 1g3n_B 1mx4_A 1mx2_A 1mx6_A Length = 162

 Score = 84.0 bits (209), Expect = 5e-19
 Identities = 30/185 (16%), Positives = 59/185 (31%), Gaps = 32/185 (17%)

Query: 241 TKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGD 300
            +L  A  R               LL             N    +      L +    G+
Sbjct: 7   NELASAAARGDLEQL-------TSLLQN-------NVNVN--AQNGFGRTALQVMKL-GN 49

Query: 301 EDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR--IVGILLKHGAIV 358
            ++   LL  +  + +  D    G + +H A       ++         +  LL+  A V
Sbjct: 50  PEIARRLL-LRGANPDLKDRT--GFAVIHDA-------ARA---GFLDTLQTLLEFQADV 96

Query: 359 SQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVL 418
           + ++  G   LH+AA  G+ + +E L++     +  +    +T    A          ++
Sbjct: 97  NIEDNEGNLPLHLAAKEGHLRVVEFLVKHTASNVGHRNHKGDTACDLARLYGRNEVVSLM 156

Query: 419 LRWGA 423
              GA
Sbjct: 157 QANGA 161

>1ihb_A P18-INK4C(INK6), cyclin-dependent kinase 6 inhibitor; cell cycle inhibitor, ankyrin repeat, CDK 4/6 inhibitor; 1.95A {Homo sapiens} SCOP: d.211.1.1 PDB: 1bu9_A 1g3n_B 1mx4_A 1mx2_A 1mx6_A Length = 162

 Score = 65.5 bits (161), Expect = 2e-12
 Identities = 21/102 (20%), Positives = 40/102 (39%), Gaps = 10/102 (9%)

Query: 323 DGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALE 382
              + L  A   + G    +     +  LL++   V+ QN  G TAL +    GN +   
Sbjct: 4   PWGNELASA--AARG---DL---EQLTSLLQNNVNVNAQNGFGRTALQVMK-LGNPEIAR 54

Query: 383 DLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
            L+ +  +  +LK       +  A +   +   + LL + A+
Sbjct: 55  RLLLRGAN-PDLKDRTGFAVIHDAARAGFLDTLQTLLEFQAD 95

>3hra_A Ankyrin repeat family protein; structural protein; 1.69A {Enterococcus faecalis} Length = 201

 Score = 85.2 bits (212), Expect = 6e-19
 Identities = 31/141 (21%), Positives = 55/141 (39%), Gaps = 12/141 (8%)

Query: 285 DKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQ 344
             +VG  L  A Q   + V EIL       +++ D +  GN+ L+ A          I  
Sbjct: 3   TYEVGALLEAANQRDTKKVKEILQ-DTTYQVDEVDTE--GNTPLNIA--VHNN---DI-- 52

Query: 345 NRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLF 404
             I   L+  GA ++ QN +  +    A   G ++ L  +++     +N         L 
Sbjct: 53  -EIAKALIDRGADINLQNSISDSPYLYAGAQGRTEILAYMLKHATPDLNKHNRYGGNALI 111

Query: 405 FAVKNDHMVCAEVLLRWG-AN 424
            A +  H+   ++LL  G  +
Sbjct: 112 PAAEKGHIDNVKLLLEDGRED 132

>3hra_A Ankyrin repeat family protein; structural protein; 1.69A {Enterococcus faecalis} Length = 201

 Score = 80.2 bits (199), Expect = 3e-17
 Identities = 32/142 (22%), Positives = 59/142 (41%), Gaps = 21/142 (14%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR--IV 348
           PL +A    D ++ + L+  +  DIN  ++    +S    A            Q R  I+
Sbjct: 42  PLNIAVHNNDIEIAKALI-DRGADINLQNSI--SDSPYLYA----------GAQGRTEIL 88

Query: 349 GILLKHGAI-VSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
             +LKH    +++ N+ G  AL  AA  G+   ++ L+    + I+ +     T L  AV
Sbjct: 89  AYMLKHATPDLNKHNRYGGNALIPAAEKGHIDNVKLLLEDGREDIDFQNDFGYTALIEAV 148

Query: 408 -----KNDHMVCAEVLLRWGAN 424
                   +    ++L+  GA+
Sbjct: 149 GLREGNQLYQDIVKLLMENGAD 170

>3hra_A Ankyrin repeat family protein; structural protein; 1.69A {Enterococcus faecalis} Length = 201

 Score = 79.0 bits (196), Expect = 8e-17
 Identities = 33/135 (24%), Positives = 55/135 (40%), Gaps = 17/135 (12%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           P + A   G  +++  +LK    D+N  +    G +AL  A     G   HI     V +
Sbjct: 75  PYLYAGAQGRTEILAYMLKHATPDLNKHNRY--GGNALIPA--AEKG---HI---DNVKL 124

Query: 351 LLKHG-AIVSQQNKLGLTALHIAAGSGNSQAL-----EDLIRKEPDCINLKTIMMETPLF 404
           LL+ G   +  QN  G TAL  A G      L     + L+    D  ++K     T + 
Sbjct: 125 LLEDGREDIDFQNDFGYTALIEAVGLREGNQLYQDIVKLLMENGAD-QSIKDNSGRTAMD 183

Query: 405 FAVKNDHMVCAEVLL 419
           +A +  +   +++L 
Sbjct: 184 YANQKGYTEISKILA 198

>3hra_A Ankyrin repeat family protein; structural protein; 1.69A {Enterococcus faecalis} Length = 201

 Score = 73.3 bits (181), Expect = 8e-15
 Identities = 29/120 (24%), Positives = 54/120 (45%), Gaps = 7/120 (5%)

Query: 267 LEI-ELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGN 325
            EI   +       + +  ++  G  LI A + G  D +++LL+    DI+  +    G 
Sbjct: 85  TEILAYMLKHAT-PDLNKHNRYGGNALIPAAEKGHIDNVKLLLEDGREDIDFQNDF--GY 141

Query: 326 SALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLI 385
           +AL  A+    G   +     IV +L+++GA  S ++  G TA+  A   G ++  + L 
Sbjct: 142 TALIEAVGLREGNQLYQ---DIVKLLMENGADQSIKDNSGRTAMDYANQKGYTEISKILA 198

>3hra_A Ankyrin repeat family protein; structural protein; 1.69A {Enterococcus faecalis} Length = 201

 Score = 48.2 bits (116), Expect = 3e-06
 Identities = 14/64 (21%), Positives = 23/64 (35%), Gaps = 1/64 (1%)

Query: 361 QNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLR 420
           +       L  A      +  E L       ++       TPL  AV N+ +  A+ L+ 
Sbjct: 2   KTYEVGALLEAANQRDTKKVKEILQDTTYQ-VDEVDTEGNTPLNIAVHNNDIEIAKALID 60

Query: 421 WGAN 424
            GA+
Sbjct: 61  RGAD 64

>2rfa_A Transient receptor potential cation channel subfa member 6; TRPV6, ankyrin reapeat, ANK RE calcium channel, calcium transport, calmodulin-binding; 1.70A {Mus musculus} Length = 232

 Score = 86.1 bits (214), Expect = 6e-19
 Identities = 34/183 (18%), Positives = 65/183 (35%), Gaps = 35/183 (19%)

Query: 267 LEI-ELLQLFGA---VANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADA 322
           LE   +L            +    +    L +A    + +++  LL ++   ++     +
Sbjct: 50  LEAAMVLMEAAPELVFEPMTSELYEGQTALHIAVINQNVNLVRALL-ARGASVSARATGS 108

Query: 323 -----------DGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHI 371
                       G   L  A    +G         IV +L++HGA +  Q+ LG T LHI
Sbjct: 109 VFHYRPHNLIYYGEHPLSFA--ACVG------SEEIVRLLIEHGADIRAQDSLGNTVLHI 160

Query: 372 AAGSGN----SQALEDLIRKEPDCINLKTIMM------ETPLFFAVKNDHMVCAEVLLRW 421
                N     Q    L+  +    +LK++ +       TP   A    ++V  + L++ 
Sbjct: 161 LILQPNKTFACQMYNLLLSYDGG-DHLKSLELVPNNQGLTPFKLAGVEGNIVMFQHLMQK 219

Query: 422 GAN 424
             +
Sbjct: 220 RKH 222

>2rfa_A Transient receptor potential cation channel subfa member 6; TRPV6, ankyrin reapeat, ANK RE calcium channel, calcium transport, calmodulin-binding; 1.70A {Mus musculus} Length = 232

 Score = 84.2 bits (209), Expect = 3e-18
 Identities = 32/152 (21%), Positives = 57/152 (37%), Gaps = 29/152 (19%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL+LA +  D   +  LLK +  +++     A G +ALH A         ++       +
Sbjct: 6   PLLLAAKENDVQALSKLLKFEGCEVH--QRGAMGETALHIA--ALYD---NL---EAAMV 55

Query: 351 LLKHGAIVSQ-----QNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMM------ 399
           L++    +       +   G TALHIA  + N   +  L+ +    ++ +          
Sbjct: 56  LMEAAPELVFEPMTSELYEGQTALHIAVINQNVNLVRALLARGAS-VSARATGSVFHYRP 114

Query: 400 -------ETPLFFAVKNDHMVCAEVLLRWGAN 424
                  E PL FA          +L+  GA+
Sbjct: 115 HNLIYYGEHPLSFAACVGSEEIVRLLIEHGAD 146

>2rfa_A Transient receptor potential cation channel subfa member 6; TRPV6, ankyrin reapeat, ANK RE calcium channel, calcium transport, calmodulin-binding; 1.70A {Mus musculus} Length = 232

 Score = 71.1 bits (175), Expect = 9e-14
 Identities = 29/105 (27%), Positives = 43/105 (40%), Gaps = 11/105 (10%)

Query: 324 GNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALED 383
             S L  A K        +    +  +L   G  V Q+  +G TALHIAA   N +A   
Sbjct: 3   WESPLLLAAK-----ENDV--QALSKLLKFEGCEVHQRGAMGETALHIAALYDNLEAAMV 55

Query: 384 LIRKEPD----CINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
           L+   P+     +  +    +T L  AV N ++     LL  GA+
Sbjct: 56  LMEAAPELVFEPMTSELYEGQTALHIAVINQNVNLVRALLARGAS 100

>2rfa_A Transient receptor potential cation channel subfa member 6; TRPV6, ankyrin reapeat, ANK RE calcium channel, calcium transport, calmodulin-binding; 1.70A {Mus musculus} Length = 232

 Score = 56.1 bits (136), Expect = 1e-08
 Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 2/62 (3%)

Query: 364 LGLTALHIAAGSGNSQAL-EDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWG 422
           +  + L +AA   + QAL + L  +  + ++ +  M ET L  A   D++  A VL+   
Sbjct: 2   IWESPLLLAAKENDVQALSKLLKFEGCE-VHQRGAMGETALHIAALYDNLEAAMVLMEAA 60

Query: 423 AN 424
             
Sbjct: 61  PE 62

>2rfm_A Putative ankyrin repeat protein TV1425; ANK repeat, protein binding; HET: BU2 GOL; 1.65A {Thermoplasma volcanium} Length = 192

 Score = 84.7 bits (211), Expect = 8e-19
 Identities = 37/136 (27%), Positives = 60/136 (44%), Gaps = 16/136 (11%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR--IV 348
           PL++A   G E+ I+ L+      + D D +  G++AL  A          +  NR  I 
Sbjct: 38  PLMVACMLGMENAIDKLV-ENFDKLEDKDIE--GSTALIWA----------VKNNRLGIA 84

Query: 349 GILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVK 408
             LL  G+ V+ ++  G T L  +   G S+    L+    + +N + +  ETPL  A K
Sbjct: 85  EKLLSKGSNVNTKDFSGKTPLMWSIIFGYSEMSYFLLEHGAN-VNDRNLEGETPLIVASK 143

Query: 409 NDHMVCAEVLLRWGAN 424
                  + LL  GA+
Sbjct: 144 YGRSEIVKKLLELGAD 159

>2rfm_A Putative ankyrin repeat protein TV1425; ANK repeat, protein binding; HET: BU2 GOL; 1.65A {Thermoplasma volcanium} Length = 192

 Score = 83.6 bits (208), Expect = 2e-18
 Identities = 31/131 (23%), Positives = 53/131 (40%), Gaps = 16/131 (12%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNR--IV 348
            LI A +     + E LL SK  ++N  D    G + L  +          I+     + 
Sbjct: 71  ALIWAVKNNRLGIAEKLL-SKGSNVNTKDFS--GKTPLMWS----------IIFGYSEMS 117

Query: 349 GILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVK 408
             LL+HGA V+ +N  G T L +A+  G S+ ++ L+    D I+ + +   T    A  
Sbjct: 118 YFLLEHGANVNDRNLEGETPLIVASKYGRSEIVKKLLELGAD-ISARDLTGLTAEASARI 176

Query: 409 NDHMVCAEVLL 419
                  ++  
Sbjct: 177 FGRQEVIKIFT 187

>2rfm_A Putative ankyrin repeat protein TV1425; ANK repeat, protein binding; HET: BU2 GOL; 1.65A {Thermoplasma volcanium} Length = 192

 Score = 75.9 bits (188), Expect = 8e-16
 Identities = 27/146 (18%), Positives = 52/146 (35%), Gaps = 22/146 (15%)

Query: 281 GSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQ 340
           GS  DK       +  +      ++ L   +         D+   + L  A         
Sbjct: 1   GSHMDKNGEIVEKIKDEKSINQNLDFLRNYR---------DSYNRTPLMVA--------- 42

Query: 341 HILQNR--IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIM 398
             +      +  L+++   +  ++  G TAL  A  +      E L+ K  + +N K   
Sbjct: 43  -CMLGMENAIDKLVENFDKLEDKDIEGSTALIWAVKNNRLGIAEKLLSKGSN-VNTKDFS 100

Query: 399 METPLFFAVKNDHMVCAEVLLRWGAN 424
            +TPL +++   +   +  LL  GAN
Sbjct: 101 GKTPLMWSIIFGYSEMSYFLLEHGAN 126

>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA binding protein, structure, protein-RNA complex, RNA stem-loop, structural protein/RNA complex; NMR {Homo sapiens} Length = 116

 Score = 82.0 bits (203), Expect = 1e-18
 Identities = 26/98 (26%), Positives = 46/98 (46%), Gaps = 5/98 (5%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
            K+F+GGL    +   L   F K  GPI +  + + +T K   SRGF F+TF++   A  
Sbjct: 8   GKLFIGGLNRETNEKMLKAVFGK-HGPISEVLLIKDRTSK---SRGFAFITFENPADAKN 63

Query: 608 AVQA-RFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQ 644
           A +     ++ GK ++++ A          ++  A  +
Sbjct: 64  AAKDMNGKSLHGKAIKVEQAKKPSFQSGGRRRPPASSR 101

>3aaa_C Myotrophin, protein V-1; actin capping protein, barbed END capping, inhibition, prote binding, actin capping, actin-binding, cytoskeleton, ANK RE; 2.20A {Homo sapiens} PDB: 1myo_A 2kxp_C 2myo_A Length = 123

 Score = 81.3 bits (202), Expect = 2e-18
 Identities = 29/136 (21%), Positives = 48/136 (35%), Gaps = 18/136 (13%)

Query: 276 GAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTS 335
           G + +            + A + GD D ++  + +K  D+N       G   LH A    
Sbjct: 1   GPLGSMCDK------EFMWALKNGDLDEVKDYV-AKGEDVN--RTLEGGRKPLHYA--AD 49

Query: 336 MGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLK 395
            G      Q  I+  LL  GA ++  +K  +T L  A   G+   ++ L+ K  D   +K
Sbjct: 50  CG------QLEILEFLLLKGADINAPDKHHITPLLSAVYEGHVSCVKLLLSKGAD-KTVK 102

Query: 396 TIMMETPLFFAVKNDH 411
                T          
Sbjct: 103 GPDGLTAFEATDNQAI 118

>3aaa_C Myotrophin, protein V-1; actin capping protein, barbed END capping, inhibition, prote binding, actin capping, actin-binding, cytoskeleton, ANK RE; 2.20A {Homo sapiens} PDB: 1myo_A 2kxp_C 2myo_A Length = 123

 Score = 75.1 bits (186), Expect = 2e-16
 Identities = 34/129 (26%), Positives = 53/129 (41%), Gaps = 9/129 (6%)

Query: 321 DADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQA 380
            +  +     ALK     +  +     V   +  G  V++  + G   LH AA  G  + 
Sbjct: 4   GSMCDKEFMWALK-----NGDL---DEVKDYVAKGEDVNRTLEGGRKPLHYAADCGQLEI 55

Query: 381 LEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAK 440
           LE L+ K  D IN       TPL  AV   H+ C ++LL  GA+  V         +   
Sbjct: 56  LEFLLLKGAD-INAPDKHHITPLLSAVYEGHVSCVKLLLSKGADKTVKGPDGLTAFEATD 114

Query: 441 SQDMRFLLK 449
           +Q ++ LL+
Sbjct: 115 NQAIKALLQ 123

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 74.3 bits (183), Expect = 3e-16
 Identities = 19/83 (22%), Positives = 31/83 (37%), Gaps = 8/83 (9%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            +FV G P  +DS  L  YF   FGP+    +     +K      F  V      +  A 
Sbjct: 10  SVFVSGFPRGVDSAQLSEYFLA-FGPVASVVM-----DKDK--GVFAIVEMGDVGAREAV 61

Query: 609 VQARFVTIMGKEVEIKSAVPKEV 631
           +     ++ G  + ++    KE 
Sbjct: 62  LSQSQHSLGGHRLRVRPREQKEF 84

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 74.2 bits (183), Expect = 3e-16
 Identities = 28/85 (32%), Positives = 45/85 (52%), Gaps = 6/85 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAA 606
            K+FVGGL F  +  SL   F K +G I +  V     ++++  SRGFGFVTF++   A 
Sbjct: 13  GKLFVGGLSFDTNEQSLEQVFSK-YGQISEVVVV---KDRETQRSRGFGFVTFENIDDAK 68

Query: 607 AAVQA-RFVTIMGKEVEIKSAVPKE 630
            A+ A    ++ G+++ +  A    
Sbjct: 69  DAMMAMNGKSVDGRQIRVDQAGKSS 93

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A Length = 175

 Score = 76.5 bits (189), Expect = 3e-16
 Identities = 15/82 (18%), Positives = 34/82 (41%), Gaps = 4/82 (4%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            +F+G L        L     +      D  V + +T     +R FG+V F+  +    A
Sbjct: 15  NLFIGNLNPNKSVAELKVAISE-LFAKNDLAVVDVRTGT---NRKFGYVDFESAEDLEKA 70

Query: 609 VQARFVTIMGKEVEIKSAVPKE 630
           ++   + + G E++++    ++
Sbjct: 71  LELTGLKVFGNEIKLEKPKGRD 92

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A Length = 175

 Score = 62.6 bits (153), Expect = 2e-11
 Identities = 19/82 (23%), Positives = 29/82 (35%), Gaps = 9/82 (10%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            +    L F +  D L   FE     I        Q  K   S+G  ++ FK E  A   
Sbjct: 101 TLLAKNLSFNITEDELKEVFED-ALEIRLVS----QDGK---SKGIAYIEFKSEADAEKN 152

Query: 609 VQA-RFVTIMGKEVEIKSAVPK 629
           ++  +   I G+ V +     K
Sbjct: 153 LEEKQGAEIDGRSVSLYYTGEK 174

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A Length = 216

 Score = 76.6 bits (189), Expect = 9e-16
 Identities = 24/104 (23%), Positives = 47/104 (45%), Gaps = 7/104 (6%)

Query: 528 QHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA-EFQTE 586
              +  P +  +    + F  +I+V  +   L  D +   FE  FG I+ A +A +  T 
Sbjct: 107 NIGQAQPIIDQLAEEARAFN-RIYVASVHQDLSDDDIKSVFEA-FGKIKSATLARDPTTG 164

Query: 587 KQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSAVPK 629
           K    +G+GF+ ++  +S+  AV +     + G+ + +  AV  
Sbjct: 165 K---HKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVGKAVTP 205

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A Length = 216

 Score = 74.3 bits (183), Expect = 5e-15
 Identities = 17/102 (16%), Positives = 46/102 (45%), Gaps = 6/102 (5%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAAA 607
           +++VG + + L  D++   F   FGPI+   ++    +  +   +GF FV ++  ++A  
Sbjct: 30  RVYVGSIYYELGEDTIRQAFAP-FGPIKSIDMS---WDSVTMKHKGFAFVEYEVPEAAQL 85

Query: 608 AVQAR-FVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQESKH 648
           A++    V + G+ +++            + + + + +    
Sbjct: 86  ALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNR 127

>2l6b_A NR1C; ankyrin, consensus, repeat protein, ising model, DE NOV; NMR {Escherichia coli} Length = 115

 Score = 73.2 bits (181), Expect = 1e-15
 Identities = 35/113 (30%), Positives = 54/113 (47%), Gaps = 12/113 (10%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL  A + G  + ++ LL SK  D+N    D  GN+ LH A     G   H     IV +
Sbjct: 12  PLHNAAKNGHAEEVKKLL-SKGADVNARSKD--GNTPLHLA--AKNG---HA---EIVKL 60

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPL 403
           LL  GA V+ ++K G T  H+A  +G+ + ++ L  K  D +N ++       
Sbjct: 61  LLAKGADVNARSKDGNTPEHLAKKNGHHEIVKLLDAKGAD-VNARSWGSSHHH 112

>2l6b_A NR1C; ankyrin, consensus, repeat protein, ising model, DE NOV; NMR {Escherichia coli} Length = 115

 Score = 69.3 bits (171), Expect = 2e-14
 Identities = 34/107 (31%), Positives = 54/107 (50%), Gaps = 13/107 (12%)

Query: 320 ADADGNSALHCALKTSMGLSQ--HILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGN 377
              DGN+ LH A       ++  H      V  LL  GA V+ ++K G T LH+AA +G+
Sbjct: 5   GSKDGNTPLHNA-------AKNGHA---EEVKKLLSKGADVNARSKDGNTPLHLAAKNGH 54

Query: 378 SQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
           ++ ++ L+ K  D +N ++    TP   A KN H    ++L   GA+
Sbjct: 55  AEIVKLLLAKGAD-VNARSKDGNTPEHLAKKNGHHEIVKLLDAKGAD 100

>2l6b_A NR1C; ankyrin, consensus, repeat protein, ising model, DE NOV; NMR {Escherichia coli} Length = 115

 Score = 57.4 bits (140), Expect = 3e-10
 Identities = 24/80 (30%), Positives = 37/80 (46%), Gaps = 11/80 (13%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL LA + G  +++++LL +K  D+N    D  GN+  H A     G   H     IV +
Sbjct: 45  PLHLAAKNGHAEIVKLLL-AKGADVNARSKD--GNTPEHLA--KKNG---HH---EIVKL 93

Query: 351 LLKHGAIVSQQNKLGLTALH 370
           L   GA V+ ++       H
Sbjct: 94  LDAKGADVNARSWGSSHHHH 113

>2l6b_A NR1C; ankyrin, consensus, repeat protein, ising model, DE NOV; NMR {Escherichia coli} Length = 115

 Score = 50.8 bits (123), Expect = 6e-08
 Identities = 24/70 (34%), Positives = 38/70 (54%), Gaps = 3/70 (4%)

Query: 355 GAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVC 414
           G      +K G T LH AA +G+++ ++ L+ K  D +N ++    TPL  A KN H   
Sbjct: 1   GH--MWGSKDGNTPLHNAAKNGHAEEVKKLLSKGAD-VNARSKDGNTPLHLAAKNGHAEI 57

Query: 415 AEVLLRWGAN 424
            ++LL  GA+
Sbjct: 58  VKLLLAKGAD 67

>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Length = 111

 Score = 72.4 bits (178), Expect = 2e-15
 Identities = 20/91 (21%), Positives = 43/91 (47%), Gaps = 12/91 (13%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDAR-VAEFQTEKQSVSRGFGFVTFKHEKSAA 606
             +F+  L F  + ++LG   ++ FG ++  R V    TE    S+G  F  F  +++A 
Sbjct: 16  KTVFIRNLSFDSEEEALGEVLQQ-FGDLKYVRVVLHPDTEH---SKGCAFAQFMTQEAAQ 71

Query: 607 AAVQARF-------VTIMGKEVEIKSAVPKE 630
             + A         + + G+++++  AV ++
Sbjct: 72  KCLAAASLEAEGGGLKLDGRQLKVDLAVTRD 102

>2pnn_A Transient receptor potential cation channel subfa member 1; TRPV1, ankyrin repeat domain, transport protein; HET: ATP; 2.70A {Rattus norvegicus} PDB: 2nyj_A* Length = 273

 Score = 76.7 bits (189), Expect = 2e-15
 Identities = 27/129 (20%), Positives = 48/129 (37%), Gaps = 16/129 (12%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALK--------TSMGLSQHI 342
           PL LA       +++ LL++     + +  D+ GN+ LH  ++        T    S + 
Sbjct: 151 PLSLAACTNQLAIVKFLLQNSWQPADISARDSVGNTVLHALVEVADNTVDNTKFVTSMYN 210

Query: 343 LQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETP 402
               +   L     +    N+ GLT L +AA SG    L  ++++E              
Sbjct: 211 EILILGAKLHPTLKLEEITNRKGLTPLALAASSGKIGVLAYILQREIHE--------PEC 262

Query: 403 LFFAVKNDH 411
              A  + H
Sbjct: 263 RHAAAHHHH 271

>2pnn_A Transient receptor potential cation channel subfa member 1; TRPV1, ankyrin repeat domain, transport protein; HET: ATP; 2.70A {Rattus norvegicus} PDB: 2nyj_A* Length = 273

 Score = 70.2 bits (172), Expect = 3e-13
 Identities = 31/164 (18%), Positives = 49/164 (29%), Gaps = 36/164 (21%)

Query: 291 PLILATQAGDEDVIEILL------KSKNIDINDADADADGNSALHCALKTSMGLSQHILQ 344
            +  A    +   +E LL      K +  D    D +  G + L  A+     L+ H  Q
Sbjct: 16  SIFDAVAQSNCQELESLLPFLQRSKKRLTDSEFKDPE-TGKTCLLKAM-----LNLHNGQ 69

Query: 345 NRIVGILLKHGAIVSQQNKL-----------GLTALHIAAGSGNSQALEDLIRK------ 387
           N  + +LL          +            G TALHIA    N   +  L+        
Sbjct: 70  NDTIALLLDVARKTDSLKQFVNASYTDSYYKGQTALHIAIERRNMTLVTLLVENGADVQA 129

Query: 388 -------EPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
                  +           E PL  A   + +   + LL+    
Sbjct: 130 AANGDFFKKTKGRPGFYFGELPLSLAACTNQLAIVKFLLQNSWQ 173

>2pnn_A Transient receptor potential cation channel subfa member 1; TRPV1, ankyrin repeat domain, transport protein; HET: ATP; 2.70A {Rattus norvegicus} PDB: 2nyj_A* Length = 273

 Score = 65.6 bits (160), Expect = 1e-11
 Identities = 32/194 (16%), Positives = 56/194 (28%), Gaps = 41/194 (21%)

Query: 263 KLLLLEIELLQLFGAVANGSCTDKKVG--PPLILATQAGDEDVIEILLKSKNIDINDADA 320
            LLL             N S TD        L +A +  +  ++ +L+     D+  A  
Sbjct: 74  ALLLDVARKTDSLKQFVNASYTDSYYKGQTALHIAIERRNMTLVTLLV-ENGADVQAAAN 132

Query: 321 DA------------DGNSALHCALKTSMGLSQHILQNRIVGILLKHG---AIVSQQNKLG 365
                          G   L  A  T+        Q  IV  LL++    A +S ++ +G
Sbjct: 133 GDFFKKTKGRPGFYFGELPLSLAACTN--------QLAIVKFLLQNSWQPADISARDSVG 184

Query: 366 LTALHIAAGSGNSQALEDL---------------IRKEPDCINLKTIMMETPLFFAVKND 410
            T LH      ++                     +        +      TPL  A  + 
Sbjct: 185 NTVLHALVEVADNTVDNTKFVTSMYNEILILGAKLHPTLKLEEITNRKGLTPLALAASSG 244

Query: 411 HMVCAEVLLRWGAN 424
            +     +L+   +
Sbjct: 245 KIGVLAYILQREIH 258

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Length = 101

 Score = 70.4 bits (173), Expect = 8e-15
 Identities = 15/82 (18%), Positives = 34/82 (41%), Gaps = 4/82 (4%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            +F+G L        L     +      D  V + +T     +R FG+V F+  +    A
Sbjct: 19  NLFIGNLNPNKSVAELKVAISE-LFAKNDLAVVDVRTGT---NRKFGYVDFESAEDLEKA 74

Query: 609 VQARFVTIMGKEVEIKSAVPKE 630
           ++   + + G E++++    ++
Sbjct: 75  LELTGLKVFGNEIKLEKPKGRD 96

>2zgd_A 3 repeat synthetic ankyrin; ankyrin repeat, hydroxylated, de novo protein; 1.90A {Synthetic} PDB: 2zgg_A 2xen_A Length = 110

 Score = 70.3 bits (173), Expect = 9e-15
 Identities = 26/124 (20%), Positives = 49/124 (39%), Gaps = 15/124 (12%)

Query: 295 ATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKH 354
            +          L+         +   +D    L  A     G          V IL+ +
Sbjct: 1   GSSHHHHHHSSGLVP------RGSHMGSDLGKKLLEA--ARAG---QD---DEVRILMAN 46

Query: 355 GAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVC 414
           GA V+ ++K G T LH+AA +G+ + ++ L+    D +  +    +T    ++ N +   
Sbjct: 47  GADVAAKDKNGSTPLHLAARNGHLEVVKLLLEAGAD-VXAQDKFGKTAFDISIDNGNEDL 105

Query: 415 AEVL 418
           AE+L
Sbjct: 106 AEIL 109

>2zgd_A 3 repeat synthetic ankyrin; ankyrin repeat, hydroxylated, de novo protein; 1.90A {Synthetic} PDB: 2zgg_A 2xen_A Length = 110

 Score = 60.7 bits (148), Expect = 2e-11
 Identities = 36/119 (30%), Positives = 54/119 (45%), Gaps = 17/119 (14%)

Query: 267 LEI-ELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGN 325
                 L     V  GS     +G  L+ A +AG +D + IL+ +   D+     D +G+
Sbjct: 7   HHHSSGL-----VPRGSHMGSDLGKKLLEAARAGQDDEVRILM-ANGADVA--AKDKNGS 58

Query: 326 SALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDL 384
           + LH A     G   H+    +V +LL+ GA V  Q+K G TA  I+  +GN    E L
Sbjct: 59  TPLHLA--ARNG---HL---EVVKLLLEAGADVXAQDKFGKTAFDISIDNGNEDLAEIL 109

>2zgd_A 3 repeat synthetic ankyrin; ankyrin repeat, hydroxylated, de novo protein; 1.90A {Synthetic} PDB: 2zgg_A 2xen_A Length = 110

 Score = 59.9 bits (146), Expect = 5e-11
 Identities = 20/97 (20%), Positives = 35/97 (36%), Gaps = 4/97 (4%)

Query: 347 IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFA 406
               L+  G+ +          L  AA +G    +  L+    D +  K     TPL  A
Sbjct: 9   HSSGLVPRGSHM---GSDLGKKLLEAARAGQDDEVRILMANGAD-VAAKDKNGSTPLHLA 64

Query: 407 VKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQD 443
            +N H+   ++LL  GA+    +   +   D +    
Sbjct: 65  ARNGHLEVVKLLLEAGADVXAQDKFGKTAFDISIDNG 101

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 98

 Score = 70.0 bits (172), Expect = 1e-14
 Identities = 22/85 (25%), Positives = 42/85 (49%), Gaps = 3/85 (3%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA-EFQTEKQSVSRGFGFVTFKHEKSAA 606
           S +F+  L F    ++L G F K  G I+   ++ +       +S GFGFV +K  + A 
Sbjct: 6   SGLFIKNLNFSTTEETLKGVFSK-VGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQ 64

Query: 607 AAVQA-RFVTIMGKEVEIKSAVPKE 630
            A++  +  T+ G ++E++ +    
Sbjct: 65  KALKQLQGHTVDGHKLEVRISERAT 89

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 103

 Score = 69.6 bits (171), Expect = 1e-14
 Identities = 24/85 (28%), Positives = 36/85 (42%), Gaps = 6/85 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA-EFQTEKQSVSRGFGFVTFKHEKSAA 606
             + V  L +    DSL   FEK +G + D  +  E  T+     RGF FV F   + A 
Sbjct: 14  ITLKVDNLTYRTSPDSLRRVFEK-YGRVGDVYIPREPHTKA---PRGFAFVRFHDRRDAQ 69

Query: 607 AAVQARF-VTIMGKEVEIKSAVPKE 630
            A  A     + G+E+ ++ A    
Sbjct: 70  DAEAAMDGAELDGRELRVQVARYGR 94

>3jxi_A Vanilloid receptor-related osmotically activated protein; ankyrin repeats, ANK repeat, ION transport, ionic channel, R transmembrane, transport; 2.30A {Gallus gallus} PDB: 3jxj_A Length = 260

 Score = 74.0 bits (182), Expect = 2e-14
 Identities = 36/178 (20%), Positives = 53/178 (29%), Gaps = 46/178 (25%)

Query: 274 LFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKS-KNIDINDADADADGNSALHCAL 332
           LF  V+ GS                G E ++  LL   K +   +    + G + L  AL
Sbjct: 9   LFDIVSRGSP--------------DGLEGLLSFLLTHKKRLTDEEFREPSTGKTCLPKAL 54

Query: 333 KTSMGLSQHILQNRIVGILLKHG-----------AIVSQQNKLGLTALHIAAGSGNSQAL 381
                L+    +N  + ILL              +        G TALHIA        +
Sbjct: 55  -----LNLSAGRNDTIPILLDIAEKTGNMREFINSPFRDVYYRGQTALHIAIERRCKHYV 109

Query: 382 EDLIRKEPDCINLKTIMM--------------ETPLFFAVKNDHMVCAEVLLRWGANS 425
           E L+ K  D ++ +                  E PL  A   +       L   G   
Sbjct: 110 ELLVEKGAD-VHAQARGRFFQPKDEGGYFYFGELPLSLAACTNQPHIVHYLTENGHKQ 166

>3jxi_A Vanilloid receptor-related osmotically activated protein; ankyrin repeats, ANK repeat, ION transport, ionic channel, R transmembrane, transport; 2.30A {Gallus gallus} PDB: 3jxj_A Length = 260

 Score = 70.2 bits (172), Expect = 2e-13
 Identities = 47/244 (19%), Positives = 82/244 (33%), Gaps = 44/244 (18%)

Query: 169 VKLLSQKTKELDEVAYANAVGGRIVAL--AALLIVAADKVNESILVLHDSDLGAKEKTTI 226
           +  L    K L +  +     G+   L  A L + A       IL+      G   +   
Sbjct: 25  LSFLLTHKKRLTDEEFREPSTGK-TCLPKALLNLSAGRNDTIPILLDIAEKTGNMREFIN 83

Query: 227 YECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDK 286
                R+    G+ T L  A++R             +LL+ +       GA  +     +
Sbjct: 84  SP--FRDVYYRGQ-TALHIAIERRCKHYV-------ELLVEK-------GADVHAQARGR 126

Query: 287 KVGP------------PLILATQAGDEDVIEILLK--SKNIDINDADADADGNSALHCAL 332
              P            PL LA       ++  L +   K  D+   D+   GN+ LH  +
Sbjct: 127 FFQPKDEGGYFYFGELPLSLAACTNQPHIVHYLTENGHKQADLRRQDSR--GNTVLHALV 184

Query: 333 KTSMGL-SQHILQNRIVGILLKHGA-------IVSQQNKLGLTALHIAAGSGNSQALEDL 384
             +           ++  +LL   A       + +  N  GL+ L +AA +G     + +
Sbjct: 185 AIADNTRENTKFVTKMYDLLLIKCAKLFPDTNLEALLNNDGLSPLMMAAKTGKIGIFQHI 244

Query: 385 IRKE 388
           IR+E
Sbjct: 245 IRRE 248

>3jxi_A Vanilloid receptor-related osmotically activated protein; ankyrin repeats, ANK repeat, ION transport, ionic channel, R transmembrane, transport; 2.30A {Gallus gallus} PDB: 3jxj_A Length = 260

 Score = 65.6 bits (160), Expect = 9e-12
 Identities = 35/195 (17%), Positives = 62/195 (31%), Gaps = 43/195 (22%)

Query: 263 KLLLLEIELLQLFGAVANGSCTDK-KVGP-PLILATQAGDEDVIEILLKSKNIDINDAD- 319
            +LL   E         N    D    G   L +A +   +  +E+L+  K  D++    
Sbjct: 66  PILLDIAEKTGNMREFINSPFRDVYYRGQTALHIAIERRCKHYVELLV-EKGADVHAQAR 124

Query: 320 -----------ADADGNSALHCALKTSMGLSQHILQNRIVGILLKHG---AIVSQQNKLG 365
                          G   L  A  T+        Q  IV  L ++G   A + +Q+  G
Sbjct: 125 GRFFQPKDEGGYFYFGELPLSLAACTN--------QPHIVHYLTENGHKQADLRRQDSRG 176

Query: 366 LTALHIAAGSGN---------SQALEDLIRKEPDCINLKTIMME-------TPLFFAVKN 409
            T LH      +         ++  + L+ K    +   T +         +PL  A K 
Sbjct: 177 NTVLHALVAIADNTRENTKFVTKMYDLLLIKCAK-LFPDTNLEALLNNDGLSPLMMAAKT 235

Query: 410 DHMVCAEVLLRWGAN 424
             +   + ++R    
Sbjct: 236 GKIGIFQHIIRREIA 250

>2vge_A RELA-associated inhibitor; iaspp, nucleus, apoptosis, repressor, cytoplasm, phosphorylation, P53 binding protein, ANK repeat, SH3 domain; 2.10A {Homo sapiens} Length = 229

 Score = 73.1 bits (180), Expect = 2e-14
 Identities = 30/122 (24%), Positives = 45/122 (36%), Gaps = 11/122 (9%)

Query: 304 IEILLKSKNIDINDAD-ADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQN 362
           +  +L  K      A  A  +    L  A     G    +    +V   +K     SQ N
Sbjct: 1   MRSVL-RKAGSPRKARRARLNPLVLLLDA--ALTG---EL---EVVQQAVKEMNDPSQPN 51

Query: 363 KLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWG 422
           + G+TALH A    N   ++ LI    + +N       TPL  A   +  V    L++ G
Sbjct: 52  EEGITALHNAICGANYSIVDFLITAGAN-VNSPDSHGWTPLHCAASCNDTVICMALVQHG 110

Query: 423 AN 424
           A 
Sbjct: 111 AA 112

>2vge_A RELA-associated inhibitor; iaspp, nucleus, apoptosis, repressor, cytoplasm, phosphorylation, P53 binding protein, ANK repeat, SH3 domain; 2.10A {Homo sapiens} Length = 229

 Score = 70.4 bits (173), Expect = 1e-13
 Identities = 18/121 (14%), Positives = 33/121 (27%), Gaps = 10/121 (8%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL  A    D  +   L+      I      +DG +A         G   +         
Sbjct: 90  PLHCAASCNDTVICMALV-QHGAAIFATT-LSDGATAFEKCDPYREG---YAD---CATY 141

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           L      +   N   + AL   + +     L     +    +  +    ET  ++A  + 
Sbjct: 142 LADVEQSMGLMNSGAVYALWDYS-AEFGDELSFREGESVT-VLRRDGPEETDWWWAALHG 199

Query: 411 H 411
            
Sbjct: 200 Q 200

>2vge_A RELA-associated inhibitor; iaspp, nucleus, apoptosis, repressor, cytoplasm, phosphorylation, P53 binding protein, ANK repeat, SH3 domain; 2.10A {Homo sapiens} Length = 229

 Score = 69.6 bits (171), Expect = 2e-13
 Identities = 28/140 (20%), Positives = 46/140 (32%), Gaps = 18/140 (12%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            L  A    +  +++ L+ +   ++N    D+ G + LHCA   S           I   
Sbjct: 57  ALHNAICGANYSIVDFLI-TAGANVN--SPDSHGWTPLHCA--ASCN---DT---VICMA 105

Query: 351 LLKHGAIVSQQN-KLGLTALHIAAGS--GNSQALEDLIRKEPDCINLKTIMMETPLFFAV 407
           L++HGA +       G TA         G +     L   E   + L        L+   
Sbjct: 106 LVQHGAAIFATTLSDGATAFEKCDPYREGYADCATYLADVEQS-MGLMNSGAVYALWDYS 164

Query: 408 KNDHMVCAEVLLRWGANSEV 427
                   E+  R G +  V
Sbjct: 165 AEFG---DELSFREGESVTV 181

>2vge_A RELA-associated inhibitor; iaspp, nucleus, apoptosis, repressor, cytoplasm, phosphorylation, P53 binding protein, ANK repeat, SH3 domain; 2.10A {Homo sapiens} Length = 229

 Score = 48.8 bits (117), Expect = 2e-06
 Identities = 17/115 (14%), Positives = 24/115 (20%), Gaps = 18/115 (15%)

Query: 267 LEI-ELLQLFGAVANGSCTDKKVGP-PLILATQA--GDEDVIEILLKSKNIDINDADADA 322
             I   L   GA      T    G            G  D    L       +   ++  
Sbjct: 100 TVICMALVQHGAAIFA--TTLSDGATAFEKCDPYREGYADCATYLA-DVEQSMGLMNSG- 155

Query: 323 DGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGN 377
               AL      S      +               V +++    T    AA  G 
Sbjct: 156 -AVYALWDY---SAEFGDELS------FREGESVTVLRRDGPEETDWWWAALHGQ 200

>1sw6_A Regulatory protein SWI6; transcription regulation, ankyrin repeats, cell-cycle; 2.10A {Saccharomyces cerevisiae} SCOP: d.211.1.1 Length = 327

 Score = 75.1 bits (184), Expect = 2e-14
 Identities = 26/160 (16%), Positives = 57/160 (35%), Gaps = 14/160 (8%)

Query: 291 PLILATQAG---DEDVIEILLKSKNIDINDADADADGNSALHCA-----LKTSMGLSQHI 342
            L+ A ++    D    E LL      +   D+     + LH       +      +++ 
Sbjct: 167 CLVKAVKSVNNYDSGTFEALLDYLYPCLILEDSM--NRTILHHIIITSGMTGCSAAAKYY 224

Query: 343 LQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLI---RKEPDCINLKTIMM 399
           L   ++G ++K      Q       +           ++ + +       + +N +    
Sbjct: 225 LDI-LMGWIVKKQNRPIQSGTNEKESKPNDKNGERKDSILENLDLKWIIANMLNAQDSNG 283

Query: 400 ETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFA 439
           +T L  A +  ++   + LL +GA+  + N    RP+DF 
Sbjct: 284 DTCLNIAARLGNISIVDALLDYGADPFIANKSGLRPVDFG 323

>1sw6_A Regulatory protein SWI6; transcription regulation, ankyrin repeats, cell-cycle; 2.10A {Saccharomyces cerevisiae} SCOP: d.211.1.1 Length = 327

 Score = 72.4 bits (177), Expect = 1e-13
 Identities = 29/181 (16%), Positives = 64/181 (35%), Gaps = 14/181 (7%)

Query: 298 AGDEDVIEI--LLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHG 355
           + D  + E+     +  +++N    D  GN+ LH    TS+    ++    +V  L+KHG
Sbjct: 104 SFDSLLQEVNDAFPNTQLNLN-IPVDEHGNTPLHWL--TSIA---NL---ELVKHLVKHG 154

Query: 356 AIVSQQNKLGLTALHIAAGSGNS---QALEDLIRKEPDCINLKTIMMETPLFFAVKNDHM 412
           +     + +G + L  A  S N+      E L+     C+ L+  M  T L   +    M
Sbjct: 155 SNRLYGDNMGESCLVKAVKSVNNYDSGTFEALLDYLYPCLILEDSMNRTILHHIIITSGM 214

Query: 413 VCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHTNLAFLNQEKQNASLES 472
                  ++  +  +  + +++        + +             + L        + +
Sbjct: 215 TGCSAAAKYYLDILMGWIVKKQNRPIQSGTNEKESKPNDKNGERKDSILENLDLKWIIAN 274

Query: 473 D 473
            
Sbjct: 275 M 275

>1sw6_A Regulatory protein SWI6; transcription regulation, ankyrin repeats, cell-cycle; 2.10A {Saccharomyces cerevisiae} SCOP: d.211.1.1 Length = 327

 Score = 60.0 bits (145), Expect = 1e-09
 Identities = 44/292 (15%), Positives = 84/292 (28%), Gaps = 91/292 (31%)

Query: 87  VNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVI 146
           +N   +  G T LH          V+ L+K  +  +    D      L  ++ S      
Sbjct: 123 LNIPVDEHGNTPLHWLTSIANLELVKHLVKHGS--NRLYGDNMGESCLVKAVKSVN---- 176

Query: 147 WNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKV 206
            N D  + E L+  L                                      ++  D +
Sbjct: 177 -NYDSGTFEALLDYLYPC-----------------------------------LILEDSM 200

Query: 207 NESIL---VLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRK 263
           N +IL   ++     G       Y  ++   +   +   +Q       +    ++ E++ 
Sbjct: 201 NRTILHHIIITSGMTGCSAAAKYYLDILMGWIVKKQNRPIQSGTNEKESKPNDKNGERKD 260

Query: 264 LLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADAD 323
            +L  ++L  +   + N                                        D++
Sbjct: 261 SILENLDLKWIIANMLN--------------------------------------AQDSN 282

Query: 324 GNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGS 375
           G++ L+ A +       +I    IV  LL +GA     NK GL  +   AG 
Sbjct: 283 GDTCLNIAAR-----LGNI---SIVDALLDYGADPFIANKSGLRPVDFGAGL 326

>1sw6_A Regulatory protein SWI6; transcription regulation, ankyrin repeats, cell-cycle; 2.10A {Saccharomyces cerevisiae} SCOP: d.211.1.1 Length = 327

 Score = 45.8 bits (108), Expect = 5e-05
 Identities = 17/96 (17%), Positives = 33/96 (34%), Gaps = 3/96 (3%)

Query: 41  HFIDNSLDNADQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALH 100
            +I    +   Q      +        +        ++       ++N  + + G T L+
Sbjct: 230 GWIVKKQNRPIQSGTNEKESKPNDKNGERKDSILENLDLKWIIANMLNAQDSN-GDTCLN 288

Query: 101 LAAESHTARCVELLLKKRARTDIRSKDGRRLLPLEL 136
           +AA       V+ LL   A   I +K G R  P++ 
Sbjct: 289 IAARLGNISIVDALLDYGADPFIANKSGLR--PVDF 322

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 114

 Score = 69.2 bits (169), Expect = 2e-14
 Identities = 23/97 (23%), Positives = 44/97 (45%), Gaps = 9/97 (9%)

Query: 541 ASTQEFKS-KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTF 599
            S+    S K+FVGGLP  +D D +   F + FGP+      + +++     +G+ F+ F
Sbjct: 1   GSSGSSGSRKVFVGGLPPDIDEDEITASFRR-FGPLVVDWPHKAESKSYFPPKGYAFLLF 59

Query: 600 KHEKSAAAAVQAR-------FVTIMGKEVEIKSAVPK 629
           + E S  A + A        ++ +    ++ K    +
Sbjct: 60  QEESSVQALIDACLEEDGKLYLCVSSPTIKDKPVQIR 96

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Length = 172

 Score = 71.1 bits (175), Expect = 3e-14
 Identities = 12/85 (14%), Positives = 32/85 (37%), Gaps = 4/85 (4%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSV---SRGFGFVTFKHEKSA 605
           +++VG +PF +  +++  +F      +     A             + F F+ F+     
Sbjct: 6   RLYVGNIPFGITEEAMMDFFNA-QMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDET 64

Query: 606 AAAVQARFVTIMGKEVEIKSAVPKE 630
             A+    +   G+ ++I+     +
Sbjct: 65  TQAMAFDGIIFQGQSLKIRRPHDYQ 89

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Length = 172

 Score = 70.7 bits (174), Expect = 3e-14
 Identities = 18/80 (22%), Positives = 37/80 (46%), Gaps = 6/80 (7%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA-EFQTEKQSVSRGFGFVTFKHEKSAAA 607
           K+F+GGLP +L+ D +       FGP++   +  +  T     S+G+ F  +        
Sbjct: 96  KLFIGGLPNYLNDDQVKELLTS-FGPLKAFNLVKDSATGL---SKGYAFCEYVDINVTDQ 151

Query: 608 AVQA-RFVTIMGKEVEIKSA 626
           A+     + +  K++ ++ A
Sbjct: 152 AIAGLNGMQLGDKKLLVQRA 171

>2etb_A Transient receptor potential cation channel subfamily V member 2; TRPV2, ankyrin repeat domain, transport protein; 1.65A {Rattus norvegicus} PDB: 2eta_A 2etc_A 2f37_A Length = 256

 Score = 72.9 bits (179), Expect = 3e-14
 Identities = 23/106 (21%), Positives = 45/106 (42%), Gaps = 8/106 (7%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCAL--------KTSMGLSQHI 342
           PL LA      DV+  LL++ +   +    D+ GN+ LH  +         +++ +  + 
Sbjct: 139 PLSLAACTKQWDVVTYLLENPHQPASLEATDSLGNTVLHALVMIADNSPENSALVIHMYD 198

Query: 343 LQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKE 388
              ++   L     +    N  GLT L +AA  G  +    ++++E
Sbjct: 199 GLLQMGARLCPTVQLEEISNHQGLTPLKLAAKEGKIEIFRHILQRE 244

>2etb_A Transient receptor potential cation channel subfamily V member 2; TRPV2, ankyrin repeat domain, transport protein; 1.65A {Rattus norvegicus} PDB: 2eta_A 2etc_A 2f37_A Length = 256

 Score = 68.7 bits (168), Expect = 8e-13
 Identities = 32/176 (18%), Positives = 54/176 (30%), Gaps = 45/176 (25%)

Query: 274 LFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLK-SKNIDINDADADADGNSALHCAL 332
           LF  V+ G   +                 ++E L   SK +  +     + G + L  A+
Sbjct: 6   LFSVVSRGVPEEL--------------TGLLEYLRWNSKYLTDSAYTEGSTGKTCLMKAV 51

Query: 333 KTSMGLSQHILQNRIVGILLKHG-----------AIVSQQNKLGLTALHIAAGSGNSQAL 381
                L+     N  +  LL+             A  + +   G +ALHIA    + Q +
Sbjct: 52  -----LNLQDGVNACIMPLLQIDKDSGNPKPLVNAQCTDEFYQGHSALHIAIEKRSLQCV 106

Query: 382 EDLIRKEPDCINLKTIMM-------------ETPLFFAVKNDHMVCAEVLLRWGAN 424
           + L+    D ++L+                 E PL  A           LL     
Sbjct: 107 KLLVENGAD-VHLRACGRFFQKHQGTCFYFGELPLSLAACTKQWDVVTYLLENPHQ 161

>2etb_A Transient receptor potential cation channel subfamily V member 2; TRPV2, ankyrin repeat domain, transport protein; 1.65A {Rattus norvegicus} PDB: 2eta_A 2etc_A 2f37_A Length = 256

 Score = 65.2 bits (159), Expect = 1e-11
 Identities = 23/165 (13%), Positives = 44/165 (26%), Gaps = 41/165 (24%)

Query: 279 ANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDIN-----------DADADADGNSA 327
           A  +    +    L +A +      +++L+     D++                  G   
Sbjct: 81  AQCTDEFYQGHSALHIAIEKRSLQCVKLLV-ENGADVHLRACGRFFQKHQGTCFYFGELP 139

Query: 328 LHCALKTSMGLSQHILQNRIVGILLKHG---AIVSQQNKLGLTALHIAAGSGNSQALEDL 384
           L  A  T         Q  +V  LL++    A +   + LG T LH              
Sbjct: 140 LSLAACTK--------QWDVVTYLLENPHQPASLEATDSLGNTVLHALV----------- 180

Query: 385 IRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLN 429
                  +        + L   + +  +     L       E+ N
Sbjct: 181 -------MIADNSPENSALVIHMYDGLLQMGARLCPTVQLEEISN 218

>1n0q_A 3ANK, 3 ankyrin repeats; structural protein; 1.26A {} SCOP: k.37.1.1 Length = 93

 Score = 68.2 bits (168), Expect = 3e-14
 Identities = 33/103 (32%), Positives = 56/103 (54%), Gaps = 13/103 (12%)

Query: 323 DGNSALHCALKTSMGLSQ--HILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQA 380
           +G + LH A       ++  H+    +V +LL+ GA V+ ++K G T LH+AA +G+ + 
Sbjct: 1   NGRTPLHLA-------ARNGHL---EVVKLLLEAGADVNAKDKNGRTPLHLAARNGHLEV 50

Query: 381 LEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGA 423
           ++ L+    D +N K     TPL  A +N H+   ++LL  GA
Sbjct: 51  VKLLLEAGAD-VNAKDKNGRTPLHLAARNGHLEVVKLLLEAGA 92

>1n0q_A 3ANK, 3 ankyrin repeats; structural protein; 1.26A {} SCOP: k.37.1.1 Length = 93

 Score = 65.8 bits (162), Expect = 2e-13
 Identities = 32/97 (32%), Positives = 54/97 (55%), Gaps = 11/97 (11%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL LA + G  +V+++LL     D+N    D +G + LH A     G   H+    +V +
Sbjct: 5   PLHLAARNGHLEVVKLLL-EAGADVN--AKDKNGRTPLHLA--ARNG---HL---EVVKL 53

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRK 387
           LL+ GA V+ ++K G T LH+AA +G+ + ++ L+  
Sbjct: 54  LLEAGADVNAKDKNGRTPLHLAARNGHLEVVKLLLEA 90

>1n0q_A 3ANK, 3 ankyrin repeats; structural protein; 1.26A {} SCOP: k.37.1.1 Length = 93

 Score = 47.0 bits (113), Expect = 1e-06
 Identities = 21/60 (35%), Positives = 34/60 (56%), Gaps = 1/60 (1%)

Query: 365 GLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
           G T LH+AA +G+ + ++ L+    D +N K     TPL  A +N H+   ++LL  GA+
Sbjct: 2   GRTPLHLAARNGHLEVVKLLLEAGAD-VNAKDKNGRTPLHLAARNGHLEVVKLLLEAGAD 60

>1n0q_A 3ANK, 3 ankyrin repeats; structural protein; 1.26A {} SCOP: k.37.1.1 Length = 93

 Score = 42.0 bits (100), Expect = 5e-05
 Identities = 21/68 (30%), Positives = 35/68 (51%), Gaps = 15/68 (22%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQ--HILQNRIV 348
           PL LA + G  +V+++LL     D+N    D +G + LH A       ++  H+    +V
Sbjct: 38  PLHLAARNGHLEVVKLLL-EAGADVN--AKDKNGRTPLHLA-------ARNGHL---EVV 84

Query: 349 GILLKHGA 356
            +LL+ GA
Sbjct: 85  KLLLEAGA 92

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 100

 Score = 68.5 bits (168), Expect = 4e-14
 Identities = 21/85 (24%), Positives = 40/85 (47%), Gaps = 5/85 (5%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
           K K+F+ GLPF    + L    + H G ++D R+   +  K    +G  +V +++E  A+
Sbjct: 17  KHKLFISGLPFSCTKEELEEICKAH-GTVKDLRLVTNRAGK---PKGLAYVEYENESQAS 72

Query: 607 AAVQAR-FVTIMGKEVEIKSAVPKE 630
            AV     +TI    +++  +    
Sbjct: 73  QAVMKMDGMTIKENIIKVAISNSGP 97

>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A Length = 129

 Score = 69.0 bits (169), Expect = 4e-14
 Identities = 22/84 (26%), Positives = 39/84 (46%), Gaps = 6/84 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA-EFQTEKQSVSRGFGFVTFKHEKSAA 606
             + V GL  +     L   F K +GPI D  +  + Q+ +   SRGF FV F++   A 
Sbjct: 47  CCLGVFGLSLYTTERDLREVFSK-YGPIADVSIVYDQQSRR---SRGFAFVYFENVDDAK 102

Query: 607 AAVQA-RFVTIMGKEVEIKSAVPK 629
            A +    + + G+ + +  ++ K
Sbjct: 103 EAKERANGMELDGRRIRVDFSITK 126

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus} Length = 124

 Score = 68.9 bits (169), Expect = 5e-14
 Identities = 19/94 (20%), Positives = 38/94 (40%), Gaps = 7/94 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           +K+ V  L F +    +   F + FG ++ A V     ++   S G   V F+    A  
Sbjct: 36  AKLLVSNLDFGVSDADIQELFAE-FGTLKKAAV---DYDRSGRSLGTADVHFERRADALK 91

Query: 608 AVQARF--VTIMGKEVEIKSAVPKEVLFAELQKQ 639
           A++  +  V + G+ ++I+    +  L       
Sbjct: 92  AMKQ-YKGVPLDGRPMDIQLVASQIDLEHHHHHH 124

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 95

 Score = 67.6 bits (166), Expect = 5e-14
 Identities = 21/65 (32%), Positives = 30/65 (46%), Gaps = 5/65 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAA 606
             + V GL  +     L   F K +GPI D  +     ++QS  SRGF FV F++   A 
Sbjct: 16  CCLGVFGLSLYTTERDLREVFSK-YGPIADVSIV---YDQQSRRSRGFAFVYFENVDDAK 71

Query: 607 AAVQA 611
            A + 
Sbjct: 72  EAKER 76

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 68.1 bits (167), Expect = 5e-14
 Identities = 22/84 (26%), Positives = 40/84 (47%), Gaps = 6/84 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
            ++ V  +PF      L   F + FG I D  +      ++  S+GFGFVTF++   A  
Sbjct: 16  KRLHVSNIPFRFRDPDLRQMFGQ-FGKILDVEI---IFNERG-SKGFGFVTFENSADADR 70

Query: 608 AVQAR-FVTIMGKEVEIKSAVPKE 630
           A +      + G+++E+ +A  + 
Sbjct: 71  AREKLHGTVVEGRKIEVNNATARV 94

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens} Length = 140

 Score = 69.0 bits (169), Expect = 6e-14
 Identities = 28/86 (32%), Positives = 41/86 (47%), Gaps = 5/86 (5%)

Query: 527 EQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARV-AEFQT 585
           E+H     G       +   K  ++VGGL   +D   L   F   FG I D ++  +++T
Sbjct: 43  ERHVDGGSGGSGGSGGSATTKRVLYVGGLAEEVDDKVLHAAFIP-FGDITDIQIPLDYET 101

Query: 586 EKQSVSRGFGFVTFKHEKSAAAAVQA 611
           EK    RGF FV F+  + AAAA+  
Sbjct: 102 EK---HRGFAFVEFELAEDAAAAIDN 124

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 67.6 bits (166), Expect = 7e-14
 Identities = 28/86 (32%), Positives = 43/86 (50%), Gaps = 6/86 (6%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARV-AEFQTEKQSVSRGFGFVTFKHEKSA 605
           K  ++VGGL   +D   L   F   FG I D ++  +++TEK    RGF FV F+  + A
Sbjct: 12  KRVLYVGGLAEEVDDKVLHAAFIP-FGDITDIQIPLDYETEK---HRGFAFVEFELAEDA 67

Query: 606 AAAVQA-RFVTIMGKEVEIKSAVPKE 630
           AAA+       + G+ + +  A P  
Sbjct: 68  AAAIDNMNESELFGRTIRVNLAKPMR 93

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A Length = 198

 Score = 70.4 bits (173), Expect = 8e-14
 Identities = 18/84 (21%), Positives = 37/84 (44%), Gaps = 6/84 (7%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA-EFQTEKQSVSRGFGFVTFKHEKSAAA 607
           K+F+GGLP +L+ D +       FGP++   +  +  T     S+G+ F  +        
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTS-FGPLKAFNLVKDSATGL---SKGYAFCEYVDINVTDQ 171

Query: 608 AVQA-RFVTIMGKEVEIKSAVPKE 630
           A+     + +  K++ ++ A    
Sbjct: 172 AIAGLNGMQLGDKKLLVQRASVGA 195

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A Length = 198

 Score = 69.3 bits (170), Expect = 2e-13
 Identities = 17/127 (13%), Positives = 44/127 (34%), Gaps = 9/127 (7%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQ---TEKQSVSRGFGFVTFKHEKSA 605
           +++VG +PF +  +++  +F      +     A        + +  + F F+ F+     
Sbjct: 6   RLYVGNIPFGITEEAMMDFFNA-QMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDET 64

Query: 606 AAAVQARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQESKHEHQARLGAKI-----PD 660
             A+    +   G+ ++I+     + L    +  S                K+     P+
Sbjct: 65  TQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPN 124

Query: 661 ERTMEQI 667
               +Q+
Sbjct: 125 YLNDDQV 131

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 95

 Score = 67.2 bits (165), Expect = 8e-14
 Identities = 22/85 (25%), Positives = 41/85 (48%), Gaps = 6/85 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAA 606
           S ++VG L F +  D L G FE  FG I++  +     +  +  S+G+GF+TF   + A 
Sbjct: 6   SGLYVGSLHFNITEDMLRGIFEP-FGKIDNIVL---MKDSDTGRSKGYGFITFSDSECAR 61

Query: 607 AAVQARF-VTIMGKEVEIKSAVPKE 630
            A++      + G+ + +     + 
Sbjct: 62  RALEQLNGFELAGRPMRVGHVTERL 86

>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger, CYP33, MLL, RNA binding protein, ALT splicing, mRNA processing, mRNA splicing; 1.85A {Homo sapiens} PDB: 2kyx_A 3lpy_A* Length = 85

 Score = 66.4 bits (163), Expect = 1e-13
 Identities = 26/72 (36%), Positives = 37/72 (51%), Gaps = 5/72 (6%)

Query: 541 ASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARV-AEFQTEKQSVSRGFGFVTF 599
            S    K  ++VGGL   +D   L   F   FG I D ++  +++TEK    RGF FV F
Sbjct: 1   GSMATTKRVLYVGGLAEEVDDKVLHAAFIP-FGDITDIQIPLDYETEK---HRGFAFVEF 56

Query: 600 KHEKSAAAAVQA 611
           +  + AAAA+  
Sbjct: 57  ELAEDAAAAIDN 68

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Length = 175

 Score = 69.2 bits (170), Expect = 1e-13
 Identities = 25/95 (26%), Positives = 44/95 (46%), Gaps = 5/95 (5%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+FVG +P       L   FE+ +G + +  V   +++    S+G  FVTF   K+A  A
Sbjct: 5   KMFVGQVPRTWSEKDLRELFEQ-YGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63

Query: 609 VQARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQ 643
             A    +   +V      P ++  A+ +K +A +
Sbjct: 64  QNA----LHNMKVLPGMHHPIQMKPADSEKNNAVE 94

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Length = 175

 Score = 65.7 bits (161), Expect = 2e-12
 Identities = 24/88 (27%), Positives = 37/88 (42%), Gaps = 10/88 (11%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+F+G +      + +   F   FG IE+ R+         +SRG  FVTF     A  A
Sbjct: 97  KLFIGMISKKCTENDIRVMFSS-FGQIEECRIL---RGPDGLSRGCAFVTFTTRAMAQTA 152

Query: 609 VQARFVTIM-GKEVEIKSAVPKEVLFAE 635
           ++A     M   +     + P  V FA+
Sbjct: 153 IKA-----MHQAQTMEGCSSPMVVKFAD 175

>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 67.0 bits (164), Expect = 1e-13
 Identities = 15/83 (18%), Positives = 36/83 (43%), Gaps = 5/83 (6%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAAA 607
            +F   L   +    L  +F    G + D R+    +++ S  S+G  +V F   +S   
Sbjct: 27  TVFCMQLAARIRPRDLEDFFSA-VGKVRDVRII---SDRNSRRSKGIAYVEFCEIQSVPL 82

Query: 608 AVQARFVTIMGKEVEIKSAVPKE 630
           A+      ++G  + ++++  ++
Sbjct: 83  AIGLTGQRLLGVPIIVQASQAEK 105

>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A Length = 115

 Score = 66.9 bits (164), Expect = 2e-13
 Identities = 22/96 (22%), Positives = 47/96 (48%), Gaps = 6/96 (6%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
             IF+  L   +D+ +L   F   FG I   +V     ++   S+G+GFV F+ +++A  
Sbjct: 6   GNIFIKNLDKSIDNKALYDTFSA-FGNILSCKVV---CDENG-SKGYGFVHFETQEAAER 60

Query: 608 AVQA-RFVTIMGKEVEIKSAVPKEVLFAELQKQSAQ 642
           A++    + +  ++V +     ++   AEL  ++ +
Sbjct: 61  AIEKMNGMLLNDRKVFVGRFKSRKEREAELGARAKE 96

>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A Length = 106

 Score = 66.6 bits (163), Expect = 2e-13
 Identities = 23/88 (26%), Positives = 43/88 (48%), Gaps = 9/88 (10%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAA 606
            K+F+G +P  LD   L   FE+ FG I +  V     ++ + + +G  F+T+   +SA 
Sbjct: 14  IKLFIGQIPRNLDEKDLKPLFEE-FGKIYELTVL---KDRFTGMHKGCAFLTYCERESAL 69

Query: 607 AAVQA----RFVTIMGKEVEIKSAVPKE 630
            A  A    + +  M + +++K A  + 
Sbjct: 70  KAQSALHEQKTLPGMNRPIQVKPADSES 97

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 114

 Score = 66.6 bits (163), Expect = 2e-13
 Identities = 22/99 (22%), Positives = 35/99 (35%), Gaps = 7/99 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           S +FV  L + +    L   F    G +  A +     +K   SRG G VTF+    A  
Sbjct: 16  STVFVANLDYKVGWKKLKEVFSM-AGVVVRADIL---EDKDGKSRGIGTVTFEQSIEAVQ 71

Query: 608 AVQARF--VTIMGKEVEIKSAVPKEVLFAELQKQSAQQQ 644
           A+   F    +  + + +K              +  QQ 
Sbjct: 72  AISM-FNGQLLFDRPMHVKMDERALPKGDFFPPERPQQS 109

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 65.7 bits (161), Expect = 3e-13
 Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 5/66 (7%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSA 605
           KS ++V  LPF L ++ L   F K +G +    +     +K +  S+G  F+ F  + SA
Sbjct: 16  KSTVYVSNLPFSLTNNDLYRIFSK-YGKVVKVTIM---KDKDTRKSKGVAFILFLDKDSA 71

Query: 606 AAAVQA 611
               +A
Sbjct: 72  QNCTRA 77

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP} Length = 158

 Score = 67.6 bits (165), Expect = 3e-13
 Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 6/85 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA-EFQTEKQSVSRGFGFVTFKHEKSAA 606
           + + V  L +    D+L   FEK +G + D  +  +  T++   SRGF FV F  ++ A 
Sbjct: 71  TSLKVDNLTYRTSPDTLRRVFEK-YGRVGDVYIPRDRYTKE---SRGFAFVRFHDKRDAE 126

Query: 607 AAVQA-RFVTIMGKEVEIKSAVPKE 630
            A+ A     + G+E+ ++ A    
Sbjct: 127 DAMDAMDGAVLDGRELRVQMARYGR 151

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B Length = 261

 Score = 70.1 bits (172), Expect = 3e-13
 Identities = 22/120 (18%), Positives = 40/120 (33%), Gaps = 9/120 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           + + V  L   + ++ L   F + FGP+E A V     + +  + G GFV F  +  A  
Sbjct: 97  AALTVKNLSPVVSNELLEQAFSQ-FGPVEKAVVV---VDDRGRATGKGFVEFAAKPPARK 152

Query: 608 AVQARFVTIMGKEVEIKSAV-PKEVLFAELQKQSAQQQESKHEHQARLGAKIPDERTMEQ 666
           A++            + +   P  V   E         E   +   +   +        Q
Sbjct: 153 ALER----CGDGAFLLTTTPRPVIVEPMEQFDDEDGLPEKLMQKTQQYHKEREQPPRFAQ 208

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B Length = 261

 Score = 61.2 bits (149), Expect = 2e-10
 Identities = 18/86 (20%), Positives = 33/86 (38%), Gaps = 10/86 (11%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           ++FVG LP  +  +     FE+ +G   +  +        +  RGFGF+  +    A  A
Sbjct: 24  RLFVGNLPTDITEEDFKRLFER-YGEPSEVFI--------NRDRGFGFIRLESRTLAEIA 74

Query: 609 VQA-RFVTIMGKEVEIKSAVPKEVLF 633
                   +  + + I+ A     L 
Sbjct: 75  KAELDGTILKSRPLRIRFATHGAALT 100

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus} Length = 177

 Score = 68.0 bits (166), Expect = 3e-13
 Identities = 22/117 (18%), Positives = 44/117 (37%), Gaps = 9/117 (7%)

Query: 525 GEEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQ 584
            + QH   + G            +K+ V  L F +    +   F + FG ++ A V    
Sbjct: 68  DKWQHDLFDSGCGGGEGVETG--AKLLVSNLDFGVSDADIQELFAE-FGTLKKAAV---D 121

Query: 585 TEKQSVSRGFGFVTFKHEKSAAAAVQARF--VTIMGKEVEIKSAVPKEVLFAELQKQ 639
            ++   S G   V F+    A  A++ ++  V + G+ ++I+    +  L       
Sbjct: 122 YDRSGRSLGTADVHFERRADALKAMK-QYKGVPLDGRPMDIQLVASQIDLEHHHHHH 177

>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A Length = 105

 Score = 65.8 bits (161), Expect = 3e-13
 Identities = 25/98 (25%), Positives = 39/98 (39%), Gaps = 10/98 (10%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
            K+FVG L      + +   F+  FG I++  V          S+G  FV F     A A
Sbjct: 16  RKLFVGMLNKQQSEEDVLRLFQP-FGVIDECTV---LRGPDGSSKGCAFVKFSSHTEAQA 71

Query: 608 AVQARFVTIM-GKEVEIKSAVPKEVLFAELQKQSAQQQ 644
           A+ A     + G +    ++    V FA+  K+S    
Sbjct: 72  AIHA-----LHGSQTMPGASSSLVVKFADTDKESGPSS 104

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens} Length = 95

 Score = 65.3 bits (160), Expect = 4e-13
 Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 4/72 (5%)

Query: 540 HASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTF 599
             + +E    +FVG L   +  + L   F +  GP+    +     +++   + FGFV F
Sbjct: 9   FPAQEEADRTVFVGNLEARVREEILYELFLQ-AGPLTKVTIC---KDREGKPKSFGFVCF 64

Query: 600 KHEKSAAAAVQA 611
           KH +S + A+  
Sbjct: 65  KHPESVSYAIAL 76

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 107

 Score = 65.4 bits (160), Expect = 4e-13
 Identities = 23/88 (26%), Positives = 37/88 (42%), Gaps = 8/88 (9%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA--EFQTEKQSVSRGFGFVTFKHEKS 604
            SKI V  +PF  +   +   F   FG ++  R+      T      RGFGFV F  ++ 
Sbjct: 15  TSKILVRNIPFQANQREIRELFST-FGELKTVRLPKKMTGTGA---HRGFGFVDFITKQD 70

Query: 605 AAAAVQARF--VTIMGKEVEIKSAVPKE 630
           A  A  A      + G+ + ++ A  + 
Sbjct: 71  AKKAFNALCHSTHLYGRRLVLEWADSEV 98

>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens} Length = 108

 Score = 65.4 bits (160), Expect = 4e-13
 Identities = 25/111 (22%), Positives = 50/111 (45%), Gaps = 8/111 (7%)

Query: 524 LGEEQHRKMNPGMCMIHASTQEFKS--KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA 581
           +G   H   +    M +   +      +++VG L F +  D L G FE  FG IE  ++ 
Sbjct: 1   MGHHHHHHSHMAAAMANNLQKGSAGPMRLYVGSLHFNITEDMLRGIFEP-FGRIESIQL- 58

Query: 582 EFQTEKQS-VSRGFGFVTFKHEKSAAAAVQARF-VTIMGKEVEIKSAVPKE 630
               + ++  S+G+GF+TF   + A  A++      + G+ +++     + 
Sbjct: 59  --MMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKVGHVTERT 107

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A Length = 135

 Score = 66.3 bits (162), Expect = 5e-13
 Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 6/85 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA-EFQTEKQSVSRGFGFVTFKHEKSAA 606
           + + V  L +    D+L   FEK +G + D  +  +  T++   SRGF FV F  ++ A 
Sbjct: 48  TSLKVDNLTYRTSPDTLRRVFEK-YGRVGDVYIPRDRYTKE---SRGFAFVRFHDKRDAE 103

Query: 607 AAVQA-RFVTIMGKEVEIKSAVPKE 630
            A+ A     + G+E+ ++ A    
Sbjct: 104 DAMDAMDGAVLDGRELRVQMARYGR 128

>1whw_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Length = 99

 Score = 64.9 bits (159), Expect = 6e-13
 Identities = 17/85 (20%), Positives = 33/85 (38%), Gaps = 6/85 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAA 606
            ++FV  L +    + L   F   +GP+ +        +  +   +GF FVTF   + A 
Sbjct: 9   GRLFVRNLSYTSSEEDLEKLFSA-YGPLSELHYP---IDSLTKKPKGFAFVTFMFPEHAV 64

Query: 607 AAVQA-RFVTIMGKEVEIKSAVPKE 630
            A          G+ + +  +  K+
Sbjct: 65  KAYAEVDGQVFQGRMLHVLPSTIKK 89

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 65.2 bits (159), Expect = 7e-13
 Identities = 19/100 (19%), Positives = 43/100 (43%), Gaps = 8/100 (8%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
             ++F+GG+P     + +     K    + D  V     +K   +RGF FV ++  ++AA
Sbjct: 8   NCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMK-NRGFAFVEYESHRAAA 66

Query: 607 AAVQA---RFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQ 643
            A +      + + G ++ +  A P+     ++ +   + 
Sbjct: 67  MARRKLMPGRIQLWGHQIAVDWAEPEI----DVDEDVMET 102

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 65.0 bits (159), Expect = 8e-13
 Identities = 23/104 (22%), Positives = 45/104 (43%), Gaps = 6/104 (5%)

Query: 527 EQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTE 586
                + P    ++   +    ++ V  +PF      L   F + FG I D  +      
Sbjct: 9   HHSSGLVPRGSHMNTENKSQPKRLHVSNIPFRFRDPDLRQMFGQ-FGKILDVEI---IFN 64

Query: 587 KQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSAVPK 629
           ++  S+GFGFVTF++   A  A +      + G+++E+ +A  +
Sbjct: 65  ERG-SKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATAR 107

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A Length = 115

 Score = 65.1 bits (159), Expect = 8e-13
 Identities = 27/98 (27%), Positives = 46/98 (46%), Gaps = 6/98 (6%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARV-AEFQTEKQSVSRGFGFVTFKHEKSAAA 607
            +FVG L   + ++ +   F   FG I DARV  +  T K   S+G+GFV+F ++  A  
Sbjct: 17  HVFVGDLSPEITTEDIKAAFAP-FGRISDARVVKDMATGK---SKGYGFVSFFNKWDAEN 72

Query: 608 AVQA-RFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQ 644
           A+Q      + G+++    A  K        + + +Q 
Sbjct: 73  AIQQMGGQWLGGRQIRTNWATRKPPAPKSTYESNTKQS 110

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 101

 Score = 64.6 bits (158), Expect = 8e-13
 Identities = 18/85 (21%), Positives = 36/85 (42%), Gaps = 8/85 (9%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
             + +  L +    ++L   FEK    I   +V + Q  K   S+G+ F+ F   + A  
Sbjct: 16  KTLVLSNLSYSATEETLQEVFEK-ATFI---KVPQNQNGK---SKGYAFIEFASFEDAKE 68

Query: 608 AVQARF-VTIMGKEVEIKSAVPKEV 631
           A+ +     I G+ + ++   P+  
Sbjct: 69  ALNSCNKREIEGRAIRLELQGPRGS 93

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} Length = 83

 Score = 63.7 bits (156), Expect = 8e-13
 Identities = 25/89 (28%), Positives = 39/89 (43%), Gaps = 16/89 (17%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARV-AEFQTEKQSVSRGFGFVTFKHEKSAAA 607
            +FVG L   +D ++L   F+  F       V  + QT     SRG+GFV+F  +  A  
Sbjct: 3   NLFVGDLNVNVDDETLRNAFKD-FPSYLSGHVMWDMQTGS---SRGYGFVSFTSQDDAQN 58

Query: 608 AVQARFVTIM-GKEVE-----IKSAVPKE 630
           A+ +     M G+++      I  A   E
Sbjct: 59  AMDS-----MQGQDLNGRPLRINWAAKLE 82

>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B Length = 96

 Score = 64.2 bits (157), Expect = 9e-13
 Identities = 19/108 (17%), Positives = 46/108 (42%), Gaps = 18/108 (16%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAA 606
             +++G +P+    + +        GP+ + ++     + Q+  S+G+ F+ F+  +S+A
Sbjct: 3   RVVYLGSIPYDQTEEQILDLCSN-VGPVINLKMM---FDPQTGRSKGYAFIEFRDLESSA 58

Query: 607 AAVQARFVTIMGKEVE---IKSAVPKEVLFAELQKQSAQQQESKHEHQ 651
           +AV+     + G ++    +K        ++     S    E  H H 
Sbjct: 59  SAVRN----LNGYQLGSRFLK------CGYSSNSDISGVSLEHHHHHH 96

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 105

 Score = 64.2 bits (157), Expect = 1e-12
 Identities = 21/92 (22%), Positives = 41/92 (44%), Gaps = 6/92 (6%)

Query: 541 ASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARV-AEFQTEKQSVSRGFGFVTF 599
            S +   + ++VGGL   +    L   F +  GP+ +  +  +  T +    +G+GFV F
Sbjct: 9   ISERNQDATVYVGGLDEKVSEPLLWELFLQ-AGPVVNTHMPKDRVTGQ---HQGYGFVEF 64

Query: 600 KHEKSAAAAVQA-RFVTIMGKEVEIKSAVPKE 630
             E+ A  A++    + + GK + +  A    
Sbjct: 65  LSEEDADYAIKIMDMIKLYGKPIRVNKASAHN 96

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 85

 Score = 63.3 bits (155), Expect = 1e-12
 Identities = 16/65 (24%), Positives = 27/65 (41%), Gaps = 5/65 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAA 606
           S +++ GL        L    +  +G I   +      +K +   +G+GFV F    +A 
Sbjct: 6   SGLYIRGLQPGTTDQDLVKLCQP-YGKIVSTKAI---LDKTTNKCKGYGFVDFDSPSAAQ 61

Query: 607 AAVQA 611
            AV A
Sbjct: 62  KAVTA 66

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 68.5 bits (168), Expect = 1e-12
 Identities = 18/110 (16%), Positives = 37/110 (33%), Gaps = 7/110 (6%)

Query: 540 HASTQEFKSK-IFVGGLPFFL-DSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFV 597
             +     S+ + V  LP    D D+L              ++A     +    +GF  +
Sbjct: 176 QLTPALLHSRCLCVDRLPPGFNDVDALCRALSA-VHSPTFCQLA---CGQDGQLKGFAVL 231

Query: 598 TFKHEKSAAAAVQAR-FVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQES 646
            ++  + A  A Q    +++ G  + +    P     + L    A Q  +
Sbjct: 232 EYETAEMAEEAQQQADGLSLGGSHLRVSFCAPGPPGRSMLAALIAAQATA 281

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 64.6 bits (158), Expect = 3e-11
 Identities = 17/73 (23%), Positives = 28/73 (38%), Gaps = 3/73 (4%)

Query: 539 IHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVT 598
           +    Q   + + V  LP  L            FG +E   +    +E+   S+G+GF  
Sbjct: 87  LSVQLQPTDALLCVANLPPSLTQQQFEELVRP-FGSLERCFLV--YSERTGQSKGYGFAE 143

Query: 599 FKHEKSAAAAVQA 611
           +  + SAA A   
Sbjct: 144 YMKKDSAARAKSD 156

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 52.3 bits (126), Expect = 3e-07
 Identities = 15/88 (17%), Positives = 31/88 (35%), Gaps = 11/88 (12%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
           + KI + GLP  + +  +       +                   +G  FVT  + + A 
Sbjct: 22  RRKILIRGLPGDVTNQEVHDLLSD-YELKYC---------FVDKYKGTAFVTLLNGEQAE 71

Query: 607 AAVQA-RFVTIMGKEVEIKSAVPKEVLF 633
           AA+ A     +  +E+ ++      +L 
Sbjct: 72  AAINAFHQSRLRERELSVQLQPTDALLC 99

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1 Length = 139

 Score = 65.2 bits (159), Expect = 1e-12
 Identities = 23/92 (25%), Positives = 42/92 (45%), Gaps = 6/92 (6%)

Query: 541 ASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTF 599
               +    + V  +P  +D   L   FE+ +GPIE  ++     ++++  SRG+GFV F
Sbjct: 36  NPEPDVLRNLMVNYIPTTVDEVQLRQLFER-YGPIESVKI---VCDRETRQSRGYGFVKF 91

Query: 600 KHEKSAAAAVQAR-FVTIMGKEVEIKSAVPKE 630
           +   SA  A+       I+ K +++  A    
Sbjct: 92  QSGSSAQQAIAGLNGFNILNKRLKVALAASGH 123

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens} Length = 110

 Score = 64.0 bits (156), Expect = 2e-12
 Identities = 14/99 (14%), Positives = 31/99 (31%), Gaps = 6/99 (6%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA-EFQTEKQSVSRGFGFVTFKHEKSA 605
             ++    L   +    L     K +G +E+  +    +T K     G   V F   + A
Sbjct: 6   LKEVTFARLNDNVRETFLKDMCRK-YGEVEEVEILLHPRTRK---HLGLARVLFTSTRGA 61

Query: 606 AAAVQA-RFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQ 643
              V+     ++MG  +  +  +  +      +      
Sbjct: 62  KETVKNLHLTSVMGNIIHAQLDIKGQQRMKYYELIVNGS 100

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens} Length = 87

 Score = 63.0 bits (154), Expect = 2e-12
 Identities = 26/83 (31%), Positives = 42/83 (50%), Gaps = 6/83 (7%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARV-AEFQTEKQSVSRGFGFVTFKHEKSAAA 607
            +FVG L   + + ++   F   FG I DARV  +  T K   S+G+GFV+F ++  A  
Sbjct: 8   HVFVGDLSPEITTAAIAAAFAP-FGRISDARVVKDMATGK---SKGYGFVSFFNKWDAEN 63

Query: 608 AVQA-RFVTIMGKEVEIKSAVPK 629
           A+Q      + G+++    A  K
Sbjct: 64  AIQQMGGQWLGGRQIRTNWATRK 86

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 102

 Score = 63.4 bits (155), Expect = 2e-12
 Identities = 27/85 (31%), Positives = 42/85 (49%), Gaps = 9/85 (10%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAA 606
             +FV GL      ++L    ++ F     AR+    T++++  S+GFGFV F  E+ A 
Sbjct: 16  KTLFVKGLSEDTTEETL----KESFDGSVRARIV---TDRETGSSKGFGFVDFNSEEDAK 68

Query: 607 AAVQA-RFVTIMGKEVEIKSAVPKE 630
           AA +A     I G +V +  A PK 
Sbjct: 69  AAKEAMEDGEIDGNKVTLDWAKPKG 93

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 104

 Score = 63.1 bits (154), Expect = 3e-12
 Identities = 27/100 (27%), Positives = 41/100 (41%), Gaps = 7/100 (7%)

Query: 542 STQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKH 601
           S  E+   +FVG L   +D   L  +F K +      +V   QT     S+G+GFV F  
Sbjct: 6   SGPEYS--LFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGV---SKGYGFVKFTD 60

Query: 602 EKSAAAAVQA--RFVTIMGKEVEIKSAVPKEVLFAELQKQ 639
           E     A+      V +  K V +  A+PK      ++  
Sbjct: 61  ELEQKRALTECQGAVGLGSKPVRLSVAIPKASRVKPVESG 100

>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A Length = 107

 Score = 62.7 bits (153), Expect = 4e-12
 Identities = 15/64 (23%), Positives = 27/64 (42%), Gaps = 4/64 (6%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
            K+ V  L F +    +   F + FG ++ A V     ++   S G   V F+ +  A  
Sbjct: 30  GKLLVSNLDFGVSDADIQELFAE-FGTLKKAAV---HYDRSGRSLGTADVHFERKADALK 85

Query: 608 AVQA 611
           A++ 
Sbjct: 86  AMKQ 89

>4a8x_A RNA-binding protein with serine-rich domain 1; transcription, splicing, RNA processing, nonsense mediated D NMD, HDAC, histone deacetylation; 1.90A {Homo sapiens} Length = 88

 Score = 62.2 bits (152), Expect = 4e-12
 Identities = 16/86 (18%), Positives = 35/86 (40%), Gaps = 7/86 (8%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA--EFQTEKQSVSRGFGFVTFKHEKSA 605
           +K+ +G L   +  D +   F   +G I+   +            S+G+ +V F++   A
Sbjct: 5   TKVHIGRLTRNVTKDHIMEIFST-YGKIKMIDMPVERMHPHL---SKGYAYVEFENPDEA 60

Query: 606 AAAVQARF-VTIMGKEVEIKSAVPKE 630
             A++      I G+E+   + +   
Sbjct: 61  EKALKHMDGGQIDGQEITATAVLAPW 86

>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} PDB: 2f9d_A 2f9j_A 2fho_B Length = 115

 Score = 62.8 bits (153), Expect = 4e-12
 Identities = 19/114 (16%), Positives = 45/114 (39%), Gaps = 10/114 (8%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           +++  LP+ + ++ +   F K +GPI   RV    T +   +RG  +V ++    A  AV
Sbjct: 11  LYIRNLPYKITAEEMYDIFGK-YGPIRQIRVGN--TPE---TRGTAYVVYEDIFDAKNAV 64

Query: 610 QAR-FVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQESKHEHQARLGAKIPDER 662
                  +  + + +          A  +  + +++E     + + G      +
Sbjct: 65  DHLSGFNVSNRYLVVLYYNANR---AFQKMDTKKKEEQLKLLKEKYGINTDPPK 115

>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 62.7 bits (153), Expect = 5e-12
 Identities = 17/89 (19%), Positives = 30/89 (33%), Gaps = 7/89 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           + +++  LP  +D   L    +  FG +   R+     +    SRG GF   +  +   A
Sbjct: 26  TNLYISNLPLSMDEQELENMLKP-FGQVISTRI---LRDSSGTSRGVGFARMESTEKCEA 81

Query: 608 AVQARF--VTIMGKEVEIKSAVPKEVLFA 634
            +   F    I           P    F+
Sbjct: 82  VIGH-FNGKFIKTPPGVSAPTEPLLCKFS 109

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 62.2 bits (152), Expect = 5e-12
 Identities = 18/65 (27%), Positives = 27/65 (41%), Gaps = 5/65 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA-EFQTEKQSVSRGFGFVTFKHEKSAA 606
           + I V  L        L   F   FG I    +A +  T +   S+GF F++F   + AA
Sbjct: 16  ATIRVTNLSEDTRETDLQELFRP-FGSISRIYLAKDKTTGQ---SKGFAFISFHRREDAA 71

Query: 607 AAVQA 611
            A+  
Sbjct: 72  RAIAG 76

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 62.1 bits (151), Expect = 6e-12
 Identities = 16/101 (15%), Positives = 38/101 (37%), Gaps = 10/101 (9%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            +++ G P     D +  + E   G + + ++   +       +G  FV F   +SA   
Sbjct: 13  SVYIKGFPTDATLDDIKEWLED-KGQVLNIQM---RRTLHKAFKGSIFVVFDSIESAKKF 68

Query: 609 VQARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQESKHE 649
           V+         ++ I              K++ +++++K E
Sbjct: 69  VETPGQKYKETDLLILFKD------DYFAKKNEERKQNKVE 103

>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 93

 Score = 61.5 bits (150), Expect = 7e-12
 Identities = 18/85 (21%), Positives = 36/85 (42%), Gaps = 11/85 (12%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           +K+++G L   + +D L   F          +V         +  G+ FV +  +  A  
Sbjct: 9   NKLYIGNLSPAVTADDLRQLFGD-RKLPLAGQV--------LLKSGYAFVDYPDQNWAIR 59

Query: 608 AVQAR--FVTIMGKEVEIKSAVPKE 630
           A++     V + GK +E+  +V K+
Sbjct: 60  AIETLSGKVELHGKIMEVDYSVSKK 84

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 90

 Score = 61.5 bits (150), Expect = 7e-12
 Identities = 19/84 (22%), Positives = 33/84 (39%), Gaps = 12/84 (14%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
            KIFVG +     S  L   FE+  G + +  V           + + FV  + E  A A
Sbjct: 10  WKIFVGNVSAACTSQELRSLFER-RGRVIECDVV----------KDYAFVHMEKEADAKA 58

Query: 608 AVQAR-FVTIMGKEVEIKSAVPKE 630
           A+       + GK + ++ +   +
Sbjct: 59  AIAQLNGKEVKGKRINVELSTKGQ 82

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A Length = 167

 Score = 63.7 bits (156), Expect = 8e-12
 Identities = 20/85 (23%), Positives = 35/85 (41%), Gaps = 4/85 (4%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
           K+ + V  LP  +  +     F    G IE  ++   +   QS   G+GFV +   K A 
Sbjct: 2   KTNLIVNYLPQNMTQEEFRSLFGS-IGEIESCKLVRDKITGQS--LGYGFVNYIDPKDAE 58

Query: 607 AAVQA-RFVTIMGKEVEIKSAVPKE 630
            A+     + +  K +++  A P  
Sbjct: 59  KAINTLNGLRLQTKTIKVSYARPSS 83

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A Length = 167

 Score = 61.0 bits (149), Expect = 6e-11
 Identities = 20/82 (24%), Positives = 37/82 (45%), Gaps = 6/82 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           + ++V GLP  +    L   F + +G I  +R+     +   VSRG GF+ F     A  
Sbjct: 89  ANLYVSGLPKTMTQKELEQLFSQ-YGRIITSRIL--VDQVTGVSRGVGFIRFDKRIEAEE 145

Query: 608 AVQA---RFVTIMGKEVEIKSA 626
           A++    +  +   + + +K A
Sbjct: 146 AIKGLNGQKPSGATEPITVKFA 167

>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 99

 Score = 61.5 bits (150), Expect = 9e-12
 Identities = 19/83 (22%), Positives = 36/83 (43%), Gaps = 10/83 (12%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           S++FVG LP  +  + +   FEK +G   +  +           +GFGF+  +    A  
Sbjct: 16  SRLFVGNLPPDITEEEMRKLFEK-YGKAGEVFIH--------KDKGFGFIRLETRTLAEI 66

Query: 608 AVQAR-FVTIMGKEVEIKSAVPK 629
           A      + + GK++ ++ A   
Sbjct: 67  AKVELDNMPLRGKQLRVRFACHS 89

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster} Length = 118

 Score = 62.0 bits (151), Expect = 1e-11
 Identities = 21/65 (32%), Positives = 33/65 (50%), Gaps = 5/65 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAA 606
             +F+  LP       L   F   FG +  A+V     +KQ+ +S+ FGFV+F +  SA 
Sbjct: 41  CNLFIYHLPQEFTDTDLASTFL-PFGNVISAKV---FIDKQTSLSKCFGFVSFDNPDSAQ 96

Query: 607 AAVQA 611
            A++A
Sbjct: 97  VAIKA 101

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Length = 168

 Score = 63.4 bits (155), Expect = 1e-11
 Identities = 20/86 (23%), Positives = 36/86 (41%), Gaps = 6/86 (6%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSA 605
            + + V  LP  +    L   F    GPI   R+     + ++  S G+ FV F  E  +
Sbjct: 3   NTNLIVNYLPQDMTDRELYALFRA-IGPINTCRIM---RDYKTGYSYGYAFVDFTSEMDS 58

Query: 606 AAAVQA-RFVTIMGKEVEIKSAVPKE 630
             A++    +T+  K +++  A P  
Sbjct: 59  QRAIKVLNGITVRNKRLKVSYARPGG 84

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Length = 168

 Score = 58.7 bits (143), Expect = 4e-10
 Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 3/64 (4%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           + ++V  LP  +  D L   F K +G I    +   + +     RG  FV +   + A  
Sbjct: 90  TNLYVTNLPRTITDDQLDTIFGK-YGSIVQKNIL--RDKLTGRPRGVAFVRYNKREEAQE 146

Query: 608 AVQA 611
           A+ A
Sbjct: 147 AISA 150

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens} Length = 156

 Score = 63.0 bits (153), Expect = 1e-11
 Identities = 16/116 (13%), Positives = 45/116 (38%), Gaps = 4/116 (3%)

Query: 531 KMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS- 589
              P +   ++  +  ++ ++VG   ++     L        G  +   + +F   + + 
Sbjct: 39  NKTPAILYTYSGLRNRRAAVYVGSFSWWTTDQQLIQVIRS-IGVYDVVEL-KFAENRANG 96

Query: 590 VSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQ 644
            S+G+  V    E S    ++      + G++V+++ A  + +   E Q +  +  
Sbjct: 97  QSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVRPATRQNLSQFEAQARKRECV 152

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 92

 Score = 60.7 bits (148), Expect = 1e-11
 Identities = 14/84 (16%), Positives = 34/84 (40%), Gaps = 12/84 (14%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           +K+ VG +     +  L   FE+ +GP+ +  +           + + FV  +  + A  
Sbjct: 11  TKLHVGNISPTCTNQELRAKFEE-YGPVIECDIV----------KDYAFVHMERAEDAVE 59

Query: 608 AVQAR-FVTIMGKEVEIKSAVPKE 630
           A++        GK + ++ +  + 
Sbjct: 60  AIRGLDNTEFQGKRMHVQLSTSRL 83

>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C Length = 229

 Score = 64.4 bits (156), Expect = 2e-11
 Identities = 15/101 (14%), Positives = 37/101 (36%), Gaps = 8/101 (7%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIE--DARVAEFQTEKQS-VSRGFGFVTFKHEK 603
           +  +++G L ++   + L        G  +  + +  E    + +  S+GF  V    E 
Sbjct: 68  RIALYIGNLTWWTTDEDLTEAVHS-LGVNDILEIKFFE---NRANGQSKGFALVGVGSEA 123

Query: 604 SAAAAVQARF-VTIMGKEVEIKSAVPKEVLFAELQKQSAQQ 643
           S+   +       + G+   +     + +   E+Q +   Q
Sbjct: 124 SSKKLMDLLPKRELHGQNPVVTPVNKQFLSQFEMQSRKTTQ 164

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens} Length = 95

 Score = 60.4 bits (147), Expect = 2e-11
 Identities = 19/96 (19%), Positives = 34/96 (35%), Gaps = 11/96 (11%)

Query: 538 MIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKH-FGPIEDARVAEFQTEKQS-VSRGFG 595
           M H         I +  +      DS+      +    + + R+     +KQ+  +RGF 
Sbjct: 1   MGHHHHHHMD-TIILRNIAPHTVVDSIMTALSPYASLAVNNIRLI---KDKQTQQNRGFA 56

Query: 596 FVTFKHEKSAAAAVQA-----RFVTIMGKEVEIKSA 626
           FV       A+  +Q        + I GK + +  A
Sbjct: 57  FVQLSSAMDASQLLQILQSLHPPLKIDGKTIGVDFA 92

>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A Length = 115

 Score = 60.4 bits (147), Expect = 3e-11
 Identities = 24/85 (28%), Positives = 42/85 (49%), Gaps = 6/85 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAA 606
           + +F+  LP       L   F   FG +  A+V     +KQ+ +S+ FGFV++ +  SA 
Sbjct: 26  ANLFIYHLPQEFGDQDLLQMFMP-FGNVVSAKV---FIDKQTNLSKCFGFVSYDNPVSAQ 81

Query: 607 AAVQA-RFVTIMGKEVEIKSAVPKE 630
           AA+Q+     I  K ++++    K 
Sbjct: 82  AAIQSMNGFQIGMKRLKVQLKRSKN 106

>1h2v_Z 20 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: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X Length = 156

 Score = 61.4 bits (149), Expect = 4e-11
 Identities = 24/136 (17%), Positives = 49/136 (36%), Gaps = 25/136 (18%)

Query: 496 ICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMCMIHASTQEFKSKIFVGGL 555
           + S + +E+ +Y + H    RG        EEQ + +                 ++VG L
Sbjct: 9   LRSDSYVELSQYRDQHF---RGDN------EEQEKLLKKS------------CTLYVGNL 47

Query: 556 PFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQAR-FV 614
            F+   + +   F K  G I+   +   + +K +   GF FV +     A  A++     
Sbjct: 48  SFYTTEEQIYELFSK-SGDIKKIIMGLDKMKKTA--CGFCFVEYYSRADAENAMRYINGT 104

Query: 615 TIMGKEVEIKSAVPKE 630
            +  + +        +
Sbjct: 105 RLDDRIIRTDWDAGFK 120

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens} Length = 101

 Score = 59.6 bits (145), Expect = 4e-11
 Identities = 17/64 (26%), Positives = 25/64 (39%), Gaps = 8/64 (12%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K++VG L        L   F   +GP+    +A           GF FV F+  + A  A
Sbjct: 2   KVYVGNLGTGAGKGELERAFSY-YGPLRTVWIA-------RNPPGFAFVEFEDPRDAEDA 53

Query: 609 VQAR 612
           V+  
Sbjct: 54  VRGL 57

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Length = 96

 Score = 59.6 bits (145), Expect = 4e-11
 Identities = 19/84 (22%), Positives = 29/84 (34%), Gaps = 9/84 (10%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
             +    L F +  D L   FE     I        Q  K   S+G  ++ FK E  A  
Sbjct: 17  RTLLAKNLSFNITEDELKEVFED-ALEIRLVS----QDGK---SKGIAYIEFKSEADAEK 68

Query: 608 AVQARF-VTIMGKEVEIKSAVPKE 630
            ++ +    I G+ V +     K 
Sbjct: 69  NLEEKQGAEIDGRSVSLYYTGEKG 92

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 90

 Score = 59.1 bits (144), Expect = 5e-11
 Identities = 15/84 (17%), Positives = 36/84 (42%), Gaps = 12/84 (14%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
            K+F+G LP       +   FE+ +G + +  +           + +GFV  + + +A  
Sbjct: 9   VKLFIGNLPREATEQEIRSLFEQ-YGKVLECDII----------KNYGFVHIEDKTAAED 57

Query: 608 AVQAR-FVTIMGKEVEIKSAVPKE 630
           A++      + G  + ++++  K 
Sbjct: 58  AIRNLHHYKLHGVNINVEASKNKS 81

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A Length = 92

 Score = 59.1 bits (144), Expect = 6e-11
 Identities = 18/63 (28%), Positives = 27/63 (42%), Gaps = 5/63 (7%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           +IFV  LPF      L   F +  G +  A +   +  K   S+G G V F+  + A  A
Sbjct: 10  QIFVRNLPFDFTWKMLKDKFNE-CGHVLYADIKM-ENGK---SKGCGVVKFESPEVAERA 64

Query: 609 VQA 611
            + 
Sbjct: 65  CRM 67

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Length = 292

 Score = 63.5 bits (155), Expect = 7e-11
 Identities = 23/82 (28%), Positives = 37/82 (45%), Gaps = 3/82 (3%)

Query: 549 KIFVGGLPF-FLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           +I +  L    LD + L   FE  FG IE   +   Q E  S +    F+ F+++ SA  
Sbjct: 212 EIMIRNLSTELLDENLLRESFEG-FGSIEKINIPAGQKE-HSFNNCCAFMVFENKDSAER 269

Query: 608 AVQARFVTIMGKEVEIKSAVPK 629
           A+Q     +  +E+ +  A  K
Sbjct: 270 ALQMNRSLLGNREISVSLADKK 291

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Length = 292

 Score = 60.0 bits (146), Expect = 9e-10
 Identities = 13/132 (9%), Positives = 43/132 (32%), Gaps = 22/132 (16%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
           +  +++   P      ++    +     +  +      + + + SR F ++    ++ A 
Sbjct: 117 ECTLWMTNFPPSYTQRNIRDLLQD-INVVALSIR--LPSLRFNTSRRFAYIDVTSKEDAR 173

Query: 607 AAVQARFVTIM-GKEVEIKSAVPKEVLFAELQKQSAQQ-QESKHEHQAR------LGAKI 658
             V+      + G ++E  +      L  ++     +  +      + R      L  ++
Sbjct: 174 YCVEK-----LNGLKIEGYT------LVTKVSNPLEKSKRTDSATLEGREIMIRNLSTEL 222

Query: 659 PDERTMEQIISR 670
            DE  + +    
Sbjct: 223 LDENLLRESFEG 234

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Length = 292

 Score = 59.2 bits (144), Expect = 2e-09
 Identities = 16/78 (20%), Positives = 28/78 (35%), Gaps = 5/78 (6%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           + V  LP   + + +  YF+   GPI    VA+        +  F  + F     A AA+
Sbjct: 44  VLVKNLPKSYNQNKVYKYFKH-CGPIIHVDVAD----SLKKNFRFARIEFARYDGALAAI 98

Query: 610 QARFVTIMGKEVEIKSAV 627
                 +   E+ +    
Sbjct: 99  TKTHKVVGQNEIIVSHLT 116

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 59.2 bits (144), Expect = 7e-11
 Identities = 19/85 (22%), Positives = 43/85 (50%), Gaps = 6/85 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDAR-VAEFQTEKQSVSRGFGFVTFKHEKSAA 606
             +FVG +P+    + L   F +  GP+   R V + +T K    +G+GF  ++ +++A 
Sbjct: 9   RSVFVGNIPYEATEEQLKDIFSE-VGPVVSFRLVYDRETGK---PKGYGFCEYQDQETAL 64

Query: 607 AAVQA-RFVTIMGKEVEIKSAVPKE 630
           +A++        G+ + + +A  ++
Sbjct: 65  SAMRNLNGREFSGRALRVDNAASEK 89

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1 Length = 106

 Score = 59.2 bits (144), Expect = 7e-11
 Identities = 13/65 (20%), Positives = 29/65 (44%), Gaps = 5/65 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDAR-VAEFQTEKQSVSRGFGFVTFKHEKSAA 606
             +FV G+      + +   F + +G I++     + +T      +G+  V ++  K A 
Sbjct: 24  WILFVTGVHEEATEEDIHDKFAE-YGEIKNIHLNLDRRTGY---LKGYTLVEYETYKEAQ 79

Query: 607 AAVQA 611
           AA++ 
Sbjct: 80  AAMEG 84

>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 103

 Score = 58.8 bits (143), Expect = 9e-11
 Identities = 28/99 (28%), Positives = 41/99 (41%), Gaps = 15/99 (15%)

Query: 540 HASTQEFKSK-----IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGF 594
             S+ +  ++     ++V  L   +D + L   F   FG I  A+V     E    S+GF
Sbjct: 3   SGSSGDRITRYQVVNLYVKNLDDGIDDERLRKAFSP-FGTITSAKVM---MEG-GRSKGF 57

Query: 595 GFVTFKHEKSAAAAVQA---RFVTIMGKEVEIKSAVPKE 630
           GFV F   + A  AV     R V    K + +  A  KE
Sbjct: 58  GFVCFSSPEEATKAVTEMNGRIV--ATKPLYVALAQRKE 94

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D* Length = 126

 Score = 59.7 bits (145), Expect = 9e-11
 Identities = 14/85 (16%), Positives = 38/85 (44%), Gaps = 6/85 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAA 606
             +FV G+      + +   F + +G I++  +     ++++   +G+  V ++  K A 
Sbjct: 23  WILFVTGVHEEATEEDIHDKFAE-YGEIKNIHLN---LDRRTGYLKGYTLVEYETYKEAQ 78

Query: 607 AAVQA-RFVTIMGKEVEIKSAVPKE 630
           AA++      +MG+ + +     + 
Sbjct: 79  AAMEGLNGQDLMGQPISVDWCFVRG 103

>2aja_A Ankyrin repeat family protein; NESG, Q5ZSV0, structural genomics, PSI, protein structure initiative; 2.80A {Legionella pneumophila} SCOP: a.118.24.1 Length = 376

 Score = 63.8 bits (155), Expect = 9e-11
 Identities = 22/155 (14%), Positives = 43/155 (27%), Gaps = 20/155 (12%)

Query: 278 VANGSCTDKKVGPPLILATQAGDEDVIEI--LLKSKNIDINDADADADGNSALHCALKTS 335
            ++      K      +A   G    ++   LL + +  +    A+     A   A    
Sbjct: 82  WSDAHKKGIKSEVICFVAAITGCSSALDTLCLLLTSDEIVKVIQAE--NYQAFRLA---- 135

Query: 336 MGLSQ--HILQNRIVGILLKHGAIVSQQNKL--GLTALHIAAGSGNSQALEDLIRKEPD- 390
              ++  H+    ++  L +                A  +AA +G+   L  L    P  
Sbjct: 136 ---AENGHL---HVLNRLCELAPTEIMAMIQAENYHAFRLAAENGHLHVLNRLCELAPTE 189

Query: 391 -CINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
               ++        + AV   H      LL     
Sbjct: 190 ATAMIQAENYYAFRWAAVGRGHHNVINFLLDCPVM 224

>2aja_A Ankyrin repeat family protein; NESG, Q5ZSV0, structural genomics, PSI, protein structure initiative; 2.80A {Legionella pneumophila} SCOP: a.118.24.1 Length = 376

 Score = 54.6 bits (131), Expect = 1e-07
 Identities = 21/174 (12%), Positives = 48/174 (27%), Gaps = 15/174 (8%)

Query: 267 LEI-ELLQLFGAVANGSCTDKKVG-PPLILATQAGDEDVIEILLKSKNIDINDADADA-- 322
           L +   L         +    +        A   G  +VI  LL    + +  A+     
Sbjct: 176 LHVLNRLCELAPTEATAMIQAENYYAFRWAAVGRGHHNVINFLL-DCPVMLAYAEIHEFE 234

Query: 323 DGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVS-QQNKLGLTALHIAAGSGNSQAL 381
            G   ++  +   +   + +     +        +V+  +   G   L       +   L
Sbjct: 235 YGEKYVNPFIARHVNRLKEMHDAFKLSNPDGVFDLVTKSECLQGFYMLRNLIRRNDEVLL 294

Query: 382 EDLIRKEPDCINLKTIMM--------ETPLFFAVKNDHMVCAEVLLRWGANSEV 427
           +  IR       +K +             L  A++  +     +LL   +   +
Sbjct: 295 D-DIRFLLSIPGIKALAPTATIPGDANELLRLALRLGNQGACALLLSIPSVLAL 347

>2aja_A Ankyrin repeat family protein; NESG, Q5ZSV0, structural genomics, PSI, protein structure initiative; 2.80A {Legionella pneumophila} SCOP: a.118.24.1 Length = 376

 Score = 54.2 bits (130), Expect = 1e-07
 Identities = 18/122 (14%), Positives = 31/122 (25%), Gaps = 6/122 (4%)

Query: 311 KNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALH 370
           K +  +              A  T             + +LL    IV         A  
Sbjct: 79  KQLWSDAHKKGIKSEVICFVAAITG-----CSSALDTLCLLLTSDEIVKVIQAENYQAFR 133

Query: 371 IAAGSGNSQALEDLIRKEPD-CINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLN 429
           +AA +G+   L  L    P   + +           A +N H+     L           
Sbjct: 134 LAAENGHLHVLNRLCELAPTEIMAMIQAENYHAFRLAAENGHLHVLNRLCELAPTEATAM 193

Query: 430 LR 431
           ++
Sbjct: 194 IQ 195

>2aja_A Ankyrin repeat family protein; NESG, Q5ZSV0, structural genomics, PSI, protein structure initiative; 2.80A {Legionella pneumophila} SCOP: a.118.24.1 Length = 376

 Score = 52.3 bits (125), Expect = 4e-07
 Identities = 15/112 (13%), Positives = 31/112 (27%), Gaps = 4/112 (3%)

Query: 313 IDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIA 372
            D+        G   L   ++ +  +    ++  +    +K  A  +         L +A
Sbjct: 267 FDLVTKSECLQGFYMLRNLIRRNDEVLLDDIRFLLSIPGIKALAPTATIPGDANELLRLA 326

Query: 373 AGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
              GN  A   L+   P  + L         +       +    V L    +
Sbjct: 327 LRLGNQGACALLLSI-PSVLALTK---ANNYYINETGGRLDLRAVALEHHHH 374

>2aja_A Ankyrin repeat family protein; NESG, Q5ZSV0, structural genomics, PSI, protein structure initiative; 2.80A {Legionella pneumophila} SCOP: a.118.24.1 Length = 376

 Score = 44.2 bits (104), Expect = 1e-04
 Identities = 29/250 (11%), Positives = 65/250 (26%), Gaps = 50/250 (20%)

Query: 92  ESSGMTALHLAAES-HTARCVELLLKKRA---RTDIRSKDGRRLLPLELSLSSSRMDVIW 147
           ++    A  LAAE+ H    +  L +         I++++           ++       
Sbjct: 160 QAENYHAFRLAAENGHLH-VLNRLCELAPTEATAMIQAENYYAFR-----WAAVG----- 208

Query: 148 NPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVN 207
                          + +   +  L      L          G       +         
Sbjct: 209 ---------------RGHHNVINFLLDCPVMLAYAEIHEFEYGEKYVNPFIARHVNRLKE 253

Query: 208 ESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLL 267
                   +  G  +       ++ ++  L     L+  ++RN         +  + LL 
Sbjct: 254 MHDAFKLSNPDGVFD-------LVTKSECLQGFYMLRNLIRRNDE----VLLDDIRFLLS 302

Query: 268 EIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILL-KSKNIDINDAD----ADA 322
              +  L    A  +         L LA + G++    +LL     + +  A+     + 
Sbjct: 303 IPGIKAL----APTATIPGDANELLRLALRLGNQGACALLLSIPSVLALTKANNYYINET 358

Query: 323 DGNSALHCAL 332
            G   L    
Sbjct: 359 GGRLDLRAVA 368

>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor)...; structure genomics, SURP domain, splicing factor SF2; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 58.9 bits (143), Expect = 1e-10
 Identities = 22/88 (25%), Positives = 34/88 (38%), Gaps = 7/88 (7%)

Query: 525 GEEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQ 584
           G      M+ G  +I         +I+VG LP  + +  +   F K +G I D  +   +
Sbjct: 1   GSSGSSGMSGGG-VIRGPAGNNDCRIYVGNLPPDIRTKDIEDVFYK-YGAIRDIDLKNRR 58

Query: 585 TEKQSVSRGFGFVTFKHEKSAAAAVQAR 612
                    F FV F+  + A  AV  R
Sbjct: 59  G-----GPPFAFVEFEDPRDAEDAVYGR 81

>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A Length = 103

 Score = 58.4 bits (142), Expect = 1e-10
 Identities = 20/107 (18%), Positives = 39/107 (36%), Gaps = 17/107 (15%)

Query: 540 HASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTF 599
            +   + K  +FV  L   +  + L   F + FG +E  +            + + F+ F
Sbjct: 5   SSGMAKVK-VLFVRNLANTVTEEILEKAFSQ-FGKLERVKK----------LKDYAFIHF 52

Query: 600 KHEKSAAAAVQA---RFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQ 643
                A  A++    +   + G+ +EI  A P +    E + Q    
Sbjct: 53  DERDGAVKAMEEMNGK--DLEGENIEIVFAKPPDQKRKERKAQRQAA 97

>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B* 2j0s_D* 2xb2_D* Length = 110

 Score = 58.1 bits (141), Expect = 2e-10
 Identities = 19/84 (22%), Positives = 37/84 (44%), Gaps = 6/84 (7%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA-EFQTEKQSVSRGFGFVTFKHEKSAAA 607
            +FV  +      D +   F   +G I++  +  + +T     S+G+  V ++  K A A
Sbjct: 28  ILFVTSIHEEAQEDEIQEKFCD-YGEIKNIHLNLDRRTGF---SKGYALVEYETHKQALA 83

Query: 608 AVQA-RFVTIMGKEVEIKSAVPKE 630
           A +A     IMG+ +++     K 
Sbjct: 84  AKEALNGAEIMGQTIQVDWCFVKG 107

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori} Length = 90

 Score = 57.2 bits (139), Expect = 2e-10
 Identities = 21/84 (25%), Positives = 42/84 (50%), Gaps = 7/84 (8%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAAA 607
            I+VG L +   S+ +   F + FG + + ++     ++++   +GFGFV  + E S + 
Sbjct: 3   NIYVGNLVYSATSEQVKELFSQ-FGKVFNVKLI---YDRETKKPKGFGFVEMQEE-SVSE 57

Query: 608 AVQA-RFVTIMGKEVEIKSAVPKE 630
           A+        MG+ + +  A PK+
Sbjct: 58  AIAKLDNTDFMGRTIRVTEANPKK 81

>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and splicing factor,...; protein-RNA complex RRM alpha-beta sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR {Streptococcus SP} PDB: 2i38_A Length = 150

 Score = 59.1 bits (143), Expect = 2e-10
 Identities = 20/73 (27%), Positives = 29/73 (39%), Gaps = 8/73 (10%)

Query: 540 HASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTF 599
           H  +     K++VG L    +   L   F   +GP+    VA           GF FV F
Sbjct: 66  HRDSCPLDCKVYVGNLGNNGNKTELERAFGY-YGPLRSVWVA-------RNPPGFAFVEF 117

Query: 600 KHEKSAAAAVQAR 612
           +  + AA AV+  
Sbjct: 118 EDPRDAADAVREL 130

>3lvq_E ARF-GAP with SH3 domain, ANK repeat and PH domain containing protein 3, ADP-ribosylation...; GDP, ASAP3, UPLC1, linkers, alternat splicing; HET: GDP; 3.38A {Homo sapiens} PDB: 3lvr_E* Length = 497

 Score = 62.6 bits (152), Expect = 3e-10
 Identities = 32/130 (24%), Positives = 50/130 (38%), Gaps = 9/130 (6%)

Query: 292 LILATQAGD-EDVIEILLKSK--NIDINDADADADGNSALHCALKTSMGLSQHILQNRIV 348
           L  A    D   V+E     +     +   DA A     LH A+K +   S  ++     
Sbjct: 136 LWTAICNRDLLSVLEAFANGQDFGQPLPGPDAQAPEELVLHLAVKVANQASLPLVD---- 191

Query: 349 GILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVK 408
             ++++G  +  +   G TALH AA       L+ L++     +       ET L  A K
Sbjct: 192 -FIIQNGGHLDAKAADGNTALHYAALYNQPDCLKLLLKGRAL-VGTVNEAGETALDIARK 249

Query: 409 NDHMVCAEVL 418
             H  C E+L
Sbjct: 250 KHHKECEELL 259

>3lvq_E ARF-GAP with SH3 domain, ANK repeat and PH domain containing protein 3, ADP-ribosylation...; GDP, ASAP3, UPLC1, linkers, alternat splicing; HET: GDP; 3.38A {Homo sapiens} PDB: 3lvr_E* Length = 497

 Score = 42.2 bits (99), Expect = 8e-04
 Identities = 16/40 (40%), Positives = 22/40 (55%)

Query: 93  SSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLL 132
           + G TALH AA  +   C++LLLK RA     ++ G   L
Sbjct: 205 ADGNTALHYAALYNQPDCLKLLLKGRALVGTVNEAGETAL 244

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 104

 Score = 56.9 bits (137), Expect = 4e-10
 Identities = 17/90 (18%), Positives = 31/90 (34%), Gaps = 14/90 (15%)

Query: 545 EFKSKIFVGGLPFFLDSDSLGGYFEKH----FGPIEDARVAEFQTEKQSVSRGFGFVTFK 600
                + V GLP  +  + L  YFE       GP+   +               G +TF+
Sbjct: 6   SGGVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQR----------LGCGGVLTFR 55

Query: 601 HEKSAAAAVQARFVTIMGKEVEIKSAVPKE 630
               A   +      + G ++ ++ A P+ 
Sbjct: 56  EPADAERVLAQADHELHGAQLSLRPAPPRA 85

>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 96

 Score = 56.4 bits (137), Expect = 4e-10
 Identities = 20/88 (22%), Positives = 41/88 (46%), Gaps = 11/88 (12%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPI-EDARVAEFQTEKQS-VSRGFGFVTFKHEKSA 605
           S IF+G L   +D   L   F   FG I +  ++     +  +  S+G+ F+ F    ++
Sbjct: 6   SGIFIGNLDPEIDEKLLYDTFSA-FGVILQTPKIM---RDPDTGNSKGYAFINFASFDAS 61

Query: 606 AAAVQA---RFVTIMGKEVEIKSAVPKE 630
            AA++A   ++  +  + + +  A  K+
Sbjct: 62  DAAIEAMNGQY--LCNRPITVSYAFKKD 87

>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A Length = 89

 Score = 56.0 bits (136), Expect = 5e-10
 Identities = 13/83 (15%), Positives = 34/83 (40%), Gaps = 5/83 (6%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAAA 607
            I+VG + +   ++ L  +F    G +    +     +K S   +GF ++ F  ++S   
Sbjct: 8   SIYVGNVDYGATAEELEAHFHG-CGSVNRVTIL---CDKFSGHPKGFAYIEFSDKESVRT 63

Query: 608 AVQARFVTIMGKEVEIKSAVPKE 630
           ++        G+++++       
Sbjct: 64  SLALDESLFRGRQIKVIPKRTNR 86

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae} Length = 166

 Score = 58.3 bits (142), Expect = 5e-10
 Identities = 20/81 (24%), Positives = 34/81 (41%), Gaps = 5/81 (6%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           ++VG L   +  D L  YF+   GPI + ++     +K + +  + FV +     A  A+
Sbjct: 3   LYVGNLDKAITEDILKQYFQ-VGGPIANIKI---MIDKNNKNVNYAFVEYHQSHDANIAL 58

Query: 610 QA-RFVTIMGKEVEIKSAVPK 629
           Q      I    V+I  A   
Sbjct: 59  QTLNGKQIENNIVKINWAFQS 79

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae} Length = 166

 Score = 55.2 bits (134), Expect = 7e-09
 Identities = 19/64 (29%), Positives = 31/64 (48%), Gaps = 5/64 (7%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHEKSAAA 607
            +FVG L   +D ++L   F+  F       V     + Q+  SRG+GFV+F  +  A  
Sbjct: 89  NLFVGDLNVNVDDETLRNAFKD-FPSYLSGHVM---WDMQTGSSRGYGFVSFTSQDDAQN 144

Query: 608 AVQA 611
           A+ +
Sbjct: 145 AMDS 148

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A* Length = 213

 Score = 59.2 bits (144), Expect = 6e-10
 Identities = 22/94 (23%), Positives = 47/94 (50%), Gaps = 6/94 (6%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           IF+  L   +D+ +L   F   FG I   +V       ++ S+G+GFV F+ +++A  A+
Sbjct: 106 IFIKNLDKSIDNKALYDTFSA-FGNILSCKVVC----DENGSKGYGFVHFETQEAAERAI 160

Query: 610 QA-RFVTIMGKEVEIKSAVPKEVLFAELQKQSAQ 642
           +    + +  ++V +     ++   AEL  ++ +
Sbjct: 161 EKMNGMLLNDRKVFVGRFKSRKEREAELGARAKE 194

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A* Length = 213

 Score = 53.8 bits (130), Expect = 5e-08
 Identities = 23/76 (30%), Positives = 32/76 (42%), Gaps = 6/76 (7%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA-EFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           ++VG L   +    L   F    GPI   RV  +  T +   S G+ +V F+    A  A
Sbjct: 18  LYVGDLHPDVTEAMLYEKFS-PAGPILSIRVCRDMITRR---SLGYAYVNFQQPADAERA 73

Query: 609 VQA-RFVTIMGKEVEI 623
           +    F  I GK V I
Sbjct: 74  LDTMNFDVIKGKPVRI 89

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 115

 Score = 56.9 bits (138), Expect = 6e-10
 Identities = 16/86 (18%), Positives = 34/86 (39%), Gaps = 8/86 (9%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA-EFQTEKQSVSRGFGFVTFKHEKSAA 606
             +++  L   +    L   F + F   +   +     T +    RG  F+TF +++ A 
Sbjct: 26  KVLYLKNLSPRVTERDLVSLFAR-FQEKKGPPIQFRMMTGR---MRGQAFITFPNKEIAW 81

Query: 607 AAVQA--RFVTIMGKEVEIKSAVPKE 630
            A+     +  + GK + I+    K+
Sbjct: 82  QALHLVNGYK-LYGKILVIEFGKNKK 106

>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C Length = 90

 Score = 56.1 bits (136), Expect = 6e-10
 Identities = 12/88 (13%), Positives = 31/88 (35%), Gaps = 8/88 (9%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIE--DARVAEFQTEKQS-VSRGFGFVTFKHEK 603
           +  +++G L ++   + L        G  +  + +       + +  S+GF  V    E 
Sbjct: 1   RIALYIGNLTWWTTDEDLTEAVHS-LGVNDILEIKFF---ENRANGQSKGFALVGVGSEA 56

Query: 604 SAAAAVQA-RFVTIMGKEVEIKSAVPKE 630
           S+   +       + G+   +  +   E
Sbjct: 57  SSKKLMDLLPKRELHGQNPVVTPSNKLE 84

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 56.1 bits (136), Expect = 7e-10
 Identities = 16/82 (19%), Positives = 35/82 (42%), Gaps = 3/82 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
             F+G LP+ +  +S+  +F      I   R+    +  +   +GFG+  F+   S  +A
Sbjct: 17  TAFLGNLPYDVTEESIKEFFRG--LNISAVRLPREPSNPER-LKGFGYAEFEDLDSLLSA 73

Query: 609 VQARFVTIMGKEVEIKSAVPKE 630
           +     ++  K + +  A   +
Sbjct: 74  LSLNEESLGNKRIRVDVADQAQ 95

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens} Length = 100

 Score = 56.1 bits (136), Expect = 7e-10
 Identities = 16/83 (19%), Positives = 36/83 (43%), Gaps = 5/83 (6%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA-EFQTEKQSVSRGFGFVTFKHEKSAAA 607
             F+G LP+ +  +S+  +F      I   R+  E    ++   +GFG+  F+   S  +
Sbjct: 21  TAFLGNLPYDVTEESIKEFFRG--LNISAVRLPREPSNPERL--KGFGYAEFEDLDSLLS 76

Query: 608 AVQARFVTIMGKEVEIKSAVPKE 630
           A+     ++  + + +  A   +
Sbjct: 77  ALSLNEESLGNRRIRVDVADQAQ 99

>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Length = 97

 Score = 56.1 bits (136), Expect = 7e-10
 Identities = 19/94 (20%), Positives = 36/94 (38%), Gaps = 16/94 (17%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           +++VGGL       +L   F++ FG I      +           F ++ ++   +A AA
Sbjct: 19  RLWVGGLGPNTSLAALAREFDR-FGSIRTIDHVK--------GDSFAYIQYESLDAAQAA 69

Query: 609 VQA-RFVTIMGKEVEIKSAVPKEVLFAELQKQSA 641
               R   + G +  ++      V FA+    S 
Sbjct: 70  CAKMRGFPLGGPDRRLR------VDFAKSGPSSG 97

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae} Length = 101

 Score = 56.2 bits (136), Expect = 7e-10
 Identities = 16/74 (21%), Positives = 27/74 (36%), Gaps = 9/74 (12%)

Query: 538 MIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFV 597
            I  S     +  ++G +P F     L   F+  FG I D +            +G  F+
Sbjct: 18  HIIRSAPPRVTTAYIGNIPHFATEADLIPLFQN-FGFILDFKH--------YPEKGCCFI 68

Query: 598 TFKHEKSAAAAVQA 611
            +   + AA  + A
Sbjct: 69  KYDTHEQAAVCIVA 82

>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A Length = 165

 Score = 57.5 bits (139), Expect = 1e-09
 Identities = 19/85 (22%), Positives = 37/85 (43%), Gaps = 6/85 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA-EFQTEKQSVSRGFGFVTFKHEKSAA 606
             +FV  +      D +   F   +G I++  +  + +T     S+G+  V ++  K A 
Sbjct: 73  WILFVTSIHEEAQEDEIQEKFCD-YGEIKNIHLNLDRRTGF---SKGYALVEYETHKQAL 128

Query: 607 AAVQA-RFVTIMGKEVEIKSAVPKE 630
           AA +A     IMG+ +++     K 
Sbjct: 129 AAKEALNGAEIMGQTIQVDWCFVKG 153

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens} Length = 116

 Score = 56.3 bits (136), Expect = 1e-09
 Identities = 23/111 (20%), Positives = 45/111 (40%), Gaps = 14/111 (12%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQ-----TEKQS-VSRGFGFVTFKH 601
           + IFV GL   +  +S+  YF++  G I+  +          T++++   +G   V+F  
Sbjct: 8   NTIFVQGLGENVTIESVADYFKQ-IGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDD 66

Query: 602 EKSAAAAVQARF--VTIMGKEVEIKSAVPKEVLFAELQKQSAQQQESKHEH 650
             SA AA+   F      G  +++  A  +    A+  +     +     H
Sbjct: 67  PPSAKAAIDW-FDGKEFSGNPIKVSFATRR----ADFNRGGGNGRGGLEHH 112

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 98

 Score = 55.4 bits (134), Expect = 1e-09
 Identities = 16/84 (19%), Positives = 32/84 (38%), Gaps = 4/84 (4%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           + I V  +PF +  D +  +F   +  I  +     +  ++ +  G   V F+    A A
Sbjct: 16  TIIKVQNMPFTVSIDEILDFFYG-YQVIPGS--VCLKYNEKGMPTGEAMVAFESRDEATA 72

Query: 608 AVQAR-FVTIMGKEVEIKSAVPKE 630
           AV       I  ++V++       
Sbjct: 73  AVIDLNDRPIGSRKVKLVLGSGPS 96

>2b0o_E UPLC1; arfgap, structural genomics, structural genomics consortium, SGC, metal binding protein; 2.06A {Homo sapiens} Length = 301

 Score = 60.0 bits (145), Expect = 1e-09
 Identities = 27/107 (25%), Positives = 43/107 (40%), Gaps = 6/107 (5%)

Query: 312 NIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHI 371
              +   DA A     LH A+K +   S  ++       ++++G  +  +   G TALH 
Sbjct: 178 GQPLPGPDAQAPEELVLHLAVKVANQASLPLVD-----FIIQNGGHLDAKAADGNTALHY 232

Query: 372 AAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVL 418
           AA       L+ L++     +       ET L  A K  H  C E+L
Sbjct: 233 AALYNQPDCLKLLLKGRAL-VGTVNEAGETALDIARKKHHKECEELL 278

>2b0o_E UPLC1; arfgap, structural genomics, structural genomics consortium, SGC, metal binding protein; 2.06A {Homo sapiens} Length = 301

 Score = 54.2 bits (130), Expect = 7e-08
 Identities = 26/99 (26%), Positives = 45/99 (45%), Gaps = 13/99 (13%)

Query: 291 PLILATQAGDEDVIEI--LLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIV 348
            L LA +  ++  + +   +      ++   AD  GN+ALH A   +        Q   +
Sbjct: 193 VLHLAVKVANQASLPLVDFIIQNGGHLDAKAAD--GNTALHYAALYN--------QPDCL 242

Query: 349 GILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRK 387
            +LLK  A+V   N+ G TAL IA    + +  E+L+ +
Sbjct: 243 KLLLKGRALVGTVNEAGETALDIARKKHHKE-CEELLEQ 280

>2b0o_E UPLC1; arfgap, structural genomics, structural genomics consortium, SGC, metal binding protein; 2.06A {Homo sapiens} Length = 301

 Score = 53.8 bits (129), Expect = 1e-07
 Identities = 21/98 (21%), Positives = 35/98 (35%), Gaps = 8/98 (8%)

Query: 351 LLKHGAIVSQQNKL------GLTALHIAAGSGNSQALE--DLIRKEPDCINLKTIMMETP 402
              +G    Q              LH+A    N  +L   D I +    ++ K     T 
Sbjct: 170 AFANGQDFGQPLPGPDAQAPEELVLHLAVKVANQASLPLVDFIIQNGGHLDAKAADGNTA 229

Query: 403 LFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAK 440
           L +A   +   C ++LL+  A    +N   E  +D A+
Sbjct: 230 LHYAALYNQPDCLKLLLKGRALVGTVNEAGETALDIAR 267

>2b0o_E UPLC1; arfgap, structural genomics, structural genomics consortium, SGC, metal binding protein; 2.06A {Homo sapiens} Length = 301

 Score = 41.9 bits (98), Expect = 7e-04
 Identities = 16/48 (33%), Positives = 26/48 (54%), Gaps = 2/48 (4%)

Query: 90  VEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELS 137
            + + G TALH AA  +   C++LLLK RA     ++ G     L+++
Sbjct: 221 AKAADGNTALHYAALYNQPDCLKLLLKGRALVGTVNEAGE--TALDIA 266

>1dcq_A PYK2-associated protein beta; zinc-binding module, ankyrin repeats, metal binding protein; 2.10A {Mus musculus} SCOP: d.211.1.1 g.45.1.1 Length = 278

 Score = 59.2 bits (143), Expect = 2e-09
 Identities = 30/108 (27%), Positives = 50/108 (46%), Gaps = 6/108 (5%)

Query: 312 NIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHI 371
              I  A+      +ALH A+++    S HI+       L+++   + +Q   G TALH 
Sbjct: 157 TEKIPLANGHEPDETALHLAVRSVDRTSLHIVD-----FLVQNSGNLDKQTGKGSTALHY 211

Query: 372 AAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLL 419
              + N++ L+ L+R +   I +     ETPL  A +  H  C E+L 
Sbjct: 212 CCLTDNAECLKLLLRGKAS-IEIANESGETPLDIAKRLKHEHCEELLT 258

>1dcq_A PYK2-associated protein beta; zinc-binding module, ankyrin repeats, metal binding protein; 2.10A {Mus musculus} SCOP: d.211.1.1 g.45.1.1 Length = 278

 Score = 56.9 bits (137), Expect = 9e-09
 Identities = 22/110 (20%), Positives = 42/110 (38%), Gaps = 18/110 (16%)

Query: 291 PLILATQAGDEDVIEI--LLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIV 348
            L LA ++ D   + I   L   + +++       G++ALH    T             +
Sbjct: 172 ALHLAVRSVDRTSLHIVDFLVQNSGNLDKQTGK--GSTALHYCCLTD--------NAECL 221

Query: 349 GILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIR-----KEPDCIN 393
            +LL+  A +   N+ G T L IA    +    E+L+      +    ++
Sbjct: 222 KLLLRGKASIEIANESGETPLDIAKRLKHEH-CEELLTQALSGRFNSHVH 270

>1dcq_A PYK2-associated protein beta; zinc-binding module, ankyrin repeats, metal binding protein; 2.10A {Mus musculus} SCOP: d.211.1.1 g.45.1.1 Length = 278

 Score = 55.4 bits (133), Expect = 2e-08
 Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 2/76 (2%)

Query: 367 TALHIAAGSGNSQALE--DLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
           TALH+A  S +  +L   D + +    ++ +T    T L +    D+  C ++LLR  A+
Sbjct: 171 TALHLAVRSVDRTSLHIVDFLVQNSGNLDKQTGKGSTALHYCCLTDNAECLKLLLRGKAS 230

Query: 425 SEVLNLRRERPIDFAK 440
            E+ N   E P+D AK
Sbjct: 231 IEIANESGETPLDIAK 246

>1dcq_A PYK2-associated protein beta; zinc-binding module, ankyrin repeats, metal binding protein; 2.10A {Mus musculus} SCOP: d.211.1.1 g.45.1.1 Length = 278

 Score = 41.5 bits (97), Expect = 9e-04
 Identities = 15/47 (31%), Positives = 26/47 (55%), Gaps = 2/47 (4%)

Query: 90  VEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLEL 136
            +   G TALH    +  A C++LLL+ +A  +I ++ G    PL++
Sbjct: 200 KQTGKGSTALHYCCLTDNAECLKLLLRGKASIEIANESGET--PLDI 244

>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding, rRNA processing; NMR {Saccharomyces cerevisiae} PDB: 2osq_A Length = 108

 Score = 55.4 bits (134), Expect = 2e-09
 Identities = 18/85 (21%), Positives = 36/85 (42%), Gaps = 12/85 (14%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
            +++FV   P  +    L   F   FGP+++ ++            GF FV F+  +SAA
Sbjct: 31  NTRLFVRPFPLDVQESELNEIFGP-FGPMKEVKIL----------NGFAFVEFEEAESAA 79

Query: 607 AAVQARF-VTIMGKEVEIKSAVPKE 630
            A++     +   + +E+  +    
Sbjct: 80  KAIEEVHGKSFANQPLEVVYSKLPA 104

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 99

 Score = 54.6 bits (132), Expect = 2e-09
 Identities = 17/83 (20%), Positives = 30/83 (36%), Gaps = 10/83 (12%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            ++V  L      + +   F     P    RV           R + FV F + + A  A
Sbjct: 17  ILYVRNLMLSTSEEMIEKEFNN-IKPGAVERV--------KKIRDYAFVHFSNREDAVEA 67

Query: 609 VQA-RFVTIMGKEVEIKSAVPKE 630
           ++A     + G  +E+  A P +
Sbjct: 68  MKALNGKVLDGSPIEVTLAKPVD 90

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 54.7 bits (132), Expect = 3e-09
 Identities = 18/100 (18%), Positives = 37/100 (37%), Gaps = 5/100 (5%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
           K    +  +PF +    +  + E      E+A       +      G   V FK+E  A 
Sbjct: 15  KVCAHITNIPFSITKMDVLQFLEG-IPVDENAVH--VLVDNNGQGLGQALVQFKNEDDAR 71

Query: 607 AAVQARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQES 646
            + +     + G+E  +     +++   E++K    Q +S
Sbjct: 72  KSERLHRKKLNGREAFVHVVTLEDM--REIEKNPPAQGKS 109

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus} Length = 103

 Score = 53.8 bits (130), Expect = 4e-09
 Identities = 18/83 (21%), Positives = 32/83 (38%), Gaps = 6/83 (7%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDAR-VAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
             +VG LPF      +   F+     I   R V +  T+K    +GF +V F    S   
Sbjct: 17  TAYVGNLPFNTVQGDIDAIFKDL--SIRSVRLVRDKDTDK---FKGFCYVEFDEVDSLKE 71

Query: 608 AVQARFVTIMGKEVEIKSAVPKE 630
           A+      +  + + +  A  ++
Sbjct: 72  ALTYDGALLGDRSLRVDIAEGRK 94

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A Length = 95

 Score = 53.5 bits (129), Expect = 5e-09
 Identities = 17/85 (20%), Positives = 35/85 (41%), Gaps = 4/85 (4%)

Query: 540 HASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTF 599
            +S +   + I V  +PF +  D +  +F   +  I  +     +  ++ +  G   V F
Sbjct: 8   SSSGKPGPTVIKVQNMPFTVSIDEILDFFYG-YQVIPGS--VCLKYNEKGMPTGEAMVAF 64

Query: 600 KHEKSAAAAVQAR-FVTIMGKEVEI 623
           +    A AAV       I  ++V++
Sbjct: 65  ESRDEATAAVIDLNDRPIGSRKVKL 89

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A Length = 282

 Score = 57.6 bits (138), Expect = 5e-09
 Identities = 26/123 (21%), Positives = 51/123 (41%), Gaps = 13/123 (10%)

Query: 550 IFVGGLPFFLDSD----SLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSA 605
           I++  L   +  D    SL   F + FG I D  V   ++ K    RG  FV FK   SA
Sbjct: 12  IYINNLNEKIKKDELKKSLYAIFSQ-FGQILDILV--SRSLK---MRGQAFVIFKEVSSA 65

Query: 606 AAAVQA--RFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQESKHEHQARLGAKIPDERT 663
             A+++   F     K + I+ A     + A+++    ++   + + + +       ++ 
Sbjct: 66  TNALRSMQGFP-FYDKPMRIQYAKTDSDIIAKMKGTFVERDRKREKRKPKSQETPATKKA 124

Query: 664 MEQ 666
           ++ 
Sbjct: 125 VQG 127

>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related protein, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 53.9 bits (130), Expect = 5e-09
 Identities = 23/78 (29%), Positives = 33/78 (42%), Gaps = 10/78 (12%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
              ++ GG+   L    +   F   FG I + RV     EK     G+ FV F   +SAA
Sbjct: 25  NCTVYCGGIASGLTDQLMRQTFSP-FGQIMEIRV---FPEK-----GYSFVRFSTHESAA 75

Query: 607 AAVQAR-FVTIMGKEVEI 623
            A+ +    TI G  V+ 
Sbjct: 76  HAIVSVNGTTIEGHVVKC 93

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis} Length = 124

 Score = 54.0 bits (130), Expect = 7e-09
 Identities = 22/114 (19%), Positives = 40/114 (35%), Gaps = 13/114 (11%)

Query: 526 EEQHRKMNPGM----CMIHASTQEFKS----KIFVGGLPFFLDSDSLGGYFEKHFGPIED 577
           +  H KM  G          S +E K      ++VG + +   +  L  +F    G I  
Sbjct: 7   QTTHSKMTAGAYTEGPPQPLSAEEKKEIDKRSVYVGNVDYGSTAQDLEAHFSS-CGSINR 65

Query: 578 ARVAEFQTEKQS-VSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKE 630
             +     +K S   +G+ ++ F    S  AAV        G+ +++       
Sbjct: 66  ITIL---CDKFSGHPKGYAYIEFAERNSVDAAVAMDETVFRGRTIKVLPKRTNM 116

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 124

 Score = 53.7 bits (129), Expect = 9e-09
 Identities = 18/83 (21%), Positives = 38/83 (45%), Gaps = 3/83 (3%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           +++ GLPF  ++  +  +F+K    +ED+            + G GFV F++E    AA+
Sbjct: 28  VYLKGLPFEAENKHVIDFFKK-LDIVEDSIY--IAYGPNGKATGEGFVEFRNEADYKAAL 84

Query: 610 QARFVTIMGKEVEIKSAVPKEVL 632
                 +  + +++     K +L
Sbjct: 85  CRHKQYMGNRFIQVHPITKKGML 107

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 85

 Score = 52.3 bits (126), Expect = 1e-08
 Identities = 17/79 (21%), Positives = 33/79 (41%), Gaps = 11/79 (13%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           + ++VGGL   +    L  +F + FG I    V           +   F+ F   ++A  
Sbjct: 13  TTLYVGGLGDTITETDLRNHFYQ-FGEIRTITV--------VQRQQCAFIQFATRQAAEV 63

Query: 608 AVQARF--VTIMGKEVEIK 624
           A +  F  + + G+ + +K
Sbjct: 64  AAEKSFNKLIVNGRRLNVK 82

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens} Length = 99

 Score = 52.7 bits (127), Expect = 1e-08
 Identities = 18/70 (25%), Positives = 33/70 (47%), Gaps = 7/70 (10%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQ-----TEKQS-VSRGFGFVTFKH 601
           + IFV GL   +  +S+  YF++  G I+  +          T++++   +G   V+F  
Sbjct: 14  NTIFVQGLGENVTIESVADYFKQ-IGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDD 72

Query: 602 EKSAAAAVQA 611
             SA AA+  
Sbjct: 73  PPSAKAAIDW 82

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 51.3 bits (123), Expect = 3e-08
 Identities = 18/82 (21%), Positives = 33/82 (40%), Gaps = 3/82 (3%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           + + GLPF    + +  +F      + +        + Q  S G  FV F  ++ A  A+
Sbjct: 18  VRLRGLPFGCSKEEIVQFFSG-LEIVPNGMT--LPVDFQGRSTGEAFVQFASQEIAEKAL 74

Query: 610 QARFVTIMGKEVEIKSAVPKEV 631
           +     I  + +EI  +   EV
Sbjct: 75  KKHKERIGHRYIEIFKSSRAEV 96

>1wf1_A RNA-binding protein RALY; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wf2_A Length = 110

 Score = 51.2 bits (123), Expect = 4e-08
 Identities = 19/67 (28%), Positives = 30/67 (44%), Gaps = 12/67 (17%)

Query: 547 KSKIFVGGLPFFLDSDS-LGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSA 605
            S++F+G L   L   S +   F K +G +             SV +G+ FV + +E+ A
Sbjct: 27  NSRVFIGNLNTALVKKSDVETIFSK-YGRVAGC----------SVHKGYAFVQYSNERHA 75

Query: 606 AAAVQAR 612
            AAV   
Sbjct: 76  RAAVLGE 82

>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif, RRM, transcription termination, NUC phosphoprotein; NMR {Saccharomyces cerevisiae} Length = 96

 Score = 50.7 bits (122), Expect = 4e-08
 Identities = 16/67 (23%), Positives = 29/67 (43%), Gaps = 12/67 (17%)

Query: 547 KSKIFVGGLPFF-LDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSA 605
           KS++F+G LP   +  + L   F   +G I             ++   FGF+ F + +S 
Sbjct: 10  KSRLFIGNLPLKNVSKEDLFRIFSP-YGHIMQI----------NIKNAFGFIQFDNPQSV 58

Query: 606 AAAVQAR 612
             A++  
Sbjct: 59  RDAIECE 65

>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 111

 Score = 50.6 bits (121), Expect = 9e-08
 Identities = 18/69 (26%), Positives = 27/69 (39%), Gaps = 5/69 (7%)

Query: 547 KSKIFVGGLPFFLDSDSL---GGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTFKHE 602
           K+ +FV GL   L    +     YF K FG I    +    +   S       +VT+   
Sbjct: 15  KNLVFVVGLSQRLADPEVLKRPEYFGK-FGKIHKVVINNSTSYAGSQGPSASAYVTYIRS 73

Query: 603 KSAAAAVQA 611
           + A  A+Q 
Sbjct: 74  EDALRAIQC 82

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 97

 Score = 50.0 bits (120), Expect = 9e-08
 Identities = 18/85 (21%), Positives = 31/85 (36%), Gaps = 12/85 (14%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
            + ++V G         L G F   FG I D  +           R   FVT++  +SA 
Sbjct: 15  GNTLYVYGEDM--TPTLLRGAFSP-FGNIIDLSMD--------PPRNCAFVTYEKMESAD 63

Query: 607 AAVQAR-FVTIMGKEVEIKSAVPKE 630
            AV       +   ++++  A  + 
Sbjct: 64  QAVAELNGTQVESVQLKVNIARKQP 88

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 113

 Score = 50.1 bits (120), Expect = 1e-07
 Identities = 20/91 (21%), Positives = 41/91 (45%), Gaps = 10/91 (10%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQ-----TEKQS-VSRGFGFVTFKH 601
           S I+V GL   +  D L  +F++  G ++  +           +K++   +G   V+++ 
Sbjct: 16  SAIYVQGLNDSVTLDDLADFFKQ-CGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYED 74

Query: 602 EKSAAAAVQARF--VTIMGKEVEIKSAVPKE 630
             +A AAV+  F      G ++++  A  K 
Sbjct: 75  PPTAKAAVEW-FDGKDFQGSKLKVSLARKKP 104

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 49.6 bits (119), Expect = 1e-07
 Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 6/83 (7%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            ++VG L   +    +   F +  GP +  ++    TE  S +  + FV F   + AAAA
Sbjct: 17  TLYVGNLSRDVTEVLILQLFSQ-IGPCKSCKMI---TEHTS-NDPYCFVEFYEHRDAAAA 71

Query: 609 VQA-RFVTIMGKEVEIKSAVPKE 630
           + A     I+GKEV++  A    
Sbjct: 72  LAAMNGRKILGKEVKVNWATTPS 94

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 109

 Score = 49.4 bits (118), Expect = 2e-07
 Identities = 16/102 (15%), Positives = 35/102 (34%), Gaps = 5/102 (4%)

Query: 533 NPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSR 592
           + G              + V G+PF    + +       F  +    V     +    + 
Sbjct: 2   SSGSSGKPLPINPDDLYVSVHGMPFSAMENDV----RDFFHGLRVDAV-HLLKDHVGRNN 56

Query: 593 GFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKEVLFA 634
           G G V F   +    A++   + ++ + VE+  A  ++ + A
Sbjct: 57  GNGLVKFLSPQDTFEALKRNRMLMIQRYVEVSPATERQWVAA 98

>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ... Length = 97

 Score = 48.8 bits (117), Expect = 3e-07
 Identities = 26/97 (26%), Positives = 41/97 (42%), Gaps = 13/97 (13%)

Query: 547 KSKIFVGGLPFFLDSD----SLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHE 602
              I++  L   +  D    SL   F + FG I D  V   ++ K    RG  FV FK  
Sbjct: 8   NHTIYINNLNEKIKKDELKKSLHAIFSR-FGQILDILV--SRSLK---MRGQAFVIFKEV 61

Query: 603 KSAAAAVQA--RFVTIMGKEVEIKSAVPKEVLFAELQ 637
            SA  A+++   F     K + I+ A     + A+++
Sbjct: 62  SSATNALRSMQGFP-FYDKPMRIQYAKTDSDIIAKMK 97

>3rco_A Tudor domain-containing protein 7; structural genomics, structural genomics consortium, SGC, HL DNA binding protein; 1.80A {Homo sapiens} Length = 89

 Score = 47.9 bits (114), Expect = 4e-07
 Identities = 10/45 (22%), Positives = 24/45 (53%)

Query: 758 LSSLKTDFKAVCGLELDHASLGYSKLSDFLRTLPDLCHVKAGPIG 802
           L  L+ +++++ G  +    LG+  L  +LR++P +  ++    G
Sbjct: 31  LPRLQGEYRSLTGDWIPFKQLGFPTLEAYLRSVPAVVRIETSRSG 75

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A Length = 126

 Score = 49.1 bits (117), Expect = 4e-07
 Identities = 15/83 (18%), Positives = 32/83 (38%), Gaps = 3/83 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            + + GLPF    + +  +F      + +        + +    G  FV F  ++ A  A
Sbjct: 44  FVRLRGLPFGCTKEEIVQFFSG-LEIVPNGIT--LPVDPEGKITGEAFVQFASQELAEKA 100

Query: 609 VQARFVTIMGKEVEIKSAVPKEV 631
           +      I  + +E+  +  +EV
Sbjct: 101 LGKHKERIGHRYIEVFKSSQEEV 123

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 123

 Score = 48.7 bits (116), Expect = 4e-07
 Identities = 21/97 (21%), Positives = 37/97 (38%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           + + GLPF   ++ +  +F +H           F T       G  FV F  E+ A  A+
Sbjct: 26  VRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNAL 85

Query: 610 QARFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQES 646
           +     +  + +E+  +   EV     +  SA    S
Sbjct: 86  RKHKDLLGKRYIELFRSTAAEVQQVLNRFSSASGPSS 122

>3jue_A Arfgap with coiled-coil, ANK repeat and PH domain containing protein 1; arfgap domain, zinc-binding module, GTPase activ metal-binding, nitration; 2.30A {Homo sapiens} Length = 368

 Score = 52.1 bits (124), Expect = 5e-07
 Identities = 24/132 (18%), Positives = 45/132 (34%), Gaps = 11/132 (8%)

Query: 314 DINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAA 373
           D+N  +   D  + L  A   +               LL++GA V+Q +  G   LH A 
Sbjct: 225 DVNWVNGGQDNATPLIQATAAN--------SLLACEFLLQNGANVNQADSAGRGPLHHAT 276

Query: 374 GSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRE 433
             G++      +++  D +  +      PL  A++  +     +L    A        + 
Sbjct: 277 ILGHTGLACLFLKRGAD-LGARDSEGRDPLTIAMETANADIVTLLRL--AKMREAEAAQG 333

Query: 434 RPIDFAKSQDMR 445
           +  D       R
Sbjct: 334 QAGDETYLDIFR 345

>3jue_A Arfgap with coiled-coil, ANK repeat and PH domain containing protein 1; arfgap domain, zinc-binding module, GTPase activ metal-binding, nitration; 2.30A {Homo sapiens} Length = 368

 Score = 48.6 bits (115), Expect = 6e-06
 Identities = 23/92 (25%), Positives = 36/92 (39%), Gaps = 3/92 (3%)

Query: 351 LLKHGAIVSQQN--KLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVK 408
            L HGA V+  N  +   T L  A  + +  A E L++   + +N        PL  A  
Sbjct: 219 ALAHGADVNWVNGGQDNATPLIQATAANSLLACEFLLQNGAN-VNQADSAGRGPLHHATI 277

Query: 409 NDHMVCAEVLLRWGANSEVLNLRRERPIDFAK 440
             H   A + L+ GA+    +     P+  A 
Sbjct: 278 LGHTGLACLFLKRGADLGARDSEGRDPLTIAM 309

>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription termination, RNA processi recognition, RRM; HET: CAF; 1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A Length = 97

 Score = 47.7 bits (114), Expect = 5e-07
 Identities = 16/67 (23%), Positives = 28/67 (41%), Gaps = 12/67 (17%)

Query: 547 KSKIFVGGLPFF-LDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSA 605
           KS++F+G LP   +  + L   F   +G I    +             FGF+ F + +S 
Sbjct: 22  KSRLFIGNLPLKNVSKEDLFRIFSP-YGHIMQINIK----------NAFGFIQFDNPQSV 70

Query: 606 AAAVQAR 612
             A++  
Sbjct: 71  RDAIEXE 77

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A Length = 139

 Score = 49.1 bits (117), Expect = 6e-07
 Identities = 21/116 (18%), Positives = 37/116 (31%), Gaps = 7/116 (6%)

Query: 516 RGSKCFYALGEEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPI 575
           RGS      G +Q  + +        ST      + + GLP+    + +       F P+
Sbjct: 17  RGSHMASMTGGQQMGRGSGDSEFTVQSTTGHC--VHMRGLPYKATENDI----YNFFSPL 70

Query: 576 EDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKEV 631
              RV   +        G   V F   + A AA+      +  + +E+        
Sbjct: 71  NPVRV-HIEIGPDGRVTGEADVEFATHEEAVAAMSKDRANMQHRYIELFLNSTTGA 125

>2hzc_A Splicing factor U2AF 65 kDa subunit; RNA splicing, RRM, RNA recognition, alternative conformation binding protein; HET: P6G; 1.47A {Homo sapiens} PDB: 1u2f_A Length = 87

 Score = 47.0 bits (112), Expect = 7e-07
 Identities = 11/78 (14%), Positives = 32/78 (41%), Gaps = 2/78 (2%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVA--EFQTEKQSVSRGFGFVTFKHEKSAA 606
           +++VG +PF +  +++  +F          +         + +  + F F+ F+      
Sbjct: 8   RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETT 67

Query: 607 AAVQARFVTIMGKEVEIK 624
            A+    +   G+ ++I+
Sbjct: 68  QAMAFDGIIFQGQSLKIR 85

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 99

 Score = 47.3 bits (113), Expect = 9e-07
 Identities = 9/72 (12%), Positives = 28/72 (38%), Gaps = 4/72 (5%)

Query: 541 ASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQS-VSRGFGFVTF 599
           + +    + +++G L  ++D + +   F      +   ++      + + +  G+ FV F
Sbjct: 3   SGSSGMAASLWMGDLEPYMDENFISRAFATMGETVMSVKII---RNRLTGIPAGYCFVEF 59

Query: 600 KHEKSAAAAVQA 611
               +A   +  
Sbjct: 60  ADLATAEKCLHK 71

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A Length = 193

 Score = 49.1 bits (116), Expect = 1e-06
 Identities = 19/148 (12%), Positives = 41/148 (27%), Gaps = 16/148 (10%)

Query: 479 TCEALLSMVDDNSNTERICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMCM 538
               L  +  D +      S +K E+ +  E  +               +          
Sbjct: 53  KFNRLNRLTTDFNVIVEALSKSKAELMEISEDKTKI------------RRSPSKPLPEVT 100

Query: 539 IHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVT 598
                      +++ G P     D +  + E   G + + ++     +     +G  FV 
Sbjct: 101 DEYKNDVKNRSVYIKGFPTDATLDDIKEWLED-KGQVLNIQMRRTLHKA---FKGSIFVV 156

Query: 599 FKHEKSAAAAVQARFVTIMGKEVEIKSA 626
           F   +SA   V+         ++ I   
Sbjct: 157 FDSIESAKKFVETPGQKYKETDLLILFK 184

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 118

 Score = 47.2 bits (112), Expect = 1e-06
 Identities = 11/82 (13%), Positives = 30/82 (36%), Gaps = 1/82 (1%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           + + GLP+    + +  +        +      F   ++    G  FV  + E     A+
Sbjct: 20  VKLRGLPWSCSIEDVQNFLSD-CTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLAL 78

Query: 610 QARFVTIMGKEVEIKSAVPKEV 631
           +    ++  + +E+  +   E+
Sbjct: 79  KKDRESMGHRYIEVFKSHRTEM 100

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens} Length = 107

 Score = 46.8 bits (111), Expect = 2e-06
 Identities = 13/82 (15%), Positives = 29/82 (35%), Gaps = 1/82 (1%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           I   GLP+    + +  +F              F   +    RG   +  + E+    A+
Sbjct: 14  IRAQGLPWSCTMEDVLNFFSD-CRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKAL 72

Query: 610 QARFVTIMGKEVEIKSAVPKEV 631
           +   + +  + VE+     ++V
Sbjct: 73  EKHRMYMGQRYVEVYEINNEDV 94

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 46.6 bits (111), Expect = 2e-06
 Identities = 15/82 (18%), Positives = 27/82 (32%), Gaps = 5/82 (6%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           + + GLP+    + +       F P+   RV   +        G   V F   + A AA+
Sbjct: 18  VHMRGLPYRATENDI----YNFFSPLNPMRV-HIEIGPDGRVTGEADVEFATHEDAVAAM 72

Query: 610 QARFVTIMGKEVEIKSAVPKEV 631
                 +  + VE+        
Sbjct: 73  AKDKANMQHRYVELFLNSTAGT 94

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 91

 Score = 46.1 bits (110), Expect = 2e-06
 Identities = 12/82 (14%), Positives = 30/82 (36%), Gaps = 5/82 (6%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            + + G PF +   ++     +   P++   +            G+ FV F +E+    A
Sbjct: 12  TVKLRGAPFNVTEKNV----MEFLAPLKPVAI-RIVRNAHGNKTGYIFVDFSNEEEVKQA 66

Query: 609 VQARFVTIMGKEVEIKSAVPKE 630
           ++     + G+ +E+       
Sbjct: 67  LKCNREYMGGRYIEVFREKSGP 88

>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 96

 Score = 45.9 bits (109), Expect = 2e-06
 Identities = 10/65 (15%), Positives = 20/65 (30%), Gaps = 6/65 (9%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
             K+ +  +P  L  + L     + +G +E                    VT+  +  A 
Sbjct: 15  IRKLQIRNIPPHLQWEVLDSLLVQ-YGVVESCEQV-----NTDSETAVVNVTYSSKDQAR 68

Query: 607 AAVQA 611
            A+  
Sbjct: 69  QALDK 73

>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens} Length = 143

 Score = 46.7 bits (111), Expect = 3e-06
 Identities = 17/95 (17%), Positives = 38/95 (40%), Gaps = 7/95 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDAR---VAEFQTEKQSVSRGFGFVTFKHEKS 604
            +I+V  L   +    L   F + +          + + +  K+   +G  F+   +EK+
Sbjct: 46  CRIYVKNLAKHVQEKDLKYIFGR-YVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKA 104

Query: 605 AAAAVQA--RFVTIMGKEVEIKSAVPKEVLFAELQ 637
           AA A++    +V + GK + ++ A          +
Sbjct: 105 AAKALKEANGYV-LFGKPMVVQFARSARPKQDPKE 138

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 50.2 bits (119), Expect = 4e-06
 Identities = 101/724 (13%), Positives = 193/724 (26%), Gaps = 241/724 (33%)

Query: 143 MDVIWNPDEYSVEDLVVILGQ---KNL-------TTVKLLSQKTKELDEVAYANAVGGRI 192
           MD      +Y  +D++ +       N            +LS   +E+D +         +
Sbjct: 7   MDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILS--KEEIDHII---MSKDAV 61

Query: 193 VALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKL---QRAVKR 249
                L      K  E +    +  L       +   +  E       T++   QR    
Sbjct: 62  SGTLRLFWTLLSKQEEMVQKFVEEVL-RINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLY 120

Query: 250 NSTPTTSQSAEKRKLLLLEIE--LLQL-------------FG--AVANGSCTDKKV--GP 290
           N     ++    R    L++   LL+L              G   VA   C   KV    
Sbjct: 121 NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKM 180

Query: 291 P-----LILATQAGDEDVIEILLK-SKNIDIN-DADADADGNSALHCALKTSMGLSQHIL 343
                 L L      E V+E+L K    ID N  + +D   N  L            H +
Sbjct: 181 DFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI----------HSI 230

Query: 344 QNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPL 403
           Q  +  +L         ++K     L +         L ++  +     N          
Sbjct: 231 QAELRRLL---------KSKPYENCLLV---------LLNV--QNAKAWNA--------- 261

Query: 404 FFAVKNDHMVCAEVLL--RWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHTNLAFL 461
            F +      C ++LL  R     +V         DF         L AA T H +L   
Sbjct: 262 -FNLS-----C-KILLTTR---FKQV--------TDF---------LSAATTTHISL--- 291

Query: 462 NQEKQNASLESDEDISGTCEALLSMVDDNSNTERICSGTKIEVCKYYESHSGCIRGSKCF 521
             +  + +L  DE      ++LL                     KY +     +      
Sbjct: 292 --DHHSMTLTPDE-----VKSLLL--------------------KYLDCRPQDLP----- 319

Query: 522 YALGEEQHRKMNP-GMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARV 580
                 +    NP  + +I  S ++  +                   ++           
Sbjct: 320 -----REVLTTNPRRLSIIAESIRDGLATW---------------DNWKH---------- 349

Query: 581 AEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFV--TIMGKEVEIKSAV----------- 627
                +K +        +    + A    +  F   ++      I + +           
Sbjct: 350 --VNCDKLTTIIE---SSLNVLEPAE--YRKMFDRLSVFPPSAHIPTILLSLIWFDVIKS 402

Query: 628 -PKEVLFAELQKQSAQQQESK------HEHQARLGAKIPDERTMEQII--SRNAKEEIQT 678
               V+  +L K S  +++ K            L  K+ +E  + + I    N  +   +
Sbjct: 403 DVMVVV-NKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDS 461

Query: 679 KKITEEMPCRRVTEEATAEKSWAGRLLYGQPKTSSNESQAYLVESFEEKSMPKWLRTFKK 738
             +               ++ +   + +       +       E             F  
Sbjct: 462 DDLIPP----------YLDQYFYSHIGH-------HLKNIEHPERMTL--FRMVFLDF-- 500

Query: 739 WLPRFLKDVYRH---PLEGKYALSSLKTDFKA----VCGLELDHASLGYSKLSDFLRTLP 791
              RFL+   RH         ++ +     K     +C  +  +  L  + + DFL  + 
Sbjct: 501 ---RFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNA-ILDFLPKIE 556

Query: 792 DLCH 795
           +   
Sbjct: 557 ENLI 560

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 48.7 bits (115), Expect = 1e-05
 Identities = 100/690 (14%), Positives = 194/690 (28%), Gaps = 198/690 (28%)

Query: 32  KQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVE 91
           K +++V +  F+DN  D  D     V  + +   I                   ++   +
Sbjct: 19  KDILSVFEDAFVDN-FDCKD-----VQDMPKS--ILSKEEIDH-----------IIMSKD 59

Query: 92  ESSGMTALHLAAESHTARCVELLLKKRARTD-------IRSKDGRRLLPLELSLSSSRMD 144
             SG   L     S     V+  +++  R +       I+++  +  +   +     + D
Sbjct: 60  AVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMY--IEQRD 117

Query: 145 VIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVG----GRIVALAALLI 200
            ++N D        V   Q        L Q   EL         G    G+   +A    
Sbjct: 118 RLYN-DNQVFAKYNVSRLQP----YLKLRQALLELRPAKNVLIDGVLGSGKTW-VALD-- 169

Query: 201 VAADKVNESILVLHDSDLGAKEKTTIY-----ECVIREALALGRATKLQRAVKRNSTPTT 255
                      V     +  K    I+      C   E + L    KL   +  N T  +
Sbjct: 170 -----------VCLSYKVQCKMDFKIFWLNLKNCNSPETV-LEMLQKLLYQIDPNWTSRS 217

Query: 256 SQSAE---------------------KRKLLLL----EIELLQLFGAVANGSCT------ 284
             S+                      +  LL+L      +    F    N SC       
Sbjct: 218 DHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAF----NLSCKILLTTR 273

Query: 285 DKKVGPPLILATQA-----------GDEDVIEILLKSKNIDINDADADADGNSALHCALK 333
            K+V   L  AT               ++V  +LLK  +    D   +    +    ++ 
Sbjct: 274 FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSI- 332

Query: 334 TSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCIN 393
                         +   ++ G       K      H+     N   L  +I      +N
Sbjct: 333 --------------IAESIRDGLATWDNWK------HV-----NCDKLTTIIES---SLN 364

Query: 394 -LKTIMMETPLF--FAVKNDHM-VCAEVLLR-WGANSEVLNLRRERPIDFAKSQDMRFLL 448
            L+       +F   +V      +   +L   W    +                D+  ++
Sbjct: 365 VLEPAEYR-KMFDRLSVFPPSAHIPTILLSLIWFDVIK---------------SDVMVVV 408

Query: 449 KAANTCHT-NLAFLNQEKQNASLES-DEDISGTCEALLSM----VDDNSNTERICSGTKI 502
              N  H  +L     ++   S+ S   ++    E   ++    VD  +  +   S   I
Sbjct: 409 ---NKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLI 465

Query: 503 EVC--KYYESHSGCIRGSKCFYALGEEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLD 560
                +Y+ SH G        + L   +H +      M+    +  + KI      +   
Sbjct: 466 PPYLDQYFYSHIG--------HHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNAS 517

Query: 561 SDSLG-----GYFEKHF---GPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQAR 612
              L       +++ +     P  +  V               F+  K E++    + ++
Sbjct: 518 GSILNTLQQLKFYKPYICDNDPKYERLVNAILD----------FL-PKIEEN---LICSK 563

Query: 613 FVTIMGKEVEIKSAVPKEVLFAELQKQSAQ 642
           +  +    + I      E +F E  KQ  +
Sbjct: 564 YTDL----LRIALMAEDEAIFEEAHKQVQR 589

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A Length = 136

 Score = 45.8 bits (108), Expect = 7e-06
 Identities = 12/83 (14%), Positives = 30/83 (36%), Gaps = 1/83 (1%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            + + GLP+    + +  +        + A    F   ++    G  FV    E     A
Sbjct: 46  VVKLRGLPWSCSVEDVQNFLSD-CTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMA 104

Query: 609 VQARFVTIMGKEVEIKSAVPKEV 631
           ++    ++  + +E+  +   E+
Sbjct: 105 LKKDRESMGHRYIEVFKSHRTEM 127

>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic initiation factor 3 complex, RNA recognition motif; NMR {Homo sapiens} Length = 105

 Score = 44.7 bits (106), Expect = 7e-06
 Identities = 16/75 (21%), Positives = 27/75 (36%), Gaps = 11/75 (14%)

Query: 543 TQEFKSKIFVGGLPFFLDS------DSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGF 596
                S I V  +P           + +   F K FG I +    E +  K   ++G+ F
Sbjct: 11  ADGIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSK-FGKITNDFYPE-EDGK---TKGYIF 65

Query: 597 VTFKHEKSAAAAVQA 611
           + +     A  AV+ 
Sbjct: 66  LEYASPAHAVDAVKN 80

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens} Length = 127

 Score = 45.3 bits (107), Expect = 8e-06
 Identities = 16/106 (15%), Positives = 34/106 (32%), Gaps = 13/106 (12%)

Query: 548 SKIFVGGLPFFLDSD----SLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEK 603
             + +  +   +  +     L        G I D  V     +    + G  ++ F  ++
Sbjct: 30  QVVLITNINPEVPKEKLQALLYALASS-QGDILDIVV-----DLSDDNSGKAYIVFATQE 83

Query: 604 SAAAAVQA-RFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQESKH 648
           SA A V+A +     G  + I  +   +      +  S +     H
Sbjct: 84  SAQAFVEAFQGYPFQGNPLVITFSETPQ--SQVAEDGSLEHHHHHH 127

>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Length = 108

 Score = 44.0 bits (104), Expect = 1e-05
 Identities = 14/62 (22%), Positives = 22/62 (35%), Gaps = 10/62 (16%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           ++ V GLP       L  +  +  G +  A V            G G V F  ++    A
Sbjct: 17  RVVVSGLPPSGSWQDLKDHMRE-AGDVCYADV---------YRDGTGVVEFVRKEDMTYA 66

Query: 609 VQ 610
           V+
Sbjct: 67  VR 68

>3s93_A Tudor domain-containing protein 5; structural genomics consortium, SGC, transcription; 2.28A {Homo sapiens} Length = 102

 Score = 43.7 bits (103), Expect = 2e-05
 Identities = 11/46 (23%), Positives = 19/46 (41%)

Query: 758 LSSLKTDFKAVCGLELDHASLGYSKLSDFLRTLPDLCHVKAGPIGK 803
              L+ ++  + G  L    LGY    + +  +PD+  V  G  G 
Sbjct: 29  PQELEKEYLLMVGNHLPLRILGYRSTMELVLDMPDVVRVCPGAGGT 74

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A Length = 229

 Score = 46.1 bits (109), Expect = 2e-05
 Identities = 22/140 (15%), Positives = 41/140 (29%), Gaps = 11/140 (7%)

Query: 517 GSKCFYALGEEQHRKMNPGMCMIHASTQEFKSKIFVGGL-PFFLDSDSLGGYFEKHFGPI 575
                +       R  + G   I        S + V  L P  +   SL   F   +G +
Sbjct: 4   SHHHHHHSSGLVPRGSHMGRIAIPGLAGAGNSVLLVSNLNPERVTPQSLFILFGV-YGDV 62

Query: 576 EDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSAVPKEV-LF 633
           +  ++           +    V       A  A+       + GK + I  +  + V L 
Sbjct: 63  QRVKILF-------NKKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQNVQLP 115

Query: 634 AELQKQSAQQQESKHEHQAR 653
            E Q+     ++  +    R
Sbjct: 116 REGQEDQGLTKDYGNSPLHR 135

>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 43.8 bits (103), Expect = 2e-05
 Identities = 9/62 (14%), Positives = 22/62 (35%), Gaps = 9/62 (14%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           +  GGL   +  + L    EK  G ++   +          ++ + F  ++  + +  A 
Sbjct: 30  VANGGLGNGVSRNQLLPVLEK-CGLVDALLMPP--------NKPYSFARYRTTEESKRAY 80

Query: 610 QA 611
             
Sbjct: 81  VT 82

>1whx_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Length = 111

 Score = 43.3 bits (102), Expect = 3e-05
 Identities = 19/107 (17%), Positives = 37/107 (34%), Gaps = 11/107 (10%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
           K+ I    LP    +  +   F + FG +    + E              V F     A 
Sbjct: 10  KTVILAKNLPAGTLAAEIQETFSR-FGSLGRVLLPE--------GGITAIVEFLEPLEAR 60

Query: 607 AAVQA-RFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQESKHEHQA 652
            A +   +       + ++ A P  V  A  QK+ +Q ++   + ++
Sbjct: 61  KAFRHLAYSKFHHVPLYLEWA-PIGVFGAAPQKKDSQHEQPAEKAES 106

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1 Length = 104

 Score = 42.5 bits (100), Expect = 5e-05
 Identities = 19/95 (20%), Positives = 30/95 (31%), Gaps = 12/95 (12%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           + V GL   +    L    EK FG I    +           +    V F++  SA   V
Sbjct: 18  VHVRGLCESVVEADLVEALEK-FGTICYVMMMP--------FKRQALVEFENIDSAKECV 68

Query: 610 QA---RFVTIMGKEVEIKSAVPKEVLFAELQKQSA 641
                  V I G++     +  K +        S+
Sbjct: 69  TFAADVPVYIAGQQAFFNYSTSKRITRPGNSGPSS 103

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A Length = 88

 Score = 42.0 bits (99), Expect = 5e-05
 Identities = 15/88 (17%), Positives = 32/88 (36%), Gaps = 11/88 (12%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
            S I V  LP   +   +    + +   ++   V          ++   FVT  + + A 
Sbjct: 5   SSGILVKNLPQDSNCQEVHDLLKDYD--LKYCYVD--------RNKRTAFVTLLNGEQAQ 54

Query: 607 AAVQAR-FVTIMGKEVEIKSAVPKEVLF 633
            A+Q     +  GK++ ++      +L 
Sbjct: 55  NAIQMFHQYSFRGKDLIVQLQPTDALLC 82

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens} Length = 100

 Score = 42.4 bits (100), Expect = 5e-05
 Identities = 15/77 (19%), Positives = 24/77 (31%), Gaps = 12/77 (15%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           + + GL   +    L    ++ FGPI    V           +    V F+    A  AV
Sbjct: 24  VHIRGLIDGVVEADLVEALQE-FGPISYVVVMP--------KKRQALVEFEDVLGACNAV 74

Query: 610 QA---RFVTIMGKEVEI 623
                  + I G    +
Sbjct: 75  NYAADNQIYIAGHPAFV 91

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 105

 Score = 42.5 bits (100), Expect = 5e-05
 Identities = 15/103 (14%), Positives = 32/103 (31%), Gaps = 12/103 (11%)

Query: 532 MNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVS 591
           M       H  +      I +  LP  +    +       FG + +  +           
Sbjct: 1   MRGSHHHHHHGSGVPSRVIHIRKLPIDVTEGEVISLGLP-FGKVTNLLM--------LKG 51

Query: 592 RGFGFVTFKHEKSAAAAVQA---RFVTIMGKEVEIKSAVPKEV 631
           +   F+    E++A   V         + G+ + I+ +  KE+
Sbjct: 52  KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHKEL 94

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A Length = 100

 Score = 41.6 bits (98), Expect = 7e-05
 Identities = 13/72 (18%), Positives = 24/72 (33%), Gaps = 9/72 (12%)

Query: 546 FKSKIFVGGLP------FFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTF 599
               I V G P        +   +L   F K  G + +      +   ++  +GF FV  
Sbjct: 5   SDQYIVVNGAPVIPSAKVPVLKKALTSLFSK-AGKVVNMEFPIDEATGKT--KGFLFVEC 61

Query: 600 KHEKSAAAAVQA 611
                A   +++
Sbjct: 62  GSMNDAKKIIKS 73

>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 119

 Score = 42.2 bits (99), Expect = 8e-05
 Identities = 13/85 (15%), Positives = 29/85 (34%), Gaps = 12/85 (14%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           I +  LP  +    +       FG + +  +           +   F+    E++A   V
Sbjct: 34  IHIRKLPIDVTEGEVISLGLP-FGKVTNLLML--------KGKNQAFIEMNTEEAANTMV 84

Query: 610 QA---RFVTIMGKEVEIKSAVPKEV 631
                    + G+ + I+ +  KE+
Sbjct: 85  NYYTSVTPVLRGQPIYIQFSNHKEL 109

>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A* Length = 437

 Score = 45.2 bits (106), Expect = 1e-04
 Identities = 20/84 (23%), Positives = 37/84 (44%), Gaps = 6/84 (7%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAE-FQTEKQSVSRGFGFVTFKHEKSAAAA 608
           +FV  + +      L   FE  +GPI+   +    ++ K    RG+ F+ ++HE+   +A
Sbjct: 105 LFVARVNYDTTESKLRREFEV-YGPIKRIHMVYSKRSGK---PRGYAFIEYEHERDMHSA 160

Query: 609 V-QARFVTIMGKEVEIKSAVPKEV 631
              A    I G+ V +     + V
Sbjct: 161 YKHADGKKIDGRRVLVDVERGRTV 184

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Length = 198

 Score = 43.3 bits (102), Expect = 1e-04
 Identities = 18/107 (16%), Positives = 35/107 (32%), Gaps = 11/107 (10%)

Query: 550 IFVGGL-PFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           + V  L P  +   SL   F   +G ++  ++           +    V       A  A
Sbjct: 6   LLVSNLNPERVTPQSLFILFGV-YGDVQRVKI-------LFNKKENALVQMADGNQAQLA 57

Query: 609 VQA-RFVTIMGKEVEIKSAVPKEV-LFAELQKQSAQQQESKHEHQAR 653
           +       + GK + I  +  + V L  E Q+     ++  +    R
Sbjct: 58  MSHLNGHKLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHR 104

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Length = 198

 Score = 43.0 bits (101), Expect = 2e-04
 Identities = 8/87 (9%), Positives = 23/87 (26%), Gaps = 7/87 (8%)

Query: 525 GEEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQ 584
           G     +          +     + + +  +P  +  + L   F  + G ++  +     
Sbjct: 98  GNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKF---- 153

Query: 585 TEKQSVSRGFGFVTFKHEKSAAAAVQA 611
                  R    +     + A  A+  
Sbjct: 154 ---FQKDRKMALIQMGSVEEAVQALID 177

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A Length = 205

 Score = 42.8 bits (100), Expect = 2e-04
 Identities = 10/96 (10%), Positives = 28/96 (29%), Gaps = 3/96 (3%)

Query: 516 RGSKCFYALGEEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPI 575
            GS  +    E ++ + +          Q   + +     P  +  ++     ++  G  
Sbjct: 92  DGSCSYKDFSESRNNRFSTPEQAAKNRIQHPSNVLHFFNAPLEVTEENFFEICDE-LGVK 150

Query: 576 EDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA 611
               V  F  + +      G + +  +  A   +  
Sbjct: 151 RPTSVKVFSGKSER--SSSGLLEWDSKSDALETLGF 184

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 97

 Score = 40.6 bits (95), Expect = 2e-04
 Identities = 13/83 (15%), Positives = 26/83 (31%), Gaps = 9/83 (10%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            ++VG LP       L     +  G +   R+           R   F+ +    +A  A
Sbjct: 21  DVYVGNLPRDARVSDLKRALREL-GSV-PLRL------TWQGPRRRAFLHYPDSAAAQQA 72

Query: 609 VQARF-VTIMGKEVEIKSAVPKE 630
           V     + +    + +  A  + 
Sbjct: 73  VSCLQGLRLGTDTLRVALARQQR 95

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A Length = 111

 Score = 40.6 bits (95), Expect = 3e-04
 Identities = 10/62 (16%), Positives = 19/62 (30%), Gaps = 6/62 (9%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           +I +  LP       L     ++      + V            G G + F  E+    A
Sbjct: 30  RITMKNLPEGCSWQDLKDLARENSLETTFSSVNTRD------FDGTGALEFPSEEILVEA 83

Query: 609 VQ 610
           ++
Sbjct: 84  LE 85

>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 101

 Score = 39.8 bits (93), Expect = 3e-04
 Identities = 11/85 (12%), Positives = 28/85 (32%), Gaps = 12/85 (14%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           + +  LP  +    +       FG + +  +           +   F+    E++A   V
Sbjct: 18  LHIRKLPGEVTETEVIALGLP-FGKVTNILML--------KGKNQAFLELATEEAAITMV 68

Query: 610 QA---RFVTIMGKEVEIKSAVPKEV 631
                    +  + + I+ +  KE+
Sbjct: 69  NYYSAVTPHLRNQPIYIQYSNHKEL 93

>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A Length = 115

 Score = 40.2 bits (94), Expect = 4e-04
 Identities = 17/84 (20%), Positives = 26/84 (30%), Gaps = 13/84 (15%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           ++ V GLP       L  +  +  G +  A V            G G V F  ++    A
Sbjct: 18  RVVVSGLPPSGSWQDLKDHMRE-AGDVCYADV---------YRDGTGVVEFVRKEDMTYA 67

Query: 609 VQARF--VTIMGKEVEIKSAVPKE 630
           V+ +         E E      K 
Sbjct: 68  VR-KLDNTKFRSHEGETAYIRVKV 90

>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3, eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo sapiens} Length = 81

 Score = 38.9 bits (91), Expect = 5e-04
 Identities = 16/70 (22%), Positives = 27/70 (38%), Gaps = 11/70 (15%)

Query: 548 SKIFVGGLPFFLDS------DSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKH 601
           S I V  +P           + +   F K FG I +    E +  K   ++G+ F+ +  
Sbjct: 2   SVIVVDNVPQVGPDRLEKLKNVIHKIFSK-FGKITNDFYPE-EDGK---TKGYIFLEYAS 56

Query: 602 EKSAAAAVQA 611
              A  AV+ 
Sbjct: 57  PAHAVDAVKN 66

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	Length	Definition	E-value
Query	1044
d1n11a_	408	d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [Ta	8e-19
d1n11a_	408	d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [Ta	3e-17
d1n11a_	408	d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [Ta	7e-16
d1n11a_	408	d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [Ta	8e-12
d1n11a_	408	d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [Ta	1e-10
d1n11a_	408	d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [Ta	2e-09
d1wdya_	285	d.211.1.1 (A:) RNase L, 2-5a-dependent ribonucleas	8e-19
d1wdya_	285	d.211.1.1 (A:) RNase L, 2-5a-dependent ribonucleas	2e-11
d1wdya_	285	d.211.1.1 (A:) RNase L, 2-5a-dependent ribonucleas	3e-06
d1wdya_	285	d.211.1.1 (A:) RNase L, 2-5a-dependent ribonucleas	8e-05
d1wdya_	285	d.211.1.1 (A:) RNase L, 2-5a-dependent ribonucleas	0.003
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	4e-14
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	7e-13
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	7e-13
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	8e-13
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	2e-12
d1l3ka1	84	d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RN	2e-12
d1sw6a_	301	d.211.1.1 (A:) Swi6 ankyrin-repeat fragment {Baker	3e-12
d1sw6a_	301	d.211.1.1 (A:) Swi6 ankyrin-repeat fragment {Baker	5e-09
d1sw6a_	301	d.211.1.1 (A:) Swi6 ankyrin-repeat fragment {Baker	2e-08
d1sw6a_	301	d.211.1.1 (A:) Swi6 ankyrin-repeat fragment {Baker	6e-04
d2ajaa1	346	a.118.24.1 (A:3-348) Hypothetical protein LPG2416	1e-11
d2ajaa1	346	a.118.24.1 (A:3-348) Hypothetical protein LPG2416	2e-07
d2ajaa1	346	a.118.24.1 (A:3-348) Hypothetical protein LPG2416	3e-06
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	5e-11
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	5e-05
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	1e-10
d1u2fa_	90	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	1e-10
d2cqda1	103	d.58.7.1 (A:1-103) RNA-binding region containing p	1e-10
d1wf0a_	88	d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {	1e-10
d1uoha_	223	d.211.1.1 (A:) 26S proteasome non-ATPase regulator	3e-10
d1uoha_	223	d.211.1.1 (A:) 26S proteasome non-ATPase regulator	3e-08
d1uoha_	223	d.211.1.1 (A:) 26S proteasome non-ATPase regulator	5e-05
d2disa1	96	d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {	3e-10
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	6e-10
d1l3ka2	79	d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1	2e-09
d1oy3d_	255	d.211.1.1 (D:) Transcription factor inhibitor I-ka	2e-09
d1oy3d_	255	d.211.1.1 (D:) Transcription factor inhibitor I-ka	1e-07
d1oy3d_	255	d.211.1.1 (D:) Transcription factor inhibitor I-ka	2e-06
d1oy3d_	255	d.211.1.1 (D:) Transcription factor inhibitor I-ka	2e-06
d1oy3d_	255	d.211.1.1 (D:) Transcription factor inhibitor I-ka	8e-06
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	3e-09
d1wf2a_	98	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	4e-09
d1x5ta1	83	d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Hu	6e-09
d1s70b_	291	d.211.1.1 (B:) Myosin phosphatase targeting subuni	1e-08
d1s70b_	291	d.211.1.1 (B:) Myosin phosphatase targeting subuni	1e-06
d1s70b_	291	d.211.1.1 (B:) Myosin phosphatase targeting subuni	2e-05
d1s70b_	291	d.211.1.1 (B:) Myosin phosphatase targeting subuni	6e-04
d1s70b_	291	d.211.1.1 (B:) Myosin phosphatase targeting subuni	0.002
d1s70b_	291	d.211.1.1 (B:) Myosin phosphatase targeting subuni	0.002
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	2e-08
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	3e-08
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	3e-08
d2cq4a1	101	d.58.7.1 (A:132-232) RNA binding protein 23 {Human	5e-08
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	6e-08
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	1e-07
d2cqha1	80	d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 is	1e-07
d1x5ua1	93	d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Hu	1e-07
d2ghpa3	86	d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splici	2e-07
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	3e-07
d1x5sa1	90	d.58.7.1 (A:8-97) Cold-inducible RNA-binding prote	3e-07
d2fo1e1	277	d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis ele	5e-07
d2fo1e1	277	d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis ele	7e-07
d2fo1e1	277	d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis ele	2e-04
d2fo1e1	277	d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis ele	3e-04
d2fo1e1	277	d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis ele	0.002
d2cpda1	86	d.58.7.1 (A:223-308) APOBEC1 stimulating protein {	5e-07
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	7e-07
d1ixva_	229	d.211.1.1 (A:) 26S proteasome non-ATPase regulator	9e-07
d1ixva_	229	d.211.1.1 (A:) 26S proteasome non-ATPase regulator	1e-06
d1ixva_	229	d.211.1.1 (A:) 26S proteasome non-ATPase regulator	5e-05
d1ixva_	229	d.211.1.1 (A:) 26S proteasome non-ATPase regulator	3e-04
d1ixva_	229	d.211.1.1 (A:) 26S proteasome non-ATPase regulator	4e-04
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	1e-06
d2cqpa1	86	d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mous	1e-06
d1wwha1	81	d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus mu	1e-06
d1wi8a_	104	d.58.7.1 (A:) Eukaryotic translation initiation fa	1e-06
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	1e-06
d1dcqa1	154	d.211.1.1 (A:369-522) Pyk2-associated protein beta	2e-06
d1dcqa1	154	d.211.1.1 (A:369-522) Pyk2-associated protein beta	1e-04
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	3e-06
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	3e-06
d1fjeb1	91	d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesoc	3e-06
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	3e-06
d2cpya1	103	d.58.7.1 (A:536-638) RNA-binding protein 12 {Human	3e-06
d1fjca_	96	d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocrice	3e-06
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	4e-06
d2cq0a1	90	d.58.7.1 (A:231-320) Eukaryotic translation initia	4e-06
d2cpea1	101	d.58.7.1 (A:353-453) RNA-binding protein EWS {Huma	4e-06
d2cpza1	102	d.58.7.1 (A:383-484) CUG triplet repeat RNA-bindin	5e-06
d1zh5a2	85	d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo	6e-06
d1cvja2	89	d.58.7.1 (A:91-179) Poly(A)-binding protein {Human	7e-06
d1x4ha1	98	d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (	7e-06
d1awcb_	153	d.211.1.1 (B:) GA bindinig protein (GABP) beta 1 {	1e-05
d1wela1	112	d.58.7.1 (A:412-523) RNA-binding protein 12 {Human	1e-05
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	1e-05
d1k1aa_	228	d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId:	1e-05
d1k1aa_	228	d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId:	2e-04
d1k1aa_	228	d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId:	4e-04
d1k1aa_	228	d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId:	0.001
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	2e-05
d1ot8a_	209	d.211.1.1 (A:) Neurogenic locus notch receptor dom	2e-05
d1ot8a_	209	d.211.1.1 (A:) Neurogenic locus notch receptor dom	5e-05
d1ot8a_	209	d.211.1.1 (A:) Neurogenic locus notch receptor dom	5e-05
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	3e-05
d1bd8a_	156	d.211.1.1 (A:) Cell cycle inhibitor p19ink4D {Huma	4e-05
d1rk8a_	88	d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Dr	5e-05
d1x4ga1	96	d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo s	5e-05
d1p1ta_	104	d.58.7.1 (A:) Cleavage stimulation factor, 64 kda	5e-05
d2adba1	108	d.58.7.1 (A:177-284) Polypyrimidine tract-binding	6e-05
d2ghpa2	75	d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicin	1e-04
d1wg5a_	104	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	1e-04
d1x4aa1	95	d.58.7.1 (A:9-103) Splicing factor, arginine/serin	2e-04
d1m9oa_	40	g.66.1.1 (A:) Tristetraproline (ttp, tis11, nup475	2e-04
d1iknd_	221	d.211.1.1 (D:) I-kappa-B-alpha {Human (Homo sapien	2e-04
d1iknd_	221	d.211.1.1 (D:) I-kappa-B-alpha {Human (Homo sapien	2e-04
d1iknd_	221	d.211.1.1 (D:) I-kappa-B-alpha {Human (Homo sapien	5e-04
d1iknd_	221	d.211.1.1 (D:) I-kappa-B-alpha {Human (Homo sapien	0.003
d1ihba_	156	d.211.1.1 (A:) p18ink4C(ink6) {Human (Homo sapiens	2e-04
d1u6fa1	139	d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypa	4e-04
d1weza_	102	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	4e-04
d1owxa_	113	d.58.7.1 (A:) Lupus LA protein {Human (Homo sapien	5e-04
d2ghpa1	81	d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splici	7e-04
d2cpia1	89	d.58.7.1 (A:101-189) E3 ubiquitin protein ligase C	0.002
d1rgoa1	36	g.66.1.1 (A:151-186) Butyrate response factor 2 (T	0.002

>d1n11a_ d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [TaxId: 9606]} Length = 408

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Ankyrin-R
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 87.7 bits (216), Expect = 8e-19
 Identities = 68/389 (17%), Positives = 137/389 (35%), Gaps = 30/389 (7%)

Query: 61  LRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRAR 120
           L V+     +    +L+       A  N        T LH+AA +      + LL+ +A+
Sbjct: 4   LHVASFMGHLPIVKNLLQRG----ASPNVSNVK-VETPLHMAARAGHTEVAKYLLQNKAK 58

Query: 121 TDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELD 180
            + ++KD +   PL  +      +++    E +    +          +       + + 
Sbjct: 59  VNAKAKDDQT--PLHCAARIGHTNMVKLLLENNANPNLATTAGHTPLHIAAREGHVETVL 116

Query: 181 EVAYANA-VGGRIVALAALLIVAADKVNESI---LVLHDSDLGAKEKTTIYECVIREALA 236
            +    A            L VAA      +   L+  D+   A  K       +  A+ 
Sbjct: 117 ALLEKEASQACMTKKGFTPLHVAAKYGKVRVAELLLERDAHPNAAGKN--GLTPLHVAVH 174

Query: 237 LGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIE-----LLQLFGAVANGSCTDKKVGPP 291
                 ++  + R  +P +        L +   +        L     + +    +   P
Sbjct: 175 HNNLDIVKLLLPRGGSPHSPAWNGYTPLHIAAKQNQVEVARSLLQYGGSANAESVQGVTP 234

Query: 292 LILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGIL 351
           L LA Q G  +++ +     +   N    +  G + LH                 +  +L
Sbjct: 235 LHLAAQEGHAEMVAL---LLSKQANGNLGNKSGLTPLHLV--------AQEGHVPVADVL 283

Query: 352 LKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDH 411
           +KHG +V    ++G T LH+A+  GN + ++  + +    +N KT +  +PL  A +  H
Sbjct: 284 IKHGVMVDATTRMGYTPLHVASHYGNIKLVK-FLLQHQADVNAKTKLGYSPLHQAAQQGH 342

Query: 412 MVCAEVLLRWGANSEVLNLRRERPIDFAK 440
                +LL+ GA+   ++     P+  AK
Sbjct: 343 TDIVTLLLKNGASPNEVSSDGTTPLAIAK 371

>d1n11a_ d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [TaxId: 9606]} Length = 408

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Ankyrin-R
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 83.1 bits (204), Expect = 3e-17
 Identities = 45/293 (15%), Positives = 87/293 (29%), Gaps = 47/293 (16%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           PL +A+  G   +++ LL  +    N   ++    + LH A +             +   
Sbjct: 3   PLHVASFMGHLPIVKNLL-QRGASPN--VSNVKVETPLHMAARAG--------HTEVAKY 51

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPD-------------------- 390
           LL++ A V+ + K   T LH AA  G++  ++ L+    +                    
Sbjct: 52  LLQNKAKVNAKAKDDQTPLHCAARIGHTNMVKLLLENNANPNLATTAGHTPLHIAAREGH 111

Query: 391 ------------CINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDF 438
                            T    TPL  A K   +  AE+LL   A+          P+  
Sbjct: 112 VETVLALLEKEASQACMTKKGFTPLHVAAKYGKVRVAELLLERDAHPNAAGKNGLTPLHV 171

Query: 439 AKSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDISGTCEALLSMVDDNSNTERICS 498
           A   +   ++K       +              + +         L     ++N E +  
Sbjct: 172 AVHHNNLDIVKLLLPRGGSPHSPAWNGYTPLHIAAKQNQVEVARSLLQYGGSANAESVQG 231

Query: 499 GTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMCMIHASTQEFKSKIF 551
            T +    +  +  G         +     +     G+  +H   QE    + 
Sbjct: 232 VTPL----HLAAQEGHAEMVALLLSKQANGNLGNKSGLTPLHLVAQEGHVPVA 280

>d1n11a_ d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [TaxId: 9606]} Length = 408

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Ankyrin-R
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 78.9 bits (193), Expect = 7e-16
 Identities = 68/414 (16%), Positives = 138/414 (33%), Gaps = 65/414 (15%)

Query: 96  MTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVE 155
           +T LH+A+       V+ LL++ A  ++ +       PL ++  +   +V          
Sbjct: 1   LTPLHVASFMGHLPIVKNLLQRGASPNVSNVKVET--PLHMAARAGHTEV---------- 48

Query: 156 DLVVILGQKNLTTVKLLSQKTKELDEV------AYANAVGGRIVALAALLIVAADKVNES 209
                         K L Q   +++            A       +  LL+      N +
Sbjct: 49  -------------AKYLLQNKAKVNAKAKDDQTPLHCAARIGHTNMVKLLLENNANPNLA 95

Query: 210 ILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEI 269
               H     A  +  +   +             Q  + +        +A+  K+ + E+
Sbjct: 96  TTAGHTPLHIAAREGHVETVLALL-----EKEASQACMTKKGFTPLHVAAKYGKVRVAEL 150

Query: 270 ELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALH 329
               L    A+ +   K    PL +A    + D+++ LL  +    +    +  G + LH
Sbjct: 151 ----LLERDAHPNAAGKNGLTPLHVAVHHNNLDIVK-LLLPRGGSPHSPAWN--GYTPLH 203

Query: 330 CALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEP 389
                    +    Q  +   LL++G   + ++  G+T LH+AA  G+++ +   +  + 
Sbjct: 204 I--------AAKQNQVEVARSLLQYGGSANAESVQGVTPLHLAAQEGHAEMVAL-LLSKQ 254

Query: 390 DCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLK 449
              NL      TPL    +  H+  A+VL++ G   +        P+  A       L+K
Sbjct: 255 ANGNLGNKSGLTPLHLVAQEGHVPVADVLIKHGVMVDATTRMGYTPLHVASHYGNIKLVK 314

Query: 450 AANTCHTNLAFLNQEKQN----ASLESDEDISGTCEALLS------MVDDNSNT 493
                  ++    +   +    A+ +   DI      LL        V  +  T
Sbjct: 315 FLLQHQADVNAKTKLGYSPLHQAAQQGHTDI---VTLLLKNGASPNEVSSDGTT 365

>d1n11a_ d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [TaxId: 9606]} Length = 408

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Ankyrin-R
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 66.2 bits (160), Expect = 8e-12
 Identities = 40/224 (17%), Positives = 74/224 (33%), Gaps = 12/224 (5%)

Query: 347 IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFA 406
           IV  LL+ GA  +  N    T LH+AA +G+++  + L++ +   +N K    +TPL  A
Sbjct: 15  IVKNLLQRGASPNVSNVKVETPLHMAARAGHTEVAKYLLQNKAK-VNAKAKDDQTPLHCA 73

Query: 407 VKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHTNLAFLNQEKQ 466
            +  H    ++LL   AN  +       P+  A  +     + A      + A + ++  
Sbjct: 74  ARIGHTNMVKLLLENNANPNLATTAGHTPLHIAAREGHVETVLALLEKEASQACMTKKGF 133

Query: 467 NA-SLESDEDISGTCEALLS------MVDDNSNT--ERICSGTKIEVCKYYESHSGCI-- 515
               + +        E LL           N  T          +++ K      G    
Sbjct: 134 TPLHVAAKYGKVRVAELLLERDAHPNAAGKNGLTPLHVAVHHNNLDIVKLLLPRGGSPHS 193

Query: 516 RGSKCFYALGEEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFL 559
                +  L     +        +        ++   G  P  L
Sbjct: 194 PAWNGYTPLHIAAKQNQVEVARSLLQYGGSANAESVQGVTPLHL 237

>d1n11a_ d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [TaxId: 9606]} Length = 408

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Ankyrin-R
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 62.3 bits (150), Expect = 1e-10
 Identities = 28/184 (15%), Positives = 64/184 (34%), Gaps = 13/184 (7%)

Query: 366 LTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANS 425
           LT LH+A+  G+   +++L+++     N+  + +ETPL  A +  H   A+ LL+  A  
Sbjct: 1   LTPLHVASFMGHLPIVKNLLQRGAS-PNVSNVKVETPLHMAARAGHTEVAKYLLQNKAKV 59

Query: 426 EVLNLRRERPIDFA----KSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDISGTCE 481
                  + P+  A     +  ++ LL+     +      +     A+ E   +      
Sbjct: 60  NAKAKDDQTPLHCAARIGHTNMVKLLLENNANPNLATTAGHTPLHIAAREGHVETVLALL 119

Query: 482 ALLSMVDDNSNTERICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMCMIHA 541
              +     +               +  +  G +R ++         +     G+  +H 
Sbjct: 120 EKEASQACMTKKGFT--------PLHVAAKYGKVRVAELLLERDAHPNAAGKNGLTPLHV 171

Query: 542 STQE 545
           +   
Sbjct: 172 AVHH 175

>d1n11a_ d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [TaxId: 9606]} Length = 408

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Ankyrin-R
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 58.4 bits (140), Expect = 2e-09
 Identities = 55/302 (18%), Positives = 99/302 (32%), Gaps = 44/302 (14%)

Query: 95  GMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSV 154
           G T LH+AA+    R  ELLL++ A  +   K+G    PL +++  + +D++        
Sbjct: 132 GFTPLHVAAKYGKVRVAELLLERDAHPNAAGKNGLT--PLHVAVHHNNLDIVKLLLPRGG 189

Query: 155 E-DLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVL 213
                   G   L      +Q       + Y  +     V     L +AA + +  ++ L
Sbjct: 190 SPHSPAWNGYTPLHIAAKQNQVEVARSLLQYGGSANAESVQGVTPLHLAAQEGHAEMVAL 249

Query: 214 HDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQ 273
             S                        T L    +    P                ++L 
Sbjct: 250 LLSKQANGNLGNKSGL-----------TPLHLVAQEGHVPV--------------ADVLI 284

Query: 274 LFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALK 333
             G + + +        PL +A+  G+  +++          +       G S LH A +
Sbjct: 285 KHGVMVDATTRMGYT--PLHVASHYGNIKLVKF---LLQHQADVNAKTKLGYSPLHQAAQ 339

Query: 334 TSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNS---QALEDLIRKEPD 390
                        IV +LLK+GA  ++ +  G T L IA   G       L+ +  +   
Sbjct: 340 QG--------HTDIVTLLLKNGASPNEVSSDGTTPLAIAKRLGYISVTDVLKVVTDETSF 391

Query: 391 CI 392
            +
Sbjct: 392 VL 393

>d1wdya_ d.211.1.1 (A:) RNase L, 2-5a-dependent ribonuclease {Human (Homo sapiens) [TaxId: 9606]} Length = 285

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: RNase L, 2-5a-dependent ribonuclease
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 85.8 bits (211), Expect = 8e-19
 Identities = 38/140 (27%), Positives = 64/140 (45%), Gaps = 6/140 (4%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
            L+ A + G  +V++ILL     D+N  D           AL  ++  S       I  +
Sbjct: 151 ALMDAAEKGHVEVLKILLDEMGADVNACDNMG------RNALIHALLSSDDSDVEAITHL 204

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           LL HGA V+ + + G T L +A    +   ++ L+ +E   IN      +T L  AV+  
Sbjct: 205 LLDHGADVNVRGERGKTPLILAVEKKHLGLVQRLLEQEHIEINDTDSDGKTALLLAVELK 264

Query: 411 HMVCAEVLLRWGANSEVLNL 430
               AE+L + GA+++  +L
Sbjct: 265 LKKIAELLCKRGASTDCGDL 284

>d1wdya_ d.211.1.1 (A:) RNase L, 2-5a-dependent ribonuclease {Human (Homo sapiens) [TaxId: 9606]} Length = 285

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: RNase L, 2-5a-dependent ribonuclease
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 63.4 bits (153), Expect = 2e-11
 Identities = 52/308 (16%), Positives = 100/308 (32%), Gaps = 31/308 (10%)

Query: 95  GMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSV 154
               L  A ++     V+ LL+  A  + + ++G    PL  ++  SR D++     +  
Sbjct: 5   DNHLLIKAVQNEDVDLVQQLLEGGANVNFQEEEGGW-TPLHNAVQMSREDIVELLLRHGA 63

Query: 155 EDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLH 214
           + ++          +  ++   K L       A             + A    +   +  
Sbjct: 64  DPVLRKKNGATPFLLAAIAGSVKLLKLFLSKGADVNECDFYGFTAFMEAAVYGKVKALKF 123

Query: 215 DSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQL 274
               GA           +E L  G AT L  A ++             K+LL E      
Sbjct: 124 LYKRGANVNLRRKTKEDQERLRKGGATALMDAAEKGHVEVL-------KILLDE------ 170

Query: 275 FGAVANGSCTDKKVGPPLILATQAGDEDVIEIL---LKSKNIDINDADADADGNSALHCA 331
               A+ +  D      LI A  + D+  +E +   L     D+N       G + L  A
Sbjct: 171 --MGADVNACDNMGRNALIHALLSSDDSDVEAITHLLLDHGADVN--VRGERGKTPLILA 226

Query: 332 LKTSMGLSQHILQNRIVGILLKH-GAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPD 390
           ++             +V  LL+     ++  +  G TAL +A      +  E L ++   
Sbjct: 227 VEKK--------HLGLVQRLLEQEHIEINDTDSDGKTALLLAVELKLKKIAELLCKRGAS 278

Query: 391 CINLKTIM 398
             +   ++
Sbjct: 279 -TDCGDLV 285

>d1wdya_ d.211.1.1 (A:) RNase L, 2-5a-dependent ribonuclease {Human (Homo sapiens) [TaxId: 9606]} Length = 285

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: RNase L, 2-5a-dependent ribonuclease
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.7 bits (112), Expect = 3e-06
 Identities = 37/246 (15%), Positives = 77/246 (31%), Gaps = 27/246 (10%)

Query: 320 ADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGA-IVSQQNKLGLTALHIAAGSGNS 378
           A  + N  L  A++     ++ +    +V  LL+ GA +  Q+ + G T LH A      
Sbjct: 1   AAVEDNHLLIKAVQ-----NEDV---DLVQQLLEGGANVNFQEEEGGWTPLHNAVQMSRE 52

Query: 379 QALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDF 438
             +E L+R   D +  +     TP   A     +   ++ L  GA+    +         
Sbjct: 53  DIVELLLRHGADPVL-RKKNGATPFLLAAIAGSVKLLKLFLSKGADVNECDFYGFTAFME 111

Query: 439 A-----KSQDMRFLLKAANTCHTNLAFLNQEKQN---------ASLESDEDISGTCEALL 484
           A              + AN         +QE+           A+ +   ++    + LL
Sbjct: 112 AAVYGKVKALKFLYKRGANVNLRRKTKEDQERLRKGGATALMDAAEKGHVEV---LKILL 168

Query: 485 SMVDDNSNTERICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMCMIHASTQ 544
             +  + N         +         S     +      G + + +   G   +  + +
Sbjct: 169 DEMGADVNACDNMGRNALIHALLSSDDSDVEAITHLLLDHGADVNVRGERGKTPLILAVE 228

Query: 545 EFKSKI 550
           +    +
Sbjct: 229 KKHLGL 234

>d1wdya_ d.211.1.1 (A:) RNase L, 2-5a-dependent ribonuclease {Human (Homo sapiens) [TaxId: 9606]} Length = 285

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: RNase L, 2-5a-dependent ribonuclease
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.4 bits (101), Expect = 8e-05
 Identities = 30/142 (21%), Positives = 52/142 (36%), Gaps = 10/142 (7%)

Query: 321 DADGNSALHCALK--TSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNS 378
           D  G +A   A        L     +   V +  K      +  K G TAL  AA  G+ 
Sbjct: 102 DFYGFTAFMEAAVYGKVKALKFLYKRGANVNLRRKTKEDQERLRKGGATALMDAAEKGHV 161

Query: 379 QALEDLIRKEPDCINLKT----IMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRER 434
           + L+ L+ +    +N         +   L  +  +D      +LL  GA+  V   R + 
Sbjct: 162 EVLKILLDEMGADVNACDNMGRNALIHALLSSDDSDVEAITHLLLDHGADVNVRGERGKT 221

Query: 435 PIDFAKSQD----MRFLLKAAN 452
           P+  A  +     ++ LL+  +
Sbjct: 222 PLILAVEKKHLGLVQRLLEQEH 243

>d1wdya_ d.211.1.1 (A:) RNase L, 2-5a-dependent ribonuclease {Human (Homo sapiens) [TaxId: 9606]} Length = 285

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: RNase L, 2-5a-dependent ribonuclease
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.4 bits (88), Expect = 0.003
 Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 1/40 (2%)

Query: 85  ALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIR 124
             +N+ + S G TAL LA E    +  ELL K+ A TD  
Sbjct: 244 IEINDTD-SDGKTALLLAVELKLKKIAELLCKRGASTDCG 282

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 66.1 bits (161), Expect = 4e-14
 Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 3/78 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           KIFVGGL      + +  YF   FG +E   +       +   RGF F+TFK E+     
Sbjct: 1   KIFVGGLSPDTPEEKIREYFGG-FGEVESIELPMDNKTNKR--RGFCFITFKEEEPVKKI 57

Query: 609 VQARFVTIMGKEVEIKSA 626
           ++ ++  +   + EIK A
Sbjct: 58  MEKKYHNVGLSKCEIKVA 75

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 63.5 bits (154), Expect = 7e-13
 Identities = 30/82 (36%), Positives = 45/82 (54%), Gaps = 3/82 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+F+GGL F    +SL  Y+E+     +   + +  +++    RGFGFVTF       AA
Sbjct: 22  KLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRS---RGFGFVTFSSMAEVDAA 78

Query: 609 VQARFVTIMGKEVEIKSAVPKE 630
           + AR  +I G+ VE K AV +E
Sbjct: 79  MAARPHSIDGRVVEPKRAVARE 100

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 77

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 62.7 bits (152), Expect = 7e-13
 Identities = 24/78 (30%), Positives = 38/78 (48%), Gaps = 3/78 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+F+GGL +    + L  YF + FG +++  V      K+S  RGFGFVTF  +      
Sbjct: 2   KMFIGGLSWQTTQEGLREYFGQ-FGEVKECLVMRDPLTKRS--RGFGFVTFMDQAGVDKV 58

Query: 609 VQARFVTIMGKEVEIKSA 626
           +      +  K ++ K A
Sbjct: 59  LAQSRHELDSKTIDPKVA 76

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 62.3 bits (151), Expect = 8e-13
 Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 3/78 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+F+GGL +      L  YF K    ++     +  T +   SRGFGFV FK  +S    
Sbjct: 1   KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGR---SRGFGFVLFKESESVDKV 57

Query: 609 VQARFVTIMGKEVEIKSA 626
           +  +   + GK ++ K A
Sbjct: 58  MDQKEHKLNGKVIDPKRA 75

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 61.9 bits (150), Expect = 2e-12
 Identities = 21/83 (25%), Positives = 33/83 (39%), Gaps = 4/83 (4%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           S + V GLP+      L  YF      +      + +T     S+GFGFV F   ++   
Sbjct: 9   SDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGH---SKGFGFVRFTEYETQVK 65

Query: 608 AVQARFVTIMGKEVEIKSAVPKE 630
            +  R   I G+  + K    K+
Sbjct: 66  VMSQRH-MIDGRWCDCKLPNSKQ 87

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 84

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 61.6 bits (149), Expect = 2e-12
 Identities = 29/79 (36%), Positives = 44/79 (55%), Gaps = 3/79 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+F+GGL F    +SL  +FE+     +   + +  T++   SRGFGFVT+   +   AA
Sbjct: 8   KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKR---SRGFGFVTYATVEEVDAA 64

Query: 609 VQARFVTIMGKEVEIKSAV 627
           + AR   + G+ VE K AV
Sbjct: 65  MNARPHKVDGRVVEPKRAV 83

>d1sw6a_ d.211.1.1 (A:) Swi6 ankyrin-repeat fragment {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Swi6 ankyrin-repeat fragment
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 66.6 bits (161), Expect = 3e-12
 Identities = 31/191 (16%), Positives = 62/191 (32%), Gaps = 43/191 (22%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDAD------------------------------- 319
           PL   T   + ++++ L+     +    D                               
Sbjct: 110 PLHWLTSIANLELVKHLV-KHGSNRLYGDNMGESCLVKAVKSVNNYDSGTFEALLDYLYP 168

Query: 320 ----ADADGNSALHCALKTS-----MGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALH 370
                D+   + LH  + TS        +++ L   +  I+ K    +        +  +
Sbjct: 169 CLILEDSMNRTILHHIIITSGMTGCSAAAKYYLDILMGWIVKKQNRPIQSGTNEKESKPN 228

Query: 371 IAAGSGNSQALEDLIRKE--PDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVL 428
              G      LE+L  K    + +N +    +T L  A +  ++   + LL +GA+  + 
Sbjct: 229 DKNGERKDSILENLDLKWIIANMLNAQDSNGDTCLNIAARLGNISIVDALLDYGADPFIA 288

Query: 429 NLRRERPIDFA 439
           N    RP+DF 
Sbjct: 289 NKSGLRPVDFG 299

>d1sw6a_ d.211.1.1 (A:) Swi6 ankyrin-repeat fragment {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Swi6 ankyrin-repeat fragment
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 56.6 bits (135), Expect = 5e-09
 Identities = 28/134 (20%), Positives = 49/134 (36%), Gaps = 11/134 (8%)

Query: 241 TKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGD 300
           T L   +  +     S +A  +  L + +  +         S T++K             
Sbjct: 179 TILHHIIITSGMTGCSAAA--KYYLDILMGWIVKKQNRPIQSGTNEK-ESKPNDKNGERK 235

Query: 301 EDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQ 360
           + ++E L     I       D++G++ L+ A +       +I    IV  LL +GA    
Sbjct: 236 DSILENLDLKWIIANMLNAQDSNGDTCLNIAAR-----LGNI---SIVDALLDYGADPFI 287

Query: 361 QNKLGLTALHIAAG 374
            NK GL  +   AG
Sbjct: 288 ANKSGLRPVDFGAG 301

>d1sw6a_ d.211.1.1 (A:) Swi6 ankyrin-repeat fragment {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Swi6 ankyrin-repeat fragment
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 55.1 bits (131), Expect = 2e-08
 Identities = 46/331 (13%), Positives = 96/331 (29%), Gaps = 54/331 (16%)

Query: 4   SYSSYTAAPSVTDLETTLIINSLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRV 63
                  +P V D E  + + + L+      I        ++S +   +  +   +   V
Sbjct: 20  KIMKALPSPVVNDNEQKMKLEAFLQRLLFPEIQEMPTSLNNDSSNRNSEGGSSNQQQQHV 79

Query: 64  SCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDI 123
           S          +  N  L     +N   +  G T LH          V+ L+K  +    
Sbjct: 80  SFDSLLQEVNDAFPNTQLN----LNIPVDEHGNTPLHWLTSIANLELVKHLVKHGSNRLY 135

Query: 124 RSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVA 183
               G        S     +  + N D  + E L+  L                      
Sbjct: 136 GDNMGE-------SCLVKAVKSVNNYDSGTFEALLDYLYPC------------------- 169

Query: 184 YANAVGGRIVALAALLIVAADKVNESIL---VLHDSDLGAKEKTTIYECVIREALALGRA 240
                           ++  D +N +IL   ++     G       Y  ++   +   + 
Sbjct: 170 ----------------LILEDSMNRTILHHIIITSGMTGCSAAAKYYLDILMGWIVKKQN 213

Query: 241 TKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGD 300
             +Q       +    ++ E++  +L  ++L  +   + N    D      L +A + G+
Sbjct: 214 RPIQSGTNEKESKPNDKNGERKDSILENLDLKWIIANMLN--AQDSNGDTCLNIAARLGN 271

Query: 301 EDVIEILLKSKNIDINDADADADGNSALHCA 331
             +++ LL     D     A+  G   +   
Sbjct: 272 ISIVDALL-DYGADPF--IANKSGLRPVDFG 299

>d1sw6a_ d.211.1.1 (A:) Swi6 ankyrin-repeat fragment {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Swi6 ankyrin-repeat fragment
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 40.8 bits (94), Expect = 6e-04
 Identities = 22/171 (12%), Positives = 46/171 (26%), Gaps = 5/171 (2%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           P+I  T     D +   LK      +    D +    L   L+  +          +   
Sbjct: 2   PIITFTHDLTSDFLSSPLKIMKALPSPVVNDNEQKMKLEAFLQRLLFPEIQ----EMPTS 57

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKT-IMMETPLFFAVKN 409
           L    +  + +           +     Q + D        +N+       TPL +    
Sbjct: 58  LNNDSSNRNSEGGSSNQQQQHVSFDSLLQEVNDAFPNTQLNLNIPVDEHGNTPLHWLTSI 117

Query: 410 DHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHTNLAF 460
            ++   + L++ G+N    +   E  +  A      +           L  
Sbjct: 118 ANLELVKHLVKHGSNRLYGDNMGESCLVKAVKSVNNYDSGTFEALLDYLYP 168

>d2ajaa1 a.118.24.1 (A:3-348) Hypothetical protein LPG2416 {Legionella pneumophila [TaxId: 446]} Length = 346

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Pseudo ankyrin repeat-like
family: Pseudo ankyrin repeat
domain: Hypothetical protein LPG2416
species: Legionella pneumophila [TaxId: 446]

 Score = 64.9 bits (157), Expect = 1e-11
 Identities = 22/146 (15%), Positives = 34/146 (23%), Gaps = 16/146 (10%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDAD---------ADADGNSALHCALKTSMGLSQH 341
            + L      E V ++L        N                       A  T       
Sbjct: 49  HIFLPGTKNMEQVRQLLC-LYYAHYNRNAKQLWSDAHKKGIKSEVICFVAAITG-----C 102

Query: 342 ILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDC-INLKTIMME 400
                 + +LL    IV         A  +AA +G+   L  L    P   + +      
Sbjct: 103 SSALDTLCLLLTSDEIVKVIQAENYQAFRLAAENGHLHVLNRLCELAPTEIMAMIQAENY 162

Query: 401 TPLFFAVKNDHMVCAEVLLRWGANSE 426
                A +N H+     L        
Sbjct: 163 HAFRLAAENGHLHVLNRLCELAPTEA 188

>d2ajaa1 a.118.24.1 (A:3-348) Hypothetical protein LPG2416 {Legionella pneumophila [TaxId: 446]} Length = 346

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Pseudo ankyrin repeat-like
family: Pseudo ankyrin repeat
domain: Hypothetical protein LPG2416
species: Legionella pneumophila [TaxId: 446]

 Score = 52.2 bits (124), Expect = 2e-07
 Identities = 40/352 (11%), Positives = 92/352 (26%), Gaps = 48/352 (13%)

Query: 22  IINSLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIFDSVSCATSLVNGDL 81
           +    +  ++  L+ +S +  I   L        +   L                     
Sbjct: 27  LFQHFISANELSLMTLSYKEAIHIFLPGTKNMEQVRQLL---------CLYYAHYNRNAK 77

Query: 82  GPVALVNEVEESSGMTALHLAAES-HTA--RCVELLLKKRARTDIRSKDGRRLLPLELSL 138
              +  ++ +         +AA +  ++    + LLL       +   +  +     L+ 
Sbjct: 78  QLWSDAHK-KGIKSEVICFVAAITGCSSALDTLCLLLTSDEIVKVIQAENYQ--AFRLAA 134

Query: 139 SSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAAL 198
            +  + V+    E +  +++ ++  +N    +L ++    L  +               L
Sbjct: 135 ENGHLHVLNRLCELAPTEIMAMIQAENYHAFRLAAENGH-LHVLNR-------------L 180

Query: 199 LIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGR---------ATKLQRAVKR 249
             +A  +    I   +            +  VI   L                 ++ V  
Sbjct: 181 CELAPTEATAMIQAENYYAFRWAAVGRGHHNVINFLLDCPVMLAYAEIHEFEYGEKYVNP 240

Query: 250 NSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLK 309
                 ++  E      L            +       +   LI        D I  LL 
Sbjct: 241 FIARHVNRLKEMHDAFKLSNPDGVFDLVTKSECLQGFYMLRNLIRRNDEVLLDDIRFLLS 300

Query: 310 SKNID--INDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVS 359
              I      A    D N  L  AL+       +        +LL   ++++
Sbjct: 301 IPGIKALAPTATIPGDANELLRLALRLG-----NQ---GACALLLSIPSVLA 344

>d2ajaa1 a.118.24.1 (A:3-348) Hypothetical protein LPG2416 {Legionella pneumophila [TaxId: 446]} Length = 346

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Pseudo ankyrin repeat-like
family: Pseudo ankyrin repeat
domain: Hypothetical protein LPG2416
species: Legionella pneumophila [TaxId: 446]

 Score = 48.3 bits (114), Expect = 3e-06
 Identities = 22/201 (10%), Positives = 46/201 (22%), Gaps = 15/201 (7%)

Query: 230 VIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVG 289
           V+     L     +      N       +       L  +  L         +    +  
Sbjct: 141 VLNRLCELAPTEIMAMIQAENYHAFRLAAENGH---LHVLNRLCELAPTEATAMIQAENY 197

Query: 290 -PPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIV 348
                 A   G  +VI  LL    + +  A+         +     +  +++    +   
Sbjct: 198 YAFRWAAVGRGHHNVINFLLD-CPVMLAYAEIHEFEYGEKYVNPFIARHVNRLKEMHDAF 256

Query: 349 GILLKHGAI------VSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMM--- 399
            +    G           Q    L  L           +  L+          T  +   
Sbjct: 257 KLSNPDGVFDLVTKSECLQGFYMLRNLIRRNDEVLLDDIRFLLSIPGIKALAPTATIPGD 316

Query: 400 -ETPLFFAVKNDHMVCAEVLL 419
               L  A++  +     +LL
Sbjct: 317 ANELLRLALRLGNQGACALLL 337

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 60.8 bits (146), Expect = 5e-11
 Identities = 33/162 (20%), Positives = 54/162 (33%), Gaps = 6/162 (3%)

Query: 472 SDEDIS---GTCEALLSMVDDNSNTERICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQ 528
           +DE +         L   V       +   G         E     +            +
Sbjct: 19  TDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVE 78

Query: 529 HRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQ 588
            ++                 KIFVGG+    +   L  YFE++ G IE   +   +   +
Sbjct: 79  PKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQY-GKIEVIEIMTDRGSGK 137

Query: 589 SVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKE 630
              RGF FVTF    S    V  ++ T+ G   E++ A+ K+
Sbjct: 138 K--RGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKALSKQ 177

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.1 bits (100), Expect = 5e-05
 Identities = 32/81 (39%), Positives = 46/81 (56%), Gaps = 3/81 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+F+GGL F    +SL  +FE+ +G + D  V      K+  SRGFGFVT+   +   AA
Sbjct: 8   KLFIGGLSFETTDESLRSHFEQ-WGTLTDCVVMRDPNTKR--SRGFGFVTYATVEEVDAA 64

Query: 609 VQARFVTIMGKEVEIKSAVPK 629
           + AR   + G+ VE K AV +
Sbjct: 65  MNARPHKVDGRVVEPKRAVSR 85

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 94

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 56.9 bits (137), Expect = 1e-10
 Identities = 22/93 (23%), Positives = 39/93 (41%), Gaps = 4/93 (4%)

Query: 540 HASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTF 599
               ++  SKI V  +PF  +   +   F   FG ++  R+   +       RGFGFV F
Sbjct: 1   QVPKKQTTSKILVRNIPFQANQREIRELFST-FGELKTVRLP-KKMTGTGAHRGFGFVDF 58

Query: 600 KHEKSAAAAVQARF--VTIMGKEVEIKSAVPKE 630
             ++ A  A  A      + G+ + ++ A  + 
Sbjct: 59  ITKQDAKKAFNALCHSTHLYGRRLVLEWADSEV 91

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.7 bits (136), Expect = 1e-10
 Identities = 12/79 (15%), Positives = 33/79 (41%), Gaps = 4/79 (5%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQT---EKQSVSRGFGFVTFKHEKSA 605
           +++VG +PF +  +++  +F      +     A        + +  + F F+ F+     
Sbjct: 3   RLYVGNIPFGITEEAMMDFFNA-QMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDET 61

Query: 606 AAAVQARFVTIMGKEVEIK 624
             A+    +   G+ ++I+
Sbjct: 62  TQAMAFDGIIFQGQSLKIR 80

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 57.1 bits (137), Expect = 1e-10
 Identities = 28/92 (30%), Positives = 39/92 (42%), Gaps = 4/92 (4%)

Query: 539 IHASTQEFKS-KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFV 597
           +H S ++    KIFVGGLP+     SL  YFE      E          +   SRG+GFV
Sbjct: 1   MHGSQKDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVV---ITDRQTGKSRGYGFV 57

Query: 598 TFKHEKSAAAAVQARFVTIMGKEVEIKSAVPK 629
           T     +A  A +     I G++  +  A   
Sbjct: 58  TMADRAAAERACKDPNPIIDGRKANVNLAYLG 89

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.6 bits (136), Expect = 1e-10
 Identities = 23/83 (27%), Positives = 35/83 (42%), Gaps = 9/83 (10%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           S +FVG     +  D L  +F   +G + D  + +         R F FVTF  ++ A +
Sbjct: 6   SGVFVGRCTGDMTEDELREFFS-QYGDVMDVFIPKPF-------RAFAFVTFADDQIAQS 57

Query: 608 AVQARFVTIMGKEVEIKSAVPKE 630
                 + I G  V I +A PK 
Sbjct: 58  LCGEDLI-IKGISVHISNAEPKH 79

>d1uoha_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Human (Homo sapiens) [TaxId: 9606]} Length = 223

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 59.2 bits (142), Expect = 3e-10
 Identities = 30/132 (22%), Positives = 60/132 (45%), Gaps = 12/132 (9%)

Query: 321 DADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQA 380
           + +G + LH A   +        ++ I  +LL+ GA    ++    TA+H AA  GN + 
Sbjct: 100 NQNGCTPLHYAASKN--------RHEIAVMLLEGGANPDAKDHYEATAMHRAAAKGNLKM 151

Query: 381 LEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAK 440
           +  L+       N++     TPL  A   + +  A++L+  GA+  + N   + P+  AK
Sbjct: 152 IHILLYY-KASTNIQDTEGNTPLHLACDEERVEEAKLLVSQGASIYIENKEEKTPLQVAK 210

Query: 441 S---QDMRFLLK 449
                 ++ +++
Sbjct: 211 GGLGLILKRMVE 222

>d1uoha_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Human (Homo sapiens) [TaxId: 9606]} Length = 223

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.0 bits (126), Expect = 3e-08
 Identities = 26/137 (18%), Positives = 44/137 (32%), Gaps = 29/137 (21%)

Query: 274 LFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALK 333
           L G  A  +  ++    PL  A      ++  +LL     + +  D      +A+H A  
Sbjct: 89  LLGKGAQVNAVNQNGCTPLHYAASKNRHEIAVMLL-EGGANPDAKDHY--EATAMHRAAA 145

Query: 334 TSMGLSQHILQNR-------------------------IVGILLKHGAIVSQQNKLGLTA 368
                  HIL                               +L+  GA +  +NK   T 
Sbjct: 146 KGNLKMIHILLYYKASTNIQDTEGNTPLHLACDEERVEEAKLLVSQGASIYIENKEEKTP 205

Query: 369 LHIAAGSGNSQALEDLI 385
           L +A G G    L+ ++
Sbjct: 206 LQVAKG-GLGLILKRMV 221

>d1uoha_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Human (Homo sapiens) [TaxId: 9606]} Length = 223

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.4 bits (101), Expect = 5e-05
 Identities = 22/108 (20%), Positives = 46/108 (42%), Gaps = 5/108 (4%)

Query: 347 IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFA 406
           +   +L   ++ ++ ++   TALH A  +G+++   + + +    +N K     +PL  A
Sbjct: 19  LKESILADKSLATRTDQDSRTALHWACSAGHTEI-VEFLLQLGVPVNDKDDAGWSPLHIA 77

Query: 407 VKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQD----MRFLLKA 450
                    + LL  GA    +N     P+ +A S++       LL+ 
Sbjct: 78  ASAGRDEIVKALLGKGAQVNAVNQNGCTPLHYAASKNRHEIAVMLLEG 125

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.9 bits (134), Expect = 3e-10
 Identities = 19/86 (22%), Positives = 39/86 (45%), Gaps = 4/86 (4%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
            ++F+GG+P     + +     K    + D  V     +K   +RGF FV ++  ++AA 
Sbjct: 2   CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKM-KNRGFAFVEYESHRAAAM 60

Query: 608 AVQA---RFVTIMGKEVEIKSAVPKE 630
           A +      + + G ++ +  A P+ 
Sbjct: 61  ARRKLMPGRIQLWGHQIAVDWAEPEI 86

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 54.3 bits (130), Expect = 6e-10
 Identities = 27/78 (34%), Positives = 36/78 (46%), Gaps = 3/78 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           KIFVGGL      + +  YFE+     +   + +  T +    RGFGFVTF+ E      
Sbjct: 1   KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNR---HRGFGFVTFESEDIVEKV 57

Query: 609 VQARFVTIMGKEVEIKSA 626
            +  F  I  K VE K A
Sbjct: 58  CEIHFHEINNKMVECKKA 75

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.8 bits (126), Expect = 2e-09
 Identities = 24/79 (30%), Positives = 37/79 (46%), Gaps = 3/79 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           KIFVGG+    +   L  YFE++        + +  + K    RGF FVTF    S    
Sbjct: 4   KIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGK---KRGFAFVTFDDHDSVDKI 60

Query: 609 VQARFVTIMGKEVEIKSAV 627
           V  ++ T+ G   E++ A+
Sbjct: 61  VIQKYHTVNGHNCEVRKAL 79

>d1oy3d_ d.211.1.1 (D:) Transcription factor inhibitor I-kappa-B-beta, IKBB {Mouse (Mus musculus) [TaxId: 10090]} Length = 255

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Transcription factor inhibitor I-kappa-B-beta, IKBB
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 57.0 bits (136), Expect = 2e-09
 Identities = 38/200 (19%), Positives = 62/200 (31%), Gaps = 14/200 (7%)

Query: 321 DADGNSALHCALKTSMGLSQHILQNRIVGILLKHGA---IVSQQNKLGLTALHIAAGSGN 377
             DG++ALH A+       QH      +  LL   A    +  QN LG TALH+AA  G 
Sbjct: 6   TEDGDTALHLAVI-----HQHE---PFLDFLLGFSAGHEYLDLQNDLGQTALHLAAILGE 57

Query: 378 SQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN--SEVLNLRRERP 435
           +  +E  +      + +      T L  A +     CA VLL+   +   +  +    + 
Sbjct: 58  ASTVEK-LYAAGAGVLVAERGGHTALHLACRVRAHTCACVLLQPRPSHPRDASDTYLTQS 116

Query: 436 IDFAKSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDISGTCEALLSMVDDNSNTER 495
            D             +     N      E     LE++     T   +  +  D      
Sbjct: 117 QDCTPDTSHAPAAVDSQPNPENEEEPRDEDWRLQLEAENYDGHTPLHVAVIHKDAEMVRL 176

Query: 496 ICSGTKIEVCKYYESHSGCI 515
           +                  +
Sbjct: 177 LRDAGADLNKPEPTCGRTPL 196

>d1oy3d_ d.211.1.1 (D:) Transcription factor inhibitor I-kappa-B-beta, IKBB {Mouse (Mus musculus) [TaxId: 10090]} Length = 255

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Transcription factor inhibitor I-kappa-B-beta, IKBB
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 52.0 bits (123), Expect = 1e-07
 Identities = 29/182 (15%), Positives = 56/182 (30%), Gaps = 11/182 (6%)

Query: 365 GLTALHIAAGSGNSQALEDLIRKE--PDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWG 422
           G TALH+A    +   L+ L+      + ++L+  + +T L  A         E L   G
Sbjct: 9   GDTALHLAVIHQHEPFLDFLLGFSAGHEYLDLQNDLGQTALHLAAILGEASTVEKLYAAG 68

Query: 423 ANSEVLNLRRERPIDFAKSQDM----RFLLKAANTCHTNLAFLNQEKQNASLESDEDISG 478
           A   V        +  A           LL+   +   +    +      S +   D S 
Sbjct: 69  AGVLVAERGGHTALHLACRVRAHTCACVLLQPRPSHPRD---ASDTYLTQSQDCTPDTSH 125

Query: 479 TCEALLSMVDDNSNTERICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMCM 538
              A+ S  +  +  E      ++++      + G             E  R +      
Sbjct: 126 APAAVDSQPNPENEEEPRDEDWRLQLEAEN--YDGHTPLHVAVIHKDAEMVRLLRDAGAD 183

Query: 539 IH 540
           ++
Sbjct: 184 LN 185

>d1oy3d_ d.211.1.1 (D:) Transcription factor inhibitor I-kappa-B-beta, IKBB {Mouse (Mus musculus) [TaxId: 10090]} Length = 255

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Transcription factor inhibitor I-kappa-B-beta, IKBB
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 48.2 bits (113), Expect = 2e-06
 Identities = 32/164 (19%), Positives = 54/164 (32%), Gaps = 7/164 (4%)

Query: 294 LATQAGDEDVIEILLK---SKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           LA +        +LL+   S   D +D       +     +   +   SQ   +N     
Sbjct: 84  LACRVRAHTCACVLLQPRPSHPRDASDTYLTQSQDCTPDTSHAPAAVDSQPNPENEEEPR 143

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
                  +  +N  G T LH+A    +++ +  L     D    +     TPL  AV+  
Sbjct: 144 DEDWRLQLEAENYDGHTPLHVAVIHKDAEMVRLLRDAGADLNKPEPTCGRTPLHLAVEAQ 203

Query: 411 HMVCAEVLLRWGANSEVLNLRRERPIDFAKSQD----MRFLLKA 450
                E+LL+ GA+          P+  A  +      R L   
Sbjct: 204 AASVLELLLKAGADPTARMYGGRTPLGSALLRPNPILARLLRAH 247

>d1oy3d_ d.211.1.1 (D:) Transcription factor inhibitor I-kappa-B-beta, IKBB {Mouse (Mus musculus) [TaxId: 10090]} Length = 255

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Transcription factor inhibitor I-kappa-B-beta, IKBB
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 47.8 bits (112), Expect = 2e-06
 Identities = 39/255 (15%), Positives = 68/255 (26%), Gaps = 33/255 (12%)

Query: 95  GMTALHLAAESHTARCVELLLKKRA---RTDIRSKDGRRLL--------PLELSLSSSRM 143
           G TALHLA        ++ LL   A     D+++  G+  L           +    +  
Sbjct: 9   GDTALHLAVIHQHEPFLDFLLGFSAGHEYLDLQNDLGQTALHLAAILGEASTVEKLYAAG 68

Query: 144 DVIWNPDEYSVEDLVVILGQKNLTTVKLLSQK----TKELDEVAYANAVGGRIVALAALL 199
             +   +      L +    +  T   +L Q      ++  +     +         A  
Sbjct: 69  AGVLVAERGGHTALHLACRVRAHTCACVLLQPRPSHPRDASDTYLTQSQDCTPDTSHAPA 128

Query: 200 IVAADKVNESILVLHDSDLGAKEKTTIYE----------CVIREALALGRATKLQRAVKR 249
            V +    E+     D D   + +   Y+              E + L R          
Sbjct: 129 AVDSQPNPENEEEPRDEDWRLQLEAENYDGHTPLHVAVIHKDAEMVRLLRDAGADLNKPE 188

Query: 250 NSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLK 309
            +   T             +ELL   GA             PL  A    +  +  +L  
Sbjct: 189 PTCGRTPLHLAVEAQAASVLELLLKAGADPT--ARMYGGRTPLGSALLRPNPILARLLRA 246

Query: 310 SKNIDINDADADADG 324
                 + A    DG
Sbjct: 247 ------HGAPEPEDG 255

>d1oy3d_ d.211.1.1 (D:) Transcription factor inhibitor I-kappa-B-beta, IKBB {Mouse (Mus musculus) [TaxId: 10090]} Length = 255

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Transcription factor inhibitor I-kappa-B-beta, IKBB
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 46.2 bits (108), Expect = 8e-06
 Identities = 23/129 (17%), Positives = 38/129 (29%), Gaps = 24/129 (18%)

Query: 283 CTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADAD--------------------- 321
           CT      P  + +Q   E+  E   +   + +   + D                     
Sbjct: 119 CTPDTSHAPAAVDSQPNPENEEEPRDEDWRLQLEAENYDGHTPLHVAVIHKDAEMVRLLR 178

Query: 322 ---ADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNS 378
              AD N       +T + L+       ++ +LLK GA  + +   G T L  A    N 
Sbjct: 179 DAGADLNKPEPTCGRTPLHLAVEAQAASVLELLLKAGADPTARMYGGRTPLGSALLRPNP 238

Query: 379 QALEDLIRK 387
                L   
Sbjct: 239 ILARLLRAH 247

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]} Length = 114

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.5 bits (128), Expect = 3e-09
 Identities = 16/116 (13%), Positives = 42/116 (36%), Gaps = 8/116 (6%)

Query: 545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKS 604
           E    +++  LP+ + ++ +   F K +GPI        +      +RG  +V ++    
Sbjct: 5   EVNRILYIRNLPYKITAEEMYDIFGK-YGPIRQ-----IRVGNTPETRGTAYVVYEDIFD 58

Query: 605 AAAAVQA-RFVTIMGKEVEIKSAVPKEVLFAELQKQSAQQQESKHEHQARLGAKIP 659
           A  A        +  + + +         F ++  +  ++Q    + +  +    P
Sbjct: 59  AKNACDHLSGFNVCNRYLVVLYYNANRA-FQKMDTKKKEEQLKLLKEKYGINTDPP 113

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins C1/C2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.6 bits (126), Expect = 4e-09
 Identities = 23/85 (27%), Positives = 38/85 (44%), Gaps = 13/85 (15%)

Query: 548 SKIFVGGLPFFLDSDS-LGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
           S++F+G L   +   S +   F K +G I              V +GF FV + +E++A 
Sbjct: 16  SRVFIGNLNTLVVKKSDVEAIFSK-YGKIVGCS----------VHKGFAFVQYVNERNAR 64

Query: 607 AAVQA-RFVTIMGKEVEIKSAVPKE 630
           AAV       I G+ ++I  A   +
Sbjct: 65  AAVAGEDGRMIAGQVLDINLAAEPK 89

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.7 bits (123), Expect = 6e-09
 Identities = 16/82 (19%), Positives = 34/82 (41%), Gaps = 3/82 (3%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           IF+G L   +D   L   F      ++  ++          S+G+ F+ F    ++ AA+
Sbjct: 1   IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGN--SKGYAFINFASFDASDAAI 58

Query: 610 QA-RFVTIMGKEVEIKSAVPKE 630
           +A     +  + + +  A  K+
Sbjct: 59  EAMNGQYLCNRPITVSYAFKKD 80

>d1s70b_ d.211.1.1 (B:) Myosin phosphatase targeting subunit 1, MYPT1 {Chicken (Gallus gallus) [TaxId: 9031]} Length = 291

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Myosin phosphatase targeting subunit 1, MYPT1
species: Chicken (Gallus gallus) [TaxId: 9031]

 Score = 55.5 bits (132), Expect = 1e-08
 Identities = 29/108 (26%), Positives = 44/108 (40%), Gaps = 4/108 (3%)

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
           L        +  K G TALH+AA  G ++ L+ LI+   D +N+K     TPL  A    
Sbjct: 185 LNSGHINDVRHAKSGGTALHVAAAKGYTEVLKLLIQARYD-VNIKDYDGWTPLHAAAHWG 243

Query: 411 HMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFL---LKAANTCH 455
                 +L+    + E +N   +   D A    + +L    K  N  H
Sbjct: 244 KEEACRILVENLCDMEAVNKVGQTAFDVADEDILGYLEELQKKQNLLH 291

>d1s70b_ d.211.1.1 (B:) Myosin phosphatase targeting subunit 1, MYPT1 {Chicken (Gallus gallus) [TaxId: 9031]} Length = 291

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Myosin phosphatase targeting subunit 1, MYPT1
species: Chicken (Gallus gallus) [TaxId: 9031]

 Score = 49.3 bits (116), Expect = 1e-06
 Identities = 27/105 (25%), Positives = 44/105 (41%), Gaps = 12/105 (11%)

Query: 284 TDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHIL 343
             K  G  L +A   G  +V+++L      D+N  D D  G + LH A            
Sbjct: 195 HAKSGGTALHVAAAKGYTEVLKLL-IQARYDVNIKDYD--GWTPLHAAAHWG-------- 243

Query: 344 QNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKE 388
           +     IL+++   +   NK+G TA  +A        LE+L +K+
Sbjct: 244 KEEACRILVENLCDMEAVNKVGQTAFDVAD-EDILGYLEELQKKQ 287

>d1s70b_ d.211.1.1 (B:) Myosin phosphatase targeting subunit 1, MYPT1 {Chicken (Gallus gallus) [TaxId: 9031]} Length = 291

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Myosin phosphatase targeting subunit 1, MYPT1
species: Chicken (Gallus gallus) [TaxId: 9031]

 Score = 45.5 bits (106), Expect = 2e-05
 Identities = 23/114 (20%), Positives = 41/114 (35%), Gaps = 13/114 (11%)

Query: 316 NDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGS 375
           ND      G +ALH A               ++ +L++    V+ ++  G T LH AA  
Sbjct: 191 NDVRHAKSGGTALHVAAAKG--------YTEVLKLLIQARYDVNIKDYDGWTPLHAAAHW 242

Query: 376 GNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLN 429
           G  +A   L+    D +     + +T    A ++        L        +L+
Sbjct: 243 GKEEACRILVENLCD-MEAVNKVGQTAFDVADED----ILGYLEELQKKQNLLH 291

>d1s70b_ d.211.1.1 (B:) Myosin phosphatase targeting subunit 1, MYPT1 {Chicken (Gallus gallus) [TaxId: 9031]} Length = 291

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Myosin phosphatase targeting subunit 1, MYPT1
species: Chicken (Gallus gallus) [TaxId: 9031]

 Score = 40.9 bits (94), Expect = 6e-04
 Identities = 33/137 (24%), Positives = 51/137 (37%), Gaps = 9/137 (6%)

Query: 308 LKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLT 367
           L+   +         D  +    A       S        V  LL+ GA ++  N  GLT
Sbjct: 24  LEPPVVKRKKTKVKFDDGAVFLAACS-----SGDT---EEVLRLLERGADINYANVDGLT 75

Query: 368 ALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEV 427
           ALH A    N   +   + +    IN        PL  A    ++  AE L+  GA+   
Sbjct: 76  ALHQACIDDNVD-MVKFLVENGANINQPDNEGWIPLHAAASCGYLDIAEYLISQGAHVGA 134

Query: 428 LNLRRERPIDFAKSQDM 444
           +N   + P+D A+ + M
Sbjct: 135 VNSEGDTPLDIAEEEAM 151

>d1s70b_ d.211.1.1 (B:) Myosin phosphatase targeting subunit 1, MYPT1 {Chicken (Gallus gallus) [TaxId: 9031]} Length = 291

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Myosin phosphatase targeting subunit 1, MYPT1
species: Chicken (Gallus gallus) [TaxId: 9031]

 Score = 38.9 bits (89), Expect = 0.002
 Identities = 9/35 (25%), Positives = 15/35 (42%)

Query: 95  GMTALHLAAESHTARCVELLLKKRARTDIRSKDGR 129
           G T LH AA         +L++     +  +K G+
Sbjct: 232 GWTPLHAAAHWGKEEACRILVENLCDMEAVNKVGQ 266

>d1s70b_ d.211.1.1 (B:) Myosin phosphatase targeting subunit 1, MYPT1 {Chicken (Gallus gallus) [TaxId: 9031]} Length = 291

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Myosin phosphatase targeting subunit 1, MYPT1
species: Chicken (Gallus gallus) [TaxId: 9031]

 Score = 38.5 bits (88), Expect = 0.002
 Identities = 15/72 (20%), Positives = 27/72 (37%), Gaps = 3/72 (4%)

Query: 273 QLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCAL 332
            L  A  + +  D     PL  A   G E+   IL+     D+     +  G +A   A 
Sbjct: 217 LLIQARYDVNIKDYDGWTPLHAAAHWGKEEACRILV-ENLCDME--AVNKVGQTAFDVAD 273

Query: 333 KTSMGLSQHILQ 344
           +  +G  + + +
Sbjct: 274 EDILGYLEELQK 285

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 50.0 bits (119), Expect = 2e-08
 Identities = 19/82 (23%), Positives = 36/82 (43%), Gaps = 1/82 (1%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           +F+  L F    ++L G F K           +       +S GFGFV +K  + A  A+
Sbjct: 1   LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 60

Query: 610 QA-RFVTIMGKEVEIKSAVPKE 630
           +  +  T+ G ++E++ +    
Sbjct: 61  KQLQGHTVDGHKLEVRISERAT 82

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.5 bits (118), Expect = 3e-08
 Identities = 22/79 (27%), Positives = 30/79 (37%), Gaps = 4/79 (5%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            ++VG L   +    L   F    GPI   RV          S G+ +V F+    A  A
Sbjct: 2   SLYVGDLHPDVTEAMLYEKFSP-AGPILSIRVCRDM--ITRRSLGYAYVNFQQPADAERA 58

Query: 609 VQA-RFVTIMGKEVEIKSA 626
           +    F  I GK V I  +
Sbjct: 59  LDTMNFDVIKGKPVRIMWS 77

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.6 bits (118), Expect = 3e-08
 Identities = 14/82 (17%), Positives = 31/82 (37%), Gaps = 4/82 (4%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+F+GGLP +L+ D +                   +     +S+G+ F  +        A
Sbjct: 3   KLFIGGLPNYLNDDQVKELLTSFG---PLKAFNLVKDSATGLSKGYAFCEYVDINVTDQA 59

Query: 609 VQA-RFVTIMGKEVEIKSAVPK 629
           +     + +  K++ ++ A   
Sbjct: 60  IAGLNGMQLGDKKLLVQRASVG 81

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.6 bits (118), Expect = 5e-08
 Identities = 13/82 (15%), Positives = 30/82 (36%), Gaps = 3/82 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            +F   L   +    L  +F      + D R           S+G  +V F   +S   A
Sbjct: 20  TVFCMQLAARIRPRDLEDFFSAVG-KVRDVR--IISDRNSRRSKGIAYVEFCEIQSVPLA 76

Query: 609 VQARFVTIMGKEVEIKSAVPKE 630
           +      ++G  + ++++  ++
Sbjct: 77  IGLTGQRLLGVPIIVQASQAEK 98

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 48.8 bits (116), Expect = 6e-08
 Identities = 17/82 (20%), Positives = 31/82 (37%), Gaps = 6/82 (7%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           + ++V  LP  +  D L   F K +G I        + +     RG  FV +   + A  
Sbjct: 7   TNLYVTNLPRTITDDQLDTIFGK-YGSIVQKN--ILRDKLTGRPRGVAFVRYNKREEAQE 63

Query: 608 AVQA---RFVTIMGKEVEIKSA 626
           A+ A          + + ++ A
Sbjct: 64  AISALNNVIPEGGSQPLSVRLA 85

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]} Length = 78

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 48.0 bits (114), Expect = 1e-07
 Identities = 17/79 (21%), Positives = 34/79 (43%), Gaps = 5/79 (6%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+ V  L F +    +   F + FG ++ A V   ++ +     G   V F+ +  A  A
Sbjct: 2   KLLVSNLDFGVSDADIQELFAE-FGTLKKAAVHYDRSGRS---LGTADVHFERKADALKA 57

Query: 609 VQA-RFVTIMGKEVEIKSA 626
           ++    V + G+ + I+  
Sbjct: 58  MKQYNGVPLDGRPMNIQLV 76

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.8 bits (113), Expect = 1e-07
 Identities = 18/85 (21%), Positives = 35/85 (41%), Gaps = 11/85 (12%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           +K+++G L   + +D L   F          +V            G+ FV +  +  A  
Sbjct: 2   NKLYIGNLSPAVTADDLRQLFGD-RKLPLAGQVLLK--------SGYAFVDYPDQNWAIR 52

Query: 608 AVQA--RFVTIMGKEVEIKSAVPKE 630
           A++     V + GK +E+  +V K+
Sbjct: 53  AIETLSGKVELHGKIMEVDYSVSKK 77

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.1 bits (114), Expect = 1e-07
 Identities = 19/83 (22%), Positives = 35/83 (42%), Gaps = 4/83 (4%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            ++VGGL   +    L   F +  GP+ +      +       +G+GFV F  E+ A  A
Sbjct: 11  TVYVGGLDEKVSEPLLWELFLQ-AGPVVNTH--MPKDRVTGQHQGYGFVEFLSEEDADYA 67

Query: 609 VQA-RFVTIMGKEVEIKSAVPKE 630
           ++    + + GK + +  A    
Sbjct: 68  IKIMDMIKLYGKPIRVNKASAHN 90

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 47.4 bits (112), Expect = 2e-07
 Identities = 17/82 (20%), Positives = 32/82 (39%), Gaps = 3/82 (3%)

Query: 549 KIFVGGLPF-FLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           +I +  L    LD + L   FE      +    A  +      +    F+ F+++ SA  
Sbjct: 6   EIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSF--NNCCAFMVFENKDSAER 63

Query: 608 AVQARFVTIMGKEVEIKSAVPK 629
           A+Q     +  +E+ +  A  K
Sbjct: 64  ALQMNRSLLGNREISVSLADKK 85

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.0 bits (111), Expect = 3e-07
 Identities = 25/86 (29%), Positives = 38/86 (44%), Gaps = 4/86 (4%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
           K  ++VGGL   +D   L   F   FG I D +       +    RGF FV F+  + AA
Sbjct: 5   KRVLYVGGLAEEVDDKVLHAAFIP-FGDITDIQ--IPLDYETEKHRGFAFVEFELAEDAA 61

Query: 607 AAVQA-RFVTIMGKEVEIKSAVPKEV 631
           AA+       + G+ + +  A P  +
Sbjct: 62  AAIDNMNESELFGRTIRVNLAKPMRI 87

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.0 bits (111), Expect = 3e-07
 Identities = 27/83 (32%), Positives = 43/83 (51%), Gaps = 4/83 (4%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           K+FVGGL F  +  SL   F K+    E   V + +T++    RGFGFVTF++   A  A
Sbjct: 7   KLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRS---RGFGFVTFENIDDAKDA 63

Query: 609 VQA-RFVTIMGKEVEIKSAVPKE 630
           + A    ++ G+++ +  A    
Sbjct: 64  MMAMNGKSVDGRQIRVDQAGKSS 86

>d2fo1e1 d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Lin-12
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 50.1 bits (118), Expect = 5e-07
 Identities = 22/129 (17%), Positives = 41/129 (31%), Gaps = 3/129 (2%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGI 350
           P+ L T+A     I   +  ++++I D        + LH     S       L       
Sbjct: 3   PIKLHTEAAGSYAITEPITRESVNIID---PRHNRTVLHWIASNSSAEKSEDLIVHEAKE 59

Query: 351 LLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKND 410
            +  GA V+  +    T L +A  +   + +  L++   D               A   D
Sbjct: 60  CIAAGADVNAMDCDENTPLMLAVLARRRRLVAYLMKAGADPTIYNKSERSALHQAAANRD 119

Query: 411 HMVCAEVLL 419
             +   +L 
Sbjct: 120 FGMMVYMLN 128

>d2fo1e1 d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Lin-12
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 49.7 bits (117), Expect = 7e-07
 Identities = 27/159 (16%), Positives = 60/159 (37%), Gaps = 7/159 (4%)

Query: 299 GDEDVIEILLKSKNIDINDADADADGNSALHCALKTS---MGLSQHILQNRIVGILLKHG 355
            D  ++  +L S  +  +  + D +G +AL             S  +L  +   +     
Sbjct: 118 RDFGMMVYMLNSTKLKGDIEELDRNGMTALMIVAHNEGRDQVASAKLLVEKGAKVDYDGA 177

Query: 356 AIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCA 415
           A    +   G TALH AA   N   ++ L+ ++    + +    +TP+  A +   +   
Sbjct: 178 ARKDSEKYKGRTALHYAAQVSNMPIVKYLVGEKGSNKDKQDEDGKTPIMLAAQEGRIEVV 237

Query: 416 EVLLRWGANSEVLNLRRERPIDFAKSQD----MRFLLKA 450
             L++ GA+ E ++         A++ +    +    + 
Sbjct: 238 MYLIQQGASVEAVDATDHTARQLAQANNHHNIVDIFDRC 276

>d2fo1e1 d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Lin-12
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 42.0 bits (97), Expect = 2e-04
 Identities = 9/54 (16%), Positives = 23/54 (42%), Gaps = 2/54 (3%)

Query: 93  SSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVI 146
             G T + LAA+      V  L+++ A  +            +L+ +++  +++
Sbjct: 219 EDGKTPIMLAAQEGRIEVVMYLIQQGASVEAVDATDHT--ARQLAQANNHHNIV 270

>d2fo1e1 d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Lin-12
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 41.3 bits (95), Expect = 3e-04
 Identities = 13/53 (24%), Positives = 24/53 (45%), Gaps = 3/53 (5%)

Query: 279 ANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCA 331
           +N    D+    P++LA Q G  +V+  L+  +   +     DA  ++A   A
Sbjct: 212 SNKDKQDEDGKTPIMLAAQEGRIEVVMYLI-QQGASVE--AVDATDHTARQLA 261

>d2fo1e1 d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Lin-12
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 39.3 bits (90), Expect = 0.002
 Identities = 16/72 (22%), Positives = 30/72 (41%), Gaps = 6/72 (8%)

Query: 87  VNEVEESSGMTALHLAAESHTARCVELLLKKRART------DIRSKDGRRLLPLELSLSS 140
           VN ++     T LH  A + +A   E L+   A+       D+ + D     PL L++ +
Sbjct: 25  VNIIDPRHNRTVLHWIASNSSAEKSEDLIVHEAKECIAAGADVNAMDCDENTPLMLAVLA 84

Query: 141 SRMDVIWNPDEY 152
            R  ++    + 
Sbjct: 85  RRRRLVAYLMKA 96

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.2 bits (109), Expect = 5e-07
 Identities = 17/83 (20%), Positives = 30/83 (36%), Gaps = 10/83 (12%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            ++V  L      + +   F     P    RV           R + FV F + + A  A
Sbjct: 10  ILYVRNLMLSTSEEMIEKEFNNIK-PGAVERV--------KKIRDYAFVHFSNREDAVEA 60

Query: 609 VQA-RFVTIMGKEVEIKSAVPKE 630
           ++A     + G  +E+  A P +
Sbjct: 61  MKALNGKVLDGSPIEVTLAKPVD 83

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 45.8 bits (108), Expect = 7e-07
 Identities = 20/83 (24%), Positives = 33/83 (39%), Gaps = 4/83 (4%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
            + + V  LP  +    L   F    GPI        +  K   S G+ FV F  E  + 
Sbjct: 2   NTNLIVNYLPQDMTDRELYALFRA-IGPINT--CRIMRDYKTGYSYGYAFVDFTSEMDSQ 58

Query: 607 AAVQA-RFVTIMGKEVEIKSAVP 628
            A++    +T+  K +++  A P
Sbjct: 59  RAIKVLNGITVRNKRLKVSYARP 81

>d1ixva_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 229

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 49.0 bits (115), Expect = 9e-07
 Identities = 27/121 (22%), Positives = 55/121 (45%), Gaps = 1/121 (0%)

Query: 329 HCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKE 388
                T + L+       +   L+++GA V  ++K     LH AA  G+ + +E L    
Sbjct: 102 TNQGVTCLHLAVGKKWFEVSQFLIENGASVRIKDKFNQIPLHRAASVGSLKLIELLCGLG 161

Query: 389 PDCINLKTIMMETPLFFAVKNDHMVCAEVLL-RWGANSEVLNLRRERPIDFAKSQDMRFL 447
              +N +     TPLF A+   H   A +L+ ++GA  ++++ +  +  D A ++ ++  
Sbjct: 162 KSAVNWQDKQGWTPLFHALAEGHGDAAVLLVEKYGAEYDLVDNKGAKAEDVALNEQVKKF 221

Query: 448 L 448
            
Sbjct: 222 F 222

>d1ixva_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 229

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 48.7 bits (114), Expect = 1e-06
 Identities = 11/56 (19%), Positives = 19/56 (33%)

Query: 367 TALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWG 422
             LH A        +++L+  +P  +  K      PL ++V          LL   
Sbjct: 2   YPLHQACMENEFFKVQELLHSKPSLLLQKDQDGRIPLHWSVSFQAHEITSFLLSKM 57

>d1ixva_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 229

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 43.7 bits (101), Expect = 5e-05
 Identities = 12/41 (29%), Positives = 17/41 (41%), Gaps = 2/41 (4%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCA 331
           PL  A    +   ++ LL SK   +     D DG   LH +
Sbjct: 3   PLHQACMENEFFKVQELLHSKPSLLL--QKDQDGRIPLHWS 41

>d1ixva_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 229

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 41.0 bits (94), Expect = 3e-04
 Identities = 13/97 (13%), Positives = 28/97 (28%), Gaps = 7/97 (7%)

Query: 325 NSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDL 384
           N  LH A              ++  +L    +++ Q+++ G   LH +      +    L
Sbjct: 1   NYPLHQA-------CMENEFFKVQELLHSKPSLLLQKDQDGRIPLHWSVSFQAHEITSFL 53

Query: 385 IRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRW 421
           + K  +              F +         V   +
Sbjct: 54  LSKMENVNLDDYPDDSGWTPFHIACSVGNLEVVKSLY 90

>d1ixva_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 229

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 40.6 bits (93), Expect = 4e-04
 Identities = 14/74 (18%), Positives = 23/74 (31%), Gaps = 13/74 (17%)

Query: 283 CTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHI 342
             DK+   PL  A   G  D   +L++    + +    D  G  A   A           
Sbjct: 167 WQDKQGWTPLFHALAEGHGDAAVLLVEKYGAEYD--LVDNKGAKAEDVA----------- 213

Query: 343 LQNRIVGILLKHGA 356
           L  ++    L +  
Sbjct: 214 LNEQVKKFFLNNVV 227

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 99

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 45.9 bits (108), Expect = 1e-06
 Identities = 15/84 (17%), Positives = 28/84 (33%), Gaps = 4/84 (4%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
            ++FV  L +    + L   F  +        +           +GF FVTF   + A  
Sbjct: 9   GRLFVRNLSYTSSEEDLEKLFSAYGPLS---ELHYPIDSLTKKPKGFAFVTFMFPEHAVK 65

Query: 608 AVQA-RFVTIMGKEVEIKSAVPKE 630
           A          G+ + +  +  K+
Sbjct: 66  AYAEVDGQVFQGRMLHVLPSTIKK 89

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 45.4 bits (107), Expect = 1e-06
 Identities = 15/81 (18%), Positives = 28/81 (34%), Gaps = 4/81 (4%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
            + I V  +PF +  D +  +F  +        +   +        G   V F+    A 
Sbjct: 9   PTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGM---PTGEAMVAFESRDEAT 65

Query: 607 AAVQAR-FVTIMGKEVEIKSA 626
           AAV       I  ++V++   
Sbjct: 66  AAVIDLNDRPIGSRKVKLVLG 86

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]} Length = 81

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 45.3 bits (107), Expect = 1e-06
 Identities = 12/86 (13%), Positives = 25/86 (29%), Gaps = 11/86 (12%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           + + V G P    S  L       F                S +  +  + ++ +  A  
Sbjct: 5   TWVTVFGFPQASASYIL-----LQFAQY-----GNILKHVMSNTGNWMHIRYQSKLQARK 54

Query: 608 AVQARFVTIMGKE-VEIKSAVPKEVL 632
           A+            + +K  + K V+
Sbjct: 55  ALSKDGRIFGESIMIGVKPCIDKNVM 80

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.9 bits (108), Expect = 1e-06
 Identities = 15/82 (18%), Positives = 32/82 (39%), Gaps = 3/82 (3%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
             F+G LP+ +  +S+  +F                 E+    +GFG+  F+   S  +A
Sbjct: 17  TAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPER---LKGFGYAEFEDLDSLLSA 73

Query: 609 VQARFVTIMGKEVEIKSAVPKE 630
           +     ++  K + +  A   +
Sbjct: 74  LSLNEESLGNKRIRVDVADQAQ 95

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.3 bits (107), Expect = 1e-06
 Identities = 15/84 (17%), Positives = 32/84 (38%), Gaps = 4/84 (4%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
             ++VG L F+   + +   F K  G I+   +   + +K   + GF FV +     A  
Sbjct: 8   CTLYVGNLSFYTTEEQIYELFSK-SGDIKKIIMGLDKMKKT--ACGFCFVEYYSRADAEN 64

Query: 608 AVQA-RFVTIMGKEVEIKSAVPKE 630
           A++      +  + +        +
Sbjct: 65  AMRYINGTRLDDRIIRTDWDAGFK 88

>d1dcqa1 d.211.1.1 (A:369-522) Pyk2-associated protein beta {Mouse (Mus musculus) [TaxId: 10090]} Length = 154

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Pyk2-associated protein beta
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 46.5 bits (109), Expect = 2e-06
 Identities = 32/138 (23%), Positives = 60/138 (43%), Gaps = 11/138 (7%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDIND----ADADADGNSALHCALKTSMGLSQHILQNR 346
            L  A +  D   +     +  +D+ +    A+      +ALH A+++    S HI+   
Sbjct: 9   SLCEAVKTRDIFGLLQAY-ADGVDLTEKIPLANGHEPDETALHLAVRSVDRTSLHIVD-- 65

Query: 347 IVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFA 406
               L+++   + +Q   G TALH    + N++ L+ L+R +     +     ETPL  A
Sbjct: 66  ---FLVQNSGNLDKQTGKGSTALHYCCLTDNAECLKLLLRGKASI-EIANESGETPLDIA 121

Query: 407 VKNDHMVCAEVLLRWGAN 424
            +  H  C E+L +  + 
Sbjct: 122 KRLKHEHCEELLTQALSG 139

>d1dcqa1 d.211.1.1 (A:369-522) Pyk2-associated protein beta {Mouse (Mus musculus) [TaxId: 10090]} Length = 154

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Pyk2-associated protein beta
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 41.1 bits (95), Expect = 1e-04
 Identities = 34/145 (23%), Positives = 61/145 (42%), Gaps = 21/145 (14%)

Query: 322 ADGNSALHCALKTSMGLSQHILQNRIVGI--LLKHGAIVSQQ------NKLGLTALHIAA 373
           AD  + LH        L + +    I G+      G  ++++      ++   TALH+A 
Sbjct: 1   ADTAAKLHS-------LCEAVKTRDIFGLLQAYADGVDLTEKIPLANGHEPDETALHLAV 53

Query: 374 GSGNSQALE--DLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLR 431
            S +  +L   D + +    ++ +T    T L +    D+  C ++LLR  A+ E+ N  
Sbjct: 54  RSVDRTSLHIVDFLVQNSGNLDKQTGKGSTALHYCCLTDNAECLKLLLRGKASIEIANES 113

Query: 432 RERPIDFAKSQD----MRFLLKAAN 452
            E P+D AK          L +A +
Sbjct: 114 GETPLDIAKRLKHEHCEELLTQALS 138

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.3 bits (104), Expect = 3e-06
 Identities = 20/78 (25%), Positives = 31/78 (39%), Gaps = 4/78 (5%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           + ++V GLP  +    L   F + +G I  +R      +   VSRG GF+ F     A  
Sbjct: 7   ANLYVSGLPKTMTQKELEQLFSQ-YGRIITSR--ILVDQVTGVSRGVGFIRFDKRIEAEE 63

Query: 608 AVQA-RFVTIMGKEVEIK 624
           A++        G    I 
Sbjct: 64  AIKGLNGQKPSGATEPIT 81

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]} Length = 91

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.3 bits (104), Expect = 3e-06
 Identities = 18/91 (19%), Positives = 32/91 (35%), Gaps = 3/91 (3%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
              I++  L   +  D L       F         +    +    RG  FV FK   SA 
Sbjct: 3   NHTIYINNLNEKIKKDELKKSLHAIFSRFGQIL--DILVSRSLKMRGQAFVIFKEVSSAT 60

Query: 607 AAVQA-RFVTIMGKEVEIKSAVPKEVLFAEL 636
            A+++ +      K + I+ A     + A++
Sbjct: 61  NALRSMQGFPFYDKPMRIQYAKTDSDIIAKM 91

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 91

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

 Score = 44.6 bits (104), Expect = 3e-06
 Identities = 17/92 (18%), Positives = 36/92 (39%), Gaps = 4/92 (4%)

Query: 538 MIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFV 597
           M+  S       +F+G L        L     +      D  V + +T     +R FG+V
Sbjct: 4   MVEGSESTTPFNLFIGNLNPNKSVAELKVAISEL-FAKNDLAVVDVRTGT---NRKFGYV 59

Query: 598 TFKHEKSAAAAVQARFVTIMGKEVEIKSAVPK 629
            F+  +    A++   + + G E++++    +
Sbjct: 60  DFESAEDLEKALELTGLKVFGNEIKLEKPKGR 91

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 44.2 bits (104), Expect = 3e-06
 Identities = 19/87 (21%), Positives = 38/87 (43%), Gaps = 10/87 (11%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
           +S++FVG LP  +  + +   FEK +G   +  + + +         FGF+  +    A 
Sbjct: 8   RSRLFVGNLPPDITEEEMRKLFEK-YGKAGEVFIHKDKG--------FGFIRLETRTLAE 58

Query: 607 AAVQA-RFVTIMGKEVEIKSAVPKEVL 632
            A      + + GK++ ++ A     L
Sbjct: 59  IAKVELDNMPLRGKQLRVRFACHSASL 85

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.8 bits (105), Expect = 3e-06
 Identities = 12/85 (14%), Positives = 27/85 (31%), Gaps = 3/85 (3%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
           K    +  +PF +    +  + E                +      G   V FK+E  A 
Sbjct: 8   KVCAHITNIPFSITKMDVLQFLEGIPVDE---NAVHVLVDNNGQGLGQALVQFKNEDDAR 64

Query: 607 AAVQARFVTIMGKEVEIKSAVPKEV 631
            + +     + G+E  +     +++
Sbjct: 65  KSERLHRKKLNGREAFVHVVTLEDM 89

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

 Score = 44.3 bits (104), Expect = 3e-06
 Identities = 15/82 (18%), Positives = 28/82 (34%), Gaps = 9/82 (10%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            +    L F +  D L   FE        ++  + +        G  ++ FK E  A   
Sbjct: 18  TLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSK--------GIAYIEFKSEADAEKN 69

Query: 609 VQA-RFVTIMGKEVEIKSAVPK 629
           ++  +   I G+ V +     K
Sbjct: 70  LEEKQGAEIDGRSVSLYYTGEK 91

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.9 bits (103), Expect = 4e-06
 Identities = 18/82 (21%), Positives = 36/82 (43%), Gaps = 6/82 (7%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           ++ V  +PF      L   F +    ++           +  S+GFGFVTF++   A  A
Sbjct: 13  RLHVSNIPFRFRDPDLRQMFGQFGKILDV-----EIIFNERGSKGFGFVTFENSADADRA 67

Query: 609 VQA-RFVTIMGKEVEIKSAVPK 629
            +      + G+++E+ +A  +
Sbjct: 68  REKLHGTVVEGRKIEVNNATAR 89

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.9 bits (103), Expect = 4e-06
 Identities = 16/84 (19%), Positives = 27/84 (32%), Gaps = 4/84 (4%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           + I V  L        L   F             +  T +   S+GF F++F   + AA 
Sbjct: 9   ATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQ---SKGFAFISFHRREDAAR 65

Query: 608 AVQA-RFVTIMGKEVEIKSAVPKE 630
           A+            + ++ A P  
Sbjct: 66  AIAGVSGFGYDHLILNVEWAKPST 89

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.0 bits (103), Expect = 4e-06
 Identities = 18/90 (20%), Positives = 37/90 (41%), Gaps = 8/90 (8%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSV------SRGFGFVTFKH 601
           S I+V GL   +  D L  +F++  G ++  +          +       +G   V+++ 
Sbjct: 9   SAIYVQGLNDSVTLDDLADFFKQ-CGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYED 67

Query: 602 EKSAAAAVQA-RFVTIMGKEVEIKSAVPKE 630
             +A AAV+        G ++++  A  K 
Sbjct: 68  PPTAKAAVEWFDGKDFQGSKLKVSLARKKP 97

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CUG triplet repeat RNA-binding protein 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.3 bits (104), Expect = 5e-06
 Identities = 20/84 (23%), Positives = 35/84 (41%), Gaps = 4/84 (4%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           + +F+  LP       L   F      +      + QT     S+ FGFV++ +  SA A
Sbjct: 19  ANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNL---SKCFGFVSYDNPVSAQA 75

Query: 608 AVQA-RFVTIMGKEVEIKSAVPKE 630
           A+Q+     I  K ++++    K 
Sbjct: 76  AIQSMNGFQIGMKRLKVQLKRSKN 99

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.2 bits (101), Expect = 6e-06
 Identities = 12/80 (15%), Positives = 25/80 (31%), Gaps = 4/80 (5%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
              +++ G P     D +  + E     +      + +       +G  FV F   +SA 
Sbjct: 6   NRSVYIKGFPTDATLDDIKEWLEDKGQVLNI----QMRRTLHKAFKGSIFVVFDSIESAK 61

Query: 607 AAVQARFVTIMGKEVEIKSA 626
             V+         ++ I   
Sbjct: 62  KFVETPGQKYKETDLLILFK 81

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.1 bits (101), Expect = 7e-06
 Identities = 18/83 (21%), Positives = 39/83 (46%), Gaps = 6/83 (7%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            IF+  L   +D+ +L   F    G I   +V   +      S+G+GFV F+ +++A  A
Sbjct: 10  NIFIKNLDKSIDNKALYDTFSAF-GNILSCKVVCDENG----SKGYGFVHFETQEAAERA 64

Query: 609 VQA-RFVTIMGKEVEIKSAVPKE 630
           ++    + +  ++V +     ++
Sbjct: 65  IEKMNGMLLNDRKVFVGRFKSRK 87

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.6 bits (102), Expect = 7e-06
 Identities = 15/89 (16%), Positives = 36/89 (40%), Gaps = 10/89 (11%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            +F+  L F  + ++LG   ++         V          S+G  F  F  +++A   
Sbjct: 10  TVFIRNLSFDSEEEALGEVLQQFGDLKY---VRVVLHPDTEHSKGCAFAQFMTQEAAQKC 66

Query: 609 VQA-------RFVTIMGKEVEIKSAVPKE 630
           + A         + + G+++++  AV ++
Sbjct: 67  LAAASLEAEGGGLKLDGRQLKVDLAVTRD 95

>d1awcb_ d.211.1.1 (B:) GA bindinig protein (GABP) beta 1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 153

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: GA bindinig protein (GABP) beta 1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 44.5 bits (103), Expect = 1e-05
 Identities = 34/153 (22%), Positives = 63/153 (41%), Gaps = 24/153 (15%)

Query: 288 VGPPLILATQAGDEDVIEILLKSKNIDIN----------------------DADADADGN 325
           +G  L+ A +AG +D + IL+ +                                     
Sbjct: 2   LGKKLLEAARAGQDDEVRILM-ANGAPFTTDWLGTSPLHLAAQYGHFSTTEVLLRAGVSR 60

Query: 326 SALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLI 385
            A     +T + ++       IV +LLKHGA V+ ++ L +TALH A    + + +E LI
Sbjct: 61  DARTKVDRTPLHMAASEGHANIVEVLLKHGADVNAKDMLKMTALHWATEHNHQEVVELLI 120

Query: 386 RKEPDCINLKTIMMETPLFFAVKNDHMVCAEVL 418
           +   D ++ ++   +T    ++ N +   AE+L
Sbjct: 121 KYGAD-VHTQSKFCKTAFDISIDNGNEDLAEIL 152

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]} Length = 112

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.0 bits (100), Expect = 1e-05
 Identities = 20/91 (21%), Positives = 39/91 (42%), Gaps = 3/91 (3%)

Query: 542 STQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKH 601
           S  E    +++ GLPF  ++  +  +F+K     +   +A     K     G GFV F++
Sbjct: 13  SPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKA---TGEGFVEFRN 69

Query: 602 EKSAAAAVQARFVTIMGKEVEIKSAVPKEVL 632
           E    AA+      +  + +++     K +L
Sbjct: 70  EADYKAALCRHKQYMGNRFIQVHPITKKGML 100

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.0 bits (98), Expect = 1e-05
 Identities = 19/83 (22%), Positives = 34/83 (40%), Gaps = 4/83 (4%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAA 606
           K+ + V  LP  +  +     F    G IE  +    + +    S G+GFV +   K A 
Sbjct: 2   KTNLIVNYLPQNMTQEEFRSLF-GSIGEIESCK--LVRDKITGQSLGYGFVNYIDPKDAE 58

Query: 607 AAVQA-RFVTIMGKEVEIKSAVP 628
            A+     + +  K +++  A P
Sbjct: 59  KAINTLNGLRLQTKTIKVSYARP 81

>d1k1aa_ d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId: 9606]} Length = 228

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: bcl-3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.2 bits (105), Expect = 1e-05
 Identities = 32/194 (16%), Positives = 60/194 (30%), Gaps = 12/194 (6%)

Query: 365 GLTALHIAAGSGNSQALEDLIRKEPDC---INLKTIMMETPLFFAVKNDHMVCAEVLLRW 421
           G T LHIA   GN  A+  L+         +++   + +TPL  AV         +L+  
Sbjct: 3   GDTPLHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNLRQTPLHLAVITTLPSVVRLLVTA 62

Query: 422 GANSEVLNLRRERPIDFA-----KSQDMRFLLKAANTCHTNLAFLNQEKQNASLESDEDI 476
           GA+   L+   +     A      +     L  AA       A          +  + + 
Sbjct: 63  GASPMALDRHGQTAAHLACEHRSPTCLRALLDSAAPGTLDLEARNYDGLTALHVAVNTEC 122

Query: 477 SGTCEALLSMVDDNSNTERICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGM 536
             T + LL    D                  +   +  +   +     G   + +M  G 
Sbjct: 123 QETVQLLLERGADI----DAVDIKSGRSPLIHAVENNSLSMVQLLLQHGANVNAQMYSGS 178

Query: 537 CMIHASTQEFKSKI 550
             +H+++      +
Sbjct: 179 SALHSASGRGLLPL 192

>d1k1aa_ d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId: 9606]} Length = 228

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: bcl-3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.8 bits (96), Expect = 2e-04
 Identities = 9/31 (29%), Positives = 14/31 (45%)

Query: 347 IVGILLKHGAIVSQQNKLGLTALHIAAGSGN 377
           +V  L++ GA  S +N    T L +A     
Sbjct: 192 LVRTLVRSGADSSLKNCHNDTPLMVARSRRV 222

>d1k1aa_ d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId: 9606]} Length = 228

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: bcl-3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.0 bits (94), Expect = 4e-04
 Identities = 35/204 (17%), Positives = 73/204 (35%), Gaps = 39/204 (19%)

Query: 291 PLILATQAGDEDVIEILLK---SKNIDINDADADADGNSALHCALKTSMGLSQHILQNRI 347
           PL +A   G+   +  L+        +++    +    + LH A+ T++     +L    
Sbjct: 6   PLHIAVVQGNLPAVHRLVNLFQQGGRELD--IYNNLRQTPLHLAVITTLPSVVRLLVTAG 63

Query: 348 VGI-----------------------------LLKHGAIVSQQNKLGLTALHIAAGSGNS 378
                                                  +  +N  GLTALH+A  +   
Sbjct: 64  ASPMALDRHGQTAAHLACEHRSPTCLRALLDSAAPGTLDLEARNYDGLTALHVAVNTECQ 123

Query: 379 QALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDF 438
           + ++ L+ +  D   +      +PL  AV+N+ +   ++LL+ GAN           +  
Sbjct: 124 ETVQLLLERGADIDAVDIKSGRSPLIHAVENNSLSMVQLLLQHGANVNAQMYSGSSALHS 183

Query: 439 AKSQD----MRFLLKA-ANTCHTN 457
           A  +     +R L+++ A++   N
Sbjct: 184 ASGRGLLPLVRTLVRSGADSSLKN 207

>d1k1aa_ d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId: 9606]} Length = 228

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: bcl-3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.4 bits (90), Expect = 0.001
 Identities = 21/102 (20%), Positives = 37/102 (36%), Gaps = 5/102 (4%)

Query: 323 DGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALE 382
           DG++ LH A    +  +   +  R+V +  + G  +   N L  T LH+ A      ++ 
Sbjct: 2   DGDTPLHIA---VVQGNLPAVH-RLVNLFQQGGRELDIYNNLRQTPLHL-AVITTLPSVV 56

Query: 383 DLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN 424
            L+              +T    A ++    C   LL   A 
Sbjct: 57  RLLVTAGASPMALDRHGQTAAHLACEHRSPTCLRALLDSAAP 98

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.6 bits (97), Expect = 2e-05
 Identities = 19/77 (24%), Positives = 32/77 (41%), Gaps = 4/77 (5%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
             + V GL  +     L   F   +GPI D        ++   SRGF FV F++   A  
Sbjct: 10  CCLGVFGLSLYTTERDLREVFS-KYGPIADVS--IVYDQQSRRSRGFAFVYFENVDDAKE 66

Query: 608 AVQA-RFVTIMGKEVEI 623
           A +    + + G+ + +
Sbjct: 67  AKERANGMELDGRRIRV 83

>d1ot8a_ d.211.1.1 (A:) Neurogenic locus notch receptor domain {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 209

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Neurogenic locus notch receptor domain
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 44.4 bits (103), Expect = 2e-05
 Identities = 43/194 (22%), Positives = 69/194 (35%), Gaps = 25/194 (12%)

Query: 269 IELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSAL 328
           I  L   GA  N +  DK     L LA +    D  + LL +     +  +       A 
Sbjct: 5   ISDLLAQGAELN-ATMDKTGETSLHLAARFARADAAKRLLDAGADANSQDNTGRTPLHAA 63

Query: 329 H-----------------------CALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLG 365
                                       T + L+  +    +V  L+   A ++  +  G
Sbjct: 64  VAADAMGVFQILLRNRATNLNARMHDGTTPLILAARLAIEGMVEDLITADADINAADNSG 123

Query: 366 LTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANS 425
            TALH AA   N++A+  L+    +  + +    ETPLF A +      ++ LL   AN 
Sbjct: 124 KTALHWAAAVNNTEAVNILLMHHANR-DAQDDKDETPLFLAAREGSYEASKALLDNFANR 182

Query: 426 EVLNLRRERPIDFA 439
           E+ +     P D A
Sbjct: 183 EITDHMDRLPRDVA 196

>d1ot8a_ d.211.1.1 (A:) Neurogenic locus notch receptor domain {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 209

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Neurogenic locus notch receptor domain
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 43.2 bits (100), Expect = 5e-05
 Identities = 6/54 (11%), Positives = 16/54 (29%)

Query: 329 HCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALE 382
               +T + L+           LL + A     + +      +A+   +   + 
Sbjct: 153 DDKDETPLFLAAREGSYEASKALLDNFANREITDHMDRLPRDVASERLHHDIVR 206

>d1ot8a_ d.211.1.1 (A:) Neurogenic locus notch receptor domain {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 209

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Neurogenic locus notch receptor domain
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 43.2 bits (100), Expect = 5e-05
 Identities = 15/70 (21%), Positives = 28/70 (40%), Gaps = 1/70 (1%)

Query: 346 RIVGILLKHGA-IVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLF 404
           +++  LL  GA + +  +K G T+LH+AA    + A + L+    D  +           
Sbjct: 3   QVISDLLAQGAELNATMDKTGETSLHLAARFARADAAKRLLDAGADANSQDNTGRTPLHA 62

Query: 405 FAVKNDHMVC 414
               +   V 
Sbjct: 63  AVAADAMGVF 72

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.2 bits (96), Expect = 3e-05
 Identities = 20/82 (24%), Positives = 35/82 (42%), Gaps = 6/82 (7%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            ++VG L   +    +   F +  GP +          + + +  + FV F   + AAAA
Sbjct: 10  TLYVGNLSRDVTEVLILQLFSQ-IGPCKSC----KMITEHTSNDPYCFVEFYEHRDAAAA 64

Query: 609 VQA-RFVTIMGKEVEIKSAVPK 629
           + A     I+GKEV++  A   
Sbjct: 65  LAAMNGRKILGKEVKVNWATTP 86

>d1bd8a_ d.211.1.1 (A:) Cell cycle inhibitor p19ink4D {Human (Homo sapiens) [TaxId: 9606]} Length = 156

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Cell cycle inhibitor p19ink4D
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.9 bits (99), Expect = 4e-05
 Identities = 21/155 (13%), Positives = 49/155 (31%), Gaps = 24/155 (15%)

Query: 287 KVGPPLILATQAGDEDVIEILLKSKNIDINDADAD----------------------ADG 324
           + G  L  A   GD   +  LL  + +  +  +                           
Sbjct: 1   RAGDRLSGAAARGDVQEVRRLLHRELVHPDALNRFGKTALQVMMFGSTAIALELLKQGAS 60

Query: 325 NSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDL 384
            +    +  + +  +        + +L++HGA V+  +  G   +H+A   G++      
Sbjct: 61  PNVQDTSGTSPVHDAARTGFLDTLKVLVEHGADVNVPDGTGALPIHLAVQEGHTA--VVS 118

Query: 385 IRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLL 419
                  ++ +     TPL  A++       ++L 
Sbjct: 119 FLAAESDLHRRDARGLTPLELALQRGAQDLVDILQ 153

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 40.9 bits (95), Expect = 5e-05
 Identities = 17/81 (20%), Positives = 32/81 (39%), Gaps = 4/81 (4%)

Query: 550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAV 609
           +FV  +      D +   F  +    E   +      +   S+G+  V ++  K A AA 
Sbjct: 10  LFVTSIHEEAQEDEIQEKFCDYG---EIKNIHLNLDRRTGFSKGYALVEYETHKQALAAK 66

Query: 610 QA-RFVTIMGKEVEIKSAVPK 629
           +A     IMG+ +++     K
Sbjct: 67  EALNGAEIMGQTIQVDWCFVK 87

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.7 bits (95), Expect = 5e-05
 Identities = 20/83 (24%), Positives = 31/83 (37%), Gaps = 10/83 (12%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
             ++ GG+   L    +   F   FG I + RV   +         + FV F   +SAA 
Sbjct: 19  CTVYCGGIASGLTDQLMRQTFSP-FGQIMEIRVFPEKG--------YSFVRFSTHESAAH 69

Query: 608 AVQA-RFVTIMGKEVEIKSAVPK 629
           A+ +    TI G  V+       
Sbjct: 70  AIVSVNGTTIEGHVVKCYWGKES 92

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.3 bits (96), Expect = 5e-05
 Identities = 12/83 (14%), Positives = 34/83 (40%), Gaps = 4/83 (4%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            +FVG +P+    + L    +                 +    +G+GF  ++ +++A +A
Sbjct: 10  SVFVGNIPYEATEEQL---KDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSA 66

Query: 609 VQA-RFVTIMGKEVEIKSAVPKE 630
           ++        G+ + + +A  ++
Sbjct: 67  MRNLNGREFSGRALRVDNAASEK 89

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 108

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.2 bits (96), Expect = 6e-05
 Identities = 12/86 (13%), Positives = 26/86 (30%), Gaps = 10/86 (11%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
           +I V  L + +  D L   F K  G +               ++    + +    SA  A
Sbjct: 9   RIIVENLFYPVTLDVLHQIFSKF-GTVLKIITFTKN------NQFQALLQYADPVSAQHA 61

Query: 609 VQA---RFVTIMGKEVEIKSAVPKEV 631
             +   + +      + I  +    +
Sbjct: 62  KLSLDGQNIYNACCTLRIDFSKLTSL 87

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.4 bits (91), Expect = 1e-04
 Identities = 16/79 (20%), Positives = 29/79 (36%), Gaps = 5/79 (6%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
           + + V  LP   + + +  YF+   GPI    VA+   +       F  + F     A A
Sbjct: 1   TTVLVKNLPKSYNQNKVYKYFKH-CGPIIHVDVADSLKKN----FRFARIEFARYDGALA 55

Query: 608 AVQARFVTIMGKEVEIKSA 626
           A+      +   E+ +   
Sbjct: 56  AITKTHKVVGQNEIIVSHL 74

>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.2 bits (93), Expect = 1e-04
 Identities = 18/84 (21%), Positives = 32/84 (38%), Gaps = 3/84 (3%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
             + + GLPF    + +   F      + +        + Q  S G  FV F  ++ A  
Sbjct: 16  GFVRLRGLPFGCSKEEIV-QFFSGLEIVPNGM--TLPVDFQGRSTGEAFVQFASQEIAEK 72

Query: 608 AVQARFVTIMGKEVEIKSAVPKEV 631
           A++     I  + +EI  +   EV
Sbjct: 73  ALKKHKERIGHRYIEIFKSSRAEV 96

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 95

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.7 bits (92), Expect = 2e-04
 Identities = 19/83 (22%), Positives = 32/83 (38%), Gaps = 7/83 (8%)

Query: 548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAA 607
            +I+VG LP  + +  +   F K+ G I D  +       +     F FV F+  + A  
Sbjct: 15  CRIYVGNLPPDIRTKDIEDVFYKY-GAIRDIDLK-----NRRGGPPFAFVEFEDPRDAED 68

Query: 608 AVQAR-FVTIMGKEVEIKSAVPK 629
           AV  R      G  + ++     
Sbjct: 69  AVYGRDGYDYDGYRLRVEFPRSG 91

>d1m9oa_ g.66.1.1 (A:) Tristetraproline (ttp, tis11, nup475) {Mouse (Mus musculus) [TaxId: 10090]} Length = 40

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Tristetraproline (ttp, tis11, nup475)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.8 bits (88), Expect = 2e-04
 Identities = 12/33 (36%), Positives = 18/33 (54%)

Query: 501 KIEVCKYYESHSGCIRGSKCFYALGEEQHRKMN 533
           K E+C+ Y     C  G+KC +A G  + R+ N
Sbjct: 8   KTELCRTYSESGRCRYGAKCQFAHGLGELRQAN 40

>d1iknd_ d.211.1.1 (D:) I-kappa-B-alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 221

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: I-kappa-B-alpha
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.8 bits (96), Expect = 2e-04
 Identities = 14/72 (19%), Positives = 32/72 (44%), Gaps = 8/72 (11%)

Query: 323 DGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALE 382
           +G +ALH         +  +    +V +LLK GA V++    G +   +  G  +++  +
Sbjct: 144 NGRTALHL--------AVDLQNPDLVSLLLKCGADVNRVTYQGYSPYQLTWGRPSTRIQQ 195

Query: 383 DLIRKEPDCINL 394
            L +   + + +
Sbjct: 196 QLGQLTLENLQM 207

>d1iknd_ d.211.1.1 (D:) I-kappa-B-alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 221

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: I-kappa-B-alpha
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.8 bits (96), Expect = 2e-04
 Identities = 12/53 (22%), Positives = 22/53 (41%), Gaps = 3/53 (5%)

Query: 365 GLTALHIAAGSGNSQALEDLIRKEPDC---INLKTIMMETPLFFAVKNDHMVC 414
           G + LH+A          ++IR+       +N +  + +TPL  AV  +    
Sbjct: 2   GDSFLHLAIIHEEKALTMEVIRQVKGDLAFLNFQNNLQQTPLHLAVITNQPEI 54

>d1iknd_ d.211.1.1 (D:) I-kappa-B-alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 221

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: I-kappa-B-alpha
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.6 bits (93), Expect = 5e-04
 Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 4/50 (8%)

Query: 323 DGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIA 372
           DG+S LH A+       +  L   ++  +    A ++ QN L  T LH+A
Sbjct: 1   DGDSFLHLAIIHE----EKALTMEVIRQVKGDLAFLNFQNNLQQTPLHLA 46

>d1iknd_ d.211.1.1 (D:) I-kappa-B-alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 221

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: I-kappa-B-alpha
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.3 bits (87), Expect = 0.003
 Identities = 28/196 (14%), Positives = 57/196 (29%), Gaps = 36/196 (18%)

Query: 291 PLILATQAGDEDVIEILLKSKNIDINDADA-DADGNSALHCALKTSMGLSQHILQNRIVG 349
            L LA    ++ +   +++    D+   +  +    + LH A+ T+       L      
Sbjct: 5   FLHLAIIHEEKALTMEVIRQVKGDLAFLNFQNNLQQTPLHLAVITNQPEIAEALLGAGCD 64

Query: 350 ILLKHGAIVSQQNKLG-------------------------------LTALHIAAGSGNS 378
             L+     +  +                                   T LH+A+  G  
Sbjct: 65  PELRDFRGNTPLHLACEQGCLASVGVLTQSCTTPHLHSILKATNYNGHTCLHLASIHGYL 124

Query: 379 QALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDF 438
             +E L+    D    +     T L  AV   +     +LL+ GA+   +  +   P   
Sbjct: 125 GIVELLVSLGADVNAQEPCNGRTALHLAVDLQNPDLVSLLLKCGADVNRVTYQGYSPYQL 184

Query: 439 AKSQD----MRFLLKA 450
              +      + L + 
Sbjct: 185 TWGRPSTRIQQQLGQL 200

>d1ihba_ d.211.1.1 (A:) p18ink4C(ink6) {Human (Homo sapiens) [TaxId: 9606]} Length = 156

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: p18ink4C(ink6)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.6 bits (93), Expect = 2e-04
 Identities = 17/156 (10%), Positives = 39/156 (25%), Gaps = 23/156 (14%)

Query: 289 GPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIV 348
           G  L  A   GD + +  LL   N+++N  +        +       +     +      
Sbjct: 2   GNELASAAARGDLEQLTSLL-QNNVNVNAQNGFGRTALQVMKLGNPEIARRLLLRGANPD 60

Query: 349 GILLKHGAIVSQQNKLGLTALHIAAGS----------------------GNSQALEDLIR 386
                  A++    + G                                G+ + +E L++
Sbjct: 61  LKDRTGFAVIHDAARAGFLDTLQTLLEFQADVNIEDNEGNLPLHLAAKEGHLRVVEFLVK 120

Query: 387 KEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWG 422
                +  +    +T    A          ++   G
Sbjct: 121 HTASNVGHRNHKGDTACDLARLYGRNEVVSLMQANG 156

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]} Length = 139

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

 Score = 39.5 bits (91), Expect = 4e-04
 Identities = 15/105 (14%), Positives = 34/105 (32%), Gaps = 2/105 (1%)

Query: 526 EEQHRKMNPGMCMIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQT 585
           + Q ++             +    + V  +P  +D   L   FE++        V + +T
Sbjct: 21  QLQQQQQQHIPPTQMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRET 80

Query: 586 EKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVPKE 630
            +        F +    + A A +      I+ K +++  A    
Sbjct: 81  RQSRGYGFVKFQSGSSAQQAIAGLNGF--NILNKRLKVALAASGH 123

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.6 bits (89), Expect = 4e-04
 Identities = 13/82 (15%), Positives = 24/82 (29%), Gaps = 5/82 (6%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            + + GLP+    + +   F     P+                 G   V F   + A AA
Sbjct: 17  CVHMRGLPYRATENDI-YNFFSPLNPMRVHIE----IGPDGRVTGEADVEFATHEDAVAA 71

Query: 609 VQARFVTIMGKEVEIKSAVPKE 630
           +      +  + VE+       
Sbjct: 72  MAKDKANMQHRYVELFLNSTAG 93

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Length = 113

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.6 bits (89), Expect = 5e-04
 Identities = 24/120 (20%), Positives = 40/120 (33%), Gaps = 15/120 (12%)

Query: 540 HASTQEFKS---KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGF 596
           H  + E K      F G L      + L   F  H          E +          G 
Sbjct: 1   HHGSLEEKIGCLLKFSGDLDDQTCREDLHILFSNHG---------EIKWIDFVRGAKEGI 51

Query: 597 VTFKHEKSAA--AAVQARFVTIMGKEVEIKSAVPKEVLFAEL-QKQSAQQQESKHEHQAR 653
           + FK +   A   A  A    +  +  E+   V +  +  E  +K    QQES ++ +++
Sbjct: 52  ILFKEKAKEALGKAKDANNGNLQLRNKEVTWEVLEGEVEKEALKKIIEDQQESLNKWKSK 111

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 81

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 37.5 bits (86), Expect = 7e-04
 Identities = 10/81 (12%), Positives = 26/81 (32%), Gaps = 4/81 (4%)

Query: 549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAA 608
            +++   P      ++    +     +  +            SR F ++    ++ A   
Sbjct: 3   TLWMTNFPPSYTQRNIRDLLQD-INVVALSIRLPSLRFNT--SRRFAYIDVTSKEDARYC 59

Query: 609 VQA-RFVTIMGKEVEIKSAVP 628
           V+    + I G  +  K + P
Sbjct: 60  VEKLNGLKIEGYTLVTKVSNP 80

>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musculus) [TaxId: 10090]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: E3 ubiquitin protein ligase CNOT4
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.3 bits (83), Expect = 0.002
 Identities = 17/79 (21%), Positives = 27/79 (34%), Gaps = 4/79 (5%)

Query: 547 KSKIFVGGLPFFLDSDSLGGYFEKH--FGPIEDAR-VAEFQTEKQSVSRGFGFVTFKHEK 603
           K+ +FV GL   L    +    E    FG I                     +VT+   +
Sbjct: 8   KNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSE 67

Query: 604 SAAAAVQA-RFVTIMGKEV 621
            A  A+Q    V + G+ +
Sbjct: 68  DALRAIQCVNNVVVDGRTL 86

>d1rgoa1 g.66.1.1 (A:151-186) Butyrate response factor 2 (Tis11D) {Human (Homo sapiens) [TaxId: 9606]} Length = 36

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Butyrate response factor 2 (Tis11D)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.3 bits (79), Expect = 0.002
 Identities = 11/32 (34%), Positives = 17/32 (53%)

Query: 501 KIEVCKYYESHSGCIRGSKCFYALGEEQHRKM 532
           K E+C+ +E    C  G KC +A G  + R +
Sbjct: 5   KTELCRPFEESGTCKYGEKCQFAHGFHELRSL 36

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	1044
d1n11a_	408	Ankyrin-R {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1n11a_	408	Ankyrin-R {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1wdya_	285	RNase L, 2-5a-dependent ribonuclease {Human (Homo	100.0
d1oy3d_	255	Transcription factor inhibitor I-kappa-B-beta, IKB	100.0
d1uoha_	223	26S proteasome non-ATPase regulatory subunit 10, g	100.0
d1ixva_	229	26S proteasome non-ATPase regulatory subunit 10, g	100.0
d1s70b_	291	Myosin phosphatase targeting subunit 1, MYPT1 {Chi	100.0
d1uoha_	223	26S proteasome non-ATPase regulatory subunit 10, g	100.0
d1wdya_	285	RNase L, 2-5a-dependent ribonuclease {Human (Homo	100.0
d1oy3d_	255	Transcription factor inhibitor I-kappa-B-beta, IKB	100.0
d2fo1e1	277	Lin-12 {Caenorhabditis elegans [TaxId: 6239]}	100.0
d1ixva_	229	26S proteasome non-ATPase regulatory subunit 10, g	100.0
d2fo1e1	277	Lin-12 {Caenorhabditis elegans [TaxId: 6239]}	100.0
d1s70b_	291	Myosin phosphatase targeting subunit 1, MYPT1 {Chi	100.0
d1k1aa_	228	bcl-3 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1k1aa_	228	bcl-3 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1ot8a_	209	Neurogenic locus notch receptor domain {Fruit fly	99.97
d1ot8a_	209	Neurogenic locus notch receptor domain {Fruit fly	99.97
d1iknd_	221	I-kappa-B-alpha {Human (Homo sapiens) [TaxId: 9606	99.96
d1iknd_	221	I-kappa-B-alpha {Human (Homo sapiens) [TaxId: 9606	99.96
d2ajaa1	346	Hypothetical protein LPG2416 {Legionella pneumophi	99.95
d2ajaa1	346	Hypothetical protein LPG2416 {Legionella pneumophi	99.95
d1sw6a_	301	Swi6 ankyrin-repeat fragment {Baker's yeast (Sacch	99.93
d1ihba_	156	p18ink4C(ink6) {Human (Homo sapiens) [TaxId: 9606]	99.92
d1bd8a_	156	Cell cycle inhibitor p19ink4D {Human (Homo sapiens	99.92
d1ihba_	156	p18ink4C(ink6) {Human (Homo sapiens) [TaxId: 9606]	99.92
d1awcb_	153	GA bindinig protein (GABP) beta 1 {Mouse (Mus musc	99.92
d1sw6a_	301	Swi6 ankyrin-repeat fragment {Baker's yeast (Sacch	99.91
d1bd8a_	156	Cell cycle inhibitor p19ink4D {Human (Homo sapiens	99.91
d1awcb_	153	GA bindinig protein (GABP) beta 1 {Mouse (Mus musc	99.9
d1myoa_	118	Myotrophin {Rat (Rattus norvegicus) [TaxId: 10116]	99.86
d1bi7b_	125	Cell cycle inhibitor p16ink4A {Human (Homo sapiens	99.86
d1bi7b_	125	Cell cycle inhibitor p16ink4A {Human (Homo sapiens	99.85
d1ycsb1	130	53BP2 {Human (Homo sapiens) [TaxId: 9606]}	99.85
d1dcqa1	154	Pyk2-associated protein beta {Mouse (Mus musculus)	99.84
d1ycsb1	130	53BP2 {Human (Homo sapiens) [TaxId: 9606]}	99.84
d1myoa_	118	Myotrophin {Rat (Rattus norvegicus) [TaxId: 10116]	99.83
d1dcqa1	154	Pyk2-associated protein beta {Mouse (Mus musculus)	99.81
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.57
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.55
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.54
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.53
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.52
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.51
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.5
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.5
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.5
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.48
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.48
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.48
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.47
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.47
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.46
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.46
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.46
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.45
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.45
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.45
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.44
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.43
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.43
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.43
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.41
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.41
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.41
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.41
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.4
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.4
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.39
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.39
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.38
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.37
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.37
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.36
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.36
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.35
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.35
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.35
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.34
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.32
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.32
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.3
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.3
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.3
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.27
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.27
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.27
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.26
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.25
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.25
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.25
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.24
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.24
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.23
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.23
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.22
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.21
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.19
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.19
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.19
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.19
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.17
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.17
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.16
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.15
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.12
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.11
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.11
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.1
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.09
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.07
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.06
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.06
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.05
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.05
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.03
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.03
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.0
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	98.97
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	98.95
U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}" target="_blank" href="http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?sid=d1jmta_">d1jmta_	104	U2	98.91
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	98.77
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	98.59
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	98.57
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.5
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	87.13

>d1n11a_ d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Ankyrin-R
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=0  Score=356.96  Aligned_cols=372  Identities=20%  Similarity=0.222  Sum_probs=293.7

Q ss_pred             CHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHH
Q ss_conf             25999999839999999999199999634433447898729999999099999999998699988435799984488999
Q 001613           58 TKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELS  137 (1044)
Q Consensus        58 ~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdin~~d~~g~T~lpL~~A  137 (1044)
                      .||||+||..|+.++|++|++.|    +++|..|. .|.||||+||..|+.++|++||++|++++.++.+|.|  ||++|
T Consensus         1 ~TpL~~Aa~~g~~~~v~~Ll~~g----~~in~~d~-~g~TpL~~A~~~g~~~iv~~Ll~~gadi~~~~~~g~t--~L~~A   73 (408)
T d1n11a_           1 LTPLHVASFMGHLPIVKNLLQRG----ASPNVSNV-KVETPLHMAARAGHTEVAKYLLQNKAKVNAKAKDDQT--PLHCA   73 (408)
T ss_dssp             CCHHHHHHHHTCHHHHHHHHHTT----CCSCCSSS-CCCCHHHHHHHHTCHHHHHHHHHHTCCSSCCCTTSCC--HHHHH
T ss_pred             CCHHHHHHHCCCHHHHHHHHHCC----CCCCCCCC-CCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCC--HHHHH
T ss_conf             98699999884899999999787----89998899-9988999999868899999999885998877999899--99999


Q ss_pred             HHCCCCCEECCCCCCCHHHHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             82899630118887753589999823999999999976999656778865068479999999998300124788731688
Q 001613          138 LSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSD  217 (1044)
Q Consensus       138 a~~g~~eIv~~~~~~~~~~L~~Ai~~g~~eivklLL~~ga~i~~~~~~~a~~g~~~~l~~lL~~a~~~~~~~il~l~~ad  217 (1044)
                      +..|+                       .+++++|+....+......    ....  ....................+..
T Consensus        74 ~~~g~-----------------------~~~~~~Ll~~~~~~~~~~~----~~~~--~~~~~~~~~~~~~~~~~~~~~~~  124 (408)
T d1n11a_          74 ARIGH-----------------------TNMVKLLLENNANPNLATT----AGHT--PLHIAAREGHVETVLALLEKEAS  124 (408)
T ss_dssp             HHHTC-----------------------HHHHHHHHHHTCCTTCCCT----TCCC--HHHHHHHHTCHHHHHHHHHTTCC
T ss_pred             HHCCC-----------------------HHHHHHHHHHHHCCCCCCC----CCCC--HHHHHHHHCCCCCCCCCCCCCCC
T ss_conf             98699-----------------------7799999874100123211----1220--24555430332222222211001


Q ss_pred             CCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHH
Q ss_conf             76333202568999999960985299999982999986014788884699999999849998875699999929999999
Q 001613          218 LGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQ  297 (1044)
Q Consensus       218 in~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~ll~~ielLl~~gadin~~~~d~~G~TpLh~Aa~  297 (1044)
                      ....+..              +.++++.++..++.++              ++.|++.+++++..  +..|.+||++|+.
T Consensus       125 ~~~~~~~--------------~~~~l~~a~~~~~~~~--------------v~~ll~~~~~~~~~--~~~~~~~L~~A~~  174 (408)
T d1n11a_         125 QACMTKK--------------GFTPLHVAAKYGKVRV--------------AELLLERDAHPNAA--GKNGLTPLHVAVH  174 (408)
T ss_dssp             SCCCCTT--------------SCCHHHHHHHTTCHHH--------------HHHHHHTTCCTTCC--CSSCCCHHHHHHH
T ss_pred             CCCCCCC--------------CCHHHHHHHHCCCHHH--------------HHHHHHCCCCCCCC--CCCCCHHHHHHHH
T ss_conf             0014564--------------6428999987598999--------------99999769988867--8767409999998


Q ss_pred             CCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHCCC
Q ss_conf             19999999998738999777787889943999999639985200022999999996498122327888829999998599
Q 001613          298 AGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGN  377 (1044)
Q Consensus       298 ~G~~eiVk~LL~~~gadin~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpLh~Aa~~g~  377 (1044)
                      .|+.+++++|++. |+++  +..+..|.||+|++....        ..++...|+..+......+..+.|||++|+..++
T Consensus       175 ~~~~~~~~~Ll~~-g~~~--~~~~~~~~t~l~~~~~~~--------~~~~~~~l~~~~~~~~~~~~~~~t~l~~a~~~~~  243 (408)
T d1n11a_         175 HNNLDIVKLLLPR-GGSP--HSPAWNGYTPLHIAAKQN--------QVEVARSLLQYGGSANAESVQGVTPLHLAAQEGH  243 (408)
T ss_dssp             TTCHHHHHHHGGG-TCCS--CCCCTTCCCHHHHHHHTT--------CHHHHHHHHHTTCCTTCCCTTCCCHHHHHHHTTC
T ss_pred             CCCHHHHHHHHHC-CCCC--CCCCCCCCCCCHHHHCCC--------HHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHCC
T ss_conf             5999999999865-8840--045778997102432021--------0455555432001221247789999999998086


Q ss_pred             HHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCHHHHHHHHHHCCCC
Q ss_conf             99999999629997556888999299999986989999999977999644458999499999973949999982002762
Q 001613          378 SQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHTN  457 (1044)
Q Consensus       378 ~eivk~LL~~gad~iN~~d~~G~TpLh~Av~~g~~eiVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~LL~~~~~~~~d  457 (1044)
                      .+++++++..+.. .+..+..|.|||+.|+..++.+++++|+++|++++..+..+.|||++|+..+...+++.......+
T Consensus       244 ~~~~~~~~~~~~~-~~~~~~~g~~~l~~a~~~~~~~i~~~Ll~~g~~~~~~~~~~~t~L~~~~~~~~~~~~~~ll~~g~~  322 (408)
T d1n11a_         244 AEMVALLLSKQAN-GNLGNKSGLTPLHLVAQEGHVPVADVLIKHGVMVDATTRMGYTPLHVASHYGNIKLVKFLLQHQAD  322 (408)
T ss_dssp             HHHHHHHHTTTCC-TTCCCTTCCCHHHHHHHHTCHHHHHHHHHHTCCTTCCCSSCCCHHHHHHHSSCSHHHHHHHHTTCC
T ss_pred             HHHHHHHHCCCCC-CCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHCCCCCCEEEEEECCCCCC
T ss_conf             7675442002211-111247899733454302848999999977996562102344530221005862135530133332


Q ss_pred             CCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             00122266653103871344458876520468998544446983234420235676312333332234111135788643
Q 001613          458 LAFLNQEKQNASLESDEDISGTCEALLSMVDDNSNTERICSGTKIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMC  537 (1044)
Q Consensus       458 ~~~~~~~~~~a~~~~~~~i~~~~~~l~~~id~~~~~~~~~~~~~~~tpL~~Aa~~G~~~ivk~Ll~~GAdi~~~~~~G~t  537 (1044)
                      ..                                     ..+..+.||||+|+..|+.+++++|+++||+++.+++.|.+
T Consensus       323 in-------------------------------------~~d~~G~T~Lh~A~~~g~~~iv~~Ll~~GAd~n~~d~~G~t  365 (408)
T d1n11a_         323 VN-------------------------------------AKTKLGYSPLHQAAQQGHTDIVTLLLKNGASPNEVSSDGTT  365 (408)
T ss_dssp             TT-------------------------------------CCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCSCCCCSSSCC
T ss_pred             CC-------------------------------------CCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCC
T ss_conf             23-------------------------------------46899999999999868899999999878899887999989


Q ss_pred             CCCCCCC
Q ss_conf             3344434
Q 001613          538 MIHASTQ  544 (1044)
Q Consensus       538 ~lh~A~~  544 (1044)
                      |+|.|..
T Consensus       366 ~L~~A~~  372 (408)
T d1n11a_         366 PLAIAKR  372 (408)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
T ss_conf             9999998

>d1n11a_ d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Ankyrin-R
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=0  Score=323.94  Aligned_cols=373  Identities=21%  Similarity=0.267  Sum_probs=308.6

Q ss_pred             HHHHHHHHHCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCHHH
Q ss_conf             99999998419999999997310356566533446511259999998399999999991999996344334478987299
Q 001613           20 TLIINSLLEDDKKQLINVSKRHFIDNSLDNADQQTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTAL   99 (1044)
Q Consensus        20 ~~li~aI~~dD~~~l~~~i~~~~~~~~l~~~~~~~~~~~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpL   99 (1044)
                      ++|..|...+|.+.+..++..+...      +..+..+.||||+||..|+.+++++|+++|    +++|.++. .|.|||
T Consensus         2 TpL~~Aa~~g~~~~v~~Ll~~g~~i------n~~d~~g~TpL~~A~~~g~~~iv~~Ll~~g----adi~~~~~-~g~t~L   70 (408)
T d1n11a_           2 TPLHVASFMGHLPIVKNLLQRGASP------NVSNVKVETPLHMAARAGHTEVAKYLLQNK----AKVNAKAK-DDQTPL   70 (408)
T ss_dssp             CHHHHHHHHTCHHHHHHHHHTTCCS------CCSSSCCCCHHHHHHHHTCHHHHHHHHHHT----CCSSCCCT-TSCCHH
T ss_pred             CHHHHHHHCCCHHHHHHHHHCCCCC------CCCCCCCCCHHHHHHHCCCHHHHHHHHHCC----CCCCCCCC-CCCCHH
T ss_conf             8699999884899999999787899------988999988999999868899999999885----99887799-989999


Q ss_pred             HHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHCCCCCEE----------CCCCCCCHHHHHHHHHCCCHHHH
Q ss_conf             99999099999999998699988435799984488999828996301----------18887753589999823999999
Q 001613          100 HLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVI----------WNPDEYSVEDLVVILGQKNLTTV  169 (1044)
Q Consensus       100 H~Aa~~G~~eiVklLL~~GAdin~~d~~g~T~lpL~~Aa~~g~~eIv----------~~~~~~~~~~L~~Ai~~g~~eiv  169 (1044)
                      |+|+..|+.+++++|+..++++........+  ++..+...+.....          ...+..+..++..+...++.+++
T Consensus        71 ~~A~~~g~~~~~~~Ll~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~v  148 (408)
T d1n11a_          71 HCAARIGHTNMVKLLLENNANPNLATTAGHT--PLHIAAREGHVETVLALLEKEASQACMTKKGFTPLHVAAKYGKVRVA  148 (408)
T ss_dssp             HHHHHHTCHHHHHHHHHHTCCTTCCCTTCCC--HHHHHHHHTCHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHTTCHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHCCCCCCCCCCC--HHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCHHHH
T ss_conf             9999869977999998741001232111220--24555430332222222211001001456464289999875989999


Q ss_pred             HHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHC
Q ss_conf             99997699965677886506847999999999830012478873168876333202568999999960985299999982
Q 001613          170 KLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKR  249 (1044)
Q Consensus       170 klLL~~ga~i~~~~~~~a~~g~~~~l~~lL~~a~~~~~~~il~l~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~  249 (1044)
                      ++|++.+.+++...    ..+...  .............+.++.++++++..+..              +.+++++++..
T Consensus       149 ~~ll~~~~~~~~~~----~~~~~~--L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~--------------~~t~l~~~~~~  208 (408)
T d1n11a_         149 ELLLERDAHPNAAG----KNGLTP--LHVAVHHNNLDIVKLLLPRGGSPHSPAWN--------------GYTPLHIAAKQ  208 (408)
T ss_dssp             HHHHHTTCCTTCCC----SSCCCH--HHHHHHTTCHHHHHHHGGGTCCSCCCCTT--------------CCCHHHHHHHT
T ss_pred             HHHHHCCCCCCCCC----CCCCHH--HHHHHHCCCHHHHHHHHHCCCCCCCCCCC--------------CCCCCHHHHCC
T ss_conf             99997699888678----767409--99999859999999998658840045778--------------99710243202


Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHH
Q ss_conf             99998601478888469999999984999887569999992999999919999999998738999777787889943999
Q 001613          250 NSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALH  329 (1044)
Q Consensus       250 g~~~~~~~~~~~~~~ll~~ielLl~~gadin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadin~n~~d~~G~TpLh  329 (1044)
                      ...+.              ...|+..+......  +..+.|||++|+..++.+++++++.. +..+  +..+..|.|||+
T Consensus       209 ~~~~~--------------~~~l~~~~~~~~~~--~~~~~t~l~~a~~~~~~~~~~~~~~~-~~~~--~~~~~~g~~~l~  269 (408)
T d1n11a_         209 NQVEV--------------ARSLLQYGGSANAE--SVQGVTPLHLAAQEGHAEMVALLLSK-QANG--NLGNKSGLTPLH  269 (408)
T ss_dssp             TCHHH--------------HHHHHHTTCCTTCC--CTTCCCHHHHHHHTTCHHHHHHHHTT-TCCT--TCCCTTCCCHHH
T ss_pred             CHHHH--------------HHHHHHCCCCCCCC--CCCCCCHHHHHHHHCCHHHHHHHHCC-CCCC--CCCCCCCCCHHH
T ss_conf             10455--------------55543200122124--77899999999980867675442002-2111--112478997334


Q ss_pred             HHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHC
Q ss_conf             99963998520002299999999649812232788882999999859999999999629997556888999299999986
Q 001613          330 CALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKN  409 (1044)
Q Consensus       330 ~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpLh~Aa~~g~~eivk~LL~~gad~iN~~d~~G~TpLh~Av~~  409 (1044)
                      .|+..+        +.+++++|+++|++++..+..+.||||.++..++.++++++++.|++ +|.+|..|.||||+|+++
T Consensus       270 ~a~~~~--------~~~i~~~Ll~~g~~~~~~~~~~~t~L~~~~~~~~~~~~~~ll~~g~~-in~~d~~G~T~Lh~A~~~  340 (408)
T d1n11a_         270 LVAQEG--------HVPVADVLIKHGVMVDATTRMGYTPLHVASHYGNIKLVKFLLQHQAD-VNAKTKLGYSPLHQAAQQ  340 (408)
T ss_dssp             HHHHHT--------CHHHHHHHHHHTCCTTCCCSSCCCHHHHHHHSSCSHHHHHHHHTTCC-TTCCCTTSCCHHHHHHHT
T ss_pred             HHHHCC--------CHHHHHHHHHCCCCCCCCCCCCCCCCHHHCCCCCCEEEEEECCCCCC-CCCCCCCCCCHHHHHHHC
T ss_conf             543028--------48999999977996562102344530221005862135530133332-234689999999999986


Q ss_pred             CCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCHHHHHHHHHH
Q ss_conf             98999999997799964445899949999997394999998200
Q 001613          410 DHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANT  453 (1044)
Q Consensus       410 g~~eiVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~LL~~~~~  453 (1044)
                      |+.++|++|+++|||++.+|.+|+||||+|+..|+..+++.+..
T Consensus       341 g~~~iv~~Ll~~GAd~n~~d~~G~t~L~~A~~~~~~~iv~~L~~  384 (408)
T d1n11a_         341 GHTDIVTLLLKNGASPNEVSSDGTTPLAIAKRLGYISVTDVLKV  384 (408)
T ss_dssp             TCHHHHHHHHHTTCCSCCCCSSSCCHHHHHHHTTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHH
T ss_conf             88999999998788998879999899999998399999999999

>d1wdya_ d.211.1.1 (A:) RNase L, 2-5a-dependent ribonuclease {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: RNase L, 2-5a-dependent ribonuclease
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2e-38  Score=265.31  Aligned_cols=272  Identities=28%  Similarity=0.300  Sum_probs=224.9

Q ss_pred             CCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHH
Q ss_conf             11259999998399999999991999996344334478987299999990999999999986999884357999844889
Q 001613           56 IVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLE  135 (1044)
Q Consensus        56 ~~~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdin~~d~~g~T~lpL~  135 (1044)
                      +..|+||+|+..|++++|++|++.|    +++|.++...|+||||+|+.+|+.+++++|++.+++.+..+..+.+  +..
T Consensus         4 ~~~~~L~~Ai~~~~~e~vk~Ll~~G----~din~~~~~~g~tpL~~A~~~~~~eiv~~L~~~~~~~~~~~~~~~~--~~~   77 (285)
T d1wdya_           4 EDNHLLIKAVQNEDVDLVQQLLEGG----ANVNFQEEEGGWTPLHNAVQMSREDIVELLLRHGADPVLRKKNGAT--PFL   77 (285)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTT----CCTTCCCTTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTCCC--HHH
T ss_pred             CCCHHHHHHHHCCCHHHHHHHHHCC----CCCCCCCCCCCCCHHHHHHHCCCHHHHHHHCCCCCCCCCCCCCCCH--HHH
T ss_conf             8848999999829999999999879----8968248999979999999859998865520234322222211111--467


Q ss_pred             HHHHCCCCCEECCCCCCCHHHHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             99828996301188877535899998239999999999769996567788650684799999999983001247887316
Q 001613          136 LSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHD  215 (1044)
Q Consensus       136 ~Aa~~g~~eIv~~~~~~~~~~L~~Ai~~g~~eivklLL~~ga~i~~~~~~~a~~g~~~~l~~lL~~a~~~~~~~il~l~~  215 (1044)
                      +++..+.                       .+...+++....+...                                  
T Consensus        78 ~~~~~~~-----------------------~~~~~~~~~~~~~~~~----------------------------------  100 (285)
T d1wdya_          78 LAAIAGS-----------------------VKLLKLFLSKGADVNE----------------------------------  100 (285)
T ss_dssp             HHHHHTC-----------------------HHHHHHHHHTTCCTTC----------------------------------
T ss_pred             HHHHCCC-----------------------CCCCCHHHHHCCCCCC----------------------------------
T ss_conf             7764387-----------------------5322113431022101----------------------------------


Q ss_pred             CCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCC--------CCCC
Q ss_conf             88763332025689999999609852999999829999860147888846999999998499988756--------9999
Q 001613          216 SDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSC--------TDKK  287 (1044)
Q Consensus       216 adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~ll~~ielLl~~gadin~~~--------~d~~  287 (1044)
                           .+.              .+.+.+++++..+....              +..++....+++...        ....
T Consensus       101 -----~~~--------------~~~~~l~~a~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (285)
T d1wdya_         101 -----CDF--------------YGFTAFMEAAVYGKVKA--------------LKFLYKRGANVNLRRKTKEDQERLRKG  147 (285)
T ss_dssp             -----BCT--------------TCCBHHHHHHHTTCHHH--------------HHHHHHTTCCTTCCCCCCHHHHHTTCC
T ss_pred             -----CCC--------------CCCCHHHHHHHHCCHHH--------------HHHHHHHCCCCCCCCCCHHHHHHHCCC
T ss_conf             -----356--------------89863678887400125--------------445443100113232101222220146


Q ss_pred             CCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCC
Q ss_conf             99299999991999999999873899977778788994399999963998520002299999999649812232788882
Q 001613          288 VGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLT  367 (1044)
Q Consensus       288 G~TpLh~Aa~~G~~eiVk~LL~~~gadin~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~T  367 (1044)
                      |.||||+|+..|+.+++++|++..|+++  +..+..|.++++.+...+..    .....++++|+++|++++.++..|.|
T Consensus       148 g~t~L~~A~~~~~~~~~~~Ll~~~~~~i--~~~~~~~~~~~~~~~~~~~~----~~~~~i~~~Li~~ga~~n~~~~~g~t  221 (285)
T d1wdya_         148 GATALMDAAEKGHVEVLKILLDEMGADV--NACDNMGRNALIHALLSSDD----SDVEAITHLLLDHGADVNVRGERGKT  221 (285)
T ss_dssp             CCCHHHHHHHHTCHHHHHHHHHTSCCCT--TCCCTTSCCHHHHHHHCSCT----TTHHHHHHHHHHTTCCSSCCCTTSCC
T ss_pred             CCHHHHHHHHCCCHHHHHHHHHCCCCCC--CCCCCCCCCCCCCCCCCCCC----HHHHHHHHHHHHCCCCCCCCCCCCCC
T ss_conf             8569999998689999999984569894--55467898332233223430----17999999999779998866899998


Q ss_pred             HHHHHHHCCCHHHHHHHHHC-CCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCC
Q ss_conf             99999985999999999962-9997556888999299999986989999999977999644458
Q 001613          368 ALHIAAGSGNSQALEDLIRK-EPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNL  430 (1044)
Q Consensus       368 pLh~Aa~~g~~eivk~LL~~-gad~iN~~d~~G~TpLh~Av~~g~~eiVklLL~~GAdin~~d~  430 (1044)
                      |||+|+..|+.+++++||++ |.+ +|.+|.+|.||||+|+++|+.++|++||++|||+|++|.
T Consensus       222 ~L~~a~~~~~~~~v~~lL~~~g~d-in~~d~~G~TpL~~A~~~~~~eiv~~Ll~~GAd~n~~d~  284 (285)
T d1wdya_         222 PLILAVEKKHLGLVQRLLEQEHIE-INDTDSDGKTALLLAVELKLKKIAELLCKRGASTDCGDL  284 (285)
T ss_dssp             HHHHHHHTTCHHHHHHHHHSSSCC-TTCCCTTSCCHHHHHHHTTCHHHHHHHHHHSSCSCCSSC
T ss_pred             CCCHHHHCCCHHHHHHHHHCCCCC-CCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCC
T ss_conf             241122138699999999808999-868799998999999985979999999987989986017

>d1oy3d_ d.211.1.1 (D:) Transcription factor inhibitor I-kappa-B-beta, IKBB {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Transcription factor inhibitor I-kappa-B-beta, IKBB
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=1.1e-37  Score=260.59  Aligned_cols=242  Identities=23%  Similarity=0.212  Sum_probs=177.3

Q ss_pred             CCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCC---CCCCCCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCC
Q ss_conf             4651125999999839999999999199999634---4334478987299999990999999999986999884357999
Q 001613           53 QTAIVTKLLRVSCIFDSVSCATSLVNGDLGPVAL---VNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGR  129 (1044)
Q Consensus        53 ~~~~~~T~Lh~AA~~G~~eivk~LL~~g~~~~ad---iN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdin~~d~~g~  129 (1044)
                      .+.+|.||||+||.+|+.+++++|++.+    ++   ++.++. .|.||||+||..|+.+++++|+++|++++..+.+|.
T Consensus         5 i~~~G~t~Lh~A~~~~~~~~v~~Ll~~~----a~~~~i~~~~~-~g~TpL~~A~~~g~~~iv~~Ll~~ga~i~~~d~~g~   79 (255)
T d1oy3d_           5 VTEDGDTALHLAVIHQHEPFLDFLLGFS----AGHEYLDLQND-LGQTALHLAAILGEASTVEKLYAAGAGVLVAERGGH   79 (255)
T ss_dssp             CCTTCCCHHHHHHHTTCHHHHHHHHHHH----TTSGGGGCCCT-TSCCHHHHHHHHTCHHHHHHHHHTTCCSSCCCTTSC
T ss_pred             CCCCCCCHHHHHHHCCCHHHHHHHHHCC----CCCCCCCCCCC-CCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             8959978999999858899999999869----99001157589-999724068762454323222233333223222221


Q ss_pred             CCHHHHHHHHCCCCCEECCCCCCCHHHHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             84488999828996301188877535899998239999999999769996567788650684799999999983001247
Q 001613          130 RLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNES  209 (1044)
Q Consensus       130 T~lpL~~Aa~~g~~eIv~~~~~~~~~~L~~Ai~~g~~eivklLL~~ga~i~~~~~~~a~~g~~~~l~~lL~~a~~~~~~~  209 (1044)
                      |  ||++|+..++                       .+++++|++.........                          
T Consensus        80 t--pL~~A~~~~~-----------------------~~~~~~Ll~~~~~~~~~~--------------------------  108 (255)
T d1oy3d_          80 T--ALHLACRVRA-----------------------HTCACVLLQPRPSHPRDA--------------------------  108 (255)
T ss_dssp             C--HHHHHTTTTC-----------------------HHHHHHHSSSCCSSCCCC--------------------------
T ss_pred             H--HHHHHHCCCC-----------------------HHHHHHHHHHCCCHHCCC--------------------------
T ss_conf             0--2333322682-----------------------589999986142010122--------------------------


Q ss_pred             HHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             88731688763332025689999999609852999999829999860147888846999999998499988756999999
Q 001613          210 ILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVG  289 (1044)
Q Consensus       210 il~l~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~ll~~ielLl~~gadin~~~~d~~G~  289 (1044)
                                                    ...+.....                             ...    .....
T Consensus       109 ------------------------------~~~~~~~~~-----------------------------~~~----~~~~~  125 (255)
T d1oy3d_         109 ------------------------------SDTYLTQSQ-----------------------------DCT----PDTSH  125 (255)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ------------------------------CHHHHHHHH-----------------------------HHC----CCCHH
T ss_conf             ------------------------------025666776-----------------------------522----43067


Q ss_pred             CHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEE-CCCCCCCH
Q ss_conf             29999999199999999987389997777878899439999996399852000229999999964981223-27888829
Q 001613          290 PPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQ-QNKLGLTA  368 (1044)
Q Consensus       290 TpLh~Aa~~G~~eiVk~LL~~~gadin~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~-~d~~G~Tp  368 (1044)
                      ..+..............+....+.++  +.++..|.||||+|+..+        +.+++++|++++++.+. .+..|.||
T Consensus       126 ~~~~~~~~~~~~~~~~~~~~~~~~~i--n~~d~~g~TpLh~A~~~~--------~~~~v~~Ll~~~~~~~~~~~~~g~Tp  195 (255)
T d1oy3d_         126 APAAVDSQPNPENEEEPRDEDWRLQL--EAENYDGHTPLHVAVIHK--------DAEMVRLLRDAGADLNKPEPTCGRTP  195 (255)
T ss_dssp             ------------------CCCGGGGT--TCCCTTSCCHHHHHHHTT--------CHHHHHHHHHHTCCTTCCCTTTCCCH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHCCCCC--CCCCCCCCCCCCCCCCCC--------CCCCCCCHHCCCCCCCCCCCCCCCCC
T ss_conf             79999862030678998765328663--310046763223332232--------22222100001333122133444332


Q ss_pred             HHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCC
Q ss_conf             99999859999999999629997556888999299999986989999999977999
Q 001613          369 LHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGAN  424 (1044)
Q Consensus       369 Lh~Aa~~g~~eivk~LL~~gad~iN~~d~~G~TpLh~Av~~g~~eiVklLL~~GAd  424 (1044)
                      ||+|+..++.+++++|+++|++ +|.+|..|.||||+|+.+++.+++++|+++||+
T Consensus       196 L~~A~~~~~~~~v~~Ll~~gad-in~~d~~g~t~L~~A~~~~~~~i~~~Ll~~Ga~  250 (255)
T d1oy3d_         196 LHLAVEAQAASVLELLLKAGAD-PTARMYGGRTPLGSALLRPNPILARLLRAHGAP  250 (255)
T ss_dssp             HHHHHHTTCHHHHHHHHHTTCC-TTCCCTTSCCHHHHHHTSSCHHHHHHHHHTTCC
T ss_pred             CCCCCCCCHHHHHHHHHHCCCC-CCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCC
T ss_conf             2001233399999999987899-888799999999999987889999999976989

>d1uoha_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.8e-36  Score=252.63  Aligned_cols=220  Identities=22%  Similarity=0.250  Sum_probs=122.9

Q ss_pred             CCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHH
Q ss_conf             12599999983999999999919999963443344789872999999909999999999869998843579998448899
Q 001613           57 VTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLEL  136 (1044)
Q Consensus        57 ~~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdin~~d~~g~T~lpL~~  136 (1044)
                      .+++|+.+|..|+++.++.++...   ..+++.+|. .|+||||+||..|+.+++++|++.+.+....+..+.+  +++.
T Consensus         3 ~~~~~~~~a~~G~~~~v~~~l~~~---~~~~~~~D~-~G~TpLh~Aa~~g~~e~~~~l~~~~~~~~~~~~~~~~--~~~~   76 (223)
T d1uoha_           3 SNLMVCNLAYSGKLEELKESILAD---KSLATRTDQ-DSRTALHWACSAGHTEIVEFLLQLGVPVNDKDDAGWS--PLHI   76 (223)
T ss_dssp             SSSHHHHHHHTTCHHHHHHHHHHC---GGGGGCCCT-TSCCHHHHHHHHTCHHHHHHHHHHTCCSCCCCTTCCC--HHHH
T ss_pred             CHHHHHHHHHHCCHHHHHHHHHHC---CCCCCCCCC-CCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCC--CCCC
T ss_conf             779999999969999999999949---974767489-9988899999851102433222223333322222223--3222


Q ss_pred             HHHCCCCCEECCCCCCCHHHHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             98289963011888775358999982399999999997699965677886506847999999999830012478873168
Q 001613          137 SLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDS  216 (1044)
Q Consensus       137 Aa~~g~~eIv~~~~~~~~~~L~~Ai~~g~~eivklLL~~ga~i~~~~~~~a~~g~~~~l~~lL~~a~~~~~~~il~l~~a  216 (1044)
                      ++..++                       .+++++|+                                           
T Consensus        77 ~~~~~~-----------------------~~i~~~Ll-------------------------------------------   90 (223)
T d1uoha_          77 AASAGR-----------------------DEIVKALL-------------------------------------------   90 (223)
T ss_dssp             HHHHTC-----------------------HHHHHHHH-------------------------------------------
T ss_pred             CCCCCC-----------------------CCHHHHHH-------------------------------------------
T ss_conf             222111-----------------------10167774-------------------------------------------


Q ss_pred             CCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHH
Q ss_conf             87633320256899999996098529999998299998601478888469999999984999887569999992999999
Q 001613          217 DLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILAT  296 (1044)
Q Consensus       217 din~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~ll~~ielLl~~gadin~~~~d~~G~TpLh~Aa  296 (1044)
                                                                               +.+++++..  |..|.||||+|+
T Consensus        91 ---------------------------------------------------------~~~~d~~~~--d~~g~tpL~~A~  111 (223)
T d1uoha_          91 ---------------------------------------------------------GKGAQVNAV--NQNGCTPLHYAA  111 (223)
T ss_dssp             ---------------------------------------------------------HTTCCTTCC--CTTCCCHHHHHH
T ss_pred             ---------------------------------------------------------CCCCEEEEE--CCCCCCHHHHHH
T ss_conf             ---------------------------------------------------------068646754--899996626988


Q ss_pred             HCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHCC
Q ss_conf             91999999999873899977778788994399999963998520002299999999649812232788882999999859
Q 001613          297 QAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSG  376 (1044)
Q Consensus       297 ~~G~~eiVk~LL~~~gadin~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpLh~Aa~~g  376 (1044)
                      ..|+.+++++|++. |+++  +..+..|.||||+|+..+        +..++++|++.+.+++.+|..|+||||+|+..|
T Consensus       112 ~~~~~e~~~~Ll~~-g~d~--~~~~~~~~t~L~~a~~~~--------~~~~~~~L~~~~~~i~~~d~~g~TpL~~Aa~~g  180 (223)
T d1uoha_         112 SKNRHEIAVMLLEG-GANP--DAKDHYEATAMHRAAAKG--------NLKMIHILLYYKASTNIQDTEGNTPLHLACDEE  180 (223)
T ss_dssp             HHTCHHHHHHHHHT-TCCT--TCCCTTSCCHHHHHHHTT--------CHHHHHHHHHTTCCSCCCCTTCCCHHHHHHHTT
T ss_pred             HCCCHHHHHHHHHC-CCCC--CCCCCCCCCCCHHHHHCC--------CCCHHHHHCCCCCEEEECCCCCCCEECCCCCCC
T ss_conf             76989999999987-8999--876899995010232138--------742023320223201203688874112100258


Q ss_pred             CHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHH
Q ss_conf             99999999962999755688899929999998698999999997
Q 001613          377 NSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLR  420 (1044)
Q Consensus       377 ~~eivk~LL~~gad~iN~~d~~G~TpLh~Av~~g~~eiVklLL~  420 (1044)
                      +.+++++|+++|++ ++.+|.+|+||||+| ..|+.+++++||+
T Consensus       181 ~~~~v~~LL~~Gad-~~~~d~~g~tpl~~A-~~~~~~i~~~Ll~  222 (223)
T d1uoha_         181 RVEEAKLLVSQGAS-IYIENKEEKTPLQVA-KGGLGLILKRMVE  222 (223)
T ss_dssp             CHHHHHHHHHTTCC-SCCCCTTSCCHHHHC-CTTHHHHHHHHHC
T ss_pred             CHHHHHHHHHCCCC-CCCCCCCCCCHHHHH-HCCCHHHHHCCCC
T ss_conf             49999999987799-988799999999998-7789999830047

>d1ixva_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=4.3e-36  Score=250.13  Aligned_cols=224  Identities=19%  Similarity=0.183  Sum_probs=175.0

Q ss_pred             CHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCC---CCCCCHHH
Q ss_conf             259999998399999999991999996344334478987299999990999999999986999884357---99984488
Q 001613           58 TKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSK---DGRRLLPL  134 (1044)
Q Consensus        58 ~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdin~~d~---~g~T~lpL  134 (1044)
                      ++|||+||..|+.++++.|+..+   ..+++.+|. +|.||||+|+..|+.++|++||++|++++..+.   .|.+  ++
T Consensus         1 n~pLh~A~~~g~~~~v~~Ll~~~---~~~~~~~d~-~G~TpL~~A~~~g~~~iv~~Ll~~ga~~~~~~~~~~~~~~--~~   74 (229)
T d1ixva_           1 NYPLHQACMENEFFKVQELLHSK---PSLLLQKDQ-DGRIPLHWSVSFQAHEITSFLLSKMENVNLDDYPDDSGWT--PF   74 (229)
T ss_dssp             CCHHHHHHHHTCHHHHHHHHHHC---GGGTTCCCT-TSCCHHHHHHHTTCHHHHHHHHTTCTTCCGGGCCCTTSCC--HH
T ss_pred             CHHHHHHHHCCCHHHHHHHHHCC---CCCCCCCCC-CCCCHHHHHHHCCCCCCCCHHHHHHCCCCCCCCCCCCCCC--CC
T ss_conf             97699999868999999999809---986656599-9998999999869965441354430123332223222222--22


Q ss_pred             HHHHHCCCCCEECCCCCCCHHHHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             99982899630118887753589999823999999999976999656778865068479999999998300124788731
Q 001613          135 ELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLH  214 (1044)
Q Consensus       135 ~~Aa~~g~~eIv~~~~~~~~~~L~~Ai~~g~~eivklLL~~ga~i~~~~~~~a~~g~~~~l~~lL~~a~~~~~~~il~l~  214 (1044)
                      ++++..+                       ..++++.++                                         
T Consensus        75 ~~~~~~~-----------------------~~~~~~~~~-----------------------------------------   90 (229)
T d1ixva_          75 HIACSVG-----------------------NLEVVKSLY-----------------------------------------   90 (229)
T ss_dssp             HHHHHHT-----------------------CHHHHHHHH-----------------------------------------
T ss_pred             CCCCCCC-----------------------CCCCCCCCC-----------------------------------------
T ss_conf             2111123-----------------------323333322-----------------------------------------


Q ss_pred             CCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHH
Q ss_conf             68876333202568999999960985299999982999986014788884699999999849998875699999929999
Q 001613          215 DSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLIL  294 (1044)
Q Consensus       215 ~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~ll~~ielLl~~gadin~~~~d~~G~TpLh~  294 (1044)
                                                                                 ..+...+....+..+.++++.
T Consensus        91 -----------------------------------------------------------~~~~~~~~~~~~~~~~~~l~~  111 (229)
T d1ixva_          91 -----------------------------------------------------------DRPLKPDLNKITNQGVTCLHL  111 (229)
T ss_dssp             -----------------------------------------------------------SSSSCCCTTCCCTTSCCHHHH
T ss_pred             -----------------------------------------------------------CCCCCCCCCCCCCCCCCCCCC
T ss_conf             -----------------------------------------------------------222222222232233443322


Q ss_pred             HHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC-CEEEECCCCCCCHHHHHH
Q ss_conf             9991999999999873899977778788994399999963998520002299999999649-812232788882999999
Q 001613          295 ATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHG-AIVSQQNKLGLTALHIAA  373 (1044)
Q Consensus       295 Aa~~G~~eiVk~LL~~~gadin~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~G-advn~~d~~G~TpLh~Aa  373 (1044)
                      ++..++.+++++|++. +.+.  +..+..|+||||+|+..+        +.+++++|++.+ .+++.+|..|+||||+|+
T Consensus       112 ~~~~~~~~~~~~l~~~-~~~~--~~~~~~g~t~l~~a~~~~--------~~~~~~~Ll~~~~~~in~~d~~g~TpLh~A~  180 (229)
T d1ixva_         112 AVGKKWFEVSQFLIEN-GASV--RIKDKFNQIPLHRAASVG--------SLKLIELLCGLGKSAVNWQDKQGWTPLFHAL  180 (229)
T ss_dssp             HHHTTCHHHHHHHHHT-TCCS--CCCCTTSCCHHHHHHHHT--------CHHHHHHHHTTTCCCSCCCCTTSCCHHHHHH
T ss_pred             CCCCCHHHHHHHHHHH-CCCC--CCCCCCCCCCCCHHHHCC--------CCCCCCCCCCCCCCCCCCCCCCCCCCHHHHC
T ss_conf             1232003432222110-0232--124788997350232124--------5332333322222222235666678102210


Q ss_pred             HCCCHHHHHHHHH-CCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCC
Q ss_conf             8599999999996-299975568889992999999869899999999779996
Q 001613          374 GSGNSQALEDLIR-KEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANS  425 (1044)
Q Consensus       374 ~~g~~eivk~LL~-~gad~iN~~d~~G~TpLh~Av~~g~~eiVklLL~~GAdi  425 (1044)
                      ..|+.+++++||+ .|++ ++.+|..|+||||+|+.   .+++++|+++|+|.
T Consensus       181 ~~~~~~~v~~Ll~~~gad-~~~~d~~g~t~l~~A~~---~~~~~~Ll~~g~d~  229 (229)
T d1ixva_         181 AEGHGDAAVLLVEKYGAE-YDLVDNKGAKAEDVALN---EQVKKFFLNNVVDA  229 (229)
T ss_dssp             HTTCHHHHHHHHHHHCCC-SCCCCTTSCCTGGGCSC---HHHHHHHHHHCCCC
T ss_pred             CCCCHHHHHHHHHHCCCC-CCCCCCCCCCHHHHHHH---HHHHHHHHHCCCCC
T ss_conf             125199999999965999-88858999999999846---78999999769999

>d1s70b_ d.211.1.1 (B:) Myosin phosphatase targeting subunit 1, MYPT1 {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Myosin phosphatase targeting subunit 1, MYPT1
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=100.00  E-value=2.7e-36  Score=251.42  Aligned_cols=244  Identities=22%  Similarity=0.237  Sum_probs=191.0

Q ss_pred             CCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHH
Q ss_conf             65112599999983999999999919999963443344789872999999909999999999869998843579998448
Q 001613           54 TAIVTKLLRVSCIFDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLP  133 (1044)
Q Consensus        54 ~~~~~T~Lh~AA~~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdin~~d~~g~T~lp  133 (1044)
                      ...+.|+|+.||..|++++|++||+.|    +++|..|. +|.||||+|+.+|+.++|++|+++|++....+..+.+  |
T Consensus        37 ~~~~~t~l~~A~~~G~~~~v~~Ll~~G----advn~~d~-~G~T~L~~A~~~g~~eiv~~Ll~~~~~~~~~~~~~~~--~  109 (291)
T d1s70b_          37 KFDDGAVFLAACSSGDTEEVLRLLERG----ADINYANV-DGLTALHQACIDDNVDMVKFLVENGANINQPDNEGWI--P  109 (291)
T ss_dssp             EECHHHHHHHHHHHTCHHHHHHHHHHC----CCTTCBCT-TCCBHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCC--H
T ss_pred             CCCCCHHHHHHHHCCCHHHHHHHHHCC----CCCCCCCC-CCCCHHHHHHHCCCCEEEEEECCCCCCCCCCCCCCCC--C
T ss_conf             889966999999858899999999879----99886689-9996999998619731211001222333332223233--3


Q ss_pred             HHHHHHCCCCCEECCCCCCCHHHHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             89998289963011888775358999982399999999997699965677886506847999999999830012478873
Q 001613          134 LELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVL  213 (1044)
Q Consensus       134 L~~Aa~~g~~eIv~~~~~~~~~~L~~Ai~~g~~eivklLL~~ga~i~~~~~~~a~~g~~~~l~~lL~~a~~~~~~~il~l  213 (1044)
                      |++++..++                       .+++++|+                                        
T Consensus       110 L~~a~~~~~-----------------------~~~~~~l~----------------------------------------  126 (291)
T d1s70b_         110 LHAAASCGY-----------------------LDIAEYLI----------------------------------------  126 (291)
T ss_dssp             HHHHHHHTC-----------------------HHHHHHHH----------------------------------------
T ss_pred             CCCCCCCCC-----------------------CCHHHCCC----------------------------------------
T ss_conf             333322221-----------------------10011012----------------------------------------


Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHH
Q ss_conf             16887633320256899999996098529999998299998601478888469999999984999887569999992999
Q 001613          214 HDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLI  293 (1044)
Q Consensus       214 ~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~ll~~ielLl~~gadin~~~~d~~G~TpLh  293 (1044)
                                                                                  +.|+..+..  +..+.++++
T Consensus       127 ------------------------------------------------------------~~~~~~~~~--~~~~~~~~~  144 (291)
T d1s70b_         127 ------------------------------------------------------------SQGAHVGAV--NSEGDTPLD  144 (291)
T ss_dssp             ------------------------------------------------------------HTTCCTTCC--CTTSCCHHH
T ss_pred             ------------------------------------------------------------CCCCCCCCC--CCCCCCCCC
T ss_conf             ------------------------------------------------------------467642222--246764222


Q ss_pred             HHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHHHHHH
Q ss_conf             99991999999999873899977778788994399999963998520002299999999649812232788882999999
Q 001613          294 LATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAA  373 (1044)
Q Consensus       294 ~Aa~~G~~eiVk~LL~~~gadin~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpLh~Aa  373 (1044)
                      +|+..++.+.++.++...+.++  ....       .......        .......+.....+....+..|.||||+|+
T Consensus       145 ~a~~~~~~~~~~~ll~~~~~~~--~~~~-------~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~g~t~L~~a~  207 (291)
T d1s70b_         145 IAEEEAMEELLQNEVNRQGVDI--EAAR-------KEEERIM--------LRDARQWLNSGHINDVRHAKSGGTALHVAA  207 (291)
T ss_dssp             HCCSHHHHHHHHHHHHHHTCCH--HHHH-------HHHHHHH--------HHHHHHHHHHTCCCCCCCTTTCCCHHHHHH
T ss_pred             CCCCCCCCHHCCCCCCCCCCCC--CCCC-------CCCCCCC--------CCCCHHHHCCCCCCCCCCCCCCCCHHHHHH
T ss_conf             2111222000100000246532--1100-------0013332--------211001101232110024678987304888


Q ss_pred             HCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCHHHH
Q ss_conf             85999999999962999755688899929999998698999999997799964445899949999997394999
Q 001613          374 GSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFL  447 (1044)
Q Consensus       374 ~~g~~eivk~LL~~gad~iN~~d~~G~TpLh~Av~~g~~eiVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~L  447 (1044)
                      ..|+.+++++|+.+|++ +|.++..|+||||+|+..|+.++|++|+++|||++.+|..|+||||+|++.....|
T Consensus       208 ~~~~~~~~~~Ll~~g~d-in~~~~~g~TpL~~A~~~g~~~iv~lLl~~Gadv~~~d~~G~TaL~~A~e~~~~~L  280 (291)
T d1s70b_         208 AKGYTEVLKLLIQARYD-VNIKDYDGWTPLHAAAHWGKEEACRILVENLCDMEAVNKVGQTAFDVADEDILGYL  280 (291)
T ss_dssp             HHTCHHHHHHHHTTTCC-TTCCCTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCTTTSCCSGGGHHH
T ss_pred             HCCCHHHHCCCCCCEEC-CCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             76995441013441011-24212579889999998598999999998799998868999999999999899999

>d1uoha_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=4.6e-35  Score=243.41  Aligned_cols=218  Identities=23%  Similarity=0.309  Sum_probs=191.6

Q ss_pred             CCHHHHHHHHCCCHHHHHHHH-HCCCCCCCCCCCCCCCHHHHHHHHCCCCCEECCCCCCCHHHHHHHHHCCCHHHHHHHH
Q ss_conf             872999999909999999999-8699988435799984488999828996301188877535899998239999999999
Q 001613           95 GMTALHLAAESHTARCVELLL-KKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLS  173 (1044)
Q Consensus        95 G~TpLH~Aa~~G~~eiVklLL-~~GAdin~~d~~g~T~lpL~~Aa~~g~~eIv~~~~~~~~~~L~~Ai~~g~~eivklLL  173 (1044)
                      +.+.|+.+|..|+.+.|+.+| +.+++++.+|.+|+|  |||+|+..|+                       .+++++|+
T Consensus         3 ~~~~~~~~a~~G~~~~v~~~l~~~~~~~~~~D~~G~T--pLh~Aa~~g~-----------------------~e~~~~l~   57 (223)
T d1uoha_           3 SNLMVCNLAYSGKLEELKESILADKSLATRTDQDSRT--ALHWACSAGH-----------------------TEIVEFLL   57 (223)
T ss_dssp             SSSHHHHHHHTTCHHHHHHHHHHCGGGGGCCCTTSCC--HHHHHHHHTC-----------------------HHHHHHHH
T ss_pred             CHHHHHHHHHHCCHHHHHHHHHHCCCCCCCCCCCCCC--HHHHHHHHHH-----------------------HCCCCCCC
T ss_conf             7799999999699999999999499747674899988--8999998511-----------------------02433222


Q ss_pred             HCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCC
Q ss_conf             76999656778865068479999999998300124788731688763332025689999999609852999999829999
Q 001613          174 QKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTP  253 (1044)
Q Consensus       174 ~~ga~i~~~~~~~a~~g~~~~l~~lL~~a~~~~~~~il~l~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~  253 (1044)
                      ..+..                                                                           
T Consensus        58 ~~~~~---------------------------------------------------------------------------   62 (223)
T d1uoha_          58 QLGVP---------------------------------------------------------------------------   62 (223)
T ss_dssp             HHTCC---------------------------------------------------------------------------
T ss_pred             CCCCC---------------------------------------------------------------------------
T ss_conf             22333---------------------------------------------------------------------------


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHH
Q ss_conf             86014788884699999999849998875699999929999999199999999987389997777878899439999996
Q 001613          254 TTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALK  333 (1044)
Q Consensus       254 ~~~~~~~~~~~ll~~ielLl~~gadin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadin~n~~d~~G~TpLh~Aa~  333 (1044)
                                               ....  +..+.++++.++..++.+++++|++. ++++  +..|..|.||||+|+.
T Consensus        63 -------------------------~~~~--~~~~~~~~~~~~~~~~~~i~~~Ll~~-~~d~--~~~d~~g~tpL~~A~~  112 (223)
T d1uoha_          63 -------------------------VNDK--DDAGWSPLHIAASAGRDEIVKALLGK-GAQV--NAVNQNGCTPLHYAAS  112 (223)
T ss_dssp             -------------------------SCCC--CTTCCCHHHHHHHHTCHHHHHHHHHT-TCCT--TCCCTTCCCHHHHHHH
T ss_pred             -------------------------CCCC--CCCCCCCCCCCCCCCCCCHHHHHHCC-CCEE--EEECCCCCCHHHHHHH
T ss_conf             -------------------------3322--22222332222221111016777406-8646--7548999966269887


Q ss_pred             CCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCHH
Q ss_conf             39985200022999999996498122327888829999998599999999996299975568889992999999869899
Q 001613          334 TSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMV  413 (1044)
Q Consensus       334 ~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpLh~Aa~~g~~eivk~LL~~gad~iN~~d~~G~TpLh~Av~~g~~e  413 (1044)
                      .+        +.+++++|+++|++++.++..|.||||+|+..++.+++++|+..+.+ ++.+|..|+||||+|+..|+.+
T Consensus       113 ~~--------~~e~~~~Ll~~g~d~~~~~~~~~t~L~~a~~~~~~~~~~~L~~~~~~-i~~~d~~g~TpL~~Aa~~g~~~  183 (223)
T d1uoha_         113 KN--------RHEIAVMLLEGGANPDAKDHYEATAMHRAAAKGNLKMIHILLYYKAS-TNIQDTEGNTPLHLACDEERVE  183 (223)
T ss_dssp             HT--------CHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCC-SCCCCTTCCCHHHHHHHTTCHH
T ss_pred             CC--------CHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHCCCCCHHHHHCCCCCE-EEECCCCCCCEECCCCCCCCHH
T ss_conf             69--------89999999987899987689999501023213874202332022320-1203688874112100258499


Q ss_pred             HHHHHHHCCCCCCCCCCCCCCHHHHHHHCCHHHHHHHHH
Q ss_conf             999999779996444589994999999739499999820
Q 001613          414 CAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAAN  452 (1044)
Q Consensus       414 iVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~LL~~~~  452 (1044)
                      +|++|+++|||++.+|..|+||||+|+ .|+..+++.+.
T Consensus       184 ~v~~LL~~Gad~~~~d~~g~tpl~~A~-~~~~~i~~~Ll  221 (223)
T d1uoha_         184 EAKLLVSQGASIYIENKEEKTPLQVAK-GGLGLILKRMV  221 (223)
T ss_dssp             HHHHHHHTTCCSCCCCTTSCCHHHHCC-TTHHHHHHHHH
T ss_pred             HHHHHHHCCCCCCCCCCCCCCHHHHHH-CCCHHHHHCCC
T ss_conf             999999877999887999999999987-78999983004

>d1wdya_ d.211.1.1 (A:) RNase L, 2-5a-dependent ribonuclease {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: RNase L, 2-5a-dependent ribonuclease
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.7e-34  Score=239.75  Aligned_cols=252  Identities=22%  Similarity=0.212  Sum_probs=204.9

Q ss_pred             CCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCC-CCCCCHHHHHHHHCCCCCEECCCCCCCHHHHHHHHHCCCHHHHHHH
Q ss_conf             987299999990999999999986999884357-9998448899982899630118887753589999823999999999
Q 001613           94 SGMTALHLAAESHTARCVELLLKKRARTDIRSK-DGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLL  172 (1044)
Q Consensus        94 ~G~TpLH~Aa~~G~~eiVklLL~~GAdin~~d~-~g~T~lpL~~Aa~~g~~eIv~~~~~~~~~~L~~Ai~~g~~eivklL  172 (1044)
                      ++.|+||+|++.|+.++|++||++|++++.++. .|+|  |||+|+..|+                       .+++++|
T Consensus         4 ~~~~~L~~Ai~~~~~e~vk~Ll~~G~din~~~~~~g~t--pL~~A~~~~~-----------------------~eiv~~L   58 (285)
T d1wdya_           4 EDNHLLIKAVQNEDVDLVQQLLEGGANVNFQEEEGGWT--PLHNAVQMSR-----------------------EDIVELL   58 (285)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTTCCC--HHHHHHHTTC-----------------------HHHHHHH
T ss_pred             CCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCC--HHHHHHHCCC-----------------------HHHHHHH
T ss_conf             88489999998299999999998798968248999979--9999998599-----------------------9886552


Q ss_pred             HHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCC
Q ss_conf             97699965677886506847999999999830012478873168876333202568999999960985299999982999
Q 001613          173 SQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNST  252 (1044)
Q Consensus       173 L~~ga~i~~~~~~~a~~g~~~~l~~lL~~a~~~~~~~il~l~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~  252 (1044)
                      ++.+......                                       ..              .+.++.++++..+..
T Consensus        59 ~~~~~~~~~~---------------------------------------~~--------------~~~~~~~~~~~~~~~   85 (285)
T d1wdya_          59 LRHGADPVLR---------------------------------------KK--------------NGATPFLLAAIAGSV   85 (285)
T ss_dssp             HHTTCCTTCC---------------------------------------CT--------------TCCCHHHHHHHHTCH
T ss_pred             CCCCCCCCCC---------------------------------------CC--------------CCCHHHHHHHHCCCC
T ss_conf             0234322222---------------------------------------21--------------111146777643875


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCC--------CCCCCC
Q ss_conf             986014788884699999999849998875699999929999999199999999987389997777--------878899
Q 001613          253 PTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDA--------DADADG  324 (1044)
Q Consensus       253 ~~~~~~~~~~~~ll~~ielLl~~gadin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadin~n--------~~d~~G  324 (1044)
                      +.              ...++....+....  +..+.+++++|+..++...+..++.. ..+++..        .....|
T Consensus        86 ~~--------------~~~~~~~~~~~~~~--~~~~~~~l~~a~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~g  148 (285)
T d1wdya_          86 KL--------------LKLFLSKGADVNEC--DFYGFTAFMEAAVYGKVKALKFLYKR-GANVNLRRKTKEDQERLRKGG  148 (285)
T ss_dssp             HH--------------HHHHHHTTCCTTCB--CTTCCBHHHHHHHTTCHHHHHHHHHT-TCCTTCCCCCCHHHHHTTCCC
T ss_pred             CC--------------CCHHHHHCCCCCCC--CCCCCCHHHHHHHHCCHHHHHHHHHH-CCCCCCCCCCHHHHHHHCCCC
T ss_conf             32--------------21134310221013--56898636788874001254454431-001132321012222201468


Q ss_pred             CHHHHHHHHCCCCCCCCCCHHHHHHHHHH-CCCEEEECCCCCCCHHHHHHHCC----CHHHHHHHHHCCCCCCCCCCCCC
Q ss_conf             43999999639985200022999999996-49812232788882999999859----99999999962999755688899
Q 001613          325 NSALHCALKTSMGLSQHILQNRIVGILLK-HGAIVSQQNKLGLTALHIAAGSG----NSQALEDLIRKEPDCINLKTIMM  399 (1044)
Q Consensus       325 ~TpLh~Aa~~g~~~~~~~~~~~ivklLL~-~Gadvn~~d~~G~TpLh~Aa~~g----~~eivk~LL~~gad~iN~~d~~G  399 (1044)
                      .||||+|+..+        +.+++++|++ .|++++..+..|.++++.+...+    ..+++++|+++|++ ++.++..|
T Consensus       149 ~t~L~~A~~~~--------~~~~~~~Ll~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~i~~~Li~~ga~-~n~~~~~g  219 (285)
T d1wdya_         149 ATALMDAAEKG--------HVEVLKILLDEMGADVNACDNMGRNALIHALLSSDDSDVEAITHLLLDHGAD-VNVRGERG  219 (285)
T ss_dssp             CCHHHHHHHHT--------CHHHHHHHHHTSCCCTTCCCTTSCCHHHHHHHCSCTTTHHHHHHHHHHTTCC-SSCCCTTS
T ss_pred             CHHHHHHHHCC--------CHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCC-CCCCCCCC
T ss_conf             56999999868--------9999999984569894554678983322332234301799999999977999-88668999


Q ss_pred             CCHHHHHHHCCCHHHHHHHHH-CCCCCCCCCCCCCCHHHHHHHCCHHHHHH
Q ss_conf             929999998698999999997-79996444589994999999739499999
Q 001613          400 ETPLFFAVKNDHMVCAEVLLR-WGANSEVLNLRRERPIDFAKSQDMRFLLK  449 (1044)
Q Consensus       400 ~TpLh~Av~~g~~eiVklLL~-~GAdin~~d~~G~TpLh~Aa~~g~~~LL~  449 (1044)
                      .||||+|+..|+.++|++|++ .|+|++.+|.+|.||||+|++.++.++++
T Consensus       220 ~t~L~~a~~~~~~~~v~~lL~~~g~din~~d~~G~TpL~~A~~~~~~eiv~  270 (285)
T d1wdya_         220 KTPLILAVEKKHLGLVQRLLEQEHIEINDTDSDGKTALLLAVELKLKKIAE  270 (285)
T ss_dssp             CCHHHHHHHTTCHHHHHHHHHSSSCCTTCCCTTSCCHHHHHHHTTCHHHHH
T ss_pred             CCCCCHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCHHHHH
T ss_conf             982411221386999999998089998687999989999999859799999

>d1oy3d_ d.211.1.1 (D:) Transcription factor inhibitor I-kappa-B-beta, IKBB {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Transcription factor inhibitor I-kappa-B-beta, IKBB
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=3e-35  Score=244.57  Aligned_cols=236  Identities=22%  Similarity=0.178  Sum_probs=170.1

Q ss_pred             CCCCCCCCCHHHHHHHHCCCHHHHHHHHHCCCC---CCCCCCCCCCCHHHHHHHHCCCCCEECCCCCCCHHHHHHHHHCC
Q ss_conf             334478987299999990999999999986999---88435799984488999828996301188877535899998239
Q 001613           88 NEVEESSGMTALHLAAESHTARCVELLLKKRAR---TDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQK  164 (1044)
Q Consensus        88 N~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAd---in~~d~~g~T~lpL~~Aa~~g~~eIv~~~~~~~~~~L~~Ai~~g  164 (1044)
                      +..+. +|.||||+||.+|+.++|++||++|++   ++.++..|.|  |||+|+..|+.                     
T Consensus         3 ~~i~~-~G~t~Lh~A~~~~~~~~v~~Ll~~~a~~~~i~~~~~~g~T--pL~~A~~~g~~---------------------   58 (255)
T d1oy3d_           3 GYVTE-DGDTALHLAVIHQHEPFLDFLLGFSAGHEYLDLQNDLGQT--ALHLAAILGEA---------------------   58 (255)
T ss_dssp             CCCCT-TCCCHHHHHHHTTCHHHHHHHHHHHTTSGGGGCCCTTSCC--HHHHHHHHTCH---------------------
T ss_pred             CCCCC-CCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCC--CCCHHHHHCCC---------------------
T ss_conf             65895-9978999999858899999999869990011575899997--24068762454---------------------


Q ss_pred             CHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHH
Q ss_conf             99999999976999656778865068479999999998300124788731688763332025689999999609852999
Q 001613          165 NLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQ  244 (1044)
Q Consensus       165 ~~eivklLL~~ga~i~~~~~~~a~~g~~~~l~~lL~~a~~~~~~~il~l~~adin~~~~~~~~~~~i~~a~~~gg~t~L~  244 (1044)
                        ++                                                                            
T Consensus        59 --~i----------------------------------------------------------------------------   60 (255)
T d1oy3d_          59 --ST----------------------------------------------------------------------------   60 (255)
T ss_dssp             --HH----------------------------------------------------------------------------
T ss_pred             --CC----------------------------------------------------------------------------
T ss_conf             --32----------------------------------------------------------------------------


Q ss_pred             HHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCC--
Q ss_conf             999829999860147888846999999998499988756999999299999991999999999873899977778788--
Q 001613          245 RAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADA--  322 (1044)
Q Consensus       245 ~A~~~g~~~~~~~~~~~~~~ll~~ielLl~~gadin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadin~n~~d~--  322 (1044)
                                              +++|++.|++++..  +..|.||||+|+..++.+++++|++. ....+....+.  
T Consensus        61 ------------------------v~~Ll~~ga~i~~~--d~~g~tpL~~A~~~~~~~~~~~Ll~~-~~~~~~~~~~~~~  113 (255)
T d1oy3d_          61 ------------------------VEKLYAAGAGVLVA--ERGGHTALHLACRVRAHTCACVLLQP-RPSHPRDASDTYL  113 (255)
T ss_dssp             ------------------------HHHHHHTTCCSSCC--CTTSCCHHHHHTTTTCHHHHHHHSSS-CCSSCCCC-----
T ss_pred             ------------------------CCCCCCCCCCCCCC--CCCCCHHHHHHHCCCCHHHHHHHHHH-CCCHHCCCCHHHH
T ss_conf             ------------------------32222333332232--22221023333226825899999861-4201012202566


Q ss_pred             ------CCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCC
Q ss_conf             ------99439999996399852000229999999964981223278888299999985999999999962999755688
Q 001613          323 ------DGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKT  396 (1044)
Q Consensus       323 ------~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpLh~Aa~~g~~eivk~LL~~gad~iN~~d  396 (1044)
                            ...+.+..+....    ...........+...+.+++.++..|.||||+|+..++.+++++|++++++..+..+
T Consensus       114 ~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~in~~d~~g~TpLh~A~~~~~~~~v~~Ll~~~~~~~~~~~  189 (255)
T d1oy3d_         114 TQSQDCTPDTSHAPAAVDS----QPNPENEEEPRDEDWRLQLEAENYDGHTPLHVAVIHKDAEMVRLLRDAGADLNKPEP  189 (255)
T ss_dssp             ----------------------------------CCCGGGGTTCCCTTSCCHHHHHHHTTCHHHHHHHHHHTCCTTCCCT
T ss_pred             HHHHHHCCCCHHHHHHHHH----HCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHCCCCCCCCCCC
T ss_conf             6776522430677999986----203067899876532866331004676322333223222222100001333122133


Q ss_pred             CCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCHHHHHHHHHHCCC
Q ss_conf             899929999998698999999997799964445899949999997394999998200276
Q 001613          397 IMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAANTCHT  456 (1044)
Q Consensus       397 ~~G~TpLh~Av~~g~~eiVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~LL~~~~~~~~  456 (1044)
                      ..|.||||+|+..++.+++++|+++|||++.+|..|.||||+|+..+..++++.+..+.+
T Consensus       190 ~~g~TpL~~A~~~~~~~~v~~Ll~~gadin~~d~~g~t~L~~A~~~~~~~i~~~Ll~~Ga  249 (255)
T d1oy3d_         190 TCGRTPLHLAVEAQAASVLELLLKAGADPTARMYGGRTPLGSALLRPNPILARLLRAHGA  249 (255)
T ss_dssp             TTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHTSSCHHHHHHHHHTTC
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCC
T ss_conf             444332200123339999999998789988879999999999998788999999997698

>d2fo1e1 d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Lin-12
species: Caenorhabditis elegans [TaxId: 6239]

Probab=100.00  E-value=3.4e-36  Score=250.81  Aligned_cols=80  Identities=24%  Similarity=0.206  Sum_probs=52.6

Q ss_pred             CCCHHHHHHHHCCCHHHHHHH--------HHCCCCCCCCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCC
Q ss_conf             112599999983999999999--------919999963443344789872999999909999999999869998843579
Q 001613           56 IVTKLLRVSCIFDSVSCATSL--------VNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKD  127 (1044)
Q Consensus        56 ~~~T~Lh~AA~~G~~eivk~L--------L~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdin~~d~~  127 (1044)
                      .+.||||+||..|+.+++++|        +..|    +|||.+|. +|.||||+|+.+|+.++|++||++|||++.++.+
T Consensus        32 ~g~T~Lh~A~~~g~~~~v~~Ll~~~~~~~l~~G----advn~~d~-~G~TpLh~A~~~g~~~iv~~Ll~~Gad~n~~~~~  106 (277)
T d2fo1e1          32 HNRTVLHWIASNSSAEKSEDLIVHEAKECIAAG----ADVNAMDC-DENTPLMLAVLARRRRLVAYLMKAGADPTIYNKS  106 (277)
T ss_dssp             SCCCHHHHHHCTTCCSCCTTHHHHHHHHHHHTC----CCTTCCCT-TSCCHHHHHHHHTCHHHHHHHHHTTCCSCCCCTT
T ss_pred             CCCCHHHHHHHCCCHHHHHHHHHCCHHHHHHCC----CCCCCCCC-CCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             996699999986899999999965236798769----97645478-8885100343333333333332232223322222


Q ss_pred             CCCCHHHHHHHHCCC
Q ss_conf             998448899982899
Q 001613          128 GRRLLPLELSLSSSR  142 (1044)
Q Consensus       128 g~T~lpL~~Aa~~g~  142 (1044)
                      |.|  +|++|+..++
T Consensus       107 g~t--~l~~a~~~~~  119 (277)
T d2fo1e1         107 ERS--ALHQAAANRD  119 (277)
T ss_dssp             CCC--HHHHHHHTTC
T ss_pred             CCC--CCCCHHHHCC
T ss_conf             222--2210011000

>d1ixva_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.5e-33  Score=233.59  Aligned_cols=216  Identities=23%  Similarity=0.288  Sum_probs=191.2

Q ss_pred             CHHHHHHHHCCCHHHHHHHHHC-CCCCCCCCCCCCCCHHHHHHHHCCCCCEECCCCCCCHHHHHHHHHCCCHHHHHHHHH
Q ss_conf             7299999990999999999986-999884357999844889998289963011888775358999982399999999997
Q 001613           96 MTALHLAAESHTARCVELLLKK-RARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQ  174 (1044)
Q Consensus        96 ~TpLH~Aa~~G~~eiVklLL~~-GAdin~~d~~g~T~lpL~~Aa~~g~~eIv~~~~~~~~~~L~~Ai~~g~~eivklLL~  174 (1044)
                      .||||+||..|+.++|+.||+. +++++.++.+|+|  |||+|+..|+                       .+++++|++
T Consensus         1 n~pLh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~G~T--pL~~A~~~g~-----------------------~~iv~~Ll~   55 (229)
T d1ixva_           1 NYPLHQACMENEFFKVQELLHSKPSLLLQKDQDGRI--PLHWSVSFQA-----------------------HEITSFLLS   55 (229)
T ss_dssp             CCHHHHHHHHTCHHHHHHHHHHCGGGTTCCCTTSCC--HHHHHHHTTC-----------------------HHHHHHHHT
T ss_pred             CHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCC--HHHHHHHCCC-----------------------CCCCCHHHH
T ss_conf             976999998689999999998099866565999998--9999998699-----------------------654413544


Q ss_pred             CCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCCC
Q ss_conf             69996567788650684799999999983001247887316887633320256899999996098529999998299998
Q 001613          175 KTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPT  254 (1044)
Q Consensus       175 ~ga~i~~~~~~~a~~g~~~~l~~lL~~a~~~~~~~il~l~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~  254 (1044)
                      +|++++..                                                                        
T Consensus        56 ~ga~~~~~------------------------------------------------------------------------   63 (229)
T d1ixva_          56 KMENVNLD------------------------------------------------------------------------   63 (229)
T ss_dssp             TCTTCCGG------------------------------------------------------------------------
T ss_pred             HHCCCCCC------------------------------------------------------------------------
T ss_conf             30123332------------------------------------------------------------------------


Q ss_pred             CCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHC
Q ss_conf             60147888846999999998499988756999999299999991999999999873899977778788994399999963
Q 001613          255 TSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKT  334 (1044)
Q Consensus       255 ~~~~~~~~~~ll~~ielLl~~gadin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadin~n~~d~~G~TpLh~Aa~~  334 (1044)
                                                 ...+..|.+++++++..+..++++.++.. +...+....+..+.++++.++..
T Consensus        64 ---------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~  115 (229)
T d1ixva_          64 ---------------------------DYPDDSGWTPFHIACSVGNLEVVKSLYDR-PLKPDLNKITNQGVTCLHLAVGK  115 (229)
T ss_dssp             ---------------------------GCCCTTSCCHHHHHHHHTCHHHHHHHHSS-SSCCCTTCCCTTSCCHHHHHHHT
T ss_pred             ---------------------------CCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             ---------------------------22322222222211112332333332222-22222222322334433221232


Q ss_pred             CCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCHHH
Q ss_conf             99852000229999999964981223278888299999985999999999962999755688899929999998698999
Q 001613          335 SMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVC  414 (1044)
Q Consensus       335 g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpLh~Aa~~g~~eivk~LL~~gad~iN~~d~~G~TpLh~Av~~g~~ei  414 (1044)
                      +        +.+++++|+..|.+.+..+..|+||||+|+..|+.+++++|++.+..++|.+|..|+||||+|+..|+.++
T Consensus       116 ~--------~~~~~~~l~~~~~~~~~~~~~g~t~l~~a~~~~~~~~~~~Ll~~~~~~in~~d~~g~TpLh~A~~~~~~~~  187 (229)
T d1ixva_         116 K--------WFEVSQFLIENGASVRIKDKFNQIPLHRAASVGSLKLIELLCGLGKSAVNWQDKQGWTPLFHALAEGHGDA  187 (229)
T ss_dssp             T--------CHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHHTCHHHHHHHHTTTCCCSCCCCTTSCCHHHHHHHTTCHHH
T ss_pred             C--------HHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCHHH
T ss_conf             0--------03432222110023212478899735023212453323333222222222356666781022101251999


Q ss_pred             HHHHHH-CCCCCCCCCCCCCCHHHHHHHCCH
Q ss_conf             999997-799964445899949999997394
Q 001613          415 AEVLLR-WGANSEVLNLRRERPIDFAKSQDM  444 (1044)
Q Consensus       415 VklLL~-~GAdin~~d~~G~TpLh~Aa~~g~  444 (1044)
                      |++||+ .|||++.+|..|+||||+|+...+
T Consensus       188 v~~Ll~~~gad~~~~d~~g~t~l~~A~~~~~  218 (229)
T d1ixva_         188 AVLLVEKYGAEYDLVDNKGAKAEDVALNEQV  218 (229)
T ss_dssp             HHHHHHHHCCCSCCCCTTSCCTGGGCSCHHH
T ss_pred             HHHHHHHCCCCCCCCCCCCCCHHHHHHHHHH
T ss_conf             9999996599988858999999999846789

>d2fo1e1 d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Lin-12
species: Caenorhabditis elegans [TaxId: 6239]

Probab=100.00  E-value=1.3e-32  Score=227.43  Aligned_cols=254  Identities=20%  Similarity=0.221  Sum_probs=174.1

Q ss_pred             HHHHHHHH-CCCHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHCCCHHHHHHH--------HHCCCCCCCCCCCCC
Q ss_conf             59999998-399999999991999996344334478987299999990999999999--------986999884357999
Q 001613           59 KLLRVSCI-FDSVSCATSLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELL--------LKKRARTDIRSKDGR  129 (1044)
Q Consensus        59 T~Lh~AA~-~G~~eivk~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklL--------L~~GAdin~~d~~g~  129 (1044)
                      ||||+++. .|+..+++.|.+.+      +|..+..+|+||||+||.+|+.++|++|        ++.|||+|.++.+|+
T Consensus         2 ~p~~~~~~~~~~~~~~~~l~~~~------~n~~~~~~g~T~Lh~A~~~g~~~~v~~Ll~~~~~~~l~~Gadvn~~d~~G~   75 (277)
T d2fo1e1           2 SPIKLHTEAAGSYAITEPITRES------VNIIDPRHNRTVLHWIASNSSAEKSEDLIVHEAKECIAAGADVNAMDCDEN   75 (277)
T ss_dssp             CCCHHHHHHHSSSCCCSCCSTTT------TTTCCCSSCCCHHHHHHCTTCCSCCTTHHHHHHHHHHHTCCCTTCCCTTSC
T ss_pred             CHHHHHHHHCCCHHHHHHHHHCC------CCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCHHHHHHCCCCCCCCCCCCC
T ss_conf             86999998179888999998669------986779999669999998689999999996523679876997645478888


Q ss_pred             CCHHHHHHHHCCCCCEECCCCCCCHHHHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             84488999828996301188877535899998239999999999769996567788650684799999999983001247
Q 001613          130 RLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNES  209 (1044)
Q Consensus       130 T~lpL~~Aa~~g~~eIv~~~~~~~~~~L~~Ai~~g~~eivklLL~~ga~i~~~~~~~a~~g~~~~l~~lL~~a~~~~~~~  209 (1044)
                      |  |||+|+..|+                                                                   
T Consensus        76 T--pLh~A~~~g~-------------------------------------------------------------------   86 (277)
T d2fo1e1          76 T--PLMLAVLARR-------------------------------------------------------------------   86 (277)
T ss_dssp             C--HHHHHHHHTC-------------------------------------------------------------------
T ss_pred             E--EECCCCCCCC-------------------------------------------------------------------
T ss_conf             5--1003433333-------------------------------------------------------------------


Q ss_pred             HHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             88731688763332025689999999609852999999829999860147888846999999998499988756999999
Q 001613          210 ILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVG  289 (1044)
Q Consensus       210 il~l~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~ll~~ielLl~~gadin~~~~d~~G~  289 (1044)
                                                                .++              +++|++.|++++..  +..|.
T Consensus        87 ------------------------------------------~~i--------------v~~Ll~~Gad~n~~--~~~g~  108 (277)
T d2fo1e1          87 ------------------------------------------RRL--------------VAYLMKAGADPTIY--NKSER  108 (277)
T ss_dssp             ------------------------------------------HHH--------------HHHHHHTTCCSCCC--CTTCC
T ss_pred             ------------------------------------------CCC--------------CCCCCCCCCCCCCC--CCCCC
T ss_conf             ------------------------------------------333--------------33332232223322--22222


Q ss_pred             CHHHHHHHCCCHHHHHHHHHCCC--CCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCC--------EEE
Q ss_conf             29999999199999999987389--99777787889943999999639985200022999999996498--------122
Q 001613          290 PPLILATQAGDEDVIEILLKSKN--IDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGA--------IVS  359 (1044)
Q Consensus       290 TpLh~Aa~~G~~eiVk~LL~~~g--adin~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Ga--------dvn  359 (1044)
                      |||++|+..++.++++++.....  ..+  +..+..+.++.+.+...+.     ......+.++.++..        ..+
T Consensus       109 t~l~~a~~~~~~~~~~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (277)
T d2fo1e1         109 SALHQAAANRDFGMMVYMLNSTKLKGDI--EELDRNGMTALMIVAHNEG-----RDQVASAKLLVEKGAKVDYDGAARKD  181 (277)
T ss_dssp             CHHHHHHHTTCHHHHHHHTTSHHHHHTT--SCCCTTSCCHHHHHHHSCS-----TTHHHHHHHHHHHTCCSSCCSGGGTS
T ss_pred             CCCCCHHHHCCHHHHHHHHHCCCCCCCC--CCCCCCCCHHHHHHHHCCC-----CCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             2221001100001234443114542222--2222211036788875034-----33222221001123322222234555


Q ss_pred             ECCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCHHHHH
Q ss_conf             32788882999999859999999999629997556888999299999986989999999977999644458999499999
Q 001613          360 QQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFA  439 (1044)
Q Consensus       360 ~~d~~G~TpLh~Aa~~g~~eivk~LL~~gad~iN~~d~~G~TpLh~Av~~g~~eiVklLL~~GAdin~~d~~G~TpLh~A  439 (1044)
                      ..+..|.|+||+++..++.+++++++.....+++.+|..|+||||+|+..|+.++|++|+++|||++.+|..|+||||+|
T Consensus       182 ~~~~~g~t~L~~~~~~~~~~~~~~~l~~~~~~~~~~d~~g~tpL~~A~~~g~~~iv~~Ll~~gadin~~d~~G~T~L~~A  261 (277)
T d2fo1e1         182 SEKYKGRTALHYAAQVSNMPIVKYLVGEKGSNKDKQDEDGKTPIMLAAQEGRIEVVMYLIQQGASVEAVDATDHTARQLA  261 (277)
T ss_dssp             SSSCCCCCTHHHHHSSCCHHHHHHHHHHSCCCTTCCCTTCCCHHHHHHHHTCHHHHHHHHHTTCCSSCCCSSSCCHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCHHHHH
T ss_conf             44668987000012233322222322234543334689999899999985989999999987699988699999999999


Q ss_pred             HHCCHHHHHHHHH
Q ss_conf             9739499999820
Q 001613          440 KSQDMRFLLKAAN  452 (1044)
Q Consensus       440 a~~g~~~LL~~~~  452 (1044)
                      +..|+.++++.+.
T Consensus       262 ~~~~~~~iv~lL~  274 (277)
T d2fo1e1         262 QANNHHNIVDIFD  274 (277)
T ss_dssp             HHTTCHHHHHHHH
T ss_pred             HHCCCHHHHHHHH
T ss_conf             9859899999999

>d1s70b_ d.211.1.1 (B:) Myosin phosphatase targeting subunit 1, MYPT1 {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Myosin phosphatase targeting subunit 1, MYPT1
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=100.00  E-value=2.8e-31  Score=218.66  Aligned_cols=210  Identities=16%  Similarity=0.145  Sum_probs=141.7

Q ss_pred             CCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHCCCCCEECCCCCCCHHHHHHHHHCCCHHHHHHHH
Q ss_conf             98729999999099999999998699988435799984488999828996301188877535899998239999999999
Q 001613           94 SGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLS  173 (1044)
Q Consensus        94 ~G~TpLH~Aa~~G~~eiVklLL~~GAdin~~d~~g~T~lpL~~Aa~~g~~eIv~~~~~~~~~~L~~Ai~~g~~eivklLL  173 (1044)
                      .+.|+|+.||..|+.++|++||++|+|+|..+.+|+|  |||+|+..|+                       .+++++|+
T Consensus        39 ~~~t~l~~A~~~G~~~~v~~Ll~~Gadvn~~d~~G~T--~L~~A~~~g~-----------------------~eiv~~Ll   93 (291)
T d1s70b_          39 DDGAVFLAACSSGDTEEVLRLLERGADINYANVDGLT--ALHQACIDDN-----------------------VDMVKFLV   93 (291)
T ss_dssp             CHHHHHHHHHHHTCHHHHHHHHHHCCCTTCBCTTCCB--HHHHHHHTTC-----------------------HHHHHHHH
T ss_pred             CCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCC--HHHHHHHCCC-----------------------CEEEEEEC
T ss_conf             9966999999858899999999879998866899996--9999986197-----------------------31211001


Q ss_pred             HCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCC
Q ss_conf             76999656778865068479999999998300124788731688763332025689999999609852999999829999
Q 001613          174 QKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTP  253 (1044)
Q Consensus       174 ~~ga~i~~~~~~~a~~g~~~~l~~lL~~a~~~~~~~il~l~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~  253 (1044)
                      +++.+.                                                                          
T Consensus        94 ~~~~~~--------------------------------------------------------------------------   99 (291)
T d1s70b_          94 ENGANI--------------------------------------------------------------------------   99 (291)
T ss_dssp             HTTCCT--------------------------------------------------------------------------
T ss_pred             CCCCCC--------------------------------------------------------------------------
T ss_conf             222333--------------------------------------------------------------------------


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHH
Q ss_conf             86014788884699999999849998875699999929999999199999999987389997777878899439999996
Q 001613          254 TTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALK  333 (1044)
Q Consensus       254 ~~~~~~~~~~~ll~~ielLl~~gadin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadin~n~~d~~G~TpLh~Aa~  333 (1044)
                                                ...  +..+.+||+.|+..++.++++.|++. ++..  +..+..+.+++++|+.
T Consensus       100 --------------------------~~~--~~~~~~~L~~a~~~~~~~~~~~l~~~-~~~~--~~~~~~~~~~~~~a~~  148 (291)
T d1s70b_         100 --------------------------NQP--DNEGWIPLHAAASCGYLDIAEYLISQ-GAHV--GAVNSEGDTPLDIAEE  148 (291)
T ss_dssp             --------------------------TCC--CTTSCCHHHHHHHHTCHHHHHHHHHT-TCCT--TCCCTTSCCHHHHCCS
T ss_pred             --------------------------CCC--CCCCCCCCCCCCCCCCCCHHHCCCCC-CCCC--CCCCCCCCCCCCCCCC
T ss_conf             --------------------------332--22323333333222211001101246-7642--2222467642222111


Q ss_pred             CCCCCCCCCCHHHHHHHHHH-CCCEEEECCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCH
Q ss_conf             39985200022999999996-49812232788882999999859999999999629997556888999299999986989
Q 001613          334 TSMGLSQHILQNRIVGILLK-HGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHM  412 (1044)
Q Consensus       334 ~g~~~~~~~~~~~ivklLL~-~Gadvn~~d~~G~TpLh~Aa~~g~~eivk~LL~~gad~iN~~d~~G~TpLh~Av~~g~~  412 (1044)
                      .+        ..++++.++. .+.++......+..+.       .......+.....+ ....+..|.||||+|+..|+.
T Consensus       149 ~~--------~~~~~~~ll~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~-~~~~~~~g~t~L~~a~~~~~~  212 (291)
T d1s70b_         149 EA--------MEELLQNEVNRQGVDIEAARKEEERIM-------LRDARQWLNSGHIN-DVRHAKSGGTALHVAAAKGYT  212 (291)
T ss_dssp             HH--------HHHHHHHHHHHHTCCHHHHHHHHHHHH-------HHHHHHHHHHTCCC-CCCCTTTCCCHHHHHHHHTCH
T ss_pred             CC--------CCHHCCCCCCCCCCCCCCCCCCCCCCC-------CCCCHHHHCCCCCC-CCCCCCCCCCHHHHHHHCCCH
T ss_conf             22--------200010000024653211000013332-------21100110123211-002467898730488876995


Q ss_pred             HHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCHHHHHH
Q ss_conf             9999999779996444589994999999739499999
Q 001613          413 VCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLK  449 (1044)
Q Consensus       413 eiVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~LL~  449 (1044)
                      +++++|+++|+|++.++..|+||||+|+..|..++++
T Consensus       213 ~~~~~Ll~~g~din~~~~~g~TpL~~A~~~g~~~iv~  249 (291)
T d1s70b_         213 EVLKLLIQARYDVNIKDYDGWTPLHAAAHWGKEEACR  249 (291)
T ss_dssp             HHHHHHHTTTCCTTCCCTTCCCHHHHHHHTTCHHHHH
T ss_pred             HHHCCCCCCEECCCCCCCCCCCHHHHHHHCCCHHHHH
T ss_conf             4410134410112421257988999999859899999

>d1k1aa_ d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: bcl-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=4.3e-30  Score=210.89  Aligned_cols=222  Identities=24%  Similarity=0.275  Sum_probs=133.3

Q ss_pred             CCCHHHHHHHHCCCHHHHHHHHH----CCCCCCCCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             11259999998399999999991----99999634433447898729999999099999999998699988435799984
Q 001613           56 IVTKLLRVSCIFDSVSCATSLVN----GDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRL  131 (1044)
Q Consensus        56 ~~~T~Lh~AA~~G~~eivk~LL~----~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdin~~d~~g~T~  131 (1044)
                      +|.||||+||.+|++++++.|++    .|    +++|.+|. .|.||||+|+..|+.++|++|+++|++++.....+.+ 
T Consensus         2 dG~TpLh~A~~~g~~~~v~~Ll~~~~~~g----~~in~~d~-~g~TpL~~A~~~~~~~iv~~Ll~~ga~~~~~~~~~~~-   75 (228)
T d1k1aa_           2 DGDTPLHIAVVQGNLPAVHRLVNLFQQGG----RELDIYNN-LRQTPLHLAVITTLPSVVRLLVTAGASPMALDRHGQT-   75 (228)
T ss_dssp             TTCCHHHHHHHTTCHHHHHHHHHHHHHTT----CCSCCCCT-TSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCC-
T ss_pred             CCCCHHHHHHHCCCHHHHHHHHHHHHHCC----CCCCCCCC-CCCCCCEEHHCCCCCCCCCCCCCCCCCCCCCCCCCCC-
T ss_conf             88429999998399999999999899779----97776689-9996241000135533333332222233433332223-


Q ss_pred             HHHHHHHHCCCCCEECCCCCCCHHHHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             48899982899630118887753589999823999999999976999656778865068479999999998300124788
Q 001613          132 LPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESIL  211 (1044)
Q Consensus       132 lpL~~Aa~~g~~eIv~~~~~~~~~~L~~Ai~~g~~eivklLL~~ga~i~~~~~~~a~~g~~~~l~~lL~~a~~~~~~~il  211 (1044)
                       +++.|....+                       .++++.+........                               
T Consensus        76 -~~~~a~~~~~-----------------------~~~~~~~~~~~~~~~-------------------------------  100 (228)
T d1k1aa_          76 -AAHLACEHRS-----------------------PTCLRALLDSAAPGT-------------------------------  100 (228)
T ss_dssp             -HHHHHHHTTC-----------------------HHHHHHHHHHSCTTS-------------------------------
T ss_pred             -CCCCCCCCCC-----------------------CCCHHHHHHCCCCCC-------------------------------
T ss_conf             -3322222345-----------------------210023442045432-------------------------------


Q ss_pred             HHCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCH
Q ss_conf             73168876333202568999999960985299999982999986014788884699999999849998875699999929
Q 001613          212 VLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPP  291 (1044)
Q Consensus       212 ~l~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~ll~~ielLl~~gadin~~~~d~~G~Tp  291 (1044)
                                                                                         ...........++
T Consensus       101 -------------------------------------------------------------------~~~~~~~~~~~~~  113 (228)
T d1k1aa_         101 -------------------------------------------------------------------LDLEARNYDGLTA  113 (228)
T ss_dssp             -------------------------------------------------------------------CCTTCCCTTSCCH
T ss_pred             -------------------------------------------------------------------CCCCCCCCCCCCC
T ss_conf             -------------------------------------------------------------------2322333322222


Q ss_pred             HHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHHHH
Q ss_conf             99999919999999998738999777787889943999999639985200022999999996498122327888829999
Q 001613          292 LILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHI  371 (1044)
Q Consensus       292 Lh~Aa~~G~~eiVk~LL~~~gadin~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpLh~  371 (1044)
                      |+.+.........+.|... ..+.. ......+.++|+.|+..+        ...++++++++|.+++.++..|.||||+
T Consensus       114 l~~~~~~~~~~~~~~l~~~-~~~~~-~~~~~~~~~~l~~a~~~~--------~~~~~~~~~~~~~~~~~~d~~g~t~L~~  183 (228)
T d1k1aa_         114 LHVAVNTECQETVQLLLER-GADID-AVDIKSGRSPLIHAVENN--------SLSMVQLLLQHGANVNAQMYSGSSALHS  183 (228)
T ss_dssp             HHHHHHHTCHHHHHHHHHT-TCCTT-CCCTTTCCCHHHHHHHTT--------CHHHHHHHHHTTCCTTCBCTTSCBHHHH
T ss_pred             CCCCCCCCCCHHHHHHHCC-CCCCC-CCCCCCHHHHHHHHHHHH--------HHHHHHHHHHHCCCCCCCCCCCCCHHHH
T ss_conf             2222222210013443001-23322-221000255788988751--------0023443222022322212368616899


Q ss_pred             HHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCHHHHH
Q ss_conf             998599999999996299975568889992999999869899999
Q 001613          372 AAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAE  416 (1044)
Q Consensus       372 Aa~~g~~eivk~LL~~gad~iN~~d~~G~TpLh~Av~~g~~eiVk  416 (1044)
                      |+..|+.+++++|+++|++ +|.+|..|.||||+|+.+|+.++||
T Consensus       184 A~~~g~~~~v~~Ll~~Gad-~n~~d~~G~TpL~~A~~~~~~divk  227 (228)
T d1k1aa_         184 ASGRGLLPLVRTLVRSGAD-SSLKNCHNDTPLMVARSRRVIDILR  227 (228)
T ss_dssp             HHHHTCHHHHHHHHHTTCC-TTCCCTTSCCTTTTCSSHHHHHHHT
T ss_pred             HHHCCCHHHHHHHHHCCCC-CCCCCCCCCCHHHHHHHCCCCCCCC
T ss_conf             9985879999999987899-9887899999999998687703538

>d1k1aa_ d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: bcl-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=3.8e-30  Score=211.30  Aligned_cols=220  Identities=24%  Similarity=0.287  Sum_probs=185.5

Q ss_pred             CCCHHHHHHHHCCCHHHHHHHHH----CCCCCCCCCCCCCCCHHHHHHHHCCCCCEECCCCCCCHHHHHHHHHCCCHHHH
Q ss_conf             98729999999099999999998----69998843579998448899982899630118887753589999823999999
Q 001613           94 SGMTALHLAAESHTARCVELLLK----KRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTV  169 (1044)
Q Consensus        94 ~G~TpLH~Aa~~G~~eiVklLL~----~GAdin~~d~~g~T~lpL~~Aa~~g~~eIv~~~~~~~~~~L~~Ai~~g~~eiv  169 (1044)
                      +|.||||+||..|+.++|++|++    .|++++..+..|+|  |||+|+..|+                       .+++
T Consensus         2 dG~TpLh~A~~~g~~~~v~~Ll~~~~~~g~~in~~d~~g~T--pL~~A~~~~~-----------------------~~iv   56 (228)
T d1k1aa_           2 DGDTPLHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNLRQT--PLHLAVITTL-----------------------PSVV   56 (228)
T ss_dssp             TTCCHHHHHHHTTCHHHHHHHHHHHHHTTCCSCCCCTTSCC--HHHHHHHTTC-----------------------HHHH
T ss_pred             CCCCHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCCCCC--CCEEHHCCCC-----------------------CCCC
T ss_conf             88429999998399999999999899779977766899996--2410001355-----------------------3333


Q ss_pred             HHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHC
Q ss_conf             99997699965677886506847999999999830012478873168876333202568999999960985299999982
Q 001613          170 KLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKR  249 (1044)
Q Consensus       170 klLL~~ga~i~~~~~~~a~~g~~~~l~~lL~~a~~~~~~~il~l~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~  249 (1044)
                      ++|++++                                                                         
T Consensus        57 ~~Ll~~g-------------------------------------------------------------------------   63 (228)
T d1k1aa_          57 RLLVTAG-------------------------------------------------------------------------   63 (228)
T ss_dssp             HHHHHTT-------------------------------------------------------------------------
T ss_pred             CCCCCCC-------------------------------------------------------------------------
T ss_conf             3332222-------------------------------------------------------------------------


Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCC--CCCCCCCCCCCHH
Q ss_conf             99998601478888469999999984999887569999992999999919999999998738999--7777878899439
Q 001613          250 NSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNID--INDADADADGNSA  327 (1044)
Q Consensus       250 g~~~~~~~~~~~~~~ll~~ielLl~~gadin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gad--in~n~~d~~G~Tp  327 (1044)
                                                 ++.+..  ...+.++++.|...++..+++.+... ...  ...+.......++
T Consensus        64 ---------------------------a~~~~~--~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  113 (228)
T d1k1aa_          64 ---------------------------ASPMAL--DRHGQTAAHLACEHRSPTCLRALLDS-AAPGTLDLEARNYDGLTA  113 (228)
T ss_dssp             ---------------------------CCTTCC--CTTSCCHHHHHHHTTCHHHHHHHHHH-SCTTSCCTTCCCTTSCCH
T ss_pred             ---------------------------CCCCCC--CCCCCCCCCCCCCCCCCCCHHHHHHC-CCCCCCCCCCCCCCCCCC
T ss_conf             ---------------------------233433--33222333222223452100234420-454322322333322222


Q ss_pred             HHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEE-ECCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHH
Q ss_conf             99999639985200022999999996498122-32788882999999859999999999629997556888999299999
Q 001613          328 LHCALKTSMGLSQHILQNRIVGILLKHGAIVS-QQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFA  406 (1044)
Q Consensus       328 Lh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn-~~d~~G~TpLh~Aa~~g~~eivk~LL~~gad~iN~~d~~G~TpLh~A  406 (1044)
                      |+.+....        .....+.|.....+.. .....+.++|+.|+..+...+++.++.++.. ++.+|..|.||||+|
T Consensus       114 l~~~~~~~--------~~~~~~~l~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~~~~-~~~~d~~g~t~L~~A  184 (228)
T d1k1aa_         114 LHVAVNTE--------CQETVQLLLERGADIDAVDIKSGRSPLIHAVENNSLSMVQLLLQHGAN-VNAQMYSGSSALHSA  184 (228)
T ss_dssp             HHHHHHHT--------CHHHHHHHHHTTCCTTCCCTTTCCCHHHHHHHTTCHHHHHHHHHTTCC-TTCBCTTSCBHHHHH
T ss_pred             CCCCCCCC--------CCHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCC-CCCCCCCCCCHHHHH
T ss_conf             22222222--------100134430012332222100025578898875100234432220223-222123686168999


Q ss_pred             HHCCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCHHHHHHH
Q ss_conf             98698999999997799964445899949999997394999998
Q 001613          407 VKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKA  450 (1044)
Q Consensus       407 v~~g~~eiVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~LL~~  450 (1044)
                      +..|+.+++++|+++|||++.+|..|+||||+|+.+++.+++++
T Consensus       185 ~~~g~~~~v~~Ll~~Gad~n~~d~~G~TpL~~A~~~~~~divk~  228 (228)
T d1k1aa_         185 SGRGLLPLVRTLVRSGADSSLKNCHNDTPLMVARSRRVIDILRG  228 (228)
T ss_dssp             HHHTCHHHHHHHHHTTCCTTCCCTTSCCTTTTCSSHHHHHHHTC
T ss_pred             HHCCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCCCC
T ss_conf             98587999999998789998878999999999986877035383

>d1ot8a_ d.211.1.1 (A:) Neurogenic locus notch receptor domain {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Neurogenic locus notch receptor domain
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.97  E-value=7.4e-30  Score=209.38  Aligned_cols=206  Identities=27%  Similarity=0.340  Sum_probs=146.2

Q ss_pred             HHHHHHHHHCCCCCCCCCCCC-CCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHCCCCCEECC
Q ss_conf             999999991999996344334-4789872999999909999999999869998843579998448899982899630118
Q 001613           70 VSCATSLVNGDLGPVALVNEV-EESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWN  148 (1044)
Q Consensus        70 ~eivk~LL~~g~~~~adiN~~-d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdin~~d~~g~T~lpL~~Aa~~g~~eIv~~  148 (1044)
                      .++|++|+++|    +|+|.+ |. +|.||||+||..|+.++|++|++.|++++.++..+.+  +++.++..++..    
T Consensus         2 ~~~v~~Ll~~g----~din~~~d~-~G~t~L~~A~~~g~~e~v~~Ll~~g~~~n~~~~~~~~--~~~~~~~~~~~~----   70 (209)
T d1ot8a_           2 AQVISDLLAQG----AELNATMDK-TGETSLHLAARFARADAAKRLLDAGADANSQDNTGRT--PLHAAVAADAMG----   70 (209)
T ss_dssp             HHHHHHHHHHH----HHHHHHHHH-HCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCC--HHHHHHHTTCHH----
T ss_pred             HHHHHHHHHCC----CCCCCCCCC-CCCCHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCCC--CCCCCCCCCCCC----
T ss_conf             89999999878----986867699-9988999999839999999987502233222222222--222222222222----


Q ss_pred             CCCCCHHHHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHH
Q ss_conf             88775358999982399999999997699965677886506847999999999830012478873168876333202568
Q 001613          149 PDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYE  228 (1044)
Q Consensus       149 ~~~~~~~~L~~Ai~~g~~eivklLL~~ga~i~~~~~~~a~~g~~~~l~~lL~~a~~~~~~~il~l~~adin~~~~~~~~~  228 (1044)
                                         ............                                                 
T Consensus        71 -------------------~~~~~~~~~~~~-------------------------------------------------   82 (209)
T d1ot8a_          71 -------------------VFQILLRNRATN-------------------------------------------------   82 (209)
T ss_dssp             -------------------HHHHHHTCTTCC-------------------------------------------------
T ss_pred             -------------------CCCCCCCCCCCC-------------------------------------------------
T ss_conf             -------------------222222222222-------------------------------------------------


Q ss_pred             HHHHHHHHCCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHH
Q ss_conf             99999996098529999998299998601478888469999999984999887569999992999999919999999998
Q 001613          229 CVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILL  308 (1044)
Q Consensus       229 ~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~ll~~ielLl~~gadin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL  308 (1044)
                                                                          .......+.++.+.+.........+.|+
T Consensus        83 ----------------------------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~L~  110 (209)
T d1ot8a_          83 ----------------------------------------------------LNARMHDGTTPLILAARLAIEGMVEDLI  110 (209)
T ss_dssp             ----------------------------------------------------TTCCCTTCCCHHHHHHHTTCTTHHHHHH
T ss_pred             ----------------------------------------------------CCCCCCCCCCCCCCCCCCCCHHHHHHHH
T ss_conf             ----------------------------------------------------3222222333222222221012355553


Q ss_pred             HCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHCCCHHHHHHHHHCC
Q ss_conf             73899977778788994399999963998520002299999999649812232788882999999859999999999629
Q 001613          309 KSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKE  388 (1044)
Q Consensus       309 ~~~gadin~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpLh~Aa~~g~~eivk~LL~~g  388 (1044)
                      .. ++++  +..+..|.|||++++..+        ...+++.+++.+++++..|..|.||||+|+..|+.+++++||++|
T Consensus       111 ~~-~~~~--~~~~~~~~t~l~~~~~~~--------~~~~~~~l~~~~~~~~~~d~~g~TpL~~A~~~g~~~~v~~Ll~~g  179 (209)
T d1ot8a_         111 TA-DADI--NAADNSGKTALHWAAAVN--------NTEAVNILLMHHANRDAQDDKDETPLFLAAREGSYEASKALLDNF  179 (209)
T ss_dssp             HT-TCCT--TCBCTTSCBHHHHHHHTT--------CHHHHHHHHHTTCCTTCCCTTCCCHHHHHHHTTCHHHHHHHHHTT
T ss_pred             HH-CCCC--CCCCCCCCCCCHHHCCCC--------CCEEEEEECCCCCCCCCCCCCCCCCCCHHCCCCHHHHHHHHHHCC
T ss_conf             10-1465--555779998230000368--------631453201222234544344455211210324999999999879


Q ss_pred             CCCCCCCCCCCCCHHHHHHHCCCHHHHHHH
Q ss_conf             997556888999299999986989999999
Q 001613          389 PDCINLKTIMMETPLFFAVKNDHMVCAEVL  418 (1044)
Q Consensus       389 ad~iN~~d~~G~TpLh~Av~~g~~eiVklL  418 (1044)
                      ++ ++.+|..|+||||+|+++|+.++|++|
T Consensus       180 ad-~n~~d~~g~Tpl~~A~~~~~~~iv~lL  208 (209)
T d1ot8a_         180 AN-REITDHMDRLPRDVASERLHHDIVRLL  208 (209)
T ss_dssp             CC-TTCCCTTSCCHHHHHHHTTCHHHHHHH
T ss_pred             CC-CCCCCCCCCCHHHHHHHCCCHHHHHHC
T ss_conf             99-988689999999999986879899643

>d1ot8a_ d.211.1.1 (A:) Neurogenic locus notch receptor domain {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Neurogenic locus notch receptor domain
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.97  E-value=7.5e-29  Score=202.81  Aligned_cols=187  Identities=26%  Similarity=0.285  Sum_probs=160.4

Q ss_pred             CCHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCC
Q ss_conf             85299999982999986014788884699999999849998875699999929999999199999999987389997777
Q 001613          239 RATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDA  318 (1044)
Q Consensus       239 g~t~L~~A~~~g~~~~~~~~~~~~~~ll~~ielLl~~gadin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadin~n  318 (1044)
                      |.||||+|+..|+.++              +++|+..|++++..  +..+.++++.++..++...............  .
T Consensus        23 G~t~L~~A~~~g~~e~--------------v~~Ll~~g~~~n~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~   84 (209)
T d1ot8a_          23 GETSLHLAARFARADA--------------AKRLLDAGADANSQ--DNTGRTPLHAAVAADAMGVFQILLRNRATNL--N   84 (209)
T ss_dssp             CCCHHHHHHHTTCHHH--------------HHHHHHTTCCTTCC--CTTSCCHHHHHHHTTCHHHHHHHHTCTTCCT--T
T ss_pred             CCCHHHHHHHCCCHHH--------------HHHHHHHCCCCCCC--CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC--C
T ss_conf             9889999998399999--------------99987502233222--2222222222222222222222222222223--2


Q ss_pred             CCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCC
Q ss_conf             87889943999999639985200022999999996498122327888829999998599999999996299975568889
Q 001613          319 DADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIM  398 (1044)
Q Consensus       319 ~~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpLh~Aa~~g~~eivk~LL~~gad~iN~~d~~  398 (1044)
                      .....+.++.+.+....        ...+.+.|...+++++.++..|+|||++++..+..++++.|+..+.+ ++..|..
T Consensus        85 ~~~~~~~~~~~~~~~~~--------~~~~~~~L~~~~~~~~~~~~~~~t~l~~~~~~~~~~~~~~l~~~~~~-~~~~d~~  155 (209)
T d1ot8a_          85 ARMHDGTTPLILAARLA--------IEGMVEDLITADADINAADNSGKTALHWAAAVNNTEAVNILLMHHAN-RDAQDDK  155 (209)
T ss_dssp             CCCTTCCCHHHHHHHTT--------CTTHHHHHHHTTCCTTCBCTTSCBHHHHHHHTTCHHHHHHHHHTTCC-TTCCCTT
T ss_pred             CCCCCCCCCCCCCCCCC--------CHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCEEEEEECCCCCC-CCCCCCC
T ss_conf             22222333222222221--------01235555310146555577999823000036863145320122223-4544344


Q ss_pred             CCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCHHHHHHHHH
Q ss_conf             992999999869899999999779996444589994999999739499999820
Q 001613          399 METPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAAN  452 (1044)
Q Consensus       399 G~TpLh~Av~~g~~eiVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~LL~~~~  452 (1044)
                      |.||||+|+..|+.++|++|+++|||++.+|..|+||||+|+++|+.++++.++
T Consensus       156 g~TpL~~A~~~g~~~~v~~Ll~~gad~n~~d~~g~Tpl~~A~~~~~~~iv~lL~  209 (209)
T d1ot8a_         156 DETPLFLAAREGSYEASKALLDNFANREITDHMDRLPRDVASERLHHDIVRLLD  209 (209)
T ss_dssp             CCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHC
T ss_pred             CCCCCCHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHCC
T ss_conf             455211210324999999999879999886899999999999868798996439

>d1iknd_ d.211.1.1 (D:) I-kappa-B-alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: I-kappa-B-alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=2.4e-30  Score=212.60  Aligned_cols=166  Identities=23%  Similarity=0.224  Sum_probs=74.2

Q ss_pred             HHHHHCCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHH
Q ss_conf             99998499988756999999299999991999999999873899977778788994399999963998520002299999
Q 001613          270 ELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVG  349 (1044)
Q Consensus       270 elLl~~gadin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadin~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivk  349 (1044)
                      +.+...+++++..  |..|+||||+|+..|+.+++++|++. |+++  +..+..|.|||++++..+        +.++++
T Consensus        23 ~~~~~~~~~in~~--d~~g~TpLh~A~~~~~~~iv~~L~~~-g~d~--~~~d~~g~t~l~~~~~~~--------~~~~~~   89 (221)
T d1iknd_          23 RQVKGDLAFLNFQ--NNLQQTPLHLAVITNQPEIAEALLGA-GCDP--ELRDFRGNTPLHLACEQG--------CLASVG   89 (221)
T ss_dssp             C-----CCCCCCC--CTTCCCHHHHHHHTTCHHHHHCCCSC-CCCS--CCCCTTCCCHHHHHHHHT--------CHHHHH
T ss_pred             HHHHHCCCCCCCC--CCCCCCCCCCCCCCCCCCCCCCCCCC-CCCC--CCCCCCCCCCCCCCCCCC--------CCCCCC
T ss_conf             9998679975367--89999546343343322233332222-2222--223223222222233322--------222111


Q ss_pred             HHHHCCCEE------EECCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCC-CCCCCHHHHHHHCCCHHHHHHHHHCC
Q ss_conf             999649812------23278888299999985999999999962999755688-89992999999869899999999779
Q 001613          350 ILLKHGAIV------SQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKT-IMMETPLFFAVKNDHMVCAEVLLRWG  422 (1044)
Q Consensus       350 lLL~~Gadv------n~~d~~G~TpLh~Aa~~g~~eivk~LL~~gad~iN~~d-~~G~TpLh~Av~~g~~eiVklLL~~G  422 (1044)
                      .|++.+...      +.....|.||||.|+..++.+++++|+..++. ++..+ .+|.||||+|+..|+.+++++|+++|
T Consensus        90 ~l~~~~~~~~~~~~~~~~~~~~~t~l~~a~~~~~~~~~~~l~~~~~~-~~~~~~~~G~T~L~~A~~~g~~~~v~~Ll~~g  168 (221)
T d1iknd_          90 VLTQSCTTPHLHSILKATNYNGHTCLHLASIHGYLGIVELLVSLGAD-VNAQEPCNGRTALHLAVDLQNPDLVSLLLKCG  168 (221)
T ss_dssp             HHHHSTTTTSSSCGGGCCCTTCCCHHHHHHHTTCHHHHHHHHHHTCC-TTCCCTTTCCCHHHHHHHTTCHHHHHHHHTTT
T ss_pred             HHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHCCCHHHEEEECCCCCC-CCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCC
T ss_conf             01110132333222222233432135677555982230100136863-11224467778431111222489888898638


Q ss_pred             CCCCCCCCCCCCHHHHHHHCCHHHHHH
Q ss_conf             996444589994999999739499999
Q 001613          423 ANSEVLNLRRERPIDFAKSQDMRFLLK  449 (1044)
Q Consensus       423 Adin~~d~~G~TpLh~Aa~~g~~~LL~  449 (1044)
                      ||++.+|..|+||||+|+..+..++++
T Consensus       169 ad~~~~~~~G~tpl~~A~~~~~~~~~~  195 (221)
T d1iknd_         169 ADVNRVTYQGYSPYQLTWGRPSTRIQQ  195 (221)
T ss_dssp             CCSCCCCTTCCCGGGGCTTSSCHHHHH
T ss_pred             CCCCCCCCCCCCHHHHHHHCCCHHHHH
T ss_conf             864566999989999999878899999

>d1iknd_ d.211.1.1 (D:) I-kappa-B-alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: I-kappa-B-alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=3.3e-29  Score=205.18  Aligned_cols=199  Identities=22%  Similarity=0.267  Sum_probs=152.8

Q ss_pred             CCCHHHHHHHHCCCHHHHH----HHHHCCCCCCCCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             1125999999839999999----999199999634433447898729999999099999999998699988435799984
Q 001613           56 IVTKLLRVSCIFDSVSCAT----SLVNGDLGPVALVNEVEESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRL  131 (1044)
Q Consensus        56 ~~~T~Lh~AA~~G~~eivk----~LL~~g~~~~adiN~~d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdin~~d~~g~T~  131 (1044)
                      +|.||||+|+.+|+.+++.    +++..+    +++|.+|. +|+||||+||..|+.+++++|++.|++++..+..|.+ 
T Consensus         1 dG~t~Lh~A~~~g~~~~~~~li~~~~~~~----~~in~~d~-~g~TpLh~A~~~~~~~iv~~L~~~g~d~~~~d~~g~t-   74 (221)
T d1iknd_           1 DGDSFLHLAIIHEEKALTMEVIRQVKGDL----AFLNFQNN-LQQTPLHLAVITNQPEIAEALLGAGCDPELRDFRGNT-   74 (221)
T ss_dssp             CCCCTTHHHHHTTCSSSSSCCCC-----C----CCCCCCCT-TCCCHHHHHHHTTCHHHHHCCCSCCCCSCCCCTTCCC-
T ss_pred             CCCHHHHHHHHCCCHHHHHHHHHHHHHCC----CCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-
T ss_conf             98729999998589999999999998679----97536789-9995463433433222333322222222223223222-


Q ss_pred             HHHHHHHHCCCCCEECCCCCCCHHHHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             48899982899630118887753589999823999999999976999656778865068479999999998300124788
Q 001613          132 LPLELSLSSSRMDVIWNPDEYSVEDLVVILGQKNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESIL  211 (1044)
Q Consensus       132 lpL~~Aa~~g~~eIv~~~~~~~~~~L~~Ai~~g~~eivklLL~~ga~i~~~~~~~a~~g~~~~l~~lL~~a~~~~~~~il  211 (1044)
                       ||++++..++                       .+++++|+..+......                             
T Consensus        75 -~l~~~~~~~~-----------------------~~~~~~l~~~~~~~~~~-----------------------------  101 (221)
T d1iknd_          75 -PLHLACEQGC-----------------------LASVGVLTQSCTTPHLH-----------------------------  101 (221)
T ss_dssp             -HHHHHHHHTC-----------------------HHHHHHHHHSTTTTSSS-----------------------------
T ss_pred             -CCCCCCCCCC-----------------------CCCCCHHHHHCCCCCCC-----------------------------
T ss_conf             -2222333222-----------------------22111011101323332-----------------------------


Q ss_pred             HHCCCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCH
Q ss_conf             73168876333202568999999960985299999982999986014788884699999999849998875699999929
Q 001613          212 VLHDSDLGAKEKTTIYECVIREALALGRATKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPP  291 (1044)
Q Consensus       212 ~l~~adin~~~~~~~~~~~i~~a~~~gg~t~L~~A~~~g~~~~~~~~~~~~~~ll~~ielLl~~gadin~~~~d~~G~Tp  291 (1044)
                                                                                         .........|.||
T Consensus       102 -------------------------------------------------------------------~~~~~~~~~~~t~  114 (221)
T d1iknd_         102 -------------------------------------------------------------------SILKATNYNGHTC  114 (221)
T ss_dssp             -------------------------------------------------------------------CGGGCCCTTCCCH
T ss_pred             -------------------------------------------------------------------CCCCCCCCCCCHH
T ss_conf             -------------------------------------------------------------------2222223343213


Q ss_pred             HHHHHHCCCHHHHHHHHHCCCCCCCCCCC-CCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHHH
Q ss_conf             99999919999999998738999777787-88994399999963998520002299999999649812232788882999
Q 001613          292 LILATQAGDEDVIEILLKSKNIDINDADA-DADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALH  370 (1044)
Q Consensus       292 Lh~Aa~~G~~eiVk~LL~~~gadin~n~~-d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpLh  370 (1044)
                      ||.|+..++.+++++|+.. +..+  +.. +.+|.||||+|+..|        +.+++++|+++|+|++.+|..|+||||
T Consensus       115 l~~a~~~~~~~~~~~l~~~-~~~~--~~~~~~~G~T~L~~A~~~g--------~~~~v~~Ll~~gad~~~~~~~G~tpl~  183 (221)
T d1iknd_         115 LHLASIHGYLGIVELLVSL-GADV--NAQEPCNGRTALHLAVDLQ--------NPDLVSLLLKCGADVNRVTYQGYSPYQ  183 (221)
T ss_dssp             HHHHHHTTCHHHHHHHHHH-TCCT--TCCCTTTCCCHHHHHHHTT--------CHHHHHHHHTTTCCSCCCCTTCCCGGG
T ss_pred             HHHHHHCCCHHHEEEECCC-CCCC--CCCCCCCCCCCCCCCCCCC--------CHHHHHHHHHCCCCCCCCCCCCCCHHH
T ss_conf             5677555982230100136-8631--1224467778431111222--------489888898638864566999989999


Q ss_pred             HHHHCCCHHHHHHHHHCCCCC
Q ss_conf             999859999999999629997
Q 001613          371 IAAGSGNSQALEDLIRKEPDC  391 (1044)
Q Consensus       371 ~Aa~~g~~eivk~LL~~gad~  391 (1044)
                      +|+..++.+++++|++...+.
T Consensus       184 ~A~~~~~~~~~~~l~~~~~~~  204 (221)
T d1iknd_         184 LTWGRPSTRIQQQLGQLTLEN  204 (221)
T ss_dssp             GCTTSSCHHHHHHHHTTSCGG
T ss_pred             HHHHCCCHHHHHHHHHCCCCC
T ss_conf             999878899999999828730

>d2ajaa1 a.118.24.1 (A:3-348) Hypothetical protein LPG2416 {Legionella pneumophila [TaxId: 446]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Pseudo ankyrin repeat-like
family: Pseudo ankyrin repeat
domain: Hypothetical protein LPG2416
species: Legionella pneumophila [TaxId: 446]

Probab=99.95  E-value=4.3e-30  Score=210.92  Aligned_cols=55  Identities=13%  Similarity=-0.062  Sum_probs=29.9

Q ss_pred             CCHHHHHHHCCCHHHHHHHHHCCCCC----CCCCCCCCCCHHHHHHHCCCHHHHHHHHH
Q ss_conf             82999999859999999999629997----55688899929999998698999999997
Q 001613          366 LTALHIAAGSGNSQALEDLIRKEPDC----INLKTIMMETPLFFAVKNDHMVCAEVLLR  420 (1044)
Q Consensus       366 ~TpLh~Aa~~g~~eivk~LL~~gad~----iN~~d~~G~TpLh~Av~~g~~eiVklLL~  420 (1044)
                      .++++.|+..++.+++++|++.+...    .+..+.+|+||||+|++.|+.++|++||+
T Consensus       280 ~~~l~~a~~~~~ld~v~~Ll~~~~~~~~~~~~~~~~~g~T~LhlA~~~Gn~e~v~lLL~  338 (346)
T d2ajaa1         280 LRNLIRRNDEVLLDDIRFLLSIPGIKALAPTATIPGDANELLRLALRLGNQGACALLLS  338 (346)
T ss_dssp             HHHHHHHCCGGGHHHHHHHHTSTTTGGGSSCCSSTTCCCHHHHHHHHHTCTTHHHHHTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHCCCHHHHCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHC
T ss_conf             22999986179599999998686755536445679999819999998481999999858

>d2ajaa1 a.118.24.1 (A:3-348) Hypothetical protein LPG2416 {Legionella pneumophila [TaxId: 446]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Pseudo ankyrin repeat-like
family: Pseudo ankyrin repeat
domain: Hypothetical protein LPG2416
species: Legionella pneumophila [TaxId: 446]

Probab=99.95  E-value=1.8e-30  Score=213.46  Aligned_cols=128  Identities=17%  Similarity=0.128  Sum_probs=49.4

Q ss_pred             CCCCHHHHHHHCCCHHHHHH---HHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECC-
Q ss_conf             99929999999199999999---98738999777787889943999999639985200022999999996498122327-
Q 001613          287 KVGPPLILATQAGDEDVIEI---LLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQN-  362 (1044)
Q Consensus       287 ~G~TpLh~Aa~~G~~eiVk~---LL~~~gadin~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d-  362 (1044)
                      .|.|||++|+.+|+.+++++   |++. |+++  +..+..|+||||+|+..|        +.++|++|+++|++++..+ 
T Consensus        89 ~~~t~L~~Aa~~g~~~~~~~~~~L~~~-~~~i--n~~~~~g~taL~~Aa~~G--------~~~~v~~Ll~~g~~~~~~~~  157 (346)
T d2ajaa1          89 KSEVICFVAAITGCSSALDTLCLLLTS-DEIV--KVIQAENYQAFRLAAENG--------HLHVLNRLCELAPTEIMAMI  157 (346)
T ss_dssp             CHHHHHHHHHHHCCHHHHHHHTTC--C-CSSC--C--CHHHHHHHHHHHHTT--------CHHHHHHHHHSCTTTHHHHH
T ss_pred             CCCCHHHHHHHHCCHHHHHHHHHHHHC-CCCC--CCCCCCCCCHHHHHHHCC--------CHHHHHHHHHCCCCCCCCCC
T ss_conf             888499999985998899999999838-9855--336899997999999878--------99999999986997021455


Q ss_pred             -CCCCCHHHHHHHCCCHHHHHHHHHCCCCC--CCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCC
Q ss_conf             -88882999999859999999999629997--5568889992999999869899999999779996
Q 001613          363 -KLGLTALHIAAGSGNSQALEDLIRKEPDC--INLKTIMMETPLFFAVKNDHMVCAEVLLRWGANS  425 (1044)
Q Consensus       363 -~~G~TpLh~Aa~~g~~eivk~LL~~gad~--iN~~d~~G~TpLh~Av~~g~~eiVklLL~~GAdi  425 (1044)
                       ..|+||||+|+..|+.++|++|++.|+..  .+..+..+.||++.|+.+|+.++|++|+++||++
T Consensus       158 ~~~g~t~L~~Aa~~g~~~iv~~Ll~~~~~~~~~~~~~~~~~t~l~~A~~~g~~~iv~~Ll~~ga~~  223 (346)
T d2ajaa1         158 QAENYHAFRLAAENGHLHVLNRLCELAPTEATAMIQAENYYAFRWAAVGRGHHNVINFLLDCPVML  223 (346)
T ss_dssp             SHHHHHHHHHHHHTTCHHHHHHHHHSCGGGHHHHHHHHHHHHHHHHHSTTCCHHHHHHHTTSHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHCCHHHHHHHHHHCCCCC
T ss_conf             569987438998875679999999769942012001689963115776248899999999689986

>d1sw6a_ d.211.1.1 (A:) Swi6 ankyrin-repeat fragment {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Swi6 ankyrin-repeat fragment
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.93  E-value=2.5e-25  Score=179.82  Aligned_cols=197  Identities=19%  Similarity=0.158  Sum_probs=120.7

Q ss_pred             CCCCCC-CCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHCCCCCEECCCCCCCHHHHHHHHHC
Q ss_conf             344334-4789872999999909999999999869998843579998448899982899630118887753589999823
Q 001613           85 ALVNEV-EESSGMTALHLAAESHTARCVELLLKKRARTDIRSKDGRRLLPLELSLSSSRMDVIWNPDEYSVEDLVVILGQ  163 (1044)
Q Consensus        85 adiN~~-d~~~G~TpLH~Aa~~G~~eiVklLL~~GAdin~~d~~g~T~lpL~~Aa~~g~~eIv~~~~~~~~~~L~~Ai~~  163 (1044)
                      .++|.. |. .|.||||+||..|+.++|++||++|||++.++..|+|  |||+|+..++..                 ..
T Consensus        97 ~dvn~~~D~-~G~T~LH~Aa~~g~~~~v~~Ll~~gad~~~~d~~G~T--pL~~A~~~~~~~-----------------~~  156 (301)
T d1sw6a_          97 LNLNIPVDE-HGNTPLHWLTSIANLELVKHLVKHGSNRLYGDNMGES--CLVKAVKSVNNY-----------------DS  156 (301)
T ss_dssp             CCSCSCCST-TCCCHHHHHHHTTCHHHHHHHHHTTCCTTBCCTTCCC--HHHHHHHSSHHH-----------------HT
T ss_pred             CCCCCCCCC-CCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCC--HHHHHHHCCCCH-----------------HH
T ss_conf             786868689-9988899999867999999999878997767764351--777742202202-----------------46


Q ss_pred             CCHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCHHH
Q ss_conf             99999999997699965677886506847999999999830012478873168876333202568999999960985299
Q 001613          164 KNLTTVKLLSQKTKELDEVAYANAVGGRIVALAALLIVAADKVNESILVLHDSDLGAKEKTTIYECVIREALALGRATKL  243 (1044)
Q Consensus       164 g~~eivklLL~~ga~i~~~~~~~a~~g~~~~l~~lL~~a~~~~~~~il~l~~adin~~~~~~~~~~~i~~a~~~gg~t~L  243 (1044)
                      +.+   ..+                                                                       
T Consensus       157 ~~~---~~l-----------------------------------------------------------------------  162 (301)
T d1sw6a_         157 GTF---EAL-----------------------------------------------------------------------  162 (301)
T ss_dssp             TCH---HHH-----------------------------------------------------------------------
T ss_pred             HHH---HHH-----------------------------------------------------------------------
T ss_conf             669---999-----------------------------------------------------------------------


Q ss_pred             HHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf             99998299998601478888469999999984999887569999992999999919999999998738999777787889
Q 001613          244 QRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADADAD  323 (1044)
Q Consensus       244 ~~A~~~g~~~~~~~~~~~~~~ll~~ielLl~~gadin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadin~n~~d~~  323 (1044)
                                               ++++.   ..++.  .|..|+||||.++..+....                    
T Consensus       163 -------------------------l~~l~---~~~~~--~d~~g~t~lh~~~~~~~~~~--------------------  192 (301)
T d1sw6a_         163 -------------------------LDYLY---PCLIL--EDSMNRTILHHIIITSGMTG--------------------  192 (301)
T ss_dssp             -------------------------HHHHG---GGGGE--ECTTCCCHHHHHHHHHTSTT--------------------
T ss_pred             -------------------------HHHHH---HHHHH--CCCCCCCHHHHHHHHHCCCC--------------------
T ss_conf             -------------------------99976---45551--34532778799999837554--------------------


Q ss_pred             CCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCE-EEECCCCCCCHHHHHHHCCCHHHHH-----HHHHCCCCCCCCCCC
Q ss_conf             9439999996399852000229999999964981-2232788882999999859999999-----999629997556888
Q 001613          324 GNSALHCALKTSMGLSQHILQNRIVGILLKHGAI-VSQQNKLGLTALHIAAGSGNSQALE-----DLIRKEPDCINLKTI  397 (1044)
Q Consensus       324 G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gad-vn~~d~~G~TpLh~Aa~~g~~eivk-----~LL~~gad~iN~~d~  397 (1044)
                          ...++++.        ...++.++++.+.. .......+.++++.+........+.     .++..  . +|.+|.
T Consensus       193 ----~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~-in~~D~  257 (301)
T d1sw6a_         193 ----CSAAAKYY--------LDILMGWIVKKQNRPIQSGTNEKESKPNDKNGERKDSILENLDLKWIIAN--M-LNAQDS  257 (301)
T ss_dssp             ----CHHHHHHH--------HHHHHHHHHHGGGCCEEEC----------------CHHHHHCSHHHHHHH--T-TTCCCT
T ss_pred             ----CHHHHHHH--------HHHHHHHHHHCCCCCHHCCCCCCCCHHHHHHHCCHHHHHHHHHHHHHHHC--C-CCCCCC
T ss_conf             ----18999998--------99999999865872000024566404689886014889999866778860--7-668789


Q ss_pred             CCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHH
Q ss_conf             9992999999869899999999779996444589994999999
Q 001613          398 MMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAK  440 (1044)
Q Consensus       398 ~G~TpLh~Av~~g~~eiVklLL~~GAdin~~d~~G~TpLh~Aa  440 (1044)
                      .|+||||+|++.|+.++|++|+++|||++++|..|+|||++|+
T Consensus       258 ~G~TpLh~A~~~g~~~iv~~Ll~~GAd~~~~n~~G~Tpl~~A~  300 (301)
T d1sw6a_         258 NGDTCLNIAARLGNISIVDALLDYGADPFIANKSGLRPVDFGA  300 (301)
T ss_dssp             TSCCHHHHHHHHCCHHHHHHHHHTTCCTTCCCTTSCCGGGGTC
T ss_pred             CCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCHHHHCC
T ss_conf             9988999999868799999999879999998999999999737

>d1ihba_ d.211.1.1 (A:) p18ink4C(ink6) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: p18ink4C(ink6)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=1.1e-24  Score=175.61  Aligned_cols=147  Identities=24%  Similarity=0.343  Sum_probs=65.7

Q ss_pred             CHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHH
Q ss_conf             29999999199999999987389997777878899439999996399852000229999999964981223278888299
Q 001613          290 PPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTAL  369 (1044)
Q Consensus       290 TpLh~Aa~~G~~eiVk~LL~~~gadin~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpL  369 (1044)
                      ++||+|+..|+.++|++|++. |+++  +.+|..|.||||+|+ .+        +.+++++|+++|++++..+..|.+++
T Consensus         3 ~~Lh~Aa~~g~~~~v~~Ll~~-g~d~--n~~d~~g~TpL~~A~-~~--------~~ei~~~Ll~~~a~~~~~~~~~~~~l   70 (156)
T d1ihba_           3 NELASAAARGDLEQLTSLLQN-NVNV--NAQNGFGRTALQVMK-LG--------NPEIARRLLLRGANPDLKDRTGFAVI   70 (156)
T ss_dssp             HHHHHHHHHTCHHHHHHHTTS-CCCT--TCCCTTSCCHHHHCC-SS--------CHHHHHHHHHTTCCTTCCCTTSCCHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHC-CCCC--CCCCCCCCCCCCCCC-CC--------CCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             899999986799999999987-8796--746774453212222-22--------22222222222222212123575322


Q ss_pred             HHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCC-CCCCCCCCCCCHHHHHHHCCHHHHH
Q ss_conf             999985999999999962999755688899929999998698999999997799-9644458999499999973949999
Q 001613          370 HIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGA-NSEVLNLRRERPIDFAKSQDMRFLL  448 (1044)
Q Consensus       370 h~Aa~~g~~eivk~LL~~gad~iN~~d~~G~TpLh~Av~~g~~eiVklLL~~GA-din~~d~~G~TpLh~Aa~~g~~~LL  448 (1044)
                      +.++..++.+.++.|+..+.+ ++..+..|.+|||+|+..++.+++++|+++|+ +++.+|..|.||||+|+..++.+++
T Consensus        71 ~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~~~~l~~a~~~~~~~~~~~Ll~~~~~~~~~~d~~g~TpL~~A~~~~~~~iv  149 (156)
T d1ihba_          71 HDAARAGFLDTLQTLLEFQAD-VNIEDNEGNLPLHLAAKEGHLRVVEFLVKHTASNVGHRNHKGDTACDLARLYGRNEVV  149 (156)
T ss_dssp             HHHHHHTCHHHHHHHHHTTCC-TTCCCTTSCCHHHHHHHTTCHHHHHHHHHHSCCCTTCCCTTSCCHHHHHHHTTCHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCHHHH
T ss_conf             233222222222222112222-2235644321122333322122222222122011224589998999999983989999


Q ss_pred             H
Q ss_conf             9
Q 001613          449 K  449 (1044)
Q Consensus       449 ~  449 (1044)
                      +
T Consensus       150 ~  150 (156)
T d1ihba_         150 S  150 (156)
T ss_dssp             H
T ss_pred             H
T ss_conf             9

>d1bd8a_ d.211.1.1 (A:) Cell cycle inhibitor p19ink4D {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Cell cycle inhibitor p19ink4D
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=2.6e-24  Score=173.12  Aligned_cols=149  Identities=23%  Similarity=0.265  Sum_probs=118.1

Q ss_pred             CHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHH
Q ss_conf             29999999199999999987389997777878899439999996399852000229999999964981223278888299
Q 001613          290 PPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTAL  369 (1044)
Q Consensus       290 TpLh~Aa~~G~~eiVk~LL~~~gadin~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpL  369 (1044)
                      ..|+.|+..|+.++|++||+..++++  +..|..|+||||+|+. +        +.+++++|++++++++..+..|.+|+
T Consensus         4 ~~L~~Aa~~g~~~~vk~lL~~~~~~~--n~~d~~g~t~L~~A~~-~--------~~~~v~~Ll~~~~~~~~~~~~~~~~l   72 (156)
T d1bd8a_           4 DRLSGAAARGDVQEVRRLLHRELVHP--DALNRFGKTALQVMMF-G--------STAIALELLKQGASPNVQDTSGTSPV   72 (156)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHTTCCCT--TCCCTTSCCHHHHSCT-T--------CHHHHHHHHHTTCCTTCCCTTSCCHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHCCCCC--CCCCCCCCCCCCCCCC-C--------CCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             79999999589999999999589998--8648999841334322-2--------22222222222222222222222222


Q ss_pred             HHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCHHHHHH
Q ss_conf             99998599999999996299975568889992999999869899999999779996444589994999999739499999
Q 001613          370 HIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLK  449 (1044)
Q Consensus       370 h~Aa~~g~~eivk~LL~~gad~iN~~d~~G~TpLh~Av~~g~~eiVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~LL~  449 (1044)
                      ++++..++.++++++++++++ +|.+|..|.||||+|+..|+.+++++|+ .|++++.+|..|+||||+|+..|..++++
T Consensus        73 ~~~~~~~~~~~~~~~l~~~~~-~n~~~~~~~t~L~~A~~~~~~~i~~~L~-~~~~~~~~d~~G~TpL~~A~~~g~~~iv~  150 (156)
T d1bd8a_          73 HDAARTGFLDTLKVLVEHGAD-VNVPDGTGALPIHLAVQEGHTAVVSFLA-AESDLHRRDARGLTPLELALQRGAQDLVD  150 (156)
T ss_dssp             HHHHHTTCHHHHHHHHHTTCC-SCCCCTTSCCHHHHHHHHTCHHHHHHHH-TTSCTTCCCTTSCCHHHHHHHSCCHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCEEECCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCHHHHHHHCCCHHHHH
T ss_conf             222222222222222222122-1123677872221222233222211112-22566466899999999999859899999


Q ss_pred             HH
Q ss_conf             82
Q 001613          450 AA  451 (1044)
Q Consensus       450 ~~  451 (1044)
                      .+
T Consensus       151 ~L  152 (156)
T d1bd8a_         151 IL  152 (156)
T ss_dssp             HH
T ss_pred             HH
T ss_conf             99

>d1ihba_ d.211.1.1 (A:) p18ink4C(ink6) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: p18ink4C(ink6)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=3.8e-24  Score=172.10  Aligned_cols=154  Identities=18%  Similarity=0.173  Sum_probs=104.6

Q ss_pred             HHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCC
Q ss_conf             29999998299998601478888469999999984999887569999992999999919999999998738999777787
Q 001613          241 TKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADA  320 (1044)
Q Consensus       241 t~L~~A~~~g~~~~~~~~~~~~~~ll~~ielLl~~gadin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadin~n~~  320 (1044)
                      ++||+|+..|+.++              +++|++.|++++..  |..|.||||+|+ .|+.+++++|++. ++++  +..
T Consensus         3 ~~Lh~Aa~~g~~~~--------------v~~Ll~~g~d~n~~--d~~g~TpL~~A~-~~~~ei~~~Ll~~-~a~~--~~~   62 (156)
T d1ihba_           3 NELASAAARGDLEQ--------------LTSLLQNNVNVNAQ--NGFGRTALQVMK-LGNPEIARRLLLR-GANP--DLK   62 (156)
T ss_dssp             HHHHHHHHHTCHHH--------------HHHHTTSCCCTTCC--CTTSCCHHHHCC-SSCHHHHHHHHHT-TCCT--TCC
T ss_pred             HHHHHHHHCCCHHH--------------HHHHHHCCCCCCCC--CCCCCCCCCCCC-CCCCCCCCCCCCC-CCCC--CCC
T ss_conf             89999998679999--------------99999878796746--774453212222-2222222222222-2222--121


Q ss_pred             CCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf             88994399999963998520002299999999649812232788882999999859999999999629997556888999
Q 001613          321 DADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMME  400 (1044)
Q Consensus       321 d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpLh~Aa~~g~~eivk~LL~~gad~iN~~d~~G~  400 (1044)
                      +..+.++|+.++..+        +...+++|++++.+++..+..|.+|+|+|+..++.+++++|+++++.+++.+|..|.
T Consensus        63 ~~~~~~~l~~~~~~~--------~~~~~~~l~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~Ll~~~~~~~~~~d~~g~  134 (156)
T d1ihba_          63 DRTGFAVIHDAARAG--------FLDTLQTLLEFQADVNIEDNEGNLPLHLAAKEGHLRVVEFLVKHTASNVGHRNHKGD  134 (156)
T ss_dssp             CTTSCCHHHHHHHHT--------CHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHHSCCCTTCCCTTSC
T ss_pred             CCCCCCCCCCCCCCC--------CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             235753222332222--------222222221122222235644321122333322122222222122011224589998


Q ss_pred             CHHHHHHHCCCHHHHHHHHHCC
Q ss_conf             2999999869899999999779
Q 001613          401 TPLFFAVKNDHMVCAEVLLRWG  422 (1044)
Q Consensus       401 TpLh~Av~~g~~eiVklLL~~G  422 (1044)
                      ||||+|+..++.+++++|+++|
T Consensus       135 TpL~~A~~~~~~~iv~~Ll~~G  156 (156)
T d1ihba_         135 TACDLARLYGRNEVVSLMQANG  156 (156)
T ss_dssp             CHHHHHHHTTCHHHHHHHHHTC
T ss_pred             CHHHHHHHCCCHHHHHHHHHCC
T ss_conf             9999999839899999999667

>d1awcb_ d.211.1.1 (B:) GA bindinig protein (GABP) beta 1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: GA bindinig protein (GABP) beta 1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.92  E-value=8.9e-24  Score=169.64  Aligned_cols=149  Identities=26%  Similarity=0.394  Sum_probs=129.6

Q ss_pred             CHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHH
Q ss_conf             29999999199999999987389997777878899439999996399852000229999999964981223278888299
Q 001613          290 PPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTAL  369 (1044)
Q Consensus       290 TpLh~Aa~~G~~eiVk~LL~~~gadin~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpL  369 (1044)
                      |||+.|++.|+.++|++||+. |+++  + .+..|.||||+|+..+        +.++++.++.........+..+.+++
T Consensus         4 t~L~~Aa~~g~~~~v~~LL~~-ga~~--~-~~~~g~t~L~~a~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~   71 (153)
T d1awcb_           4 KKLLEAARAGQDDEVRILMAN-GAPF--T-TDWLGTSPLHLAAQYG--------HFSTTEVLLRAGVSRDARTKVDRTPL   71 (153)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHH-TCCC--C-CCTTCCCHHHHHHHHT--------CHHHHHHHHTTTCCTTCCCTTCCCHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHC-CCCC--C-CCCCCCCCCCCCCCCC--------CCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             799999987899999999986-9983--4-2447875333432322--------22222222222222221222233323


Q ss_pred             HHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCHHHHHH
Q ss_conf             99998599999999996299975568889992999999869899999999779996444589994999999739499999
Q 001613          370 HIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLK  449 (1044)
Q Consensus       370 h~Aa~~g~~eivk~LL~~gad~iN~~d~~G~TpLh~Av~~g~~eiVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~LL~  449 (1044)
                      +.++...+.+++++|+.++++ ++.++..|.||||+|+..|+.++|++|+++|+|++.+|..|.||||+|+.+|+.++++
T Consensus        72 ~~~~~~~~~~~~~~l~~~~~~-~~~~~~~g~T~L~~A~~~g~~~iv~~ll~~gad~~~~d~~g~Tpl~~A~~~g~~eiv~  150 (153)
T d1awcb_          72 HMAASEGHANIVEVLLKHGAD-VNAKDMLKMTALHWATEHNHQEVVELLIKYGADVHTQSKFCKTAFDISIDNGNEDLAE  150 (153)
T ss_dssp             HHHHHHTCHHHHHHHHTTTCC-TTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHH
T ss_pred             CCCCCCCCCEEEECCCCCCCC-CCCCCCCCCHHHHHHHHCCHHHEEEECCCCCCCCCCCCCCCCCHHHHHHHCCCHHHHH
T ss_conf             222233110122122246876-1232246734777664302224123114344677266898999999999859999998


Q ss_pred             HH
Q ss_conf             82
Q 001613          450 AA  451 (1044)
Q Consensus       450 ~~  451 (1044)
                      .+
T Consensus       151 lL  152 (153)
T d1awcb_         151 IL  152 (153)
T ss_dssp             HH
T ss_pred             HC
T ss_conf             67

>d1sw6a_ d.211.1.1 (A:) Swi6 ankyrin-repeat fragment {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Swi6 ankyrin-repeat fragment
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.91  E-value=6.4e-25  Score=177.12  Aligned_cols=43  Identities=12%  Similarity=0.187  Sum_probs=30.5

Q ss_pred             CEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             3234420235676312333332234111135788643334443
Q 001613          501 KIEVCKYYESHSGCIRGSKCFYALGEEQHRKMNPGMCMIHAST  543 (1044)
Q Consensus       501 ~~~tpL~~Aa~~G~~~ivk~Ll~~GAdi~~~~~~G~t~lh~A~  543 (1044)
                      .+.||||+|+..|+.+++++|+++||+++..++.|.+|++.|+
T Consensus       258 ~G~TpLh~A~~~g~~~iv~~Ll~~GAd~~~~n~~G~Tpl~~A~  300 (301)
T d1sw6a_         258 NGDTCLNIAARLGNISIVDALLDYGADPFIANKSGLRPVDFGA  300 (301)
T ss_dssp             TSCCHHHHHHHHCCHHHHHHHHHTTCCTTCCCTTSCCGGGGTC
T ss_pred             CCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCHHHHCC
T ss_conf             9988999999868799999999879999998999999999737

>d1bd8a_ d.211.1.1 (A:) Cell cycle inhibitor p19ink4D {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Cell cycle inhibitor p19ink4D
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.91  E-value=9.8e-24  Score=169.38  Aligned_cols=151  Identities=21%  Similarity=0.241  Sum_probs=105.0

Q ss_pred             HHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHC-CCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCC
Q ss_conf             29999998299998601478888469999999984-99988756999999299999991999999999873899977778
Q 001613          241 TKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLF-GAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDAD  319 (1044)
Q Consensus       241 t~L~~A~~~g~~~~~~~~~~~~~~ll~~ielLl~~-gadin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadin~n~  319 (1044)
                      +.|+.|+..|+.+.              |+.|++. +++++..  |..|.||||+|+ .|+.+++++|++. +.++  +.
T Consensus         4 ~~L~~Aa~~g~~~~--------------vk~lL~~~~~~~n~~--d~~g~t~L~~A~-~~~~~~v~~Ll~~-~~~~--~~   63 (156)
T d1bd8a_           4 DRLSGAAARGDVQE--------------VRRLLHRELVHPDAL--NRFGKTALQVMM-FGSTAIALELLKQ-GASP--NV   63 (156)
T ss_dssp             HHHHHHHHHTCHHH--------------HHHHHHTTCCCTTCC--CTTSCCHHHHSC-TTCHHHHHHHHHT-TCCT--TC
T ss_pred             HHHHHHHHCCCHHH--------------HHHHHHHCCCCCCCC--CCCCCCCCCCCC-CCCCCCCCCCCCC-CCCC--CC
T ss_conf             79999999589999--------------999999589998864--899984133432-2222222222222-2222--22


Q ss_pred             CCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCC
Q ss_conf             78899439999996399852000229999999964981223278888299999985999999999962999755688899
Q 001613          320 ADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMM  399 (1044)
Q Consensus       320 ~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpLh~Aa~~g~~eivk~LL~~gad~iN~~d~~G  399 (1044)
                      .+..|.+|++.++..+        +.+++++++++|++++.+|..|+||||+|+..|+.+++++|+ .+++ ++.+|..|
T Consensus        64 ~~~~~~~~l~~~~~~~--------~~~~~~~~l~~~~~~n~~~~~~~t~L~~A~~~~~~~i~~~L~-~~~~-~~~~d~~G  133 (156)
T d1bd8a_          64 QDTSGTSPVHDAARTG--------FLDTLKVLVEHGADVNVPDGTGALPIHLAVQEGHTAVVSFLA-AESD-LHRRDARG  133 (156)
T ss_dssp             CCTTSCCHHHHHHHTT--------CHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHHTCHHHHHHHH-TTSC-TTCCCTTS
T ss_pred             CCCCCCCCCCCCCCCC--------CCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCC-CCCC-CCCCCCCC
T ss_conf             2222222222222222--------222222222221221123677872221222233222211112-2256-64668999


Q ss_pred             CCHHHHHHHCCCHHHHHHHHHC
Q ss_conf             9299999986989999999977
Q 001613          400 ETPLFFAVKNDHMVCAEVLLRW  421 (1044)
Q Consensus       400 ~TpLh~Av~~g~~eiVklLL~~  421 (1044)
                      +||||+|+..|+.+++++|+++
T Consensus       134 ~TpL~~A~~~g~~~iv~~Ll~h  155 (156)
T d1bd8a_         134 LTPLELALQRGAQDLVDILQGH  155 (156)
T ss_dssp             CCHHHHHHHSCCHHHHHHHHTT
T ss_pred             CCHHHHHHHCCCHHHHHHHHHH
T ss_conf             9999999985989999999966

>d1awcb_ d.211.1.1 (B:) GA bindinig protein (GABP) beta 1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: GA bindinig protein (GABP) beta 1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.90  E-value=5.4e-23  Score=164.53  Aligned_cols=149  Identities=29%  Similarity=0.371  Sum_probs=111.0

Q ss_pred             HHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCC
Q ss_conf             29999998299998601478888469999999984999887569999992999999919999999998738999777787
Q 001613          241 TKLQRAVKRNSTPTTSQSAEKRKLLLLEIELLQLFGAVANGSCTDKKVGPPLILATQAGDEDVIEILLKSKNIDINDADA  320 (1044)
Q Consensus       241 t~L~~A~~~g~~~~~~~~~~~~~~ll~~ielLl~~gadin~~~~d~~G~TpLh~Aa~~G~~eiVk~LL~~~gadin~n~~  320 (1044)
                      |||+.|++.|+.++              +++|++.|++++.   +..|.||||+|+..++.++++.++.. ....  ...
T Consensus         4 t~L~~Aa~~g~~~~--------------v~~LL~~ga~~~~---~~~g~t~L~~a~~~~~~~~~~~~~~~-~~~~--~~~   63 (153)
T d1awcb_           4 KKLLEAARAGQDDE--------------VRILMANGAPFTT---DWLGTSPLHLAAQYGHFSTTEVLLRA-GVSR--DAR   63 (153)
T ss_dssp             HHHHHHHHHTCHHH--------------HHHHHHHTCCCCC---CTTCCCHHHHHHHHTCHHHHHHHHTT-TCCT--TCC
T ss_pred             HHHHHHHHCCCHHH--------------HHHHHHCCCCCCC---CCCCCCCCCCCCCCCCCCCCCCCCCC-CCCC--CCC
T ss_conf             79999998789999--------------9999986998342---44787533343232222222222222-2222--212


Q ss_pred             CCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf             88994399999963998520002299999999649812232788882999999859999999999629997556888999
Q 001613          321 DADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMME  400 (1044)
Q Consensus       321 d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpLh~Aa~~g~~eivk~LL~~gad~iN~~d~~G~  400 (1044)
                      +..+.++++.++...        +.+++++++.++++++.++..|+||||+|+..|+.+++++|+++|++ ++.+|..|.
T Consensus        64 ~~~~~~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~~g~T~L~~A~~~g~~~iv~~ll~~gad-~~~~d~~g~  134 (153)
T d1awcb_          64 TKVDRTPLHMAASEG--------HANIVEVLLKHGADVNAKDMLKMTALHWATEHNHQEVVELLIKYGAD-VHTQSKFCK  134 (153)
T ss_dssp             CTTCCCHHHHHHHHT--------CHHHHHHHHTTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCC-TTCCCTTSC
T ss_pred             CCCCCCCCCCCCCCC--------CCEEEECCCCCCCCCCCCCCCCCHHHHHHHHCCHHHEEEECCCCCCC-CCCCCCCCC
T ss_conf             222333232222331--------10122122246876123224673477766430222412311434467-726689899


Q ss_pred             CHHHHHHHCCCHHHHHHH
Q ss_conf             299999986989999999
Q 001613          401 TPLFFAVKNDHMVCAEVL  418 (1044)
Q Consensus       401 TpLh~Av~~g~~eiVklL  418 (1044)
                      ||||+|+.+|+.+++++|
T Consensus       135 Tpl~~A~~~g~~eiv~lL  152 (153)
T d1awcb_         135 TAFDISIDNGNEDLAEIL  152 (153)
T ss_dssp             CHHHHHHHTTCHHHHHHH
T ss_pred             CHHHHHHHCCCHHHHHHC
T ss_conf             999999985999999867

>d1myoa_ d.211.1.1 (A:) Myotrophin {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Myotrophin
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.86  E-value=4e-23  Score=165.35  Aligned_cols=114  Identities=29%  Similarity=0.334  Sum_probs=101.8

Q ss_pred             CHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHH
Q ss_conf             43999999639985200022999999996498122327888829999998599999999996299975568889992999
Q 001613          325 NSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLF  404 (1044)
Q Consensus       325 ~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpLh~Aa~~g~~eivk~LL~~gad~iN~~d~~G~TpLh  404 (1044)
                      .|||++|++.|        +.+++++|+++|++++.++..|+||||+|+..|+.+++++|+++|++ +|.+|..|+||||
T Consensus         3 ~tpL~~A~~~g--------~~~~v~~Ll~~g~d~n~~~~~g~t~lh~A~~~~~~~~~~~ll~~g~d-in~~d~~g~tpLh   73 (118)
T d1myoa_           3 DKEFMWALKNG--------DLDEVKDYVAKGEDVNRTLEGGRKPLHYAADCGQLEILEFLLLKGAD-INAPDKHHITPLL   73 (118)
T ss_dssp             HHHHHHHHHTT--------CHHHHHHHHTTTCCCCCCSSSSCCTTHHHHHHSTTTHHHHHHHSSCT-TTCCSSSCSCHHH
T ss_pred             CHHHHHHHHCC--------CHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCE-EEECCCCCCCCHH
T ss_conf             72899999877--------99999999984201223222222222222222222222223343202-3310123321022


Q ss_pred             HHHHCCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCHHHH
Q ss_conf             9998698999999997799964445899949999997394999
Q 001613          405 FAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFL  447 (1044)
Q Consensus       405 ~Av~~g~~eiVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~L  447 (1044)
                      +|+.+|+.+++++|+++|||++.+|..|.||||+|.....+.|
T Consensus        74 ~A~~~~~~~~v~~Ll~~Gad~~~~d~~G~t~l~~a~~~~i~~L  116 (118)
T d1myoa_          74 SAVYEGHVSCVKLLLSKGADKTVKGPDGLTALEATDNQAIKAL  116 (118)
T ss_dssp             HHHTTTCCHHHHHHHTTCCCSSSSSSSTCCCCCTCSSTTTGGG
T ss_pred             HHHHCCCHHHHHHHHCCCCCCEEECCCCCCHHHHHHHHHHHHH
T ss_conf             3320473243243310200000038999999999868799873

>d1bi7b_ d.211.1.1 (B:) Cell cycle inhibitor p16ink4A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Cell cycle inhibitor p16ink4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.86  E-value=6.9e-22  Score=157.30  Aligned_cols=120  Identities=21%  Similarity=0.238  Sum_probs=101.8

Q ss_pred             CCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCC-
Q ss_conf             9929999999199999999987389997777878899439999996399852000229999999964981223278888-
Q 001613          288 VGPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGL-  366 (1044)
Q Consensus       288 G~TpLh~Aa~~G~~eiVk~LL~~~gadin~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~-  366 (1044)
                      +.++||+|+..|+.+++++|++. |+++  +..+..|.||||+|+ .|        +.+++++|+++|++++.++..+. 
T Consensus         3 ~~~~L~~Aa~~G~~~~v~~Ll~~-gad~--n~~~~~g~t~l~~a~-~g--------~~~~v~~Ll~~ga~~~~~~~~~~~   70 (125)
T d1bi7b_           3 SADWLATAAARGRVEEVRALLEA-GANP--NAPNSYGRRPIQVMM-MG--------SARVAELLLLHGAEPNCADPATLT   70 (125)
T ss_dssp             STTHHHHHHHHTCHHHHHHHHTT-TCCT--TCCCSSSCCTTTSSC-TT--------CHHHHHHHHTTTCCCCCCCTTTCC
T ss_pred             CHHHHHHHHHCCCHHHHHHHHHC-CCCC--CCCCCCCCCCCCCCC-CC--------CCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             70599999987799999999985-9741--332221222222222-22--------222222122222222222222222


Q ss_pred             CHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHH
Q ss_conf             299999985999999999962999755688899929999998698999999997
Q 001613          367 TALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLR  420 (1044)
Q Consensus       367 TpLh~Aa~~g~~eivk~LL~~gad~iN~~d~~G~TpLh~Av~~g~~eiVklLL~  420 (1044)
                      ||||+|+..|+.+++++|+++|++ ++.+|..|+||||+|+.+|+.+++++|+.
T Consensus        71 ~~L~~A~~~g~~~~v~~Ll~~ga~-~~~~d~~G~T~l~~A~~~g~~~~v~~Lls  123 (125)
T d1bi7b_          71 RPVHDAAREGFLDTLVVLHRAGAR-LDVRDAWGRLPVDLAEELGHRDVARYLRA  123 (125)
T ss_dssp             CHHHHHHHHTCHHHHHHHHHHTCC-SSCCCTTCCCHHHHHHHHTCHHHHHHHSS
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCHHHHHHHCCCHHHHHHHHH
T ss_conf             222222232222222222122222-33245789899999998687999999995

>d1bi7b_ d.211.1.1 (B:) Cell cycle inhibitor p16ink4A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Cell cycle inhibitor p16ink4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=1.8e-21  Score=154.64  Aligned_cols=119  Identities=21%  Similarity=0.209  Sum_probs=106.7

Q ss_pred             CCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCC-CH
Q ss_conf             94399999963998520002299999999649812232788882999999859999999999629997556888999-29
Q 001613          324 GNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMME-TP  402 (1044)
Q Consensus       324 G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpLh~Aa~~g~~eivk~LL~~gad~iN~~d~~G~-Tp  402 (1044)
                      +.++||+|+..|        +.+++++|+++|++++.++..|.||+|+|+ .|+.+++++|+++|++ +|.++..+. ||
T Consensus         3 ~~~~L~~Aa~~G--------~~~~v~~Ll~~gad~n~~~~~g~t~l~~a~-~g~~~~v~~Ll~~ga~-~~~~~~~~~~~~   72 (125)
T d1bi7b_           3 SADWLATAAARG--------RVEEVRALLEAGANPNAPNSYGRRPIQVMM-MGSARVAELLLLHGAE-PNCADPATLTRP   72 (125)
T ss_dssp             STTHHHHHHHHT--------CHHHHHHHHTTTCCTTCCCSSSCCTTTSSC-TTCHHHHHHHHTTTCC-CCCCCTTTCCCH
T ss_pred             CHHHHHHHHHCC--------CHHHHHHHHHCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCC-CCCCCCCCCCCC
T ss_conf             705999999877--------999999999859741332221222222222-2222222212222222-222222222222


Q ss_pred             HHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCHHHHHHHHH
Q ss_conf             99999869899999999779996444589994999999739499999820
Q 001613          403 LFFAVKNDHMVCAEVLLRWGANSEVLNLRRERPIDFAKSQDMRFLLKAAN  452 (1044)
Q Consensus       403 Lh~Av~~g~~eiVklLL~~GAdin~~d~~G~TpLh~Aa~~g~~~LL~~~~  452 (1044)
                      ||+|+..|+.+++++|+++|+|++.+|..|+||||+|+..|..++++.+.
T Consensus        73 L~~A~~~g~~~~v~~Ll~~ga~~~~~d~~G~T~l~~A~~~g~~~~v~~Ll  122 (125)
T d1bi7b_          73 VHDAAREGFLDTLVVLHRAGARLDVRDAWGRLPVDLAEELGHRDVARYLR  122 (125)
T ss_dssp             HHHHHHHTCHHHHHHHHHHTCCSSCCCTTCCCHHHHHHHHTCHHHHHHHS
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHH
T ss_conf             22222322222222221222223324578989999999868799999999

>d1ycsb1 d.211.1.1 (B:327-456) 53BP2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 53BP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=3.1e-21  Score=153.04  Aligned_cols=120  Identities=23%  Similarity=0.281  Sum_probs=71.1

Q ss_pred             CHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHH
Q ss_conf             29999999199999999987389997777878899439999996399852000229999999964981223278888299
Q 001613          290 PPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTAL  369 (1044)
Q Consensus       290 TpLh~Aa~~G~~eiVk~LL~~~gadin~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpL  369 (1044)
                      ++|+.|+..|+.++|++|++. |+++  +.+|..|+||||+|+..+        +.+++++|+++|++++.+|..|+|||
T Consensus         3 ~lL~~A~~~G~~~~v~~Ll~~-g~d~--n~~d~~g~t~Lh~A~~~~--------~~~~~~~ll~~g~~~~~~d~~g~tpL   71 (130)
T d1ycsb1           3 ALLLDSSLEGEFDLVQRIIYE-VDDP--SLPNDEGITALHNAVCAG--------HTEIVKFLVQFGVNVNAADSDGWTPL   71 (130)
T ss_dssp             HHHHHHHHHTCHHHHHHHTST-TSSC--CCCCTTSCCHHHHHHHHT--------CHHHHHHHHHHTCCTTCCCTTCCCHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHC-CCCC--CCCCCCCCCCCCCCCCCC--------CCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             999999993999999999986-9975--610021111112222222--------22222222222222222123676422


Q ss_pred             HHHHHCCCHHHHHHHHHCCCCCCCCCCC-CCCCHHHHH--HHCCCHHHHHHHHHC
Q ss_conf             9999859999999999629997556888-999299999--986989999999977
Q 001613          370 HIAAGSGNSQALEDLIRKEPDCINLKTI-MMETPLFFA--VKNDHMVCAEVLLRW  421 (1044)
Q Consensus       370 h~Aa~~g~~eivk~LL~~gad~iN~~d~-~G~TpLh~A--v~~g~~eiVklLL~~  421 (1044)
                      |+|+.+|+.+++++|+++|++ ++..+. .+.|+++++  +..|+.+++++|+..
T Consensus        72 h~A~~~g~~~~v~~Ll~~ga~-v~~~~~~~~~~~~~~~~a~~~g~~eiv~~L~~~  125 (130)
T d1ycsb1          72 HCAASCNNVQVCKFLVESGAA-VFAMTYSDMQTAADKCEEMEEGYTQCSQFLYGV  125 (130)
T ss_dssp             HHHHHTTCHHHHHHHHHTTCC-TTCCCSSSCCCHHHHCCSSSTTCCCHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHCCCC-CCCCCCCCCCCHHHHHHHHHCCHHHHHHHHHHH
T ss_conf             232102688999999986998-664668999889999999986829999999867

>d1dcqa1 d.211.1.1 (A:369-522) Pyk2-associated protein beta {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Pyk2-associated protein beta
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.84  E-value=3.3e-20  Score=146.36  Aligned_cols=128  Identities=25%  Similarity=0.299  Sum_probs=106.4

Q ss_pred             HHHHHHHCCCHHHHHHHHHCCCCCCCC----CCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCC
Q ss_conf             999999919999999998738999777----7878899439999996399852000229999999964981223278888
Q 001613          291 PLILATQAGDEDVIEILLKSKNIDIND----ADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGL  366 (1044)
Q Consensus       291 pLh~Aa~~G~~eiVk~LL~~~gadin~----n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~  366 (1044)
                      .|..|+..++...+..++.. |.+++.    ...+..|.||||+|+..+.     ....+++++|+++|++++.+|..|+
T Consensus         9 ~L~~Av~~~dl~~l~~~~~~-g~d~~~~~~~~~~~~~g~t~Lh~A~~~~~-----~~~~~iv~~Ll~~gadin~~d~~g~   82 (154)
T d1dcqa1           9 SLCEAVKTRDIFGLLQAYAD-GVDLTEKIPLANGHEPDETALHLAVRSVD-----RTSLHIVDFLVQNSGNLDKQTGKGS   82 (154)
T ss_dssp             HHHHHHHTTCHHHHHHHHHT-TCCTTSBCCCSSCSSTTCBHHHHHHHHCC-----TTTHHHHHHHHHHCSCTTCCCTTCC
T ss_pred             HHHHHHHHCCHHHHHHHHHC-CCCCCCCCCCCCCCCCCCCHHHHHHHHCC-----CCCHHHHHHHHHCCCCHHHHHHHHC
T ss_conf             99999995889999999986-99867777754578999826999998328-----9989999999974997333131210


Q ss_pred             CHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCC
Q ss_conf             29999998599999999996299975568889992999999869899999999779996
Q 001613          367 TALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLLRWGANS  425 (1044)
Q Consensus       367 TpLh~Aa~~g~~eivk~LL~~gad~iN~~d~~G~TpLh~Av~~g~~eiVklLL~~GAdi  425 (1044)
                      ||||+|+..|+.+++++|+++|++ ++.+|..|.||||+|+..|+.+++++|++.++..
T Consensus        83 TpLh~A~~~~~~~~v~~Ll~~gad-~~~~d~~g~tpL~~A~~~~~~~i~~~L~~~~~~~  140 (154)
T d1dcqa1          83 TALHYCCLTDNAECLKLLLRGKAS-IEIANESGETPLDIAKRLKHEHCEELLTQALSGR  140 (154)
T ss_dssp             CHHHHHHHTTCHHHHHHHHHTTCC-TTCCCTTSCCHHHHHHHTTCHHHHHHHHHHHTTC
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCHHHHHHHCCCHHHHHHHHHHCCCC
T ss_conf             100011112333322122135755-0244789999999999939999999999938897

>d1ycsb1 d.211.1.1 (B:327-456) 53BP2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 53BP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=6.8e-21  Score=150.81  Aligned_cols=107  Identities=20%  Similarity=0.163  Sum_probs=99.3

Q ss_pred             CHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHH
Q ss_conf             43999999639985200022999999996498122327888829999998599999999996299975568889992999
Q 001613          325 NSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTALHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLF  404 (1044)
Q Consensus       325 ~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~TpLh~Aa~~g~~eivk~LL~~gad~iN~~d~~G~TpLh  404 (1044)
                      .++|+.|+..|        +.+++++|+++|++++.+|..|+||||+|+..++.+++++|++.+++ +|.+|.+|+||||
T Consensus         2 l~lL~~A~~~G--------~~~~v~~Ll~~g~d~n~~d~~g~t~Lh~A~~~~~~~~~~~ll~~g~~-~~~~d~~g~tpLh   72 (130)
T d1ycsb1           2 LALLLDSSLEG--------EFDLVQRIIYEVDDPSLPNDEGITALHNAVCAGHTEIVKFLVQFGVN-VNAADSDGWTPLH   72 (130)
T ss_dssp             HHHHHHHHHHT--------CHHHHHHHTSTTSSCCCCCTTSCCHHHHHHHHTCHHHHHHHHHHTCC-TTCCCTTCCCHHH
T ss_pred             HHHHHHHHHCC--------CHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCC
T ss_conf             59999999939--------99999999986997561002111111222222222222222222222-2221236764222


Q ss_pred             HHHHCCCHHHHHHHHHCCCCCCCCCC-CCCCHHHHHH
Q ss_conf             99986989999999977999644458-9994999999
Q 001613          405 FAVKNDHMVCAEVLLRWGANSEVLNL-RRERPIDFAK  440 (1044)
Q Consensus       405 ~Av~~g~~eiVklLL~~GAdin~~d~-~G~TpLh~Aa  440 (1044)
                      +|+.+|+.+++++|+++|||++..+. .++||++++.
T Consensus        73 ~A~~~g~~~~v~~Ll~~ga~v~~~~~~~~~~~~~~~~  109 (130)
T d1ycsb1          73 CAASCNNVQVCKFLVESGAAVFAMTYSDMQTAADKCE  109 (130)
T ss_dssp             HHHHTTCHHHHHHHHHTTCCTTCCCSSSCCCHHHHCC
T ss_pred             CCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHH
T ss_conf             3210268899999998699866466899988999999

>d1myoa_ d.211.1.1 (A:) Myotrophin {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Myotrophin
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.83  E-value=7.1e-22  Score=157.24  Aligned_cols=115  Identities=24%  Similarity=0.245  Sum_probs=105.4

Q ss_pred             CCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEECCCCCCCH
Q ss_conf             92999999919999999998738999777787889943999999639985200022999999996498122327888829
Q 001613          289 GPPLILATQAGDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQNKLGLTA  368 (1044)
Q Consensus       289 ~TpLh~Aa~~G~~eiVk~LL~~~gadin~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~d~~G~Tp  368 (1044)
                      .|||++|++.|+.+++++|++. |+++  +..+..|+||||+|+..+        +.+++++|+++|++++.+|..|+||
T Consensus         3 ~tpL~~A~~~g~~~~v~~Ll~~-g~d~--n~~~~~g~t~lh~A~~~~--------~~~~~~~ll~~g~din~~d~~g~tp   71 (118)
T d1myoa_           3 DKEFMWALKNGDLDEVKDYVAK-GEDV--NRTLEGGRKPLHYAADCG--------QLEILEFLLLKGADINAPDKHHITP   71 (118)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHTT-TCCC--CCCSSSSCCTTHHHHHHS--------TTTHHHHHHHSSCTTTCCSSSCSCH
T ss_pred             CHHHHHHHHCCCHHHHHHHHHH-HHCC--CCCCCCCCCCCCCCCCCC--------CCCCCCCCCCCCCEEEECCCCCCCC
T ss_conf             7289999987799999999984-2012--232222222222222222--------2222222334320233101233210


Q ss_pred             HHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHH
Q ss_conf             999998599999999996299975568889992999999869899999999
Q 001613          369 LHIAAGSGNSQALEDLIRKEPDCINLKTIMMETPLFFAVKNDHMVCAEVLL  419 (1044)
Q Consensus       369 Lh~Aa~~g~~eivk~LL~~gad~iN~~d~~G~TpLh~Av~~g~~eiVklLL  419 (1044)
                      ||+|+..|+.+++++|+++|++ ++.+|..|.||||+|..    +.++.||
T Consensus        72 Lh~A~~~~~~~~v~~Ll~~Gad-~~~~d~~G~t~l~~a~~----~~i~~LL  117 (118)
T d1myoa_          72 LLSAVYEGHVSCVKLLLSKGAD-KTVKGPDGLTALEATDN----QAIKALL  117 (118)
T ss_dssp             HHHHHTTTCCHHHHHHHTTCCC-SSSSSSSTCCCCCTCSS----TTTGGGG
T ss_pred             HHHHHHCCCHHHHHHHHCCCCC-CEEECCCCCCHHHHHHH----HHHHHHC
T ss_conf             2233204732432433102000-00038999999999868----7998733

>d1dcqa1 d.211.1.1 (A:369-522) Pyk2-associated protein beta {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Pyk2-associated protein beta
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.81  E-value=6.5e-19  Score=137.86  Aligned_cols=95  Identities=21%  Similarity=0.275  Sum_probs=48.7

Q ss_pred             CCCCCCHHHHHHHC---CCHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEEC
Q ss_conf             99999299999991---999999999873899977778788994399999963998520002299999999649812232
Q 001613          285 DKKVGPPLILATQA---GDEDVIEILLKSKNIDINDADADADGNSALHCALKTSMGLSQHILQNRIVGILLKHGAIVSQQ  361 (1044)
Q Consensus       285 d~~G~TpLh~Aa~~---G~~eiVk~LL~~~gadin~n~~d~~G~TpLh~Aa~~g~~~~~~~~~~~ivklLL~~Gadvn~~  361 (1044)
                      +..|.||||+|+..   ++.+++++|++. |+++  +.+|..|.||||+|+..|        +.+++++|+++|++++.+
T Consensus        42 ~~~g~t~Lh~A~~~~~~~~~~iv~~Ll~~-gadi--n~~d~~g~TpLh~A~~~~--------~~~~v~~Ll~~gad~~~~  110 (154)
T d1dcqa1          42 HEPDETALHLAVRSVDRTSLHIVDFLVQN-SGNL--DKQTGKGSTALHYCCLTD--------NAECLKLLLRGKASIEIA  110 (154)
T ss_dssp             SSTTCBHHHHHHHHCCTTTHHHHHHHHHH-CSCT--TCCCTTCCCHHHHHHHTT--------CHHHHHHHHHTTCCTTCC
T ss_pred             CCCCCCHHHHHHHHCCCCCHHHHHHHHHC-CCCH--HHHHHHHCCCCCCCCCCC--------CCCCCCCCCCCCCCCCCC
T ss_conf             89998269999983289989999999974-9973--331312101000111123--------333221221357550244


Q ss_pred             CCCCCCHHHHHHHCCCHHHHHHHHHCCCC
Q ss_conf             78888299999985999999999962999
Q 001613          362 NKLGLTALHIAAGSGNSQALEDLIRKEPD  390 (1044)
Q Consensus       362 d~~G~TpLh~Aa~~g~~eivk~LL~~gad  390 (1044)
                      |..|+||||+|+..|+.+++++|++.++.
T Consensus       111 d~~g~tpL~~A~~~~~~~i~~~L~~~~~~  139 (154)
T d1dcqa1         111 NESGETPLDIAKRLKHEHCEELLTQALSG  139 (154)
T ss_dssp             CTTSCCHHHHHHHTTCHHHHHHHHHHHTT
T ss_pred             CCCCCCHHHHHHHCCCHHHHHHHHHHCCC
T ss_conf             78999999999993999999999993889

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.57  E-value=4.3e-16  Score=119.45  Aligned_cols=85  Identities=42%  Similarity=0.615  Sum_probs=78.5

Q ss_pred             CCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEE
Q ss_conf             43311001169863235888787644577982148993405789877645799993899999999983898038959898
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEI  623 (1044)
Q Consensus       544 ~~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v  623 (1044)
                      .+..++|||+|||+++++++|+++|++ ||+|.++.|++|+.++  ++||||||+|.+.++|.+|++.+++.|+|+.|.|
T Consensus        17 ~~~~~~lfVgnLp~~~te~~L~~~F~~-~G~i~~~~i~~d~~~~--~~kg~aFV~f~~~~~a~~al~~~~~~l~G~~i~V   93 (103)
T d1x4ba1          17 KEQFRKLFIGGLSFETTEESLRNYYEQ-WGKLTDCVVMRDPASK--RSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEP   93 (103)
T ss_dssp             HHHHTEEEEECCTTCCCHHHHHHHHTS-SCCCSEEEEECCTTTS--SCCSEEEEECSSHHHHHHHHTSCSEEETTEEEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHH-HCCCCCEEECCCCCCC--CCCCEEEEEECCHHHHHHHHHHCCCEECCEEEEE
T ss_conf             678988999599985889999999976-1866300001235677--7557699997879999999984989599979798


Q ss_pred             CCCCCHHH
Q ss_conf             12588367
Q 001613          624 KSAVPKEV  631 (1044)
Q Consensus       624 ~~A~~k~~  631 (1044)
                      ++|.||++
T Consensus        94 ~~a~~ke~  101 (103)
T d1x4ba1          94 KRAVAREE  101 (103)
T ss_dssp             ECCSSCCC
T ss_pred             EECCCCCC
T ss_conf             87740688

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.55  E-value=1.5e-15  Score=115.88  Aligned_cols=82  Identities=40%  Similarity=0.579  Sum_probs=76.5

Q ss_pred             CCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEE
Q ss_conf             43311001169863235888787644577982148993405789877645799993899999999983898038959898
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEI  623 (1044)
Q Consensus       544 ~~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v  623 (1044)
                      ++..++|||+|||+++++++|+++|++ ||+|.++.+++|+.++  ++||||||+|.+.++|.+|++.+++.|+||.|+|
T Consensus         3 pe~~~~lfV~nlp~~~te~~l~~~F~~-~G~i~~v~i~~d~~tg--~~kG~afV~f~~~~~a~~ai~~~~~~i~Gr~i~V   79 (84)
T d1l3ka1           3 PEQLRKLFIGGLSFETTDESLRSHFEQ-WGTLTDCVVMRDPNTK--RSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEP   79 (84)
T ss_dssp             CGGGGEEEEESCCTTCCHHHHHHHHGG-GSCEEEEEEEECTTTC--CEEEEEEEEESSHHHHHHHHHTCSCEETTEECEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHH-HCCCCCEEECCCCCCC--CCCCEEEEEECCHHHHHHHHHHCCCEECCEEEEE
T ss_conf             888867999799997989999999975-0645210001146679--9622899998689999999984999799999899


Q ss_pred             CCCCC
Q ss_conf             12588
Q 001613          624 KSAVP  628 (1044)
Q Consensus       624 ~~A~~  628 (1044)
                      ++|.+
T Consensus        80 ~~A~s   84 (84)
T d1l3ka1          80 KRAVS   84 (84)
T ss_dssp             EECCC
T ss_pred             EEEEC
T ss_conf             95149

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.54  E-value=1.7e-15  Score=115.51  Aligned_cols=83  Identities=27%  Similarity=0.386  Sum_probs=75.9

Q ss_pred             CCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEE
Q ss_conf             43311001169863235888787644577982148993405789877645799993899999999983898038959898
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEI  623 (1044)
Q Consensus       544 ~~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v  623 (1044)
                      .+...+|||+|||+++++++|+++|++ ||+|.++.+++|+.++  ++||||||+|.+.++|.+|++. .+.++||.|.|
T Consensus         5 ~~~~~~lfV~nLp~~~te~~l~~~F~~-~G~i~~v~i~~d~~tg--~srG~aFV~f~~~~~a~~al~~-~~~l~Gr~i~v   80 (90)
T d2cqga1           5 VQKTSDLIVLGLPWKTTEQDLKEYFST-FGEVLMVQVKKDLKTG--HSKGFGFVRFTEYETQVKVMSQ-RHMIDGRWCDC   80 (90)
T ss_dssp             CCCCCCEEEESCCSSCCHHHHHHHHGG-GSCEEEEEEEECSSSC--SEEEEEEEEESSHHHHHHHHHS-CEEETTEEEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHH-HCCCCEEEECCCCCCC--CCCCEEEEEECCHHHHHHHHHC-CCCCCCEEEEE
T ss_conf             768986999799998999999999976-2633000002478876--6677799997999999999866-98349989699


Q ss_pred             CCCCCHH
Q ss_conf             1258836
Q 001613          624 KSAVPKE  630 (1044)
Q Consensus       624 ~~A~~k~  630 (1044)
                      ++|.+++
T Consensus        81 ~~a~~k~   87 (90)
T d2cqga1          81 KLPNSKQ   87 (90)
T ss_dssp             ECCCTTC
T ss_pred             EECCCCC
T ss_conf             8689977

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.53  E-value=2.5e-15  Score=114.44  Aligned_cols=88  Identities=38%  Similarity=0.551  Sum_probs=77.3

Q ss_pred             CCCC-CCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCC
Q ss_conf             4443-433110011698632358887876445779821489934057898776457999938999999999838980389
Q 001613          540 HAST-QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMG  618 (1044)
Q Consensus       540 h~A~-~~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~G  618 (1044)
                      |... +...++|||+|||+.+++++|+++|++ ||+|.++.++.|+.++  ++||||||+|.+.++|.+|++..+..++|
T Consensus         2 h~~~~d~~~~~lfV~nLp~~~te~~l~~~F~~-~G~i~~v~i~~d~~tg--~~kg~afV~f~~~~~A~~Ai~~~~~~l~G   78 (103)
T d2cqda1           2 HGSQKDTTFTKIFVGGLPYHTTDASLRKYFEG-FGDIEEAVVITDRQTG--KSRGYGFVTMADRAAAERACKDPNPIIDG   78 (103)
T ss_dssp             CCCCCSCSSSEEEEECCCSSCCHHHHHHHHHT-TSCEEEEEESCCSSSC--CCCSEEEEEESSHHHHHHHHTCSSCEETT
T ss_pred             CCCCCCCCCCEEEEECCCCCCCHHHHHHHHHH-CCCCCCEECCCCCCCC--CCCCEEEEEECCHHHHHHHHHHCCCCCCC
T ss_conf             88777999768999699996959999987761-4432110002334445--56876999978999999999978991999


Q ss_pred             EEEEECCCCCHH
Q ss_conf             598981258836
Q 001613          619 KEVEIKSAVPKE  630 (1044)
Q Consensus       619 r~i~v~~A~~k~  630 (1044)
                      |+|.|++|.++.
T Consensus        79 r~l~V~~a~~~~   90 (103)
T d2cqda1          79 RKANVNLAYLGA   90 (103)
T ss_dssp             EECEEEESTTTC
T ss_pred             EEEEEEECCCCC
T ss_conf             897998727889

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

Probab=99.52  E-value=1.7e-15  Score=115.48  Aligned_cols=84  Identities=27%  Similarity=0.495  Sum_probs=77.7

Q ss_pred             CCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEE
Q ss_conf             43311001169863235888787644577982148993405789877645799993899999999983-89803895989
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       544 ~~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~  622 (1044)
                      .+..++|||+||++++++++|+++|++ ||+|.++.+++++.++  ++||||||+|.+.++|.+|++. ++.+|+||.|+
T Consensus        39 ~~~~~~l~V~nLp~~~te~~l~~~F~~-~G~i~~v~i~~d~~t~--~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~l~  115 (139)
T d1u6fa1          39 PDVLRNLMVNYIPTTVDEVQLRQLFER-YGPIESVKIVCDRETR--QSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLK  115 (139)
T ss_dssp             TTTTSEEEEESCSTTCCHHHHHHHHHH-HSCEEEEEEEEETTTT--EEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHH-HCCCCCCCCCCCCCCC--CCCCEEEEEECCHHHHHHHHHHHCCCEECCEEEE
T ss_conf             999988999697988999999999976-5003221111221111--1222036897999999999998489888998889


Q ss_pred             ECCCCCHH
Q ss_conf             81258836
Q 001613          623 IKSAVPKE  630 (1044)
Q Consensus       623 v~~A~~k~  630 (1044)
                      |.+|.++.
T Consensus       116 V~~a~~~~  123 (139)
T d1u6fa1         116 VALAASGH  123 (139)
T ss_dssp             EEESSCCC
T ss_pred             EEECCCCC
T ss_conf             98768888

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.51  E-value=6.8e-15  Score=111.59  Aligned_cols=83  Identities=24%  Similarity=0.290  Sum_probs=77.1

Q ss_pred             CCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEE
Q ss_conf             3311001169863235888787644577982148993405789877645799993899999999983-898038959898
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEI  623 (1044)
Q Consensus       545 ~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v  623 (1044)
                      +...+|||+||+.++++++|+++|++ ||+|..+.++.|+.++  ++||||||+|.+.++|.+|++. ++..++|+.|.|
T Consensus         6 ~~~~~i~V~nLp~~~t~~~l~~~f~~-~G~v~~v~i~~d~~t~--~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~v   82 (90)
T d2cq0a1           6 DDNATIRVTNLSEDTRETDLQELFRP-FGSISRIYLAKDKTTG--QSKGFAFISFHRREDAARAIAGVSGFGYDHLILNV   82 (90)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTT-TCCEEEEEEEECSSSC--SEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHH-HCCCCCCCCCCCCCCC--CCCCCEEEEECCHHHHHHHHHHHCCCEECCEEEEE
T ss_conf             89999999799987989999999987-5623321111135544--66632058989999999999982899899989899


Q ss_pred             CCCCCHH
Q ss_conf             1258836
Q 001613          624 KSAVPKE  630 (1044)
Q Consensus       624 ~~A~~k~  630 (1044)
                      ++|.|++
T Consensus        83 ~~akp~~   89 (90)
T d2cq0a1          83 EWAKPST   89 (90)
T ss_dssp             EESSCCC
T ss_pred             EEEECCC
T ss_conf             8634889

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.50  E-value=3.4e-15  Score=113.61  Aligned_cols=82  Identities=30%  Similarity=0.484  Sum_probs=76.5

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEEC
Q ss_conf             311001169863235888787644577982148993405789877645799993899999999983-8980389598981
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~  624 (1044)
                      ..++|||+|||+++++++|+++|++ ||+|.++.++.|+.++  ++||||||+|.+.++|.+|++. ++..++|++|.|+
T Consensus         4 ~~~tlfV~nLp~~~te~~l~~~F~~-~G~i~~v~i~~d~~~~--~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~   80 (89)
T d2cqba1           4 TKRVLYVGGLAEEVDDKVLHAAFIP-FGDITDIQIPLDYETE--KHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVN   80 (89)
T ss_dssp             CCSCEEEESCCSSCCHHHHHHHHTT-TSCCCCEECCCCSSSC--CCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHH-CCEEEECCCCCCCCCC--CCCCEEEEEECCHHHHHHHHHHCCCCEECCEEEEEE
T ss_conf             9829999699986889999998864-7838861102455654--556304999889999999999859999999998999


Q ss_pred             CCCCHH
Q ss_conf             258836
Q 001613          625 SAVPKE  630 (1044)
Q Consensus       625 ~A~~k~  630 (1044)
                      +|.|++
T Consensus        81 ~a~p~~   86 (89)
T d2cqba1          81 LAKPMR   86 (89)
T ss_dssp             ECCCCC
T ss_pred             EECCCC
T ss_conf             827989

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.50  E-value=4.4e-15  Score=112.81  Aligned_cols=82  Identities=20%  Similarity=0.458  Sum_probs=76.9

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEEC
Q ss_conf             311001169863235888787644577982148993405789877645799993899999999983-8980389598981
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~  624 (1044)
                      ..++|||+||++++++++|+++|++ ||+|.++.++.++.++  ++||||||+|.+.++|.+|++. ++..++|+.|.|+
T Consensus         7 ~~rtl~V~nLp~~~te~~l~~~f~~-~G~i~~v~i~~~~~tg--~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~V~   83 (104)
T d1p1ta_           7 SLRSVFVGNIPYEATEEQLKDIFSE-VGPVVSFRLVYDRETG--KPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVD   83 (104)
T ss_dssp             HHSCEEEESCCTTSCHHHHHHHHHT-TSCCSEEEEEEETTTT--EEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHC-CCCCCCCCCCCCCCEE--CCCCCEEEEECCHHHHHHHHHHCCCCEECCEEEEEE
T ss_conf             8788999799986989999976640-3322221101110001--147846789899999999999809998899987998


Q ss_pred             CCCCHH
Q ss_conf             258836
Q 001613          625 SAVPKE  630 (1044)
Q Consensus       625 ~A~~k~  630 (1044)
                      +|.++.
T Consensus        84 ~a~~~~   89 (104)
T d1p1ta_          84 NAASEK   89 (104)
T ss_dssp             ETTCTT
T ss_pred             ECCCCC
T ss_conf             899988

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.50  E-value=2.9e-15  Score=113.99  Aligned_cols=75  Identities=32%  Similarity=0.556  Sum_probs=71.5

Q ss_pred             CEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEECCC
Q ss_conf             001169863235888787644577982148993405789877645799993899999999983898038959898125
Q 001613          549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSA  626 (1044)
Q Consensus       549 kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v~~A  626 (1044)
                      +|||+|||+++++++|+++|++ ||+|.++.+++|+.++  ++||||||+|.+.++|++|++.+++.++||.|.|+.|
T Consensus         2 klfV~nLp~~~te~~l~~~F~~-~G~i~~v~i~~d~~tg--~~kG~aFV~f~~~~~a~~al~~~~~~i~Gr~i~V~~A   76 (77)
T d1uawa_           2 KMFIGGLSWQTTQEGLREYFGQ-FGEVKECLVMRDPLTK--RSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKVA   76 (77)
T ss_dssp             CEEEESCCSSCCSHHHHHHHTT-TSCCCCEEEECCCCSS--SCSSEEEECCCCTTHHHHHHHTTTCCCSSCCCEEEEC
T ss_pred             EEEEECCCCCCCHHHHHHHHHH-HCCCCEEEEECCCCCC--CCCCEEEEEECCHHHHHHHHHCCCCEECCEEEEEEEC
T ss_conf             9999189996989999999998-6986202441136788--8666399998899999999971989899949899979

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=6.2e-15  Score=111.88  Aligned_cols=83  Identities=23%  Similarity=0.453  Sum_probs=77.0

Q ss_pred             CCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEE
Q ss_conf             3311001169863235888787644577982148993405789877645799993899999999983-898038959898
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEI  623 (1044)
Q Consensus       545 ~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v  623 (1044)
                      ....+|||+|||..+++++|+++|++ ||+|.++.+++++.++  ++||||||+|.+.++|.+|++. ++..++|+.|+|
T Consensus         7 ~~~~tlfV~nLp~~~t~~~l~~~F~~-~G~v~~v~~~~d~~tg--~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V   83 (93)
T d1x5ua1           7 NQDATVYVGGLDEKVSEPLLWELFLQ-AGPVVNTHMPKDRVTG--QHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRV   83 (93)
T ss_dssp             CTTTEEEEECCCTTCCHHHHHHHHHT-TSCEEEEECCBCSSSC--SBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHH-HCCCCCCCEEECCCCC--CCCCCEEEEECCHHHHHHHHHHCCCCEECCEEEEE
T ss_conf             99989999089985889999999998-4976542121012543--56652079989999999999985999899988799


Q ss_pred             CCCCCHH
Q ss_conf             1258836
Q 001613          624 KSAVPKE  630 (1044)
Q Consensus       624 ~~A~~k~  630 (1044)
                      ++|.++.
T Consensus        84 ~~A~~~~   90 (93)
T d1x5ua1          84 NKASAHN   90 (93)
T ss_dssp             EETTTTS
T ss_pred             EECCCCC
T ss_conf             8728989

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.48  E-value=8e-15  Score=111.14  Aligned_cols=84  Identities=21%  Similarity=0.366  Sum_probs=77.3

Q ss_pred             CCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEE
Q ss_conf             43311001169863235888787644577982148993405789877645799993899999999983-89803895989
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       544 ~~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~  622 (1044)
                      .....+|||+||++++++++|+++|.+ ||+|.++.+++|+.++  ++||||||+|.+.++|.+|++. ++..++||+|.
T Consensus         5 ~~~~~~lfV~nL~~~~t~~~l~~~F~~-~g~v~~v~i~~d~~tg--~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~   81 (99)
T d1whwa_           5 SSGSGRLFVRNLSYTSSEEDLEKLFSA-YGPLSELHYPIDSLTK--KPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLH   81 (99)
T ss_dssp             CCSCEEEEEECCCTTCCHHHHHHHHHT-TSCEEEEECCCCTTTC--CCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHH-CCCCEEEEECCCCCCC--CCCCCEEEEECCHHHHHHHHHHCCCCEECCEEEE
T ss_conf             899988999799986989999999976-4975065310244434--6675049998899999999998299989999879


Q ss_pred             ECCCCCHH
Q ss_conf             81258836
Q 001613          623 IKSAVPKE  630 (1044)
Q Consensus       623 v~~A~~k~  630 (1044)
                      |.+|.+++
T Consensus        82 V~~a~~~~   89 (99)
T d1whwa_          82 VLPSTIKK   89 (99)
T ss_dssp             EEECCCCS
T ss_pred             EEECCCCC
T ss_conf             99888887

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CUG triplet repeat RNA-binding protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=1.1e-14  Score=110.37  Aligned_cols=82  Identities=27%  Similarity=0.352  Sum_probs=76.8

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEEC
Q ss_conf             311001169863235888787644577982148993405789877645799993899999999983-8980389598981
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~  624 (1044)
                      ...+|||+|||+++++++|+++|++ ||.+.++.++.++.++  ++||||||+|.+.++|..|++. ++..++|++|.|+
T Consensus        17 ~~~~l~V~nLp~~~te~~l~~~F~~-~G~i~~~~~~~~~~~g--~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~   93 (102)
T d2cpza1          17 EGANLFIYHLPQEFGDQDLLQMFMP-FGNVVSAKVFIDKQTN--LSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQ   93 (102)
T ss_dssp             TTCCEEEESCCSSCCHHHHHHHHGG-GSCCSEEEEEECSSSC--SEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHH-HCCCCCCCEEEECCCC--CCCCCEEEEECCHHHHHHHHHHHCCCEECCEEEEEE
T ss_conf             9999999599999999999999976-3345432100001369--876533887489999999999858998899988998


Q ss_pred             CCCCHH
Q ss_conf             258836
Q 001613          625 SAVPKE  630 (1044)
Q Consensus       625 ~A~~k~  630 (1044)
                      +|.++.
T Consensus        94 ~a~~k~   99 (102)
T d2cpza1          94 LKRSKN   99 (102)
T ss_dssp             CCCCSC
T ss_pred             EECCCC
T ss_conf             707888

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.47  E-value=1.1e-14  Score=110.31  Aligned_cols=80  Identities=21%  Similarity=0.469  Sum_probs=75.1

Q ss_pred             CCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEECCC
Q ss_conf             1001169863235888787644577982148993405789877645799993899999999983-898038959898125
Q 001613          548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSA  626 (1044)
Q Consensus       548 ~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~~A  626 (1044)
                      .+|||+|||+.+++++|+++|++ ||+|.++.+++|+.++  ++||||||+|.+.++|..|++. ++..++|++|.|++|
T Consensus         2 ~rlfV~nlp~~~te~~l~~~F~~-~G~v~~v~i~~d~~tg--~~rg~aFV~f~~~~~A~~a~~~l~~~~l~g~~l~V~~A   78 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTS-FGPLKAFNLVKDSATG--LSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA   78 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTS-SSCEEEEEEECCCSSS--CCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEEEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHH-CCCCCEEEEECCCCCC--CCCEEEEEEECCHHHHHHHHHHHCCCEECCEEEEEEEC
T ss_conf             88999899998999999999974-5765247760245665--65405999988999999999971998899998799988


Q ss_pred             CCHH
Q ss_conf             8836
Q 001613          627 VPKE  630 (1044)
Q Consensus       627 ~~k~  630 (1044)
                      .++.
T Consensus        79 ~~~~   82 (85)
T d2u2fa_          79 SVGA   82 (85)
T ss_dssp             CCCC
T ss_pred             CCCC
T ss_conf             8988

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.47  E-value=7.5e-15  Score=111.32  Aligned_cols=75  Identities=35%  Similarity=0.574  Sum_probs=71.0

Q ss_pred             CEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEECCC
Q ss_conf             001169863235888787644577982148993405789877645799993899999999983898038959898125
Q 001613          549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSA  626 (1044)
Q Consensus       549 kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v~~A  626 (1044)
                      +|||+|||+++++++|+++|++ ||+|..+.+++++.++  ++||||||+|.+.++|++|++.+++.++|+.|.|+.|
T Consensus         1 klfV~nl~~~~te~~l~~~F~~-~G~i~~~~i~~d~~t~--~~kg~afV~f~~~~~a~~Al~~~~~~l~Gr~i~V~rA   75 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSK-FGEVVDCTLKLDPITG--RSRGFGFVLFKESESVDKVMDQKEHKLNGKVIDPKRA   75 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHT-TSCEEEEECCCBTTTT--BCCSEEEEEESSHHHHHHHHHTCCCCBTTBCCEECCC
T ss_pred             CEEEECCCCCCCHHHHHHHHHH-HCCCCCCCCCCCCCCC--CCCCEEEEEECCHHHHHHHHHCCCCEECCCEEEEEEC
T ss_conf             9899189985989999999975-4503333213588877--7676599998989999999962989799979785679

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.46  E-value=2.7e-15  Score=114.24  Aligned_cols=75  Identities=32%  Similarity=0.525  Sum_probs=71.1

Q ss_pred             CEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEECCC
Q ss_conf             001169863235888787644577982148993405789877645799993899999999983898038959898125
Q 001613          549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSA  626 (1044)
Q Consensus       549 kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v~~A  626 (1044)
                      +|||||||+++++++|+++|++ ||+|.++.+++|+.++  ++||||||+|.+.++|++|++.++++++|+.++|+.|
T Consensus         1 klfVgnLp~~~te~~l~~~F~~-~G~I~~v~i~~d~~t~--~~rG~~FV~f~~~~~a~~al~~~~~~i~g~~i~vk~A   75 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGG-FGEVESIELPMDNKTN--KRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKVA   75 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHH-HSCEEEEECCCCTTTC--CTTCCEEEEESSSHHHHHHTTCSSCCBTTBCCEEECC
T ss_pred             CEEECCCCCCCCHHHHHHHHHH-HCCCCCCCCCCCCCCC--CCCCEEEEEECCHHHHHHHHHHCCCEECCEEEEEEEC
T ss_conf             9899189998989999999998-5876521224465545--6652899997889999999830998799978599889

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.46  E-value=5.8e-15  Score=112.05  Aligned_cols=82  Identities=17%  Similarity=0.321  Sum_probs=75.1

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEECC
Q ss_conf             31100116986323588878764457798214899340578987764579999389999999998389803895989812
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKS  625 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v~~  625 (1044)
                      ..++|||+||++.+++++|+++|++ ||+|.++++++++.++  ++||||||+|.+.++|.+|++.++..++|+.|.|+.
T Consensus        17 ~~~tifV~nL~~~~te~~l~~~F~~-~G~V~~v~i~~d~~tg--~~kG~afV~F~~~e~a~~A~~l~g~~~~G~~l~V~~   93 (101)
T d2cq4a1          17 DARTVFCMQLAARIRPRDLEDFFSA-VGKVRDVRIISDRNSR--RSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPIIVQA   93 (101)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHTT-TSCEEEEEECCSCCSS--SCCCCEEEEESCGGGHHHHHHHTTEEETTEEEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHCC-CCEEEEEEEEECCCCC--CCCCEEEEEECCHHHHHHHHHHCCCEECCEEEEEEE
T ss_conf             7989999899998999999999718-9749998865448876--434148999899999999998799888999989997


Q ss_pred             CCCHH
Q ss_conf             58836
Q 001613          626 AVPKE  630 (1044)
Q Consensus       626 A~~k~  630 (1044)
                      |.++.
T Consensus        94 a~~~~   98 (101)
T d2cq4a1          94 SQAEK   98 (101)
T ss_dssp             HHHHH
T ss_pred             CCCCC
T ss_conf             88877

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.46  E-value=1.4e-14  Score=109.62  Aligned_cols=81  Identities=22%  Similarity=0.315  Sum_probs=75.6

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEEC
Q ss_conf             311001169863235888787644577982148993405789877645799993899999999983-8980389598981
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~  624 (1044)
                      ....|||+||+.++++++|+++|++ ||+|.++.+++|+.++  ++||||||+|.+.++|.+|++. ++..++|+.|.|+
T Consensus         6 ~~~~l~V~nL~~~~t~~~l~~~F~~-~G~i~~v~i~~d~~tg--~~~g~afV~f~~~~~A~~A~~~lng~~l~g~~l~V~   82 (88)
T d1rk8a_           6 EGWILFVTSIHEEAQEDEIQEKFCD-YGEIKNIHLNLDRRTG--FSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVD   82 (88)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGG-GSCEEEEEEEECTTTS--SEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHH-CCCCCCCCCCCCCCCC--CCCCCEEEEECCHHHHHHHHHHCCCCEECCEEEEEE
T ss_conf             9989999489998989999999987-2986410001234322--556411689899999999999819998999989999


Q ss_pred             CCCCH
Q ss_conf             25883
Q 001613          625 SAVPK  629 (1044)
Q Consensus       625 ~A~~k  629 (1044)
                      +|.+|
T Consensus        83 ~a~~k   87 (88)
T d1rk8a_          83 WCFVK   87 (88)
T ss_dssp             ESEEC
T ss_pred             EECCC
T ss_conf             85589

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.45  E-value=1.5e-14  Score=109.42  Aligned_cols=79  Identities=25%  Similarity=0.415  Sum_probs=74.3

Q ss_pred             CCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEECCC
Q ss_conf             1001169863235888787644577982148993405789877645799993899999999983-898038959898125
Q 001613          548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSA  626 (1044)
Q Consensus       548 ~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~~A  626 (1044)
                      .+|||+|||.++++++|+++|++ ||+|.++.+++++.++  ++||||||+|.+.++|.+|++. ++..++|++|.|++|
T Consensus         3 t~l~V~nLp~~~t~~~l~~~F~~-~G~v~~~~i~~~~~~g--~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~v~~a   79 (82)
T d1b7fa1           3 TNLIVNYLPQDMTDRELYALFRA-IGPINTCRIMRDYKTG--YSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYA   79 (82)
T ss_dssp             SEEEEECCCTTCCHHHHHHHHHT-TSCEEEEECCEETTTT--EECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHH-HCCCCEEEEEEECCCC--CCCCCCEEEECCHHHHHHHHHHHCCCEECCEEEEEEEC
T ss_conf             99999697997989999999998-5981466466320368--86422437989999999999986899899999899971


Q ss_pred             CCH
Q ss_conf             883
Q 001613          627 VPK  629 (1044)
Q Consensus       627 ~~k  629 (1044)
                      .|.
T Consensus        80 ~pg   82 (82)
T d1b7fa1          80 RPG   82 (82)
T ss_dssp             CCC
T ss_pred             CCC
T ss_conf             899

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=2e-14  Score=108.57  Aligned_cols=83  Identities=18%  Similarity=0.280  Sum_probs=76.4

Q ss_pred             CCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEE
Q ss_conf             3311001169863235888787644577982148993405789877645799993899999999983-898038959898
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEI  623 (1044)
Q Consensus       545 ~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v  623 (1044)
                      ....+|||+|||+.+++++|+++|++ ||+|.++.+++++.++  ++||||||+|.+.++|..|++. ++..++|++|.|
T Consensus         5 ~~s~tlfV~nlp~~~te~~l~~~F~~-~G~i~~v~i~~~~~~~--~~kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   81 (93)
T d1h2vz_           5 KKSCTLYVGNLSFYTTEEQIYELFSK-SGDIKKIIMGLDKMKK--TACGFCFVEYYSRADAENAMRYINGTRLDDRIIRT   81 (93)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGG-GSCEEEEEEEECTTTC--CEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHH-HCCCCEECCCCCCCCC--CCCCEEEEEECCHHHHHHHHHHHCCCEECCEEEEE
T ss_conf             79999999599997989999999998-7886200102465532--22415799988999999999980899899988899


Q ss_pred             CCCCCHH
Q ss_conf             1258836
Q 001613          624 KSAVPKE  630 (1044)
Q Consensus       624 ~~A~~k~  630 (1044)
                      +||.+..
T Consensus        82 ~~a~~~~   88 (93)
T d1h2vz_          82 DWDAGFK   88 (93)
T ss_dssp             EEESCCC
T ss_pred             EECCCCC
T ss_conf             9848988

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=2.2e-14  Score=108.34  Aligned_cols=78  Identities=23%  Similarity=0.422  Sum_probs=73.6

Q ss_pred             CCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEECCC
Q ss_conf             1001169863235888787644577982148993405789877645799993899999999983-898038959898125
Q 001613          548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSA  626 (1044)
Q Consensus       548 ~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~~A  626 (1044)
                      .+|||+|||.++++++|+++|++ ||+|.++++++++.++  ++||||||+|.+.++|.+|++. ++..++|++|.|.+|
T Consensus         3 t~l~V~nLp~~~te~~l~~~f~~-~G~v~~v~i~~~~~~~--~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~v~~A   79 (82)
T d1fxla1           3 TNLIVNYLPQNMTQEEFRSLFGS-IGEIESCKLVRDKITG--QSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYA   79 (82)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHT-TSCEEEEEEEECTTTC--CEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHH-HCCCCCCCCEEECCCC--CCEEEEEEEECCHHHHHHHHHHHCCCEECCEEEEEEEE
T ss_conf             88999898987989999999999-6976410100002578--73025899989999999999982899999999999985


Q ss_pred             CC
Q ss_conf             88
Q 001613          627 VP  628 (1044)
Q Consensus       627 ~~  628 (1044)
                      .|
T Consensus        80 kP   81 (82)
T d1fxla1          80 RP   81 (82)
T ss_dssp             CC
T ss_pred             EC
T ss_conf             48

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.44  E-value=3e-14  Score=107.39  Aligned_cols=78  Identities=33%  Similarity=0.567  Sum_probs=73.1

Q ss_pred             CCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEECCC
Q ss_conf             11001169863235888787644577982148993405789877645799993899999999983898038959898125
Q 001613          547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSA  626 (1044)
Q Consensus       547 ~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v~~A  626 (1044)
                      .++|||+|||+++++++|+++|++ ||.+..+.++.++.++  +++|||||+|.+.+++.+|++.+++.|+||+|+|++|
T Consensus         2 ~r~lfV~nLp~~~te~~l~~~F~~-~G~i~~~~~~~~~~~~--~~~g~afV~f~~~e~~~~al~~~~~~l~Gr~i~V~~A   78 (79)
T d1l3ka2           2 VKKIFVGGIKEDTEEHHLRDYFEQ-YGKIEVIEIMTDRGSG--KKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA   78 (79)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTT-TSCEEEEEEEECTTTC--CEEEEEEEEESSHHHHHHHHHCSCCEETTEECEEEEC
T ss_pred             CCEEEECCCCCCCCHHHHHHHHHH-HCCCCCCCCCCCCCCC--CCCCEEEEEECCHHHHHHHHHHCCCEECCEEEEEEEC
T ss_conf             878998798985879999999997-5513322103578875--5441899999389999999996998799979899978


Q ss_pred             C
Q ss_conf             8
Q 001613          627 V  627 (1044)
Q Consensus       627 ~  627 (1044)
                      .
T Consensus        79 ~   79 (79)
T d1l3ka2          79 L   79 (79)
T ss_dssp             C
T ss_pred             C
T ss_conf             8

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.43  E-value=3e-14  Score=107.40  Aligned_cols=76  Identities=29%  Similarity=0.396  Sum_probs=72.4

Q ss_pred             CEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEECCCC
Q ss_conf             001169863235888787644577982148993405789877645799993899999999983-8980389598981258
Q 001613          549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSAV  627 (1044)
Q Consensus       549 kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~~A~  627 (1044)
                      .|||+|||.++++++|+++|++ ||+|.++++++|+.++  +++|||||+|.+.++|.+|++. ++..++||+|+|.+|.
T Consensus         2 slfV~nL~~~~te~~l~~~F~~-~G~i~~v~i~~d~~tg--~~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~v~~a~   78 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSP-AGPILSIRVCRDMITR--RSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQ   78 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGG-GSCEEEEEEEECTTTC--CEEEEEEEEESSHHHHHHHHTTSTTCEETTEECEEEECC
T ss_pred             EEEEECCCCCCCHHHHHHHHHH-HCCEEEEEEEECCCCC--CCCCCEEEEECCHHHHHHHHHHCCCCEECCEEEEEEEEC
T ss_conf             9999479884879999999997-6988599998404544--778836999889999999999819998999998999827

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.43  E-value=2.7e-14  Score=107.66  Aligned_cols=80  Identities=26%  Similarity=0.493  Sum_probs=72.9

Q ss_pred             EECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCC-CCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEECCCC
Q ss_conf             01169863235888787644577982148993405789-877645799993899999999983-8980389598981258
Q 001613          550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEK-QSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSAV  627 (1044)
Q Consensus       550 LfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~-~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~~A~  627 (1044)
                      |||+|||+++++++|+++|++ ||+|.++.+++++.++ .+++||||||+|.+.++|.+|++. ++..++|++|.|++|.
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~-~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~~a~   79 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSK-VGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISE   79 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHT-TSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSS
T ss_pred             CEECCCCCCCCHHHHHHHHHH-HCCCCCCCEECCCCCCCCCCCCEEEEEEECCHHHHHHHHHHHCCCEECCEEEEEEECC
T ss_conf             988389997989999999998-3980322100023323545331378999899999999999829988999997999888


Q ss_pred             CHH
Q ss_conf             836
Q 001613          628 PKE  630 (1044)
Q Consensus       628 ~k~  630 (1044)
                      ++.
T Consensus        80 ~~~   82 (85)
T d2cpfa1          80 RAT   82 (85)
T ss_dssp             CSS
T ss_pred             CCC
T ss_conf             899

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.43  E-value=2.9e-14  Score=107.51  Aligned_cols=86  Identities=27%  Similarity=0.475  Sum_probs=76.2

Q ss_pred             CCCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH--CCCCCCCEE
Q ss_conf             343311001169863235888787644577982148993405789877645799993899999999983--898038959
Q 001613          543 TQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA--RFVTIMGKE  620 (1044)
Q Consensus       543 ~~~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~--~~~~i~Gr~  620 (1044)
                      ......+|||+|||.++++++|+++|++ ||.|.++.+++++.. +|++||||||+|.+.++|.+|++.  ++..++|++
T Consensus         4 ~~~~~~~l~V~nLp~~~~e~~l~~~F~~-~G~i~~v~i~~~~~~-~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~Gr~   81 (94)
T d2cpha1           4 KKQTTSKILVRNIPFQANQREIRELFST-FGELKTVRLPKKMTG-TGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRR   81 (94)
T ss_dssp             CSSCCCCEEEESCCTTCCHHHHHHHHHT-TSCEEEEECCCCCSS-SCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCB
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHH-HCCCEEEEEEECCCC-CCCCCCEEEEEECCHHHHHHHHHHCCCCCEECCEE
T ss_conf             8889989999699998999999999998-599648898853666-79836689999899999999999723994889999


Q ss_pred             EEECCCCCHH
Q ss_conf             8981258836
Q 001613          621 VEIKSAVPKE  630 (1044)
Q Consensus       621 i~v~~A~~k~  630 (1044)
                      |.|++|.++.
T Consensus        82 l~V~~A~~~~   91 (94)
T d2cpha1          82 LVLEWADSEV   91 (94)
T ss_dssp             CEEEECCCCC
T ss_pred             EEEEECCCCC
T ss_conf             8999829977

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=3.8e-14  Score=106.70  Aligned_cols=78  Identities=24%  Similarity=0.397  Sum_probs=71.7

Q ss_pred             EECCCCCCCCCCCCCCCCCCCCCCCCCEE-EEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEECCCC
Q ss_conf             01169863235888787644577982148-993405789877645799993899999999983-8980389598981258
Q 001613          550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDA-RVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSAV  627 (1044)
Q Consensus       550 LfVg~L~~~~te~~Lr~~F~~~~G~i~~~-~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~~A~  627 (1044)
                      |||+|||.++++++|+++|++ ||.|.++ .+++++.++  ++||||||+|.+.++|.+|++. ++..++|++|.|++|.
T Consensus         1 lfV~nLp~~~te~~l~~~F~~-~G~i~~~~~i~~~~~~g--~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v~~a~   77 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSA-FGVILQTPKIMRDPDTG--NSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAF   77 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHT-TSCBSSCCEECCCTTTC--SCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESC
T ss_pred             CEECCCCCCCCHHHHHHHHHH-HCCEEEEEEEEEECCCC--CCCCEEEEEECCHHHHHHHHHHCCCCEECCEEEEEEEEC
T ss_conf             999389894869999999987-29450467997611332--447539999899999999998579929899999999965


Q ss_pred             CHH
Q ss_conf             836
Q 001613          628 PKE  630 (1044)
Q Consensus       628 ~k~  630 (1044)
                      +|.
T Consensus        78 ~k~   80 (83)
T d1x5ta1          78 KKD   80 (83)
T ss_dssp             CCC
T ss_pred             CCC
T ss_conf             879

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=8.3e-14  Score=104.52  Aligned_cols=85  Identities=32%  Similarity=0.519  Sum_probs=78.2

Q ss_pred             CCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEE
Q ss_conf             43311001169863235888787644577982148993405789877645799993899999999983898038959898
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEI  623 (1044)
Q Consensus       544 ~~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v  623 (1044)
                      .....+|||+||++.+++++|+++|.. ||.|..+.++.++.++  +++|||||+|.+.++|.+|++.+++.++|++|.|
T Consensus        94 ~~~~~~i~V~~lp~~~te~~L~~~f~~-~G~v~~~~i~~~~~~~--~~~g~~fV~f~~~e~A~~Al~~~~~~~~G~~i~V  170 (183)
T d1u1qa_          94 HLTVKKIFVGGIKEDTEEHHLRDYFEQ-YGKIEVIEIMTDRGSG--KKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEV  170 (183)
T ss_dssp             TCCCSEEEEECCCTTCCHHHHHHHHGG-GSCEEEEEEEECTTTC--CEEEEEEEEESCHHHHHHHHTSSCEEETTEEEEE
T ss_pred             CCCCCEEEECCCCCCCCHHHHHHHHCC-CCCEEEEEEECCCCCC--CCCEEEEEEECCHHHHHHHHHHCCCEECCEEEEE
T ss_conf             456423588167776789999654315-8865322330026668--5010599997899999999985999099979799


Q ss_pred             CCCCCHHH
Q ss_conf             12588367
Q 001613          624 KSAVPKEV  631 (1044)
Q Consensus       624 ~~A~~k~~  631 (1044)
                      ++|.+|++
T Consensus       171 ~~A~~k~e  178 (183)
T d1u1qa_         171 RKALSKQE  178 (183)
T ss_dssp             EECCCHHH
T ss_pred             EECCCCCC
T ss_conf             96688442

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=4.8e-14  Score=106.04  Aligned_cols=78  Identities=28%  Similarity=0.467  Sum_probs=71.6

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCC--EEEE
Q ss_conf             311001169863235888787644577982148993405789877645799993899999999983-8980389--5989
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMG--KEVE  622 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~G--r~i~  622 (1044)
                      ...+|||+|||.++++++|+++|++ ||+|.++.+++|+.++  ++||||||+|.+.++|.+|++. ++..++|  ++|.
T Consensus         5 k~~~lfV~nLp~~~te~~L~~~F~~-~G~v~~v~i~~d~~~g--~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~i~   81 (85)
T d1fxla2           5 RDANLYVSGLPKTMTQKELEQLFSQ-YGRIITSRILVDQVTG--VSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPIT   81 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHGG-GSCEEEEEEEECTTTC--CEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHH-HCCCCCCCCCCCCCCC--CCCCEEEEEECCHHHHHHHHHHHCCCEECCCCEEEE
T ss_conf             8999999598998989999999998-4976310301245443--578716999858999999999838999589987899


Q ss_pred             ECCC
Q ss_conf             8125
Q 001613          623 IKSA  626 (1044)
Q Consensus       623 v~~A  626 (1044)
                      |++|
T Consensus        82 V~~A   85 (85)
T d1fxla2          82 VKFA   85 (85)
T ss_dssp             EEEC
T ss_pred             EEEC
T ss_conf             9849

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=9.6e-14  Score=104.10  Aligned_cols=82  Identities=27%  Similarity=0.489  Sum_probs=74.3

Q ss_pred             CCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEE
Q ss_conf             43311001169863235888787644577982148993405789877645799993899999999983-89803895989
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       544 ~~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~  622 (1044)
                      .....+|||+|||+++++++|+++|++ ||+|.++.++.++.    .+||||||+|.+.++|.+|++. ++.+++|+.|.
T Consensus         8 ~~~~~~l~v~nLp~~~t~~~L~~~F~~-~G~v~~v~~~~~~~----~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~   82 (93)
T d2cq3a1           8 KSTPKRLHVSNIPFRFRDPDLRQMFGQ-FGKILDVEIIFNER----GSKGFGFVTFENSADADRAREKLHGTVVEGRKIE   82 (93)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHGGG-TSCEEEEEEECCTT----TTCCEEEEEESCHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHH-CCEEEECCCCCCCC----CCCCEEEEEECCHHHHHHHHHHCCCCEECCEEEE
T ss_conf             999998999798998999999999863-44330001125666----7740237898899999999998199989998889


Q ss_pred             ECCCCCHH
Q ss_conf             81258836
Q 001613          623 IKSAVPKE  630 (1044)
Q Consensus       623 v~~A~~k~  630 (1044)
                      |++|.+|.
T Consensus        83 V~~A~~r~   90 (93)
T d2cq3a1          83 VNNATARV   90 (93)
T ss_dssp             EEECCSSC
T ss_pred             EEECCCCC
T ss_conf             98657579

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.40  E-value=3e-14  Score=107.41  Aligned_cols=82  Identities=34%  Similarity=0.544  Sum_probs=75.6

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEEC
Q ss_conf             311001169863235888787644577982148993405789877645799993899999999983-8980389598981
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~  624 (1044)
                      ..++|||+|||+++++++|+++|++ ||.|..+.++.+..++  +++|||||+|.++++|.+|++. ++..++|++|.|+
T Consensus         4 ~~~kifV~nLp~~~t~~~l~~~F~~-~G~i~~~~~~~~~~~~--~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~   80 (90)
T d1x5sa1           4 DEGKLFVGGLSFDTNEQSLEQVFSK-YGQISEVVVVKDRETQ--RSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVD   80 (90)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHH-HSCCCEEEECCCSSSC--SCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHC-CCCCCCEEECCCCCCC--CCCCEEEEEECCHHHHHHHHHHCCCCEECCEEEEEE
T ss_conf             9989999799986879999875640-2222110110000333--346638999878999999999809989999998999


Q ss_pred             CCCCHH
Q ss_conf             258836
Q 001613          625 SAVPKE  630 (1044)
Q Consensus       625 ~A~~k~  630 (1044)
                      +|.++.
T Consensus        81 ~a~~~~   86 (90)
T d1x5sa1          81 QAGKSS   86 (90)
T ss_dssp             EEECCC
T ss_pred             ECCCCC
T ss_conf             818999

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.40  E-value=6.4e-14  Score=105.27  Aligned_cols=78  Identities=24%  Similarity=0.421  Sum_probs=72.1

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCC--EEEE
Q ss_conf             311001169863235888787644577982148993405789877645799993899999999983-8980389--5989
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMG--KEVE  622 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~G--r~i~  622 (1044)
                      ..++|||+|||.++++++|+++|++ ||+|.++++++++.++  ++||||||+|.+.++|.+|++. ++..+.|  +++.
T Consensus         5 ~~t~lfV~nlp~~~te~~l~~~F~~-~G~i~~~~~~~d~~~g--~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~~l~   81 (85)
T d1b7fa2           5 KDTNLYVTNLPRTITDDQLDTIFGK-YGSIVQKNILRDKLTG--RPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLS   81 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHTS-SSCEEEEEEEECTTTC--CEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHH-HCCEEEEEEECCCCCC--CCCEEEEEEECCHHHHHHHHHHHCCCEECCCCEEEE
T ss_conf             8999999498997999999999996-5987464310123555--676069999899999999999978888579981799


Q ss_pred             ECCC
Q ss_conf             8125
Q 001613          623 IKSA  626 (1044)
Q Consensus       623 v~~A  626 (1044)
                      |++|
T Consensus        82 V~~A   85 (85)
T d1b7fa2          82 VRLA   85 (85)
T ss_dssp             EEEC
T ss_pred             EEEC
T ss_conf             9979

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.39  E-value=7.8e-14  Score=104.68  Aligned_cols=82  Identities=22%  Similarity=0.442  Sum_probs=74.6

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-C------CCCCCC
Q ss_conf             311001169863235888787644577982148993405789877645799993899999999983-8------980389
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-R------FVTIMG  618 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~------~~~i~G  618 (1044)
                      ..++|||+|||+++++++|+++|++ ||++.++.++.++.++  ++||||||+|.+.++|.+|++. +      +..++|
T Consensus         7 ~~~tlfV~nLp~~~te~~l~~~f~~-~G~v~~~~~~~~~~~~--~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~g   83 (98)
T d1x4ha1           7 EGKTVFIRNLSFDSEEEALGEVLQQ-FGDLKYVRVVLHPDTE--HSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDG   83 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHT-TSCEEEEECCBCSSSC--CBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSS
T ss_pred             CCCEEEECCCCCCCCHHHHHHHHHC-CCCCEEEEECCCCCCC--CCCCEEEEEECCHHHHHHHHHHCCCCCCCCCCEECC
T ss_conf             9989999189996889999987751-2422033320366554--566258999869999999998735223469908899


Q ss_pred             EEEEECCCCCHH
Q ss_conf             598981258836
Q 001613          619 KEVEIKSAVPKE  630 (1044)
Q Consensus       619 r~i~v~~A~~k~  630 (1044)
                      |.|.|.+|.+|+
T Consensus        84 r~l~v~~a~~k~   95 (98)
T d1x4ha1          84 RQLKVDLAVTRD   95 (98)
T ss_dssp             CEEEEECCCCCC
T ss_pred             EEEEEEECCCCC
T ss_conf             988999898878

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.39  E-value=1.5e-14  Score=109.45  Aligned_cols=88  Identities=18%  Similarity=0.325  Sum_probs=75.8

Q ss_pred             CCCCCCCCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCC
Q ss_conf             33444343311001169863235888787644577982148993405789877645799993899999999983898038
Q 001613          538 MIHASTQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIM  617 (1044)
Q Consensus       538 ~lh~A~~~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~  617 (1044)
                      ++....+....+|||+|||+++++++|+++|++ ||.|..+.++.++ +  |++||||||+|.+.++|.+|++.++.+++
T Consensus         4 ~~e~~~~~~~~~ifV~nL~~~~te~~l~~~F~~-~G~i~~~~v~~~~-~--g~~kg~afv~F~~~e~a~~Al~~~g~~~~   79 (91)
T d1fjeb1           4 MVEGSESTTPFNLFIGNLNPNKSVAELKVAISE-LFAKNDLAVVDVR-T--GTNRKFGYVDFESAEDLEKALELTGLKVF   79 (91)
T ss_dssp             CCSSSSCSSSEEEEEECCCTTSCHHHHHHHHHH-HHHHHTCCCCEEE-E--ETTTTEEEEEESSHHHHHHHHHGGGEEET
T ss_pred             CCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHC-CCCEEEEEEEECC-C--CCCCEEEEEEECCHHHHHHHHHCCCCEEC
T ss_conf             767888999838999576576128899999863-7847875410068-9--98537767863899999999823994889


Q ss_pred             CEEEEECCCCCH
Q ss_conf             959898125883
Q 001613          618 GKEVEIKSAVPK  629 (1044)
Q Consensus       618 Gr~i~v~~A~~k  629 (1044)
                      |++|+|.+|.+|
T Consensus        80 g~~i~V~~ak~k   91 (91)
T d1fjeb1          80 GNEIKLEKPKGR   91 (91)
T ss_dssp             TEEEEEECCCCS
T ss_pred             CEEEEEEECCCC
T ss_conf             999899855889

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.38  E-value=1.5e-13  Score=102.92  Aligned_cols=76  Identities=28%  Similarity=0.455  Sum_probs=70.9

Q ss_pred             CCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEE
Q ss_conf             3311001169863235888787644577982148993405789877645799993899999999983-898038959898
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEI  623 (1044)
Q Consensus       545 ~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v  623 (1044)
                      +....|||+||+.++++++|+++|++ ||.|.++.+++++.++  ++||||||+|.+.++|.+|++. ++..++||+|+|
T Consensus         7 ~~~~~l~V~nL~~~~te~~l~~~F~~-~G~i~~v~i~~~~~~~--~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   83 (83)
T d2cqca1           7 DPNCCLGVFGLSLYTTERDLREVFSK-YGPIADVSIVYDQQSR--RSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV   83 (83)
T ss_dssp             CGGGCEEEESCCSSCCHHHHHHHHHT-TSCEEEEEEEECSSSS--SEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHH-HCCCCCCCCCCCCCCC--CCCCCEEEEECCHHHHHHHHHHCCCCEECCEEEEC
T ss_conf             99989999399998989999999998-5977300111366665--55530289988999999999980999989999379

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.37  E-value=1.1e-13  Score=103.81  Aligned_cols=76  Identities=24%  Similarity=0.350  Sum_probs=70.7

Q ss_pred             CEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEECCCC
Q ss_conf             001169863235888787644577982148993405789877645799993899999999983-8980389598981258
Q 001613          549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSAV  627 (1044)
Q Consensus       549 kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~~A~  627 (1044)
                      +|||+|||+++++++|+++|++ ||+|.++.++.++.   |++||||||+|.+.++|.+|++. ++..++||+|.|++|.
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~-~G~v~~~~i~~~~~---g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l~V~~a~   77 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAE-FGTLKKAAVHYDRS---GRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT   77 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHH-HSCEEEEEESCSSC---CCSCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             EEEEECCCCCCCHHHHHHHHHH-HCCCEEEEEEEEEC---CCCCEEEEEEECCHHHHHHHHHHHCCCEECCEEEEEEEEE
T ss_conf             9999889987989999999998-59972899998601---2454368999989999999999838999999999999931


Q ss_pred             C
Q ss_conf             8
Q 001613          628 P  628 (1044)
Q Consensus       628 ~  628 (1044)
                      +
T Consensus        78 S   78 (78)
T d1no8a_          78 S   78 (78)
T ss_dssp             C
T ss_pred             C
T ss_conf             9

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.37  E-value=7.4e-14  Score=104.84  Aligned_cols=83  Identities=25%  Similarity=0.310  Sum_probs=71.8

Q ss_pred             CCCCEECCCCCCCCCC-CCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEEC
Q ss_conf             3110011698632358-887876445779821489934057898776457999938999999999838980389598981
Q 001613          546 FKSKIFVGGLPFFLDS-DSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te-~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v~  624 (1044)
                      ..++|||+|||.++++ +.|+++|++ ||+|+++.++.+. ..+|++||||||+|.+.++|.+|++.++..++||.|.|+
T Consensus         3 e~~~l~V~nLp~~~t~ed~l~~~F~~-~G~i~~v~i~~~~-~~~~~~kg~afV~f~~~~~a~~Al~~n~~~~~gr~l~V~   80 (86)
T d2ghpa3           3 EGREIMIRNLSTELLDENLLRESFEG-FGSIEKINIPAGQ-KEHSFNNCCAFMVFENKDSAERALQMNRSLLGNREISVS   80 (86)
T ss_dssp             TTTEEEEEEECTTTCCHHHHHHHHGG-GSCEEEEECCSCC-C---CCCEEEEEEESSHHHHHHHGGGTTEEETTEEEEEE
T ss_pred             CCCEEEEECCCCCCCCHHHHHHHHHH-HHHCCCEEEECCC-CCCCCCCEEEEEEECCHHHHHHHHHCCCCEECCEEEEEE
T ss_conf             88899997999774349999999775-3121110000025-776555226568988999999999629998999998999


Q ss_pred             CCCCHH
Q ss_conf             258836
Q 001613          625 SAVPKE  630 (1044)
Q Consensus       625 ~A~~k~  630 (1044)
                      +|.+|.
T Consensus        81 ~a~~kP   86 (86)
T d2ghpa3          81 LADKKP   86 (86)
T ss_dssp             ECCCCC
T ss_pred             ECCCCC
T ss_conf             747898

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.36  E-value=8.3e-14  Score=104.50  Aligned_cols=80  Identities=24%  Similarity=0.367  Sum_probs=73.3

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEEC
Q ss_conf             311001169863235888787644577982148993405789877645799993899999999983-8980389598981
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~  624 (1044)
                      ...+|||+|||.++++++|+++|++ ||.|..+.++.++.    .+||||||+|.+.++|.+|++. ++..++|++|.|.
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~F~~-~G~v~~~~i~~~~~----~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~V~   81 (89)
T d1cvja2           7 GVGNIFIKNLDKSIDNKALYDTFSA-FGNILSCKVVCDEN----GSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVG   81 (89)
T ss_dssp             TTTEEEEESCCSSCCHHHHHHHHHT-TSCEEEEEECCBTT----BCCSCEEEEESCHHHHHHHTTSSSEEEETTEEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHH-CCCCEEEEEEEECC----CCCCEEEEEECCHHHHHHHHHHCCCCEECCEEEEEE
T ss_conf             9988999289999999999999986-39960799985047----874033799899999999999809999999988998


Q ss_pred             CCCCHH
Q ss_conf             258836
Q 001613          625 SAVPKE  630 (1044)
Q Consensus       625 ~A~~k~  630 (1044)
                      +|.+++
T Consensus        82 ~a~~~~   87 (89)
T d1cvja2          82 RFKSRK   87 (89)
T ss_dssp             ECCCTT
T ss_pred             ECCCCC
T ss_conf             898878

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.36  E-value=8.3e-14  Score=104.50  Aligned_cols=75  Identities=41%  Similarity=0.627  Sum_probs=70.7

Q ss_pred             CEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEECCC
Q ss_conf             001169863235888787644577982148993405789877645799993899999999983898038959898125
Q 001613          549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSA  626 (1044)
Q Consensus       549 kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v~~A  626 (1044)
                      +|||+|||.++++++|+++|++ ||.+..+.++.++.++  +++|||||+|.+.++|.+|++.+++.++||+|+|++|
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~-~G~i~~~~~~~~~~~~--~~~~~afV~F~~~~~a~~al~~~~~~l~gr~i~V~~A   75 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQ-FGKVDDAMLMFDKTTN--RHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHT-TSCCSEECCBCCTTCT--TSCCEEEEECSCHHHHHHHHHCSSCCBTTBCCEEEEC
T ss_pred             CEEEECCCCCCCHHHHHHHHHH-HCCCCEEEEEEECCCC--CCCCEEEEEECCHHHHHHHHHCCCCEECCEEEEEEEC
T ss_conf             9899089998889999999998-6874022332103433--5673369999899999999952999899949899889

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.35  E-value=2e-13  Score=101.98  Aligned_cols=80  Identities=19%  Similarity=0.372  Sum_probs=71.5

Q ss_pred             CCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEE
Q ss_conf             3311001169863235888787644577982148993405789877645799993899999999983-898038959898
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEI  623 (1044)
Q Consensus       545 ~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v  623 (1044)
                      +..+.|||+||+..+++++|+++|++ ||+|.++++..+     +++||||||+|.+.++|..|++. ++..++|+.|.|
T Consensus         5 ~~~r~l~V~nLp~~~te~~l~~~F~~-~G~v~~i~~~~~-----~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V   78 (114)
T d2f9da1           5 EVNRILYIRNLPYKITAEEMYDIFGK-YGPIRQIRVGNT-----PETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVV   78 (114)
T ss_dssp             TCCSEEEEESCCTTCCHHHHHHHHHT-TSCEEEEEEECS-----TTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHH-CCCEEEECCCCC-----CCCCCEEEEEECCHHHHHHHHHHHCCCEECCEEEEE
T ss_conf             79999999799998989999999852-698676012346-----776776999978899999999982899889988899


Q ss_pred             CCCCCHH
Q ss_conf             1258836
Q 001613          624 KSAVPKE  630 (1044)
Q Consensus       624 ~~A~~k~  630 (1044)
                      .+|.++.
T Consensus        79 ~~a~~~~   85 (114)
T d2f9da1          79 LYYNANR   85 (114)
T ss_dssp             EECCHHH
T ss_pred             EECCCCC
T ss_conf             9847872

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.35  E-value=1.3e-13  Score=103.16  Aligned_cols=78  Identities=13%  Similarity=0.190  Sum_probs=72.3

Q ss_pred             CCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEECCC
Q ss_conf             1001169863235888787644577982148993405789877645799993899999999983-898038959898125
Q 001613          548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSA  626 (1044)
Q Consensus       548 ~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~~A  626 (1044)
                      .+|||+|||+++++++++++|++ ||.|..+.++.++.++  ++||||||+|.+.++|.+|++. ++..++|++|.|++|
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~-~G~v~~~~~~~~~~~~--~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V~~a   78 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQD-INVVALSIRLPSLRFN--TSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVS   78 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHH-TTCCCCEEECC---------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHH-HCCEEEEEEECCCCCC--CCCCEEEEEECCHHHHHHHHHHHCCCEECCEEEEEEEC
T ss_conf             69999797986989999999998-2968764220001123--45521589989999999999986997889999999974


Q ss_pred             CC
Q ss_conf             88
Q 001613          627 VP  628 (1044)
Q Consensus       627 ~~  628 (1044)
                      .|
T Consensus        79 ~P   80 (81)
T d2ghpa1          79 NP   80 (81)
T ss_dssp             CC
T ss_pred             CC
T ss_conf             08

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.35  E-value=2.3e-13  Score=101.65  Aligned_cols=83  Identities=22%  Similarity=0.262  Sum_probs=72.3

Q ss_pred             CCCCCEECCCCCCCCCCCCCCCCCCCCCCCCC--------EEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCC
Q ss_conf             33110011698632358887876445779821--------48993405789877645799993899999999983-8980
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIE--------DARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVT  615 (1044)
Q Consensus       545 ~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~--------~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~  615 (1044)
                      ....+|||+||++.+++++|+++|++ ||.|.        .+.+.+++.++  +++|||||+|.+.++|.+|++. ++..
T Consensus         6 ~~~~~i~V~nLp~~~te~~l~~~F~~-~G~i~~~~~~~~~~~~~~~d~~~~--~~~g~afV~f~~~~~a~~Ai~~l~g~~   82 (101)
T d2cpea1           6 SDNSAIYVQGLNDSVTLDDLADFFKQ-CGVVKMNKRTGQPMIHIYLDKETG--KPKGDATVSYEDPPTAKAAVEWFDGKD   82 (101)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHTT-TSCBCBCSSSCCBSEECCBCTTTC--SBCSEEEEEBSSHHHHHHHHHHHTTCE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHH-CCEEEEEEECCCCEEEEEECCCCC--CCCCEEEEEECCHHHHHHHHHHHCCCE
T ss_conf             98999999799986889999987887-743787563253036775426644--434123587669999999999839998


Q ss_pred             CCCEEEEECCCCCHH
Q ss_conf             389598981258836
Q 001613          616 IMGKEVEIKSAVPKE  630 (1044)
Q Consensus       616 i~Gr~i~v~~A~~k~  630 (1044)
                      ++||+|.|++|.+++
T Consensus        83 ~~gr~i~V~~a~~~~   97 (101)
T d2cpea1          83 FQGSKLKVSLARKKP   97 (101)
T ss_dssp             ETTEECEEECSSCCC
T ss_pred             ECCEEEEEEECCCCC
T ss_conf             999987999757898

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.34  E-value=2.5e-13  Score=101.44  Aligned_cols=80  Identities=26%  Similarity=0.377  Sum_probs=73.0

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEEC
Q ss_conf             311001169863235888787644577982148993405789877645799993899999999983-8980389598981
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~  624 (1044)
                      ..++|||+|||..+++++|+++|++ ||+|.++.++.++.+    .+|||||+|.+.++|.+|++. ++..+.|+.|+|.
T Consensus         7 ~~~tl~V~nLp~~~te~~l~~~F~~-~G~i~~v~i~~d~~~----~~~~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~   81 (90)
T d2cqia1           7 QPRTLYVGNLSRDVTEVLILQLFSQ-IGPCKSCKMITEHTS----NDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVN   81 (90)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHH-HSCEEEEEEECCCCS----SCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHH-CCCCEEEEEECCCCC----CCEEEEEEECCHHHHHHHHHHCCCCEECCEEEEEE
T ss_conf             9999999899997989999999976-399436644126676----41002888889999999999819998999988999


Q ss_pred             CCCCHH
Q ss_conf             258836
Q 001613          625 SAVPKE  630 (1044)
Q Consensus       625 ~A~~k~  630 (1044)
                      +|.++.
T Consensus        82 ~a~~~~   87 (90)
T d2cqia1          82 WATTPS   87 (90)
T ss_dssp             ECCCTT
T ss_pred             ECCCCC
T ss_conf             768977

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.32  E-value=3.9e-13  Score=100.13  Aligned_cols=83  Identities=19%  Similarity=0.373  Sum_probs=71.8

Q ss_pred             CCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEEC
Q ss_conf             33110011698632358887876445779821489934057898776457999938999999999838980389598981
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIK  624 (1044)
Q Consensus       545 ~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v~  624 (1044)
                      +...+|||+||++++++++|+++|++ || +.++.++.++. .+|++||||||+|.+.++|++|++.++..++||.|+|+
T Consensus        13 ~p~~~v~V~nLp~~~te~~l~~~f~~-~g-~~~~~~~~~~~-~~g~~~g~afV~f~~~e~a~~~~~~~~~~~~gr~l~V~   89 (104)
T d1wi8a_          13 SPPYTAFLGNLPYDVTEESIKEFFRG-LN-ISAVRLPREPS-NPERLKGFGYAEFEDLDSLLSALSLNEESLGNKRIRVD   89 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTT-SC-EEEEECCBCSS-CTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEECEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHH-HC-CCCCEEEEEEC-CCCCCCEEEEEEECCHHHHHHHHHCCCCEECCEEEEEE
T ss_conf             99978998099986989999999998-32-15310234311-47886135457877999999999809998999988999


Q ss_pred             CCCCHH
Q ss_conf             258836
Q 001613          625 SAVPKE  630 (1044)
Q Consensus       625 ~A~~k~  630 (1044)
                      +|.++.
T Consensus        90 ~a~~~~   95 (104)
T d1wi8a_          90 VADQAQ   95 (104)
T ss_dssp             ECCCCC
T ss_pred             ECCCCC
T ss_conf             789988

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.32  E-value=4.4e-13  Score=99.79  Aligned_cols=80  Identities=19%  Similarity=0.321  Sum_probs=72.0

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEEC
Q ss_conf             311001169863235888787644577982148993405789877645799993899999999983-8980389598981
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~  624 (1044)
                      ...+|||+|||.++++++|+++|++ ||+|..+.++.+. +  ++++|||||+|.+.++|.+|++. ||..|.||++.|.
T Consensus        17 ~~~~lfV~nLp~~~te~~L~~~F~~-~G~i~~~~~~~~~-~--~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~~~v~   92 (101)
T d1x5oa1          17 DPTNLYISNLPLSMDEQELENMLKP-FGQVISTRILRDS-S--GTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSA   92 (101)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHTTTT-TSCEEEEEEEECS-S--SCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHH-CCCCCCEEEECCC-C--CCCCCCEEEEECCHHHHHHHHHHHCCCEECCCCCCCC
T ss_conf             9998999699998989999988861-3664210110011-2--3566310477689999999999848998898398667


Q ss_pred             CCCCH
Q ss_conf             25883
Q 001613          625 SAVPK  629 (1044)
Q Consensus       625 ~A~~k  629 (1044)
                      ++.|-
T Consensus        93 ~~~Pl   97 (101)
T d1x5oa1          93 PTEPL   97 (101)
T ss_dssp             CSSCB
T ss_pred             CCCCC
T ss_conf             89886

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.30  E-value=8.5e-14  Score=104.43  Aligned_cols=85  Identities=19%  Similarity=0.201  Sum_probs=77.5

Q ss_pred             CCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEE
Q ss_conf             43311001169863235888787644577982148993405789877645799993899999999983-89803895989
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       544 ~~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~  622 (1044)
                      .+...+|||+|||.++++++|+++|.+ ||.|..+.++.++.++  +++|||||+|.+.++|.+|++. ++..+.|++|.
T Consensus        15 ~~ps~tl~V~nLp~~~t~~~l~~~f~~-~G~v~~~~~~~~~~~g--~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~   91 (102)
T d2cpxa1          15 GEPNKVLYLKNLSPRVTERDLVSLFAR-FQEKKGPPIQFRMMTG--RMRGQAFITFPNKEIAWQALHLVNGYKLYGKILV   91 (102)
T ss_dssp             CSCCSEEEEECCCTTCCHHHHHHHTHH-HHHSSSSCCEEEEECS--SSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHH-CCCEEEEEEECCCCCC--CCCCCCEEEECCHHHHHHHHHHHCCCEECCEEEE
T ss_conf             789989999699998989999997853-4542467753046655--5553214774337899999998589988999889


Q ss_pred             ECCCCCHHH
Q ss_conf             812588367
Q 001613          623 IKSAVPKEV  631 (1044)
Q Consensus       623 v~~A~~k~~  631 (1044)
                      |.+|.++++
T Consensus        92 V~~ak~k~~  100 (102)
T d2cpxa1          92 IEFGKNKKQ  100 (102)
T ss_dssp             EEECCCCSC
T ss_pred             EEECCCCCC
T ss_conf             996778030

>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: E3 ubiquitin protein ligase CNOT4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.30  E-value=1.5e-12  Score=96.22  Aligned_cols=77  Identities=25%  Similarity=0.371  Sum_probs=68.9

Q ss_pred             CCCEECCCCCCCCCCCCC---CCCCCCCCCCCCEEEEEEECCCCC-CCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEE
Q ss_conf             110011698632358887---876445779821489934057898-77645799993899999999983-8980389598
Q 001613          547 KSKIFVGGLPFFLDSDSL---GGYFEKHFGPIEDARVAEFQTEKQ-SVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEV  621 (1044)
Q Consensus       547 ~~kLfVg~L~~~~te~~L---r~~F~~~~G~i~~~~i~~d~~~~~-g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i  621 (1044)
                      ...+||+|||++++++++   +++|++ ||+|.++.+++++.++. +.++|||||+|.+.++|.+|++. |+..++||+|
T Consensus         8 ~n~vyV~nLp~~~t~~~l~~~~e~F~~-~G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~gr~l   86 (89)
T d2cpia1           8 KNLVFVVGLSQRLADPEVLKRPEYFGK-FGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTL   86 (89)
T ss_dssp             SSCEEEEEECTTTCCHHHHHSTTTTTT-TSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHCC-CCCCEEEEEEECCCCCCCCCCCEEEEEECCCCHHHHHHHHHHCCCEECCEEE
T ss_conf             688999798976387899988987635-5882587772026768777765379985154122999999858999999788


Q ss_pred             EEC
Q ss_conf             981
Q 001613          622 EIK  624 (1044)
Q Consensus       622 ~v~  624 (1044)
                      +|+
T Consensus        87 kvS   89 (89)
T d2cpia1          87 KAS   89 (89)
T ss_dssp             EEE
T ss_pred             EEC
T ss_conf             879

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.30  E-value=5.9e-13  Score=98.93  Aligned_cols=78  Identities=17%  Similarity=0.192  Sum_probs=70.7

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEECC
Q ss_conf             31100116986323588878764457798214899340578987764579999389999999998389803895989812
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKS  625 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v~~  625 (1044)
                      ..++|||+|||.++++++|+++|++ ||+|..+.++.++ +  |++||||||+|.+.++|.+|++.++..+.|+.+.|++
T Consensus         5 ~~rtvfV~nlp~~~te~~l~~~F~~-~G~v~~v~l~~~~-~--~~~kG~afV~f~~~e~a~~al~~~~~~~~g~~l~v~~   80 (85)
T d1zh5a2           5 KNRSVYIKGFPTDATLDDIKEWLED-KGQVLNIQMRRTL-H--KAFKGSIFVVFDSIESAKKFVETPGQKYKETDLLILF   80 (85)
T ss_dssp             HTTEEEEECCCTTCCHHHHHHHHTT-SCCEEEEEEEECT-T--CCEEEEEEEEESCHHHHHHHHTCCCCEETTEECEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHH-HCCCCCCEEEEEC-C--CCCCEEEEEEECCHHHHHHHHHHCCCEECCEEEEEEE
T ss_conf             8678999797987979999998987-5524230032102-5--8863578999848999999999789979998989997


Q ss_pred             CC
Q ss_conf             58
Q 001613          626 AV  627 (1044)
Q Consensus       626 A~  627 (1044)
                      +.
T Consensus        81 ~~   82 (85)
T d1zh5a2          81 KD   82 (85)
T ss_dssp             GG
T ss_pred             CC
T ss_conf             37

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.27  E-value=4.5e-13  Score=99.71  Aligned_cols=81  Identities=22%  Similarity=0.425  Sum_probs=70.8

Q ss_pred             CCEECCCCCCCCCCCCCCCCCCCCCCC-CCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CC--CCCCCEEEEE
Q ss_conf             100116986323588878764457798-2148993405789877645799993899999999983-89--8038959898
Q 001613          548 SKIFVGGLPFFLDSDSLGGYFEKHFGP-IEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RF--VTIMGKEVEI  623 (1044)
Q Consensus       548 ~kLfVg~L~~~~te~~Lr~~F~~~~G~-i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~--~~i~Gr~i~v  623 (1044)
                      .+|||+|||.++++++|+++|++ ||+ |.++.++++..+ +|++||||||+|.++++|.+|++. ++  ..++|++|.|
T Consensus         2 ~rLyV~nLp~~~te~~l~~~f~~-~g~~i~~v~~~~~~~~-~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V   79 (96)
T d2disa1           2 CRLFIGGIPKMKKREEILEEIAK-VTEGVLDVIVYASAAD-KMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAV   79 (96)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHH-HSTTEEEEECCSSSCT-TTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEE
T ss_pred             CEEEECCCCCCCCHHHHHHHHHH-HCCCCEEEEEEEECCC-CCCCCCEEEEEECCHHHHHHHHHHHCCCCEEECCEEEEE
T ss_conf             79999498986889999999998-6975058998641123-236787599998399999999999768982789988899


Q ss_pred             CCCCCHH
Q ss_conf             1258836
Q 001613          624 KSAVPKE  630 (1044)
Q Consensus       624 ~~A~~k~  630 (1044)
                      +||.|++
T Consensus        80 ~~A~p~~   86 (96)
T d2disa1          80 DWAEPEI   86 (96)
T ss_dssp             EESCSSC
T ss_pred             EECCCCC
T ss_conf             9718988

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.27  E-value=3e-13  Score=100.83  Aligned_cols=76  Identities=30%  Similarity=0.451  Sum_probs=68.6

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEECC
Q ss_conf             31100116986323588878764457798214899340578987764579999389999999998389803895989812
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKS  625 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v~~  625 (1044)
                      ...+|||+|||+++++++|+++|++ ||+|.++.++.       .++|||||+|++.++|++|+. +++.|+|++|.|++
T Consensus         4 ~s~~lfV~nLp~~~te~~L~~~F~~-~G~v~~v~~~~-------~~~gfafV~f~~~~~a~~a~~-~~~~i~g~~l~v~~   74 (88)
T d1wf0a_           4 GSSGVFVGRCTGDMTEDELREFFSQ-YGDVMDVFIPK-------PFRAFAFVTFADDQIAQSLCG-EDLIIKGISVHISN   74 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTT-TSCCCEEECCS-------SCCSCCEEECSCHHHHHHTTT-CEEEETTEEEEEEC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHH-CCCCEEEEEEE-------CCCCEEEEEECCHHHHHHHHH-CCCEECCEEEEEEE
T ss_conf             9989999289988989999888998-29844999942-------137658999889999999972-98989999969986


Q ss_pred             CCCHH
Q ss_conf             58836
Q 001613          626 AVPKE  630 (1044)
Q Consensus       626 A~~k~  630 (1044)
                      |.+|+
T Consensus        75 a~~k~   79 (88)
T d1wf0a_          75 AEPKH   79 (88)
T ss_dssp             CCCCC
T ss_pred             CCCCC
T ss_conf             77888

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.27  E-value=4.2e-13  Score=99.93  Aligned_cols=82  Identities=17%  Similarity=0.204  Sum_probs=70.2

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEECC
Q ss_conf             31100116986323588878764457798214899340578987764579999389999999998389803895989812
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKS  625 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v~~  625 (1044)
                      ....|||+|||+++++++|+++|.+ ||.+..+.++.+..++  +++|||||+|.+.++|++|++.++..|+||.|.|.+
T Consensus         7 ~~~~v~v~nLp~~~t~~~l~~~F~~-~g~i~~~~~~~~~~~g--~~~G~afV~F~s~~~a~~Al~~n~~~i~gr~i~V~~   83 (103)
T d2cpya1           7 AKVCAHITNIPFSITKMDVLQFLEG-IPVDENAVHVLVDNNG--QGLGQALVQFKNEDDARKSERLHRKKLNGREAFVHV   83 (103)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHTTT-SCCCSTTEEECCCTTS--SCSSCEEEECSSHHHHHHHGGGCSEEETTEEEEEEE
T ss_pred             CCEEEEEECCCCCCCHHHHHHHHCC-CCEEEEEEEEEECCCC--CCCCCEEEEECCHHHHHHHHHCCCCEECCCEEEEEE
T ss_conf             8208999598988888998642102-2237778888768989--857637899889999999996398749991899998


Q ss_pred             CCCHH
Q ss_conf             58836
Q 001613          626 AVPKE  630 (1044)
Q Consensus       626 A~~k~  630 (1044)
                      +.+++
T Consensus        84 ~~~~~   88 (103)
T d2cpya1          84 VTLED   88 (103)
T ss_dssp             ECHHH
T ss_pred             CCHHH
T ss_conf             99888

>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.26  E-value=1.3e-12  Score=96.75  Aligned_cols=82  Identities=20%  Similarity=0.243  Sum_probs=72.4

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEECC
Q ss_conf             31100116986323588878764457798214899340578987764579999389999999998389803895989812
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKS  625 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v~~  625 (1044)
                      ....|||+|||+++++++|+++|.+ +|.+....++.+..++  +++|||||+|.+.++|++|++.++..|+||.|+|..
T Consensus        14 ~~~~v~v~nLP~~~te~dI~~~F~~-~g~v~~~v~~~~~~~~--~~kG~afV~F~~~e~a~~a~~~~~~~i~gR~i~V~~   90 (104)
T d1wg5a_          14 NDGFVRLRGLPFGCSKEEIVQFFSG-LEIVPNGMTLPVDFQG--RSTGEAFVQFASQEIAEKALKKHKERIGHRYIEIFK   90 (104)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTT-CCEEEEEEECCBCSSS--CBCSEEEEEESSHHHHHHHHTTTTCCSSSSCCEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHH-CCCCEEEEEEEECCCC--CCCEEEEEEECCHHHHHHHHHHCCCEECCEEEEEEE
T ss_conf             9858998589998989999998875-3872478897768999--723688997489999999874489889335999998


Q ss_pred             CCCHH
Q ss_conf             58836
Q 001613          626 AVPKE  630 (1044)
Q Consensus       626 A~~k~  630 (1044)
                      +.+++
T Consensus        91 ~~~~~   95 (104)
T d1wg5a_          91 SSRAE   95 (104)
T ss_dssp             ECTTT
T ss_pred             CCHHH
T ss_conf             89778

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.25  E-value=1.4e-12  Score=96.39  Aligned_cols=86  Identities=22%  Similarity=0.374  Sum_probs=74.1

Q ss_pred             CCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEE
Q ss_conf             43311001169863235888787644577982148993405789877645799993899999999983898038959898
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEI  623 (1044)
Q Consensus       544 ~~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v  623 (1044)
                      .+....|||+|||+++++++|+++|++ ||.+..+.++.+...+  +++|||||+|.+.++|.+|++.++..|+||.|+|
T Consensus        15 ~~~~~~i~v~nLp~~~t~~di~~~F~~-~g~~~~~~~~~~~~~g--~~~G~afVeF~~~e~a~~al~~~~~~i~gR~i~V   91 (112)
T d1wela1          15 HEAGFCVYLKGLPFEAENKHVIDFFKK-LDIVEDSIYIAYGPNG--KATGEGFVEFRNEADYKAALCRHKQYMGNRFIQV   91 (112)
T ss_dssp             CCCCCEEEEECCCTTCCHHHHHHHSCS-SCBCTTTCEEEECTTS--SEEEEEEEEBSSSHHHHHHHTSCSBCSTTSCBEE
T ss_pred             CCCCEEEEEECCCCCCCHHHHHHHHHH-CCCCCCCEEEECCCCC--CEEEEEEEEECCHHHHHHHHHCCCCCCCCEEEEE
T ss_conf             889769999469975759999667753-3444321022107654--3004789998899999999971898479989899


Q ss_pred             CCCCCHHHH
Q ss_conf             125883677
Q 001613          624 KSAVPKEVL  632 (1044)
Q Consensus       624 ~~A~~k~~~  632 (1044)
                      ..+.+++..
T Consensus        92 ~~~~~~~~~  100 (112)
T d1wela1          92 HPITKKGML  100 (112)
T ss_dssp             EEECHHHHH
T ss_pred             EECCHHHHH
T ss_conf             986957899

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.25  E-value=1.2e-12  Score=96.84  Aligned_cols=76  Identities=28%  Similarity=0.402  Sum_probs=69.9

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEEC
Q ss_conf             311001169863235888787644577982148993405789877645799993899999999983-8980389598981
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~  624 (1044)
                      ...+|||+||+.++++++|+++|++ ||+|.+++++.        .||||||+|.+.++|.+|++. ++.+++|++|+|.
T Consensus        17 ~~~~l~v~nL~~~~te~~L~~~F~~-fG~i~~v~i~~--------~kg~afV~f~~~~~A~~Ai~~l~~~~i~g~~l~v~   87 (96)
T d1x4ga1          17 KNCTVYCGGIASGLTDQLMRQTFSP-FGQIMEIRVFP--------EKGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCY   87 (96)
T ss_dssp             SCCEEEEECCSSCCCHHHHHHHHHH-HSCEEEEEEET--------TTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCEEEECCCCCCCCHHHHHHHHHH-HCCCEEEEEEE--------CCEEEEEEECCHHHHHHHHHHHCCCEECCEEEEEE
T ss_conf             9999999089998999999999998-29966999970--------13089999899999999999819999999998999


Q ss_pred             CCCCHH
Q ss_conf             258836
Q 001613          625 SAVPKE  630 (1044)
Q Consensus       625 ~A~~k~  630 (1044)
                      ||.++.
T Consensus        88 ~ak~~p   93 (96)
T d1x4ga1          88 WGKESP   93 (96)
T ss_dssp             CCCCCC
T ss_pred             ECCCCC
T ss_conf             757897

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.25  E-value=2.7e-12  Score=94.62  Aligned_cols=81  Identities=22%  Similarity=0.341  Sum_probs=70.8

Q ss_pred             CCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEE
Q ss_conf             43311001169863235888787644577982148993405789877645799993899999999983-89803895989
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       544 ~~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~  622 (1044)
                      .....+|||+|||.++++++|+++|++ ||.|..+.+..+  .   .+||||||+|.+.++|.+|++. ++.+++|++|+
T Consensus        11 ~~~~~~l~V~nLp~~~t~~~l~~~F~~-~G~v~~~~~~~~--~---~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l~   84 (95)
T d1x4aa1          11 GNNDCRIYVGNLPPDIRTKDIEDVFYK-YGAIRDIDLKNR--R---GGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLR   84 (95)
T ss_dssp             CCCSSEEEEESCCTTCCHHHHHHHHGG-GSCEEEEEECCS--S---SSSCCEEEEESCHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHC-CCCEEEEEECCC--C---CCCCEEEEEECCHHHHHHHHHHHCCCEECCEEEE
T ss_conf             999989999798988989999998842-786699884156--5---5465399998899999999998199989998979


Q ss_pred             ECCCCCHH
Q ss_conf             81258836
Q 001613          623 IKSAVPKE  630 (1044)
Q Consensus       623 v~~A~~k~  630 (1044)
                      |.+|.+..
T Consensus        85 V~~a~~~r   92 (95)
T d1x4aa1          85 VEFPRSGR   92 (95)
T ss_dssp             EECCCCCC
T ss_pred             EEECCCCC
T ss_conf             98256979

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.24  E-value=2.2e-12  Score=95.19  Aligned_cols=112  Identities=32%  Similarity=0.463  Sum_probs=90.3

Q ss_pred             CCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEE
Q ss_conf             43311001169863235888787644577982148993405789877645799993899999999983898038959898
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEI  623 (1044)
Q Consensus       544 ~~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v  623 (1044)
                      ++..++|||+|||+++++++|+++|++ ||+|.++.++++..++  ++||||||+|.+.++|.+|+...+..++++.+.+
T Consensus         3 p~~~r~lfV~nLp~~~te~~L~~~F~~-~G~v~~~~~~~~~~~~--~~~g~afv~f~~~~~a~~a~~~~~~~~~~~~~~~   79 (183)
T d1u1qa_           3 PEQLRKLFIGGLSFETTDESLRSHFEQ-WGTLTDCVVMRDPNTK--RSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEP   79 (183)
T ss_dssp             CHHHHEEEEESCCTTCCHHHHHHHHGG-GSCEEEEEEEECTTTC--CEEEEEEEEESSHHHHHHHHHTCSCEETTEECEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHH-CCCEEEEEEEECCCCC--CCCCCEECCCCCHHHHHHHHHHCCCCCCCCCHHH
T ss_conf             888978999798998989999999987-3987899864112478--8557432204888999999984577641110233


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHH
Q ss_conf             12588367799999878765431100012568899980458999
Q 001613          624 KSAVPKEVLFAELQKQSAQQQESKHEHQARLGAKIPDERTMEQI  667 (1044)
Q Consensus       624 ~~A~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~~  667 (1044)
                      .+..++..         .............+...+|..-++.+|
T Consensus        80 ~~~~~~~~---------~~~~~~~~~~~~i~V~~lp~~~te~~L  114 (183)
T d1u1qa_          80 KRAVSRED---------SQRPGAHLTVKKIFVGGIKEDTEEHHL  114 (183)
T ss_dssp             EECCCTTG---------GGSTTTTCCCSEEEEECCCTTCCHHHH
T ss_pred             HHHHHCCC---------CCCCCCCCCCCEEEECCCCCCCCHHHH
T ss_conf             33221123---------110113456423588167776789999

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.24  E-value=1.3e-12  Score=96.70  Aligned_cols=80  Identities=21%  Similarity=0.286  Sum_probs=70.7

Q ss_pred             CCCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEE
Q ss_conf             343311001169863235888787644577982148993405789877645799993899999999983-8980389598
Q 001613          543 TQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEV  621 (1044)
Q Consensus       543 ~~~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i  621 (1044)
                      ......+|||+||++++++++|+++|.+ ||.|..+..       +++++|||||+|.+.++|.+|++. ++..++|++|
T Consensus        12 ~~~~~~~l~V~nL~~~~te~~l~~~F~~-~g~v~~~~~-------~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i   83 (96)
T d1fjca_          12 KVRAARTLLAKNLSFNITEDELKEVFED-ALEIRLVSQ-------DGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSV   83 (96)
T ss_dssp             TTTGGGEEEEESCCSSCCHHHHHHHHCS-EEEECCEEE-------TTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEE
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHH-CCCCEEEEE-------CCCCCCEEEEEECCHHHHHHHHHHCCCCEECCEEE
T ss_conf             6778999999189987989999999975-165605634-------37506688898689999999999829999999997


Q ss_pred             EECCCCCHH
Q ss_conf             981258836
Q 001613          622 EIKSAVPKE  630 (1044)
Q Consensus       622 ~v~~A~~k~  630 (1044)
                      .|.+|.+|.
T Consensus        84 ~V~~a~~k~   92 (96)
T d1fjca_          84 SLYYTGEKG   92 (96)
T ss_dssp             EEEECSSSC
T ss_pred             EEEEECCCC
T ss_conf             999807899

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins C1/C2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.23  E-value=2.2e-12  Score=95.23  Aligned_cols=75  Identities=29%  Similarity=0.555  Sum_probs=66.6

Q ss_pred             CCCCCEECCCCC-CCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEE
Q ss_conf             331100116986-3235888787644577982148993405789877645799993899999999983-89803895989
Q 001613          545 EFKSKIFVGGLP-FFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       545 ~~~~kLfVg~L~-~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~  622 (1044)
                      ....+|||+||+ ..+++.+|+++|++ ||+|.++.+          +||||||+|++.++|.+|++. ++.++.|++|.
T Consensus        13 ~~~~~lfV~nL~~~~~~~~~L~~~F~~-~G~i~~~~i----------~rg~aFV~f~~~~~A~~Ai~~lng~~~~g~~l~   81 (98)
T d1wf2a_          13 SMNSRVFIGNLNTLVVKKSDVEAIFSK-YGKIVGCSV----------HKGFAFVQYVNERNARAAVAGEDGRMIAGQVLD   81 (98)
T ss_dssp             SCCCCEEEEEECTTTCCHHHHHHSSTT-SSCEEEEEE----------ETEEEEEEESSHHHHHHHHHTTTTCEETTEECE
T ss_pred             CCCCEEEEECCCCCCCCHHHHHHHHHH-CCCEEEEEE----------ECCEEEEEECCHHHHHHHHHHCCCCEECCEEEE
T ss_conf             997589993889021999999999862-698799997----------088689997999999999998199989998879


Q ss_pred             ECCCCCHH
Q ss_conf             81258836
Q 001613          623 IKSAVPKE  630 (1044)
Q Consensus       623 v~~A~~k~  630 (1044)
                      |.+|.++.
T Consensus        82 V~~a~~~~   89 (98)
T d1wf2a_          82 INLAAEPK   89 (98)
T ss_dssp             EEETTSCC
T ss_pred             EEECCCCC
T ss_conf             99778999

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.23  E-value=1.8e-12  Score=95.82  Aligned_cols=81  Identities=19%  Similarity=0.098  Sum_probs=71.5

Q ss_pred             CCCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCC--CCE
Q ss_conf             343311001169863235888787644577982148993405789877645799993899999999983-89803--895
Q 001613          543 TQEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTI--MGK  619 (1044)
Q Consensus       543 ~~~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i--~Gr  619 (1044)
                      .+.....|||+||++.+++++|+++|++ ||.|..+.++.+      +++|||||+|.+.++|.+|++. ++..+  .|+
T Consensus         3 ~~s~~~~v~V~NL~~~vte~~L~~~F~~-~G~i~~~~i~~~------~~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~   75 (108)
T d2adba1           3 GQSPVLRIIVENLFYPVTLDVLHQIFSK-FGTVLKIITFTK------NNQFQALLQYADPVSAQHAKLSLDGQNIYNACC   75 (108)
T ss_dssp             CCCCEEEEESCSCCSTTHHHHHHHHHTT-TSCEEEEEEEEE------TTEEEEEEEESCHHHHHHHHHHHHSCCSSTTCC
T ss_pred             CCCCEEEEEEECCCCCCCHHHHHHHHCC-CCCEEEEEEEEE------CCCCEEEEEECCHHHHHHHHHHHCCCEECCCCC
T ss_conf             8998089999392999989999888703-975899799850------899818999899999999999977887046980


Q ss_pred             EEEECCCCCHH
Q ss_conf             98981258836
Q 001613          620 EVEIKSAVPKE  630 (1044)
Q Consensus       620 ~i~v~~A~~k~  630 (1044)
                      .+.+.++.++.
T Consensus        76 ~l~v~~s~~~~   86 (108)
T d2adba1          76 TLRIDFSKLTS   86 (108)
T ss_dssp             CCEEEECSSCS
T ss_pred             EEEEEECCCCC
T ss_conf             89999457765

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.22  E-value=3e-12  Score=94.38  Aligned_cols=77  Identities=22%  Similarity=0.326  Sum_probs=70.2

Q ss_pred             CCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEE
Q ss_conf             3311001169863235888787644577982148993405789877645799993899999999983-898038959898
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEI  623 (1044)
Q Consensus       545 ~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v  623 (1044)
                      ...++|||+|||.++++++|+++|++ ||.+..+.+.        ++||||||+|.+.++|.+|+.. ++..++|+.|.|
T Consensus         6 ~~~k~l~V~nLp~~~te~~l~~~F~~-~g~i~~~~~~--------~~rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~V   76 (86)
T d2cpda1           6 SSVKILYVRNLMLSTSEEMIEKEFNN-IKPGAVERVK--------KIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEV   76 (86)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHHT-TSTTCEEEEE--------ECSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEE
T ss_pred             CCCCEEEECCCCCCCCHHHHHHHHCC-CCEEEEEEEC--------CCCEEEEEEECCHHHHHHHHHHCCCCEECCEEEEE
T ss_conf             58999999298997889999986206-5326557975--------54279999869999999999980998999989899


Q ss_pred             CCCCCHH
Q ss_conf             1258836
Q 001613          624 KSAVPKE  630 (1044)
Q Consensus       624 ~~A~~k~  630 (1044)
                      ++|.|+.
T Consensus        77 ~~akP~~   83 (86)
T d2cpda1          77 TLAKPVD   83 (86)
T ss_dssp             ECCCCCC
T ss_pred             EECCCCC
T ss_conf             9660789

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.21  E-value=2.4e-12  Score=94.95  Aligned_cols=76  Identities=25%  Similarity=0.490  Sum_probs=69.7

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEEC
Q ss_conf             311001169863235888787644577982148993405789877645799993899999999983-8980389598981
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~  624 (1044)
                      +..+|||+|||.++++++|+++|++ ||+|.++.++        +.||||||+|.+.++|.+|++. ++..++|++|+|+
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~F~~-~G~i~~i~~~--------~~k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~V~   77 (86)
T d2cpja1           7 QRSRLFVGNLPPDITEEEMRKLFEK-YGKAGEVFIH--------KDKGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVR   77 (86)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHTST-TCCCSEEEEE--------TTTTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHH-HCCCEEEEEE--------CCCCEEEEEECCHHHHHHHHHHHCCCEECCEEEEEE
T ss_conf             9989999799987989999999998-6986076342--------135369999889999999999819988999888999


Q ss_pred             CCCCHH
Q ss_conf             258836
Q 001613          625 SAVPKE  630 (1044)
Q Consensus       625 ~A~~k~  630 (1044)
                      +|.++.
T Consensus        78 ~A~~~~   83 (86)
T d2cpja1          78 FACHSA   83 (86)
T ss_dssp             ESSCCS
T ss_pred             ECCCCC
T ss_conf             789857

>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.19  E-value=2e-12  Score=95.54  Aligned_cols=76  Identities=17%  Similarity=0.199  Sum_probs=68.3

Q ss_pred             CCCEECCCCCC-CCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEEC
Q ss_conf             11001169863-235888787644577982148993405789877645799993899999999983-8980389598981
Q 001613          547 KSKIFVGGLPF-FLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       547 ~~kLfVg~L~~-~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~  624 (1044)
                      ...|||+||+. .+++++|+++|++ ||+|..+.++++       .||||||+|.+.++|.+|++. ++..+.|+.|.|.
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~-fG~I~~v~i~~~-------~kg~afV~f~~~~~A~~ai~~lng~~l~g~~l~v~   73 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGV-YGDVQRVKILFN-------KKENALVQMADGNQAQLAMSHLNGHKLHGKPIRIT   73 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHH-HTCEEEEEECCT-------TSCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEE
T ss_pred             CCEEEEECCCCCCCCHHHHHHHHHH-CCCCCEEEEEEC-------CCCEEEEEECCHHHHHHHHHHHCCCEECCEEEEEE
T ss_conf             9999996799252999999998750-356404999760-------34258999778799999999839978799888999


Q ss_pred             CCCCHH
Q ss_conf             258836
Q 001613          625 SAVPKE  630 (1044)
Q Consensus       625 ~A~~k~  630 (1044)
                      +|..+.
T Consensus        74 ~s~~~~   79 (109)
T d2adca1          74 LSKHQN   79 (109)
T ss_dssp             CCSCCC
T ss_pred             ECCCCC
T ss_conf             887887

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.19  E-value=3.1e-12  Score=94.21  Aligned_cols=80  Identities=15%  Similarity=0.156  Sum_probs=69.6

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEECC
Q ss_conf             31100116986323588878764457798214899340578987764579999389999999998389803895989812
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKS  625 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v~~  625 (1044)
                      ....|||+|||+++++++|+++|.+ +| +..+.++.+..+   +++|||||+|.+.++|++|++.++..|+||.|+|.+
T Consensus        14 ~~~~v~v~nLp~~~te~dl~~~F~~-~~-~~~v~~~~~~~g---~~~G~afVeF~~~~~a~~Al~~~~~~i~gR~I~V~~   88 (102)
T d1weza_          14 TGHCVHMRGLPYRATENDIYNFFSP-LN-PMRVHIEIGPDG---RVTGEADVEFATHEDAVAAMAKDKANMQHRYVELFL   88 (102)
T ss_dssp             SSCEEEEESCCTTCCHHHHHHSSCS-CC-CSEEEEEESSSS---CEEEEEEEECSSSHHHHHHHTTSSCCSSSSCCEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHC-CC-CCEEEEEEECCC---CCEEEEEEEECCHHHHHHHHHCCCCEECCEEEEEEE
T ss_conf             9988998089986889999878742-47-522466772478---604777899879999999997299989999999997


Q ss_pred             CCCHH
Q ss_conf             58836
Q 001613          626 AVPKE  630 (1044)
Q Consensus       626 A~~k~  630 (1044)
                      +.++.
T Consensus        89 s~~~~   93 (102)
T d1weza_          89 NSTAG   93 (102)
T ss_dssp             ECCCC
T ss_pred             CCCCC
T ss_conf             58898

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.19  E-value=4.1e-12  Score=93.42  Aligned_cols=78  Identities=21%  Similarity=0.287  Sum_probs=68.5

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEEC
Q ss_conf             311001169863235888787644577982148993405789877645799993899999999983-8980389598981
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~  624 (1044)
                      ....|||+|||+++++++++++|.. ||.+....++.+..++  +++|||||+|.+.++|.+|++. ++..+.||+|+|+
T Consensus         8 ~~~~l~v~nLp~~~~~~di~~~F~~-~~~~~~~~~~~~~~~g--~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v~   84 (86)
T d2cqpa1           8 GPTIIKVQNMPFTVSIDEILDFFYG-YQVIPGSVCLKYNEKG--MPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLV   84 (86)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHTTT-SCCCTTTCEEEECSSS--CEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHH-CCCCEEEEEEEECCCC--CCCEEEEEEECCCHHHHHHHHHCCCCEECCEEEEEE
T ss_conf             9988999798998989999987751-2464269999768999--966089999828579999999808999999999999


Q ss_pred             CC
Q ss_conf             25
Q 001613          625 SA  626 (1044)
Q Consensus       625 ~A  626 (1044)
                      .|
T Consensus        85 l~   86 (86)
T d2cqpa1          85 LG   86 (86)
T ss_dssp             ES
T ss_pred             EC
T ss_conf             79

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.19  E-value=2.2e-12  Score=95.21  Aligned_cols=75  Identities=16%  Similarity=0.134  Sum_probs=68.1

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEEC
Q ss_conf             311001169863235888787644577982148993405789877645799993899999999983-8980389598981
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~  624 (1044)
                      ...+|||+|||.++++++|+++|++ ||+|..+.+.        ++||||||+|.+.++|.+|++. ++..+.|++|.|+
T Consensus         9 ~~~~l~V~nLp~~~t~~~L~~~F~~-fG~I~~v~l~--------~~kg~afV~f~~~~~A~~A~~~lng~~~~gr~l~v~   79 (111)
T d1whxa_           9 SKTVILAKNLPAGTLAAEIQETFSR-FGSLGRVLLP--------EGGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLE   79 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHT-TSCEEEEECC--------SSSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHC-CCCCCEEEEE--------CCCCEEEEEECCHHHHHHHHHHHCCCCCCCCEEEEE
T ss_conf             8999999798998889999766402-6886189960--------468638999847789999999976983589758999


Q ss_pred             CCCCH
Q ss_conf             25883
Q 001613          625 SAVPK  629 (1044)
Q Consensus       625 ~A~~k  629 (1044)
                      +|...
T Consensus        80 ~a~~~   84 (111)
T d1whxa_          80 WAPIG   84 (111)
T ss_dssp             EEETT
T ss_pred             ECCCC
T ss_conf             78777

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.17  E-value=1.9e-12  Score=95.68  Aligned_cols=74  Identities=23%  Similarity=0.379  Sum_probs=67.1

Q ss_pred             CCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCC-CCCCEEEEECC
Q ss_conf             1001169863235888787644577982148993405789877645799993899999999983-898-03895989812
Q 001613          548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFV-TIMGKEVEIKS  625 (1044)
Q Consensus       548 ~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~-~i~Gr~i~v~~  625 (1044)
                      .+|||+|||.++++++|+++|++ ||.+.++.++        ++||||||+|.+.++|.+|++. ++. ++.|++|.|.+
T Consensus         2 n~l~V~nLp~~~te~~L~~~F~~-~G~i~~~~~~--------~~rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V~~   72 (80)
T d2cqha1           2 NKLYIGNLSPAVTADDLRQLFGD-RKLPLAGQVL--------LKSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDY   72 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHH-TTCCCSSCEE--------EETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHH-HCCEEEEEEE--------CCCCEEEEEECCHHHHHHHHHHHCCCEEECCEEEEEEE
T ss_conf             88999799998999999999998-0968973786--------12664999988878799999981799699998989997


Q ss_pred             CCCHH
Q ss_conf             58836
Q 001613          626 AVPKE  630 (1044)
Q Consensus       626 A~~k~  630 (1044)
                      |.|+.
T Consensus        73 a~~k~   77 (80)
T d2cqha1          73 SVSKK   77 (80)
T ss_dssp             CCCCC
T ss_pred             CCCCC
T ss_conf             58857

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.17  E-value=5.3e-12  Score=92.70  Aligned_cols=75  Identities=21%  Similarity=0.332  Sum_probs=67.8

Q ss_pred             CCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEECCCC
Q ss_conf             10011698632358887876445779821489934057898776457999938999999999838980389598981258
Q 001613          548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAV  627 (1044)
Q Consensus       548 ~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v~~A~  627 (1044)
                      ..+||+|||+++++++++++|++ ||.|..++++.++.+    .+|||||+|+++++|.+|+..+++.|+|++|.|+.+.
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~-~G~I~~v~~~~~~~~----~~~~afV~F~~~~~a~~Al~~~~~~i~g~~i~V~~~T   75 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKH-CGPIIHVDVADSLKK----NFRFARIEFARYDGALAAITKTHKVVGQNEIIVSHLT   75 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGG-GSCEEEEEEEECTTS----SSEEEEEEESSHHHHHHHHTTTTCEETTEECEEEECC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHC-CCCEEEEEEEEECCC----CCEEEEEEECCHHHHHHHHHHCCCEECCEEEEEEECC
T ss_conf             99999899999988999998712-881699999750233----3169999983267768888736969999999999898

>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Negative elongation factor E, NELF-E
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.16  E-value=6.9e-12  Score=91.96  Aligned_cols=75  Identities=24%  Similarity=0.338  Sum_probs=67.6

Q ss_pred             CCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEE
Q ss_conf             3311001169863235888787644577982148993405789877645799993899999999983-898038959898
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEI  623 (1044)
Q Consensus       545 ~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v  623 (1044)
                      ....+|||+|++  +++++|+++|++ ||+|.++.+.        +.+|||||+|.+.++|.+|++. ++..++|++|+|
T Consensus         3 ~~~~ti~V~~~~--~te~~L~~~F~~-~G~I~~v~~~--------~~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V   71 (79)
T d2bz2a1           3 RKGNTLYVYGED--MTPTLLRGAFSP-FGNIIDLSMD--------PPRNCAFVTYEKMESADQAVAELNGTQVESVQLKV   71 (79)
T ss_dssp             CCCCEEEEECSS--CCHHHHHHHHST-TCCCSCEEEE--------TTTTEEEEECSSHHHHHHHHHHHTTCBCSSCBCEE
T ss_pred             CCCCEEEEECCC--CCHHHHHHHHHC-CCCCCEEEEC--------CCCCEEEEEECCCHHHHHHHHHHCCCEECCEEEEE
T ss_conf             899899997897--999999999855-0756435202--------68988999992418999999985999999999899


Q ss_pred             CCCCCHH
Q ss_conf             1258836
Q 001613          624 KSAVPKE  630 (1044)
Q Consensus       624 ~~A~~k~  630 (1044)
                      .+|.+++
T Consensus        72 ~~a~~~P   78 (79)
T d2bz2a1          72 NIARKQP   78 (79)
T ss_dssp             EECCSSC
T ss_pred             EEECCCC
T ss_conf             9705898

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.15  E-value=3.8e-12  Score=93.65  Aligned_cols=70  Identities=21%  Similarity=0.359  Sum_probs=65.1

Q ss_pred             EECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEE
Q ss_conf             01169863235888787644577982148993405789877645799993899999999983-89803895989
Q 001613          550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVE  622 (1044)
Q Consensus       550 LfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~  622 (1044)
                      |||+|||.++++++|+++|++ ||.|..+.++.++.++  +++|||||+|.+.++|.+|++. ++..++||.++
T Consensus         1 lyV~nLp~~~te~~l~~~F~~-~G~v~~~~~~~~~~~~--~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~k   71 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQP-YGKIVSTKAILDKTTN--KCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK   71 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTT-TSCEEEEEEECCSSSC--SCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred             CEEECCCCCCCHHHHHHHHHH-HCCCCCCCCCCCCCCC--CCCCEEEEEECCHHHHHHHHHHHCCCEECCEECC
T ss_conf             999479985889999998863-2333221110002332--2341159998899999999998389987888886

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.12  E-value=4.4e-12  Score=93.27  Aligned_cols=81  Identities=27%  Similarity=0.363  Sum_probs=69.8

Q ss_pred             CCCCEECCCCCCCCCCCCCCC----CCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEE
Q ss_conf             311001169863235888787----644577982148993405789877645799993899999999983-898038959
Q 001613          546 FKSKIFVGGLPFFLDSDSLGG----YFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKE  620 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~----~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~  620 (1044)
                      +.++|||+||+.+++++++++    +|++ ||+|.++.+..   +  ++++|||||+|.+.++|.+|++. ++..++|++
T Consensus         2 P~~tl~V~nLp~~~t~~dl~~~l~~~f~~-~G~i~~i~~~~---~--~~~~g~afV~F~~~~~A~~A~~~~~~~~~~g~~   75 (91)
T d1nu4a_           2 PNHTIYINNLNEKIKKDELKKSLHAIFSR-FGQILDILVSR---S--LKMRGQAFVIFKEVSSATNALRSMQGFPFYDKP   75 (91)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHGG-GSCEEEEECCH---H--HHHTTCEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHHHCC-CCCCCCEEEEE---E--CCCCCCEEEEECCHHHHHHHHHHHCCCEECCEE
T ss_conf             89999995999999999999999987031-23255328854---3--068981578889999999999984998899988


Q ss_pred             EEECCCCCHHHH
Q ss_conf             898125883677
Q 001613          621 VEIKSAVPKEVL  632 (1044)
Q Consensus       621 i~v~~A~~k~~~  632 (1044)
                      +.|.+|.++...
T Consensus        76 l~v~~ak~~~~~   87 (91)
T d1nu4a_          76 MRIQYAKTDSDI   87 (91)
T ss_dssp             CEEEECSSCCTH
T ss_pred             EEEEEECCCCHH
T ss_conf             899980797545

>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.11  E-value=4.6e-12  Score=93.10  Aligned_cols=72  Identities=24%  Similarity=0.213  Sum_probs=66.2

Q ss_pred             CEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEECCCC
Q ss_conf             001169863235888787644577982148993405789877645799993899999999983-8980389598981258
Q 001613          549 KIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSAV  627 (1044)
Q Consensus       549 kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~~A~  627 (1044)
                      +|||+|||+++++++|+++|++ ||+|.++.++         ++|||||+|.+.++|.+|++. ++.++.|+.+.|.++.
T Consensus         2 rvfV~nlp~~~~~~~l~~~F~~-~G~v~~~~i~---------~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v~~~~   71 (87)
T d3begb1           2 RVVVSGLPPSGSWQDLKDHMRE-AGDVCYADVY---------RDGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIR   71 (87)
T ss_dssp             CEEEEECCSSCCTTHHHHHHGG-GSCEEEEEEC---------TTSEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCE
T ss_pred             EEEEECCCCCCCHHHHHHHHHH-HCCCCCCCCC---------CCCEEEEEECCHHHHHHHHHHHCCCEECCCEEEEEEEE
T ss_conf             6999799985889999998752-2123211002---------23213577488899999999968799799675875776


Q ss_pred             CHH
Q ss_conf             836
Q 001613          628 PKE  630 (1044)
Q Consensus       628 ~k~  630 (1044)
                      ++.
T Consensus        72 ~~~   74 (87)
T d3begb1          72 VKV   74 (87)
T ss_dssp             EEE
T ss_pred             CCC
T ss_conf             176

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.11  E-value=1.6e-11  Score=89.63  Aligned_cols=77  Identities=9%  Similarity=0.104  Sum_probs=67.4

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCC-CCEEEEE
Q ss_conf             311001169863235888787644577982148993405789877645799993899999999983-89803-8959898
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTI-MGKEVEI  623 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i-~Gr~i~v  623 (1044)
                      ....|||+|||.++++++|+++|++ ||.+..+.+...      ++||||||+|.+.++|.+|+.. ++..+ +|++|+|
T Consensus         9 Ps~tL~V~NLp~~~te~~l~~~F~~-~G~v~~~~~~~~------~~~~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l~v   81 (88)
T d2adca2           9 PSATLHLSNIPPSVSEEDLKVLFSS-NGGVVKGFKFFQ------KDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRV   81 (88)
T ss_dssp             SCSEEEEECCCTTCCHHHHHHHHHT-TSCCEEEEEECS------SSTTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHC-CCCEEEEEEEEE------CCCCEEEEEECCHHHHHHHHHHCCCCEECCCCEEEE
T ss_conf             9788999799988899999998533-697888887530------244006999899999999997516979269988999


Q ss_pred             CCCCCH
Q ss_conf             125883
Q 001613          624 KSAVPK  629 (1044)
Q Consensus       624 ~~A~~k  629 (1044)
                      ++|+++
T Consensus        82 ~~sk~~   87 (88)
T d2adca2          82 SFSKST   87 (88)
T ss_dssp             EECSSC
T ss_pred             EECCCC
T ss_conf             937988

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.10  E-value=2.2e-11  Score=88.62  Aligned_cols=75  Identities=19%  Similarity=0.255  Sum_probs=65.3

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEEC
Q ss_conf             311001169863235888787644577982148993405789877645799993899999999983-8980389598981
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~  624 (1044)
                      ...+|||+|||.++++++|+++|.+ || +..+.+        +++||||||+|.+.++|.+|++. ++.+++|++|.|+
T Consensus         4 ~s~~i~V~nLp~~~t~~~l~~lF~~-~G-~~~~~~--------~~~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~V~   73 (88)
T d1wg1a_           4 GSSGILVKNLPQDSNCQEVHDLLKD-YD-LKYCYV--------DRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQ   73 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCS-SC-CCCEEE--------EGGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHH-CC-CEEEEE--------ECCCCCEEEEECCHHHHHHHHHHHCCCEECCEEEEEE
T ss_conf             9989999699986375788777886-09-603530--------1157714899889999999999858998999898999


Q ss_pred             CCCCHH
Q ss_conf             258836
Q 001613          625 SAVPKE  630 (1044)
Q Consensus       625 ~A~~k~  630 (1044)
                      +|.++.
T Consensus        74 ~a~~~~   79 (88)
T d1wg1a_          74 LQPTDA   79 (88)
T ss_dssp             ECCCCC
T ss_pred             ECCCCC
T ss_conf             838998

>d1x4fa1 d.58.7.1 (A:8-106) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.09  E-value=4.7e-11  Score=86.51  Aligned_cols=78  Identities=18%  Similarity=0.269  Sum_probs=68.4

Q ss_pred             CCCCCCEECCCCCCC-CCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHH--H-CCCCCCCE
Q ss_conf             433110011698632-3588878764457798214899340578987764579999389999999998--3-89803895
Q 001613          544 QEFKSKIFVGGLPFF-LDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQ--A-RFVTIMGK  619 (1044)
Q Consensus       544 ~~~~~kLfVg~L~~~-~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~--~-~~~~i~Gr  619 (1044)
                      .+..+.|||+|||.+ +++++|+++|++ ||.|.++.++        ++||||||+|.+.++|.+|++  . ++..+.||
T Consensus        15 ~~~~~~l~v~nLp~~~~te~~l~~~F~~-fG~V~~v~~~--------~~k~~afV~f~~~~~A~~Ai~~~~~~~~~~~gr   85 (99)
T d1x4fa1          15 QELGRVIHLSNLPHSGYSDSAVLKLAEP-YGKIKNYILM--------RMKSQAFIEMETREDAMAMVDHCLKKALWFQGR   85 (99)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTT-TSCCSEEEEE--------TTTTEEEEECSSHHHHHHHHHHHHHSCCCSSSS
T ss_pred             CCCCCEEEEECCCCCCCCHHHHHHHHCC-CCCEEEEEEE--------ECCCCEEEEECCHHHHHHHHHHHHCCCCEECCE
T ss_conf             7888789993786775389999866534-4530489876--------047727999635689999999973689648997


Q ss_pred             EEEECCCCCHH
Q ss_conf             98981258836
Q 001613          620 EVEIKSAVPKE  630 (1044)
Q Consensus       620 ~i~v~~A~~k~  630 (1044)
                      .|.|.+|..++
T Consensus        86 ~l~V~~s~~~~   96 (99)
T d1x4fa1          86 CVKVDLSEKYK   96 (99)
T ss_dssp             CCEEEEECSCS
T ss_pred             EEEEEECCCCC
T ss_conf             88999828704

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.07  E-value=2.5e-11  Score=88.29  Aligned_cols=74  Identities=23%  Similarity=0.271  Sum_probs=67.0

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCC-CCEEEEE
Q ss_conf             311001169863235888787644577982148993405789877645799993899999999983-89803-8959898
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTI-MGKEVEI  623 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i-~Gr~i~v  623 (1044)
                      ..+.|||+||+.++++++|+++|++ ||+|.+++++.+       .||||||+|.+.++|.+|++. ++..+ +|++|.|
T Consensus         7 P~~tl~V~nLp~~~t~~~l~~~f~~-~G~i~~v~~~~~-------~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~~i~v   78 (83)
T d2b0ga1           7 PNQILFLTNLPEETNEMMLSMLFNQ-FPGFKEVRLVPN-------RHDIAFVEFTTELQSNAAKEALQGFKITPTHAMKI   78 (83)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHTT-STTEEEEEECTT-------TCSCEEEEESSHHHHHHHHHHHTTCBSSTTCBCEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHCC-CCCEEEEEEECC-------CCEEEEEECCCHHHHHHHHHHHCCCEECCCCEEEE
T ss_conf             9889999889987779999754235-764787431011-------21148995199999999999839949689928999


Q ss_pred             CCCC
Q ss_conf             1258
Q 001613          624 KSAV  627 (1044)
Q Consensus       624 ~~A~  627 (1044)
                      +||+
T Consensus        79 ~~ak   82 (83)
T d2b0ga1          79 TFAK   82 (83)
T ss_dssp             EECC
T ss_pred             EEEC
T ss_conf             9841

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.06  E-value=3.7e-11  Score=87.21  Aligned_cols=77  Identities=21%  Similarity=0.362  Sum_probs=68.8

Q ss_pred             CCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCC--EEE
Q ss_conf             3311001169863235888787644577982148993405789877645799993899999999983-8980389--598
Q 001613          545 EFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMG--KEV  621 (1044)
Q Consensus       545 ~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~G--r~i  621 (1044)
                      ....+|||+||+.++++++|+++|++ ||+|..+.+.        +.||||||+|.+.++|.+|++. ++..+.|  ++|
T Consensus        15 ~Ps~tl~V~nLp~~~t~~~l~~~f~~-~G~i~~~~~~--------~~~~~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l   85 (97)
T d1whya_          15 NPTTRLWVGGLGPNTSLAALAREFDR-FGSIRTIDHV--------KGDSFAYIQYESLDAAQAACAKMRGFPLGGPDRRL   85 (97)
T ss_dssp             CCCSCEEEECCCSSCCHHHHHHHHHT-TSCEEEEEEC--------SSSCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBC
T ss_pred             CCCCEEEECCCCCCCCHHHHHHHHHH-HCCCCEEEEE--------CCCCEEEECCCCHHHHHHHHHHHCCCEECCCCEEE
T ss_conf             99999998489998989999999975-3456247640--------22217876149999999999985888969996589


Q ss_pred             EECCCCCHH
Q ss_conf             981258836
Q 001613          622 EIKSAVPKE  630 (1044)
Q Consensus       622 ~v~~A~~k~  630 (1044)
                      +|++|.+..
T Consensus        86 ~v~~ak~~~   94 (97)
T d1whya_          86 RVDFAKSGP   94 (97)
T ss_dssp             EEEECCCCC
T ss_pred             EEEECCCCC
T ss_conf             998688989

>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein 2, PTBP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.06  E-value=7.8e-11  Score=85.07  Aligned_cols=78  Identities=14%  Similarity=0.132  Sum_probs=69.3

Q ss_pred             CCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH---CCCCCCCEE
Q ss_conf             43311001169863235888787644577982148993405789877645799993899999999983---898038959
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA---RFVTIMGKE  620 (1044)
Q Consensus       544 ~~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~---~~~~i~Gr~  620 (1044)
                      ....+.|||+||+.++++++|+++|++ ||.|.++.++        +++|||||+|.+.++|.+|++.   ++..+.|++
T Consensus         5 ~~Ps~~l~V~nLp~~~t~~~L~~~f~~-~G~i~~v~~~--------~~~~~afV~f~~~e~A~~a~~~~~~~~~~~~g~~   75 (88)
T d2cq1a1           5 GAPSRVLHIRKLPGEVTETEVIALGLP-FGKVTNILML--------KGKNQAFLELATEEAAITMVNYYSAVTPHLRNQP   75 (88)
T ss_dssp             SSCCSEEEEESCCTTCCHHHHHHTTTT-TSCEEEEEEE--------TTTTEEEEEESSHHHHHHHHHHHHHSCCEETTEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHC-CCCCCCCCCC--------CCCEEEEEEECCHHHHHHHHHHHCCCCCCCCCCE
T ss_conf             999999999679988889999988750-2422220002--------3441799984899999999999805997459977


Q ss_pred             EEECCCCCHH
Q ss_conf             8981258836
Q 001613          621 VEIKSAVPKE  630 (1044)
Q Consensus       621 i~v~~A~~k~  630 (1044)
                      |.|.+|..++
T Consensus        76 l~v~~sk~~~   85 (88)
T d2cq1a1          76 IYIQYSNHKE   85 (88)
T ss_dssp             CEEEECSCSS
T ss_pred             EEEEECCCCC
T ss_conf             9999788877

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.05  E-value=5.8e-11  Score=85.95  Aligned_cols=82  Identities=17%  Similarity=0.073  Sum_probs=68.6

Q ss_pred             CCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCH-HHHHHHHHH-CCCCCCCEEE
Q ss_conf             43311001169863235888787644577982148993405789877645799993899-999999983-8980389598
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHE-KSAAAAVQA-RFVTIMGKEV  621 (1044)
Q Consensus       544 ~~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~-e~a~~Al~~-~~~~i~Gr~i  621 (1044)
                      +..+...|||||+.++++++|+++|++ ||+|..+.++        +.+|||||+|.+. ++|..|+.. ++..+.++.+
T Consensus         8 ~~g~~~~fvgnL~~~~tee~Lk~~F~~-fG~V~~v~i~--------~~kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~   78 (113)
T d1owxa_           8 KIGCLLKFSGDLDDQTCREDLHILFSN-HGEIKWIDFV--------RGAKEGIILFKEKAKEALGKAKDANNGNLQLRNK   78 (113)
T ss_dssp             CCCCEEEEEESCCSSCCHHHHHHHTCS-SCCEEEEECC--------TTCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSS
T ss_pred             CCCCEEEEECCCCCCCCHHHHHHHHHH-CCCHHEEEEE--------CCCCEEEEEECCCHHHHHHHHHHHCCCCEECCCE
T ss_conf             889769998799987879999999983-5774148874--------5886689996682789999999834883315742


Q ss_pred             EECCCCCHHHHHH
Q ss_conf             9812588367799
Q 001613          622 EIKSAVPKEVLFA  634 (1044)
Q Consensus       622 ~v~~A~~k~~~~~  634 (1044)
                      .|.++..+....+
T Consensus        79 ~v~~~~~~~~~e~   91 (113)
T d1owxa_          79 EVTWEVLEGEVEK   91 (113)
T ss_dssp             SEEEEECCHHHHH
T ss_pred             EEEEEECCCHHHH
T ss_conf             8987634526669

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Calcipressin-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.05  E-value=9.4e-11  Score=84.57  Aligned_cols=76  Identities=18%  Similarity=0.040  Sum_probs=67.4

Q ss_pred             CCCCEECCCCCCCCCCCC-----CCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCE
Q ss_conf             311001169863235888-----787644577982148993405789877645799993899999999983-89803895
Q 001613          546 FKSKIFVGGLPFFLDSDS-----LGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGK  619 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~-----Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr  619 (1044)
                      ...+|||+||+.++.+++     ++++|++ ||.|.++.++        +++|||||+|.+.++|.+|++. ++..++|+
T Consensus         4 ~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~-~G~i~~~~~~--------k~~~~afV~f~~~~~A~~Ai~~lng~~~~g~   74 (104)
T d1weya_           4 GSSGLIACVANDDVFSESETRAKFESLFRT-YDKDTTFQYF--------KSFKRVRINFSNPLSAADARLRLHKTEFLGK   74 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHT-TCSSCEEEEE--------TTTTEEEEECSSTTHHHHHHHTSTTSEETTE
T ss_pred             CCCEEEEEECCCHHCCCHHHHHHHHHHHCC-CCCCEEEEEE--------CCCCEEEEEECCHHHHHHHHHHHCCCCCCCC
T ss_conf             876089995890113718889999987203-5552689996--------6887899998999999999998550133898


Q ss_pred             EEEECCCCCHH
Q ss_conf             98981258836
Q 001613          620 EVEIKSAVPKE  630 (1044)
Q Consensus       620 ~i~v~~A~~k~  630 (1044)
                      +|+|.+|.++.
T Consensus        75 ~l~v~~a~~~~   85 (104)
T d1weya_          75 EMKLYFAQTLH   85 (104)
T ss_dssp             ECEEECCCCSS
T ss_pred             EEEEEECCCCC
T ss_conf             76885344689

>d1wi6a1 d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Ribonucleoprotein PTB-binding 1, Raver-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.03  E-value=9.4e-11  Score=84.56  Aligned_cols=71  Identities=18%  Similarity=0.316  Sum_probs=62.5

Q ss_pred             EECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEECCCCC
Q ss_conf             01169863235888787644577982148993405789877645799993899999999983-89803895989812588
Q 001613          550 IFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSAVP  628 (1044)
Q Consensus       550 LfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~~A~~  628 (1044)
                      |||+|||.++++++++++|.+ || +..+.+        +++||||||+|.+.++|.+|++. ++..+.|++|.|++|..
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~-~g-~~~~~~--------~~~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~a~~   70 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSD-YE-LKYCFV--------DKYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQLQPT   70 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTT-SC-EEEEEE--------ETTTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECCS
T ss_pred             CEEECCCCCCCHHHHHHHHHC-CC-CCCEEE--------CCCCEEEEEEECCHHHHHHHHHHHCCCCCCCCEEEEEEECC
T ss_conf             999699996789999998743-25-221155--------46321699998777888888898579667998999999679


Q ss_pred             HH
Q ss_conf             36
Q 001613          629 KE  630 (1044)
Q Consensus       629 k~  630 (1044)
                      ..
T Consensus        71 d~   72 (75)
T d1wi6a1          71 DA   72 (75)
T ss_dssp             TT
T ss_pred             CC
T ss_conf             87

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.03  E-value=1.3e-11  Score=90.18  Aligned_cols=75  Identities=19%  Similarity=0.177  Sum_probs=68.1

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEEC
Q ss_conf             311001169863235888787644577982148993405789877645799993899999999983-8980389598981
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~  624 (1044)
                      ...+|||+|||+++++++|+++|++ ||+|..+.+         .++|||||+|.+.++|++|++. |+..+.|+.+.|.
T Consensus        14 ~~~~i~V~Nlp~~~~~~~L~~~F~~-~G~v~~~~i---------~~~g~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~   83 (98)
T d1wg4a_          14 SDFRVLVSGLPPSGSWQDLKDHMRE-AGDVCYADV---------QKDGMGMVEYLRKEDMEYALRKLDDTKFRSHEGETS   83 (98)
T ss_dssp             CSCEEEEECCCSSCCHHHHHHHHTT-SSCEEEEEE---------ETTTEEEEEESSHHHHHHHHHHHSSEEEECTTSCEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHH-HCCCCCCCC---------CCCCEEEEEECCHHHHHHHHHHHCCCEECCEEEEEE
T ss_conf             8888999779999989999999975-223432001---------334469999789999999999968899689088999


Q ss_pred             CCCCHH
Q ss_conf             258836
Q 001613          625 SAVPKE  630 (1044)
Q Consensus       625 ~A~~k~  630 (1044)
                      ++.+++
T Consensus        84 ~~~~~~   89 (98)
T d1wg4a_          84 YIRVYP   89 (98)
T ss_dssp             EEEEEC
T ss_pred             EEECCC
T ss_conf             971378

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.00  E-value=3e-12  Score=94.35  Aligned_cols=79  Identities=15%  Similarity=0.351  Sum_probs=67.2

Q ss_pred             CCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEC---CCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEEC
Q ss_conf             1001169863235888787644577982148993405---7898776457999938999999999838980389598981
Q 001613          548 SKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQ---TEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIK  624 (1044)
Q Consensus       548 ~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~---~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v~  624 (1044)
                      ++|||+|||+++++++|+++|++ ||.+..+.+....   ...++++||||||+|.+.++|.+|++.++..+.|+.|+|+
T Consensus         2 RrlyVgNLp~~~te~~l~~~F~~-~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~l~g~~~~Gr~l~V~   80 (90)
T d1u2fa_           2 RRLYVGNIPFGITEEAMMDFFNA-QMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIR   80 (90)
T ss_dssp             CEEEECSCCTTCCTTHHHHHHHH-HHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGGGSSCCSSSSCCCCB
T ss_pred             CEEEECCCCCCCCHHHHHHHHHH-HCCEEEEEEECCCEEEECCCCCCCEEEEEEECCHHHHHHHHHHCCCEECCEEEEEC
T ss_conf             99999699976245898888986-08577999942560566446997628999838999999998619958899888978


Q ss_pred             CCC
Q ss_conf             258
Q 001613          625 SAV  627 (1044)
Q Consensus       625 ~A~  627 (1044)
                      ++.
T Consensus        81 r~k   83 (90)
T d1u2fa_          81 RPH   83 (90)
T ss_dssp             CTT
T ss_pred             CCC
T ss_conf             888

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.97  E-value=1.7e-10  Score=82.88  Aligned_cols=78  Identities=23%  Similarity=0.190  Sum_probs=68.7

Q ss_pred             CCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH---CCCCCCCEE
Q ss_conf             43311001169863235888787644577982148993405789877645799993899999999983---898038959
Q 001613          544 QEFKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA---RFVTIMGKE  620 (1044)
Q Consensus       544 ~~~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~---~~~~i~Gr~  620 (1044)
                      ......|||+|||..+++++|+++|++ ||.|..+.+.        +.||||||+|++.++|.+|++.   +...+.|++
T Consensus        12 ~~ps~~l~v~nlp~~~te~~l~~~F~~-fG~I~~~~~~--------~~k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~   82 (104)
T d1wexa_          12 VSVSPVVHVRGLCESVVEADLVEALEK-FGTICYVMMM--------PFKRQALVEFENIDSAKECVTFAADVPVYIAGQQ   82 (104)
T ss_dssp             CCCCSEEEEESCCSSCCHHHHHHHHTT-TSCEEEEEEE--------TTTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSB
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHH-CCCCEEEEEE--------ECCEEEEEEECCHHHHHHHHHHHCCCCCEEEEEE
T ss_conf             999989999189999979999976602-5653499997--------3110379986899999999998747994870378


Q ss_pred             EEECCCCCHH
Q ss_conf             8981258836
Q 001613          621 VEIKSAVPKE  630 (1044)
Q Consensus       621 i~v~~A~~k~  630 (1044)
                      |+|.+|..++
T Consensus        83 l~v~~s~~~~   92 (104)
T d1wexa_          83 AFFNYSTSKR   92 (104)
T ss_dssp             CEEEECSSSS
T ss_pred             EEEEECCCCC
T ss_conf             8999747886

>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.95  E-value=3.2e-10  Score=81.06  Aligned_cols=77  Identities=18%  Similarity=0.136  Sum_probs=68.1

Q ss_pred             CCCCCCEECCCCCCC-CCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH---CCCCCCCE
Q ss_conf             433110011698632-35888787644577982148993405789877645799993899999999983---89803895
Q 001613          544 QEFKSKIFVGGLPFF-LDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA---RFVTIMGK  619 (1044)
Q Consensus       544 ~~~~~kLfVg~L~~~-~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~---~~~~i~Gr  619 (1044)
                      .+..+.|||+||+.. +++++|+++|++ ||+|.++.++        +.++||||+|++.++|..|++.   ++..+.||
T Consensus         5 ~~~sr~v~v~nl~~~~~t~~eL~~lF~~-fG~I~~i~i~--------~~k~~afV~f~~~~~A~~A~~~l~~~~~~~~gr   75 (89)
T d1x4da1           5 VETRRVVHIMDFQRGKNLRYQLLQLVEP-FGVISNHLIL--------NKINEAFIEMATTEDAQAAVDYYTTTPALVFGK   75 (89)
T ss_dssp             CCCCCEEEEESCCCSSSHHHHHHTTTGG-GSCEEEEEEC--------SSSSCEEEEESSHHHHHHHHHHHHHSCCEETTE
T ss_pred             CCCCCEEEEECCCCCCCCHHHHHHHHHH-HCCEEEEEEE--------CCCEEEEEEECCHHHHHHHHHHHHHCCCCCCCC
T ss_conf             8999689997899876789999999986-3872788760--------442289999746055799999875088866992


Q ss_pred             EEEECCCCCH
Q ss_conf             9898125883
Q 001613          620 EVEIKSAVPK  629 (1044)
Q Consensus       620 ~i~v~~A~~k  629 (1044)
                      +|.|++|.+.
T Consensus        76 ~l~V~~s~~~   85 (89)
T d1x4da1          76 PVRVHLSQKY   85 (89)
T ss_dssp             ECEEEEECCC
T ss_pred             EEEEEECCCC
T ss_conf             4899978885

>d1jmta_ d.58.7.3 (A:) U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Splicing factor U2AF subunits
domain: U2AF35 (35 KDa subunit)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.91  E-value=3.8e-11  Score=87.12  Aligned_cols=77  Identities=18%  Similarity=0.145  Sum_probs=68.4

Q ss_pred             CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEEC
Q ss_conf             311001169863235888787644577982148993405789877645799993899999999983-8980389598981
Q 001613          546 FKSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIK  624 (1044)
Q Consensus       546 ~~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~  624 (1044)
                      ....+++.++..+++++.++++|++ ||+|.++.|+++.   +|++||||||+|.+.++|.+|++. +|..++||+|.|+
T Consensus        26 ~~~~~~v~~~~~~~~ed~l~e~f~k-~G~I~~v~I~~~~---~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i~v~  101 (104)
T d1jmta_          26 AVSDVEMQEHYDEFFEEVFTEMEEK-YGEVEEMNVCDNL---GDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAE  101 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH-TCCEEEEEECCSS---SSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEE
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHCC-CCCEEEEEEECCC---CCCEEEEEEEEEECHHHHHHHHHHHCCCEECCEEEEEE
T ss_conf             5456886630166569999998505-7878999962189---99884179999954037999999978988999999999


Q ss_pred             CC
Q ss_conf             25
Q 001613          625 SA  626 (1044)
Q Consensus       625 ~A  626 (1044)
                      ..
T Consensus       102 ~s  103 (104)
T d1jmta_         102 LS  103 (104)
T ss_dssp             EC
T ss_pred             EC
T ss_conf             77

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.77  E-value=1.9e-09  Score=76.01  Aligned_cols=75  Identities=17%  Similarity=0.187  Sum_probs=64.5

Q ss_pred             CCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCE-EEEECC
Q ss_conf             1100116986323588878764457798214899340578987764579999389999999998389803895-989812
Q 001613          547 KSKIFVGGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGK-EVEIKS  625 (1044)
Q Consensus       547 ~~kLfVg~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr-~i~v~~  625 (1044)
                      ..+++|+|+|.+.+++.+ .+|++ ||+|.++.+.        ++||||||+|.+.++|.+|++.|+..++|+ .|.|+.
T Consensus         4 ~~wV~V~G~p~~~~~~il-~~F~~-~G~I~~~~~~--------~~~~~~fV~f~~~~~A~~Al~~nG~~~~g~~~vgV~~   73 (81)
T d1wwha1           4 DTWVTVFGFPQASASYIL-LQFAQ-YGNILKHVMS--------NTGNWMHIRYQSKLQARKALSKDGRIFGESIMIGVKP   73 (81)
T ss_dssp             GGEEEEECCCGGGHHHHH-HHHHT-TSCEEEEEEC--------SSSSEEEEEESSHHHHHHHHTTTTCEETTTEECEEEE
T ss_pred             CCEEEEECCCHHHHHHHH-HHHHH-HHHHHEEEEC--------CCCCEEEEEECCCHHHHHHHHCCCCEECCCEEEEEEE
T ss_conf             409999898857779999-99974-2011068954--------8998899997632799999860787579957999996


Q ss_pred             CCCHHH
Q ss_conf             588367
Q 001613          626 AVPKEV  631 (1044)
Q Consensus       626 A~~k~~  631 (1044)
                      +..|..
T Consensus        74 ~~~k~~   79 (81)
T d1wwha1          74 CIDKNV   79 (81)
T ss_dssp             CCCHHH
T ss_pred             CCCHHH
T ss_conf             887454

>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: HIV Tat-specific factor 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.59  E-value=1.3e-08  Score=70.50  Aligned_cols=78  Identities=15%  Similarity=0.232  Sum_probs=62.9

Q ss_pred             CCCCEECCCC--CCCCC---------CCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CC
Q ss_conf             3110011698--63235---------888787644577982148993405789877645799993899999999983-89
Q 001613          546 FKSKIFVGGL--PFFLD---------SDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RF  613 (1044)
Q Consensus       546 ~~~kLfVg~L--~~~~t---------e~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~  613 (1044)
                      ..+.+++.|+  +.++.         .+++++.|++ ||.|..+.+..+      +++||+||+|++.++|.+|+.. ++
T Consensus         7 ~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~-~G~V~~v~~~~~------~~~G~~fV~f~~~e~A~~A~~~lng   79 (99)
T d2dita1           7 HERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSK-FGQIRKLLLFDR------HPDGVASVSFRDPEEADYCIQTLDG   79 (99)
T ss_dssp             SCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGG-TSCCSEEEEETT------CTTCEEEEECSCHHHHHHHHHHSTT
T ss_pred             CCCEEEECCCCCHHHHHCCHHHHHHHHHHHHHHHCC-CCCEEEEECCCC------CCCCEEEEEECCHHHHHHHHHHHCC
T ss_conf             761999956999788434467789999999987267-660799963477------8864799998989999999998689


Q ss_pred             CCCCCEEEEECCCCCHH
Q ss_conf             80389598981258836
Q 001613          614 VTIMGKEVEIKSAVPKE  630 (1044)
Q Consensus       614 ~~i~Gr~i~v~~A~~k~  630 (1044)
                      ..++||+|.|..+.++.
T Consensus        80 ~~~~gr~i~v~~~~g~~   96 (99)
T d2dita1          80 RWFGGRQITAQAWDGTT   96 (99)
T ss_dssp             CEETTEECEEEECCSCC
T ss_pred             CEECCEEEEEEEECCCC
T ss_conf             69899799999837967

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.57  E-value=8e-09  Score=71.96  Aligned_cols=66  Identities=15%  Similarity=0.213  Sum_probs=55.1

Q ss_pred             CCCCEEC--CCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCC-CCEE
Q ss_conf             3110011--69863235888787644577982148993405789877645799993899999999983-89803-8959
Q 001613          546 FKSKIFV--GGLPFFLDSDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTI-MGKE  620 (1044)
Q Consensus       546 ~~~kLfV--g~L~~~~te~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i-~Gr~  620 (1044)
                      ....++|  |||+.++++++|+++|++ ||.|+.+.++        +.||||||+|.+.++|.+|++. +|..+ ++..
T Consensus        17 pt~~l~V~ng~L~~~vte~~L~~~F~~-~G~i~~i~~~--------~~k~~aFV~f~~~e~A~~A~~~lng~~i~~~~~   86 (101)
T d2cq2a1          17 ATQSLVVANGGLGNGVSRNQLLPVLEK-CGLVDALLMP--------PNKPYSFARYRTTEESKRAYVTLNGKEVVDDLG   86 (101)
T ss_dssp             CCSEEEEETCTGGGTCCHHHHHHHHHH-HSCEEEEECC--------TTCSCEEEEESSHHHHHHHHHHTTTCEEECTTS
T ss_pred             CCCEEEEECCCCCCCCCHHHHHHHHHH-HCCCCEEEEC--------CCCCEEEEEECCHHHHHHHHHHHCCCCCCCCCC
T ss_conf             976599977789998789999999975-2766178632--------675089999899899999999838989779999

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.50  E-value=1.5e-08  Score=70.16  Aligned_cols=68  Identities=16%  Similarity=0.151  Sum_probs=60.5

Q ss_pred             CCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHH-CCCCCCCEEEEECCCCCH
Q ss_conf             888787644577982148993405789877645799993899999999983-898038959898125883
Q 001613          561 SDSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQA-RFVTIMGKEVEIKSAVPK  629 (1044)
Q Consensus       561 e~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~-~~~~i~Gr~i~v~~A~~k  629 (1044)
                      .+++++.|++ ||.|.++.|+++..+.....+|++||+|.+.++|.+|+.. +|..++||.|.+..+.+.
T Consensus        28 ~edi~~e~~k-~G~v~~v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~A~~~l~Gr~f~gR~v~v~f~~~~   96 (104)
T d1o0pa_          28 VEDVRDECSK-YGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYCDPD   96 (104)
T ss_dssp             HHHHHHHHTT-TSCEEEEECCCCTTSSSCTTCCEEEEEESCHHHHHHHHHHHSSCCSSSSCCEEEEECHH
T ss_pred             HHHHHHHHCC-CCCEEEEEEEECCCCCCCCCCEEEEEEECCHHHHHHHHHHHCCCEECCEEEEEEECCHH
T ss_conf             9999999616-68257789752377776577328999989999999999997899989918999985878

>d1ufwa_ d.58.7.1 (A:) Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Synaptojanin 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.13  E-value=0.16  Score=24.19  Aligned_cols=56  Identities=23%  Similarity=0.346  Sum_probs=46.2

Q ss_pred             CCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCCEEEEECCCCC
Q ss_conf             8878764457798214899340578987764579999389999999998389803895989812588
Q 001613          562 DSLGGYFEKHFGPIEDARVAEFQTEKQSVSRGFGFVTFKHEKSAAAAVQARFVTIMGKEVEIKSAVP  628 (1044)
Q Consensus       562 ~~Lr~~F~~~~G~i~~~~i~~d~~~~~g~srGfgFV~F~~~e~a~~Al~~~~~~i~Gr~i~v~~A~~  628 (1044)
                      .+|.+.|.+ ||+|.-++++.          +--.|||.+-+.|.+|+..++.++.|+.+.+.-..|
T Consensus        39 ~~Llq~l~~-~GeViLvRFv~----------d~mwVTF~dG~SAL~al~l~g~~v~G~~l~It~~~~   94 (95)
T d1ufwa_          39 TELMQTLGS-YGTIVLVRINQ----------GQMLVTFADSHSALSVLDVDGMKVKGRAVKISGPSS   94 (95)
T ss_dssp             HHHHHHHHH-HSCCSEEEEET----------TEEEEECSCSHHHHHHHHGGGSEETTEEEEEECCCC
T ss_pred             HHHHHHHHH-CCEEEEEEEEC----------CEEEEEECCCHHHHHHHCCCCEEECCEEEEEECCCC
T ss_conf             999999863-78199999958----------829999878687998752578197156999965799