Citrus Sinensis ID: 001257

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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------1050------1060------1070------1080------1090------1100------1110---
Protein Sequence
MTMTAEVEVHGGGELSSQNDLPNGNAIADSSCVFVEVSGNDVGSGGTDLNSTNSVELNGKLVVEESNQSTINNEENEIESEKQESLVLVSESCADQENQLLNLSAKEAELGDQKFESGGAESGTVVVSDSVDGDGAVSCKNYSSENAASLHTDLPAETACENGAVDMIHEIQVADCPEELGVEIDQNTDEASRPVAVAVAGVDLQLGMQIVRGSVTVESERGLDAGHCQYGVSETVVDDLVDPSQETAELDKPSGVAESFPFQIDPENLPVESLKTDPDVALNVSDTTAKPDVDFRDSVVTESSPSGEVDDMERDNEVGKLNVGSGKSSDSHPVDDAHVNEVGNGPVRDDLVSVFHNSDAKSETETGFDSVDAEEKVSILASDDQRTEPEVLQGGIDGVDERSISVDNAAVESCTSESVYEESTADVKAECEIENAYVLSFRDVPGNEALVPESEVVSGSVSSIPEDVNVENVGIQHAGGEKDDHRSKELEENMETEFTGEESDDLVCKEVLENARIQFTGGGSDDQAHKEVKEKGGIQFTSGESDDKTFQEVEGIQSTDGGTDDKTCKKVVVNGGIKFTSEEQNDKTCPEVKENRGIQLTGGEDGDRTFQDVEGIERSDRCETQTSTPEGSTVDASESRNIGVEVVKQPFYFLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTLDGRSLGPDEEAPLIRPFLNDRVAKNISLTQISALEREKTEQVVPIKSEKVDDKPFPEVREQGDQIAKFKKPEKPSRAENVSTTVSGRDDEIEEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKRIAEKAQTRAALRAQKEAEQKEKVRRLKPVT
Secondary Structure (PSIPRED)
ccccEEEEEEcccccccccccccccccccccEEEEEEcccccccccccccccccEEEcccEEEEccccccccccHHHHHHHHHcccEEEcHHHHHHHHHccccccHHcccccccccccccccccEEEcccccccccEEEEEccccccccccccccHHHHHccccccccccccccccccccccccccccccccccHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHcccccccccccHHHHcccccccccccccccccHHcccccccccccccHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHccccccHHHHHHHHHHccccccccccccHHHHHHHHcccccccccccccHHHHccccccccHHHHHcccccHHHHHHccccccccccccccHHHHHHccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccHHccccHHHHcccccccccccccccccccccHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cccEEEEEEccccccccccccccccEEEcccEEEEEEcccccccccccccccccEEEEcEEEEcccccccccccHccccHHccccEEEEEccHHHHHccccccccEEEEcccccccccccccccEEEEccccccccEEEEEccccccEEEccccccccccccccccEEEEEEEEEcccccccccccccHHHccccHHHHcccEEEEccEEccccEEEEcccccccccccccccccccccccccccccccccccccEEEEcccEEcccccccccccccccccEcccccccccccEEcccEEEcccccccHHHHcccccccccHHccccccccccccccccccccccccHHHHHHHHcccHHHHHcccccccccHHHHHccccccccccccccccccccccEccccccccccEEccccccccccccccEEEEEEccccEEEEEEccccccccccccccccccEEEccccccccEccccccccccccccccccccccccccccccccccEEccccccccccEcccccccHHHHHHHHcccccEccccccccccccccccEEcccccccccccccEEccccEEEccccccccccccccccccEEcccccccccccccccEEccccccccccccccccccccccccccEEEccccEEEEEEccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccHHcccccccccccccccccHHHcccHHHHcccccccHHHHccHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
MTMTAEVEvhgggelssqndlpngnaiadsSCVFVEVsgndvgsggtdlnstnsveLNGKLVVEESnqstinneeneiesekQESLVLVSESCADQENQLLNLSAKeaelgdqkfesggaesgtvvvsdsvdgdgavscknyssenaaslhtdlpaetacengavdmIHEIqvadcpeelgveidqntdeasrPVAVAVAGVDLQLGMQIVRGSVTvesergldaghcqygvsetvvddlvdpsqetaeldkpsgvaesfpfqidpenlpveslktdpdvalnvsdttakpdvdfrdsvvtesspsgevddmerdnevgklnvgsgkssdshpvddahvnevgngpvrddLVSVFhnsdaksetetgfdsvdaeEKVSIlasddqrtepevlqggidgvdersisVDNAAvesctsesvyeestadVKAECEIENAYVLsfrdvpgnealvpesevvsgsvssipedvnvenvgiqhaggekddhRSKELEEnmeteftgeesddLVCKEVLENARIqftgggsddqAHKEVKekggiqftsgesddktFQEVEgiqstdggtddktcKKVVVNGGikftseeqndktcpevkenrgiqltggedgdrtfqdvegiersdrcetqtstpegstvdasesrnigvevvkqpfyflvkvpryddenLREQIKAAQSKVdektrsrdaIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAisvddidgsirnmehriahetlplKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLktldgrslgpdeeaplirpflndrvakNISLTQISAlerekteqvvpiksekvddkpfpevreqgdqiakfkkpekpsraenvsttvsgrddEIEEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKRIAEKAQTRAALRAQKEAEQKEKVRRLKPVT
Flexible Loop (DISEMBL)
mtmtaevevhgggelssqndlPNGNAIADSSCVFVEVSGNDVgsggtdlnstnsvELNGKLVVeesnqstinneeneieseKQESLVLVSESCADQENQLLNLSAKEAELGDQKFESGGAESGTVVVSDSVDGDGAVSCKNYSSENAASLHTDLPAETACENGAVDMIHEIQVADCPEELGVEIDQNTDEASRPVAVAVAGVDLQLGMQIVRGSVTVESERGLDAGHCQYGVSETVVDDLVDPSQETaeldkpsgvaESFPFQIDPENLPVESLKTDPDVALNVSdttakpdvdfrdsvvtesspsgevddmerdnEVGKLNVGsgkssdshpvDDAHVNEVGNGPVRDDLVSVFHNSDaksetetgfdsvdaEEKVSilasddqrtepevlqggidgvdersISVDNAAvesctsesvyeestadvKAECEIENAYVLSFRDVPGNEALVPESEVVsgsvssipedvnvenvgiqhaggekddhrsKELEENmeteftgeesdDLVCKEVLENARIQftgggsddqahKEVKEKGgiqftsgesddktfQEVEGiqstdggtddktckKVVVNGgikftseeqndktcpevkenrgiqltggedgdrtfQDVEGiersdrcetqtstpegstvdasesrnigvevvkqpfyfLVKVPRYDDENLREQIKAaqskvdektrsrdairddIQTIRASYKEYAEKLEAAISdersareslkskrqeIDSVQSRINMMKNAISVDDIDGSIRNMEHRIahetlplkeekQIIREIKQLKQRREQIsssigehdevqlAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEyvnsnirstlrrlktldgrslgpdeeaplirpflndrvAKNISLtqisalerekteqvvpiksekvddkpfpevreqgdqiakfkkpekpsraenvsttvsgrddeieeakeevpkltkeeEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKRIAEKAQTRAALRaqkeaeqkekvrrlkpvt
Low Complexity Region (SEG)
MTMTAEVEVHGGGELSSQNDLPNGNAIADSSCVFVEVSGNDVGSGGTDLNSTNSVELNGKLVVeesnqstinneeneiesekqesLVLVSESCADQENQLLNLSAKEAELGDQKFESGGAEsgtvvvsdsvdgdgavsCKNYSSENAASLHTDLPAETACENGAVDMIHEIQVADCPEELGVEIDQNTDEASRPVAVAVAGVDLQLGMQIVRGSVTVESERGLDAGHCQYGVSETVVDDLVDPSQETAELDKPSGVAESFPFQIDPENLPVESLKTDPDVALNVSDTTAKPDVDFRDSVVTESSPSGEVDDMERDNEVGKLNVGSGKSSDSHPVDDAHVNEVGNGPVRDDLVSVFHNSDAKSETETGFDSVDAEEKVSILASDDQRTEPEVLQGGIDGVDERSISVDNAAVESCTSESVYEESTADVKAECEIENAYVLSFRDVPGNEALvpesevvsgsvssIPEDVNVENVGIQHAGGEKDDHRSKeleenmeteftgeeSDDLVCKEVLENARIQFTGGGSDDQAHKEVKEKGGIQFTSGESDDKTFQEVEGIQSTDGGTDDKTCKKVVVNGGIKFTSEEQNDKTCPEVKENRGIQLTGGEDGDRTFQDVEGIERSDRCETQTSTPEGSTVDASESRNIGVEVVKQPFYFLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTLDGRSLGPDEEAPLIRPFLNDRVAKNISLTQISALEREKTEQVVPIKSEKVDDKPFPEVREQGDQIAKFKKPEKPSRAENVSTTVSGRDDEIEEAkeevpkltkeeeemarkaeekrkeeataklreQrrleekakaqealerkkrIAEKAQTRAALRAQKEAEQKEKVRRLKPVT
Disordered region (IsUnstruct)
******************************SCVFVEV***********************************************************************************************************************ETACENGAVDMIHEIQVADCPEELGVEIDQNT**ASRPVAVAVAGVDLQLGMQIVRGSVTVESERGLDAGHCQYGVSETVVDDL****************************************************************************************************************************************************************************************ADVKAECEIENAYVLSFRDVPG************************************************************VCKEVLENARI**************************************************CKKVVVNGGIK***************************************************************IGVEVVKQPFYFLVKVPRYD**************************************************************************************************************************************************************************************LLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYK***************EALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRL***************LIRPFLNDRVAKNISLTQ*************************************************************************************************************************************************
Disordered Region (DISOPRED)
*****E****G*G*******LPNGNAIADSSCVFVEVSG*****************LNG****************************************************************************AVSCK*Y***************TACENGAVDMIHEIQV****************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************
Disordered Region (DISEMBL)
*************ELSSQNDLPNGNAIADSSCVFVEVSGNDVGSGGTDLNSTNSVELNGKLVVEES********************VLVSESCADQENQLLNLSAKEAELGDQKFESGGAESGTVVVSDSVDGDGAVSCKNYSSENAASLHTDLPAETACENGAVDMIHEIQVADCPEELGVEIDQNTDEASRPVAVAVAGVDLQLGMQIVRGSVTVESERGLDAGHCQYGVSETVVDDLVDPSQETAELDKPSGVAESFPFQIDPENLPVESLKTDPDVALNVSDTTAKPDVDFRD**************MERDNEVGKLN***********VDDAHVNEVGNGPVRDDLVSVFHNS************VDAEEKVSILASDDQRTEPEVLQGGIDGVDERSISVDNAA****************VKAECEIENAYVLSFRDVPGNEALV**********SSIPEDVNVENVGIQ***************************DDLVCKEVLENARIQFTGGGSDDQAHKEVKEKGGIQFTSGESDDKTFQEVEGIQSTDGGTDDKTCKKVVVNGGIKFTSEEQNDKTCPEVKENRGIQLTGGEDGDRTFQDVEGI**********************SRNIGVEVVKQPFYFLVKVPRYDDENLREQIKA***********RDAIRDDIQTIRASYKEYAEKLEAAIS****************DSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTLDGRSLGPDEEAPLIRPFLNDRVAKNISLTQISALEREKTEQVVPIKSEKVDDKPFPEVREQGDQIAKF******************************************************KLREQRRLEEKAKAQEALERKKRIAE***************************
Disordered Region (DISPRO)
*TMTAEVEVHGGGELSSQNDLPNGNAIADSSCVFVEVSGNDVGSGGTDLNSTNSVELNGKLVVEE******************ESLVLVSESCADQEN*L***SA**AEL***************VVSDSVDGDGAVSCKNYSSENAASLHTDLPAETACENGAVDMIHEIQVADCPEELGVEIDQNTDEASRPVAVAVAGVDLQLGMQIVRGSVTVESER****************D*L************PSGVAESFPFQIDPE***********************PDVDFRDSVVTESSPS*******************************************************************************************************************ESTADVKAECEIENAYVLSFRDV******************************************************************************************************************TD**TDDKTCKKVVVNGGIKFTS*******C**************************************************RNIGVEVVKQPFYFLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTL********EEAPL******************************************************************************************************************************************************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTMTAEVEVHGGGELSSQNDLPNGNAIADSSCVFVEVSGNDVGSGGTDLNSTNSVELNGKLVVxxxxxxxxxxxxxxxxxxxxxxxxxxxxSCADQENQLLNLSAKEAELGDQKFESGGAESGTVVVSDSVDGDGAVSCKNYSSENAASLHTDLPAETACENGAVDMIHEIQVADCPEELGVEIDQNTDEASRPVAVAVAGVDLQLGMQIVRGSVTVESERGLDAGHCQYGVSETVVDDLVDPSQETAELDKPSGVAESFPFQIDPENLPVESLKTDPDVALNVSDTTAKPDVDFRDSVVTESSPSGEVDDMERDNEVGKLNVGSGKSSDSHPVDDAHVNEVGNGPVRDDLVSVFHNSDAKSETETGFDSVDAEEKVSILASDDQRTEPEVLQGGIDGVDERSISVDNAAVESCTSESVYEESTADVKAECEIENAYVLSFRDVPGNEALVPESEVVSGSVSSIPEDVNVENVGIQHAGGEKDDHRSKELEENMETEFTGEESDDLVCKEVLENARIQFTGGGSDDQAHKEVKEKGGIQFTSGESDDKTFQEVEGIQSTDGGTDDKTCKKVVVNGGIKFTSEEQNDKTCPEVKENRGIQLTGGEDGDRTFQDVEGIERSDRCETQTSTPEGSTVDASESRNIGVEVVKQPFYFLVKVPRYDxxxxxxxxxxxxxxxxxxxxxRDAIRDDIQTIRASYKEYxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxISVDDIDGSIRNMEHRIAHETLPLKExxxxxxxxxxxxxxxxxxxxxIGEHDExxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxTQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTLDGRSLGPDEEAPLIRPFLNDRVAKNISLTQISALEREKTEQVVPIKSEKVDDKPFPEVREQGDQIAKFKKPEKPSRAENVSTTVSGRDDExxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxKVRRLKPVT
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	1113	2.2.26 [Sep-21-2011]
O23144	612	Proton pump-interactor 1	no	no	0.410	0.746	0.249	1e-22

>sp|O23144|PPI1_ARATH Proton pump-interactor 1 OS=Arabidopsis thaliana GN=PPI1 PE=1 SV=2

 Score =  109 bits (273), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 134/538 (24%), Positives = 249/538 (46%), Gaps = 81/538 (15%)

Query: 571  VVVNGGIKFTSEEQNDKTCPEVKENRGIQLTGGEDGDRTFQDVEGIERSDRCETQTSTPE 630
            VV +GG +        K  PE  +N  +    G+D    F  V  + ++           
Sbjct: 5    VVNSGGFEVAPAPFEGK--PE--KNGKLDQGKGDDAPINFGSVGELPKNAEENNNKVVNS 60

Query: 631  GSTVDASESRNIGVEVVKQPFYFLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDDI 690
             +  +A+E   +  ++     ++LVK   Y D  ++ ++  A  ++++  ++R  + D +
Sbjct: 61   DAPKNAAEEWPVAKQIHS---FYLVKYRSYADPKIKAKLDLADKELEKLNKARTGVLDKL 117

Query: 691  QTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKN---------AI-- 739
            +  RA   E  + L+   S+ +        KR+E++ +Q  +  +++         AI  
Sbjct: 118  RAKRAERSELFDLLDPLKSERKGFNTMFDEKRKEMEPLQQALGKLRSNDGGSARGPAICS 177

Query: 740  SVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQK 799
            S ++++  I + ++RI HE++PL EEKQI++EI+ L+  R+++ ++     +++ +  QK
Sbjct: 178  SEEELNSMIYSYQYRIQHESIPLTEEKQILKEIRLLEGTRDKVIANAAMRAKIKESMGQK 237

Query: 800  DQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKR-------LLGQFKAAD 852
            D I+ ++K +    D +++         QA+     E SEKLK        L  + K   
Sbjct: 238  DDIQGQVKLMGAGLDGVKKE-------RQAISARINELSEKLKATKDEITVLENELKTVS 290

Query: 853  EIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLEL 912
            E R +AY +   L++Q  + N  +++ +    +A DLA++ +   L+ L   +VE+ + L
Sbjct: 291  EKRDKAYSNIHDLRRQRDETNSEYYQNRTVLNKARDLAAQKNISELEALANAEVEKFISL 350

Query: 913  WNNNDEFRKEYVNSNIRSTLRRLKTLDGRSLGPDEEAPLIRPFLNDRVAKNISLTQISAL 972
            W +   FR++Y    ++S   R  + DGR   PDE+ PLI P          + ++ +  
Sbjct: 351  WCSKKNFREDYEKRILQSLDSRQLSRDGRMRNPDEK-PLIAP--------EAAPSKATPS 401

Query: 973  EREKTEQVVPIKSEKVDDKPFPEVREQGDQIAKFKKPEKPSRAENVSTTVSGRDDEIEEA 1032
            E E    VVP    K   KP P+              E+P  A     TV+   ++ ++A
Sbjct: 402  ETE----VVP----KAKAKPQPK--------------EEPVSAPKPDATVAQNTEKAKDA 439

Query: 1033 ----------KEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALER 1080
                       +EV  L K ++      EEK  + ATAK  E R+ EE AKA++A+ER
Sbjct: 440  VKVKNVADDDDDEVYGLGKPQK------EEKPVDAATAK--EMRKQEEIAKAKQAMER 489

Promotes AHA1 plasma membrane ATPase activity by binding to a site different from the 14-3-3 binding site.
Arabidopsis thaliana (taxid: 3702)

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	1113
297745622	1477	unnamed protein product [Vitis vinifera]	0.450	0.339	0.611	1e-161
255539360	1553	conserved hypothetical protein [Ricinus	0.445	0.319	0.553	1e-143
449455738	1463	PREDICTED: uncharacterized protein LOC10	0.445	0.339	0.554	1e-143
449528207	909	PREDICTED: uncharacterized LOC101219495	0.445	0.545	0.554	1e-142
356577005	1501	PREDICTED: uncharacterized protein LOC10	0.416	0.309	0.545	1e-125
356523390	1296	PREDICTED: uncharacterized protein LOC10	0.415	0.357	0.531	1e-118
24430042	1498	Hypothetical protein [Arabidopsis thalia	0.425	0.316	0.521	1e-115
186478714	1364	uncharacterized protein [Arabidopsis tha	0.416	0.340	0.517	1e-111
297845076	1186	hypothetical protein ARALYDRAFT_472337 [	0.418	0.392	0.520	1e-110
357438817	1290	hypothetical protein MTR_1g035040 [Medic	0.419	0.362	0.478	1e-108

>gi|297745622|emb|CBI40787.3| unnamed protein product [Vitis vinifera]

 Score =  574 bits (1480), Expect = e-161,   Method: Compositional matrix adjust.
 Identities = 317/518 (61%), Positives = 390/518 (75%), Gaps = 17/518 (3%)

Query: 595  NRGIQLTGGEDGDR-TFQDVEGIERSDRCETQTSTPEGSTVDASESRNIGVEVVKQPFYF 653
            N G Q+T  +  D+ T Q+     RS      +S+ E  + DA +S+N+ VEV K+PFYF
Sbjct: 851  NEGDQITSVDSDDKLTCQEA----RSVLGNGTSSSLEFLSTDALDSQNVPVEVGKRPFYF 906

Query: 654  LVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERS 713
            L++VPRYDDE +RE+IK AQ +VDEKT+SRDAIR +IQ  RA  KEY+EK EAA+S+ER+
Sbjct: 907  LIRVPRYDDEKVREEIKLAQLQVDEKTKSRDAIRSEIQIKRAVCKEYSEKFEAALSEERA 966

Query: 714  ARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIK 773
            AR+ LKSK QE+DSVQS IN +KNA+SV DIDG IR+MEH I HETLPLKEEKQ+IR+IK
Sbjct: 967  ARDLLKSKFQEMDSVQSVINRVKNAMSVKDIDGRIRHMEHAIEHETLPLKEEKQLIRDIK 1026

Query: 774  QLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKL 833
            QL+  REQ+SS++G  +EVQ A DQK Q+EE+ K LR+E DSL+  V KAE  T+A KK 
Sbjct: 1027 QLRNVREQLSSNMGRQEEVQQALDQKSQVEEQSKILREEVDSLKYKVQKAEVITKAAKKK 1086

Query: 834  HREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKG 893
            + +E+EKL  L  +FKAAD+IRQEAY H QSL+K+  +KN++F  YKD+ K AND AS G
Sbjct: 1087 YYDENEKLNELQARFKAADDIRQEAYTHLQSLRKKLSEKNKYFRMYKDNLKAANDYASAG 1146

Query: 894  DREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTLDGRSLGPDEEAPLIR 953
            D+EALQ LCVN+VE ++ELWNNNDEFRKEYV  N RSTLRRL+TLDGRSLGPDEE P+I 
Sbjct: 1147 DKEALQRLCVNEVETIMELWNNNDEFRKEYVRCNTRSTLRRLRTLDGRSLGPDEEPPVIP 1206

Query: 954  PFLNDRVAKNI-------SLTQISALEREKTEQVVPIKSEKVDDKPFPEVREQGDQIAKF 1006
             FLN+R+ +++       S+  +S +EREK  Q+VP  +E  DDK    V  Q ++ AK 
Sbjct: 1207 NFLNERIGRSLFAPTKDSSVLIVSTVEREK--QMVPATAESADDKSVVNVTNQKNRTAKN 1264

Query: 1007 KKPEKPSRAENVSTTVSGRDDEIEEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLREQR 1066
            K P K S    VS T+SGR DEIEE KEE  K TKEEEE+ARKAEE RKEE  AKL+EQR
Sbjct: 1265 KNPTK-SATGAVSATISGR-DEIEETKEE-HKQTKEEEELARKAEELRKEEEAAKLKEQR 1321

Query: 1067 RLEEKAKAQEALERKKRIAEKAQTRAALRAQKEAEQKE 1104
            RLEEKAKA+EALERKKR AEKAQ RA LRAQKEAEQK+
Sbjct: 1322 RLEEKAKAKEALERKKRNAEKAQARAELRAQKEAEQKQ 1359

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255539360|ref|XP_002510745.1| conserved hypothetical protein [Ricinus communis] gi|223551446|gb|EEF52932.1| conserved hypothetical protein [Ricinus communis]

 Score =  516 bits (1330), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 279/504 (55%), Positives = 368/504 (73%), Gaps = 8/504 (1%)

Query: 594  ENRGIQLTGGEDGDRTFQDVEGIERSDRCETQTSTPEGSTVDASESRNIGVEVVKQPFYF 653
            E+RG +    +  ++T Q++E  E  +R +  TS+PEGS  DAS+ +N  VEVVK+PFY+
Sbjct: 938  EDRGNEFVSIDSDEKTPQEMEVTEAVNREQASTSSPEGSAADASDGQNSVVEVVKRPFYY 997

Query: 654  LVKVPRYDD-ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDER 712
            ++++PRYDD ENL+EQIK AQ +VDEKTRSRDAIR ++Q+ RA+  +Y   + AAIS+E 
Sbjct: 998  MIRIPRYDDDENLKEQIKHAQDQVDEKTRSRDAIRAEMQSQRANCNKYGASVAAAISEET 1057

Query: 713  SARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREI 772
            SAR+ LK+KR+EIDSV   IN  K+A  +  ID  I  MEH+I HET+PL+EEK  I EI
Sbjct: 1058 SARDLLKAKRKEIDSVLLVINKGKSASELKIIDEKIHGMEHKIQHETMPLREEKNYILEI 1117

Query: 773  KQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKK 832
            K+LKQ RE++  + G   +VQ A DQ+ Q EE++K LRKEAD LREN +KAEAAT+ V+K
Sbjct: 1118 KKLKQAREKLFFNFGSQGDVQEAIDQQVQFEERLKILRKEADLLRENALKAEAATKNVEK 1177

Query: 833  LHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASK 892
             ++EE  KL  L+G+F+AAD+IRQEA+ H QSL+K+ YDK+++F+KYK+D K A+DLASK
Sbjct: 1178 KYQEEKAKLGELIGRFRAADDIRQEAFAHLQSLRKRLYDKHKNFYKYKEDAKAASDLASK 1237

Query: 893  GDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTLDGRSLGPDEEAPLI 952
            GD+  LQ+ CVNQVERV+ELWNNNDEFRK+Y+  N+RST+RRL+TLDGRSLGPDEE P+I
Sbjct: 1238 GDQGELQYHCVNQVERVMELWNNNDEFRKDYIRCNLRSTVRRLRTLDGRSLGPDEEPPVI 1297

Query: 953  RPFLNDRVAKNISLTQISALEREKTEQVVPIKSEKVDDKPFPEVREQGDQIAKFKKPEKP 1012
              F+++R A+   +  IS L+ EK   + P ++E  DDK   +V+   +  AK KKP K 
Sbjct: 1298 PNFVSERFARRNVVPSISTLQEEKI--IAPTETENKDDKSIAKVK---NPTAKSKKPAKH 1352

Query: 1013 SRAENVSTTVSGRDDEIEEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKA 1072
            +   N   TVS R +  EE   E  KLTKEEEE+ARKAEE RKEE  A L+E++ LE K 
Sbjct: 1353 ALG-NSMATVSNRVEI-EEEGVEEHKLTKEEEELARKAEELRKEEEAATLKERQLLEAKT 1410

Query: 1073 KAQEALERKKRIAEKAQTRAALRA 1096
            KA EALERKKR A KAQ RA +RA
Sbjct: 1411 KANEALERKKRSANKAQARAEVRA 1434

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449455738|ref|XP_004145608.1| PREDICTED: uncharacterized protein LOC101219495 [Cucumis sativus]

 Score =  516 bits (1329), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 279/503 (55%), Positives = 372/503 (73%), Gaps = 7/503 (1%)

Query: 605  DGDRTFQDVEGIERSDRCETQTSTPEGSTVDASESRNIGVEVVKQPFYFLVKVPRYDDEN 664
            DG  T +++E      + E  + +PEGS  DA   +N+G E   +PF FLVKVPR+DD+N
Sbjct: 859  DGKPTTEEIEVNREGCQNEPSSISPEGSG-DALTGQNVGAEAGTRPFNFLVKVPRFDDKN 917

Query: 665  LREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQE 724
            +REQIK AQ++VD KT+ RDAIR  IQT+RA++K  ++ LEAA+S+ R+AR+ LKSKR E
Sbjct: 918  IREQIKCAQAEVDWKTKDRDAIRVQIQTMRAAWKVLSDNLEAAVSEGRAARDLLKSKRLE 977

Query: 725  IDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISS 784
            IDSVQS I  +KNA+SV+DIDG IRN+EH I HETLPLKEEKQ+IREIKQLKQ REQ+SS
Sbjct: 978  IDSVQSVITKVKNAMSVEDIDGRIRNIEHMIEHETLPLKEEKQLIREIKQLKQVREQLSS 1037

Query: 785  SIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRL 844
            ++G+ DE+Q A DQKD IEE++K LRKE D LR+NV+KAE+  +A KK + +ES KL  L
Sbjct: 1038 TMGKQDELQQALDQKDHIEERLKLLRKEMDLLRDNVLKAESVIKAAKKKYNDESIKLDEL 1097

Query: 845  LGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVN 904
              QFKAAD+IRQEAY + QS++KQ Y+KN++ WKY+DD K+A+++AS  D E +QH CVN
Sbjct: 1098 QSQFKAADKIRQEAYANLQSMRKQLYEKNKYCWKYRDDAKEASEIASSRDIEKVQHFCVN 1157

Query: 905  QVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTLDGRSLGPDEEAPLIRPFLNDRVAKNI 964
            QVER++ELWN N EFR+EY+ SN+RST+RRLKTLDGRSLGP+EE  ++   + +  A++ 
Sbjct: 1158 QVERMMELWNTNAEFREEYIKSNMRSTVRRLKTLDGRSLGPNEEPHVLNLIVKEGSARDN 1217

Query: 965  SLTQISALEREKTEQVVPIKS-EKVDDKPFPEVREQGDQIAKFKKPEKPSRAENVSTTVS 1023
            SL+ +S  E    E   PI + +  D+KP  +V E+ +Q+ K KKP            +S
Sbjct: 1218 SLSTVSTTE----ESGKPISAYDASDNKPETKVAEEKNQMTK-KKPVTVVGLVTAPRNIS 1272

Query: 1024 GRDDEIEEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKR 1083
              ++  E  + E  K T+EEEE+A K EE RKEE   KL+EQR+LEE+AKA+EALERKKR
Sbjct: 1273 RENEVEEPPRPEEIKRTREEEELAAKVEELRKEEEAMKLKEQRKLEERAKAKEALERKKR 1332

Query: 1084 IAEKAQTRAALRAQKEAEQKEKV 1106
             AEKAQ RA ++A+KEAE++EK+
Sbjct: 1333 NAEKAQARAVIKARKEAEEREKL 1355

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449528207|ref|XP_004171097.1| PREDICTED: uncharacterized LOC101219495 [Cucumis sativus]

 Score =  513 bits (1321), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 279/503 (55%), Positives = 372/503 (73%), Gaps = 7/503 (1%)

Query: 605  DGDRTFQDVEGIERSDRCETQTSTPEGSTVDASESRNIGVEVVKQPFYFLVKVPRYDDEN 664
            DG  T +++E      + E  + +PEGS  DA   +N+G E   +PF FLVKVPR+DD+N
Sbjct: 335  DGKPTTEEIEVNREGCQNEPSSISPEGSG-DALTGQNVGAEAGTRPFNFLVKVPRFDDKN 393

Query: 665  LREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQE 724
            +REQIK AQ++VD KT+ RDAIR  IQT+RA++K  ++ LEAA+S+ R+AR+ LKSKR E
Sbjct: 394  IREQIKCAQAEVDWKTKDRDAIRVQIQTMRAAWKVLSDNLEAAVSEGRAARDLLKSKRLE 453

Query: 725  IDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISS 784
            IDSVQS I  +KNA+SV+DIDG IRN+EH I HETLPLKEEKQ+IREIKQLKQ REQ+SS
Sbjct: 454  IDSVQSVITKVKNAMSVEDIDGRIRNIEHMIEHETLPLKEEKQLIREIKQLKQVREQLSS 513

Query: 785  SIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRL 844
            ++G+ DE+Q A DQKD IEE++K LRKE D LR+NV+KAE+  +A KK + +ES KL  L
Sbjct: 514  TMGKQDELQQALDQKDHIEERLKLLRKEMDLLRDNVLKAESVIKAAKKKYNDESIKLDEL 573

Query: 845  LGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVN 904
              QFKAAD+IRQEAY + QS++KQ Y+KN++ WKY+DD K+A+++AS  D E +QH CVN
Sbjct: 574  QSQFKAADKIRQEAYANLQSMRKQLYEKNKYCWKYRDDAKEASEIASSRDIEKVQHFCVN 633

Query: 905  QVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTLDGRSLGPDEEAPLIRPFLNDRVAKNI 964
            QVER++ELWN N EFR+EY+ SN+RST+RRLKTLDGRSLGP+EE  ++   + +  A++ 
Sbjct: 634  QVERMMELWNTNAEFREEYIKSNMRSTVRRLKTLDGRSLGPNEEPHVLNLIVKEGSARDN 693

Query: 965  SLTQISALEREKTEQVVPIKS-EKVDDKPFPEVREQGDQIAKFKKPEKPSRAENVSTTVS 1023
            SL+ +S  E    E   PI + +  D+KP  +V E+ +Q+ K KKP            +S
Sbjct: 694  SLSTVSTTE----ESGKPISAYDASDNKPETKVAEEKNQMTK-KKPVTVVGLVTAPRNIS 748

Query: 1024 GRDDEIEEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKR 1083
              ++  E  + E  K T+EEEE+A K EE RKEE   KL+EQR+LEE+AKA+EALERKKR
Sbjct: 749  RENEVEEPPRPEEIKRTREEEELAAKVEELRKEEEAMKLKEQRKLEERAKAKEALERKKR 808

Query: 1084 IAEKAQTRAALRAQKEAEQKEKV 1106
             AEKAQ RA ++A+KEAE++EK+
Sbjct: 809  NAEKAQARAVIKARKEAEEREKL 831

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356577005|ref|XP_003556620.1| PREDICTED: uncharacterized protein LOC100798700 [Glycine max]

 Score =  456 bits (1174), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 259/475 (54%), Positives = 343/475 (72%), Gaps = 11/475 (2%)

Query: 635  DASESRNIGVEVVKQPFYFLVKVPRYDD-ENLREQIKAAQSKVDEKTRSRDAIRDDIQTI 693
            DA + +N+G EVVK+PFY+L++VPRYDD EN++E+IK A  +V+EKT+ RDAIR + QTI
Sbjct: 911  DALDGQNVGTEVVKKPFYYLIRVPRYDDDENIKEKIKNALHQVEEKTKIRDAIRIESQTI 970

Query: 694  RASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEH 753
            +AS K++ ++  AAI+  R+AR+ LKSKRQEIDSVQS +N + NAISV DID  IR+MEH
Sbjct: 971  KASCKDFDQEFRAAIAAHRAARDLLKSKRQEIDSVQSTMNRLNNAISVGDIDDKIRSMEH 1030

Query: 754  RIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKD-QIEEKMK---FL 809
             I HETLPL +EKQ+IREIKQLKQ RE++SS++ + D+ Q + D KD  IEE  K    L
Sbjct: 1031 MIQHETLPLNKEKQLIREIKQLKQNREELSSNMKKQDQSQQSVDNKDDNIEEHFKHLQLL 1090

Query: 810  RKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQA 869
            +KE + LR NV+K++  T+A KK + +E +KL  LL +F+AAD+ RQEAY    +LKKQ 
Sbjct: 1091 KKEMEVLRNNVLKSDTETKAAKKKYNDECDKLNELLARFRAADDSRQEAYAKLLALKKQL 1150

Query: 870  YDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIR 929
            ++K+++FW+Y+D   +A +LA+ G +E LQ  CV+QVER++ELWN ND FR++YV  N R
Sbjct: 1151 HEKSKNFWEYRDAANKAQELAAGGKKEELQCFCVDQVERIMELWNKNDGFRRDYVRCNTR 1210

Query: 930  STLRRLKTLDGRSLGPDEEAPLIRPFLNDRVAKNISLTQISALEREKTEQVVPIKSEKVD 989
            STLRRL+TLDGRSLGPDEE P+I   + +R +KNI +   S LE+EK  +  P +S  V 
Sbjct: 1211 STLRRLQTLDGRSLGPDEEPPVIPNVITERASKNIPMVLQSTLEQEK--KSTPTESVNVK 1268

Query: 990  DKPFPEV---REQGDQIAKFKKPEKPSRAENVSTTVSGRDDEIEEAKEEVPKLTKEEEEM 1046
            D+P  +V   R +  Q  K KKP KP+  E          DE +E K+E P  TKEEEE+
Sbjct: 1269 DEPVSKVVVQRTETSQTTKAKKPTKPAPLEKHVARWGDESDE-DEVKKEEPVRTKEEEEL 1327

Query: 1047 ARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKRIAEKAQTRAALRAQKEAE 1101
              KAE+ R EE  AKL+E+RRLEE  KA+EAL RKKR AEKAQ RAAL+AQKEAE
Sbjct: 1328 ILKAEKARMEEEEAKLKEKRRLEEIEKAKEALLRKKRNAEKAQQRAALKAQKEAE 1382

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356523390|ref|XP_003530323.1| PREDICTED: uncharacterized protein LOC100820077 [Glycine max]

 Score =  432 bits (1111), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 254/478 (53%), Positives = 347/478 (72%), Gaps = 15/478 (3%)

Query: 635  DASESRNIGVEVVKQPFYFLVKVPRYDDE-NLREQIKAAQSKVDEKTRSRDAIRDDIQTI 693
            DA + +N+G EVV++PFY+L++VPRYDD+ N++E+I+ A  +V+EK++ RDAIR + QTI
Sbjct: 705  DALDGQNVGAEVVEKPFYYLIRVPRYDDDGNMKEKIRNALHQVEEKSKIRDAIRAESQTI 764

Query: 694  RASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEH 753
            +AS K++ ++  AAI+  R+AR+ LKSKRQE+DSVQS +N + NAISV DIDG IR+MEH
Sbjct: 765  KASCKDFDQEFRAAIAAHRAARDLLKSKRQEMDSVQSTMNRLNNAISVGDIDGKIRSMEH 824

Query: 754  RIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKD-QIEEKMK---FL 809
             I HETLPL +EKQ+IREIKQLKQ RE++SS++   D+ Q + + KD  IEE  K    L
Sbjct: 825  MIEHETLPLNKEKQLIREIKQLKQNREELSSNMKRQDQSQQSLENKDDNIEEHFKHLQLL 884

Query: 810  RKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQA 869
            +KE + LR NV+K++A T+A KK + +E +KL  LL +F+AAD+ RQEAY    +LKKQ 
Sbjct: 885  KKEMEVLRNNVLKSDAETKAAKKKYNDECDKLNELLARFRAADDTRQEAYAKLLALKKQL 944

Query: 870  YDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIR 929
            ++K+++FW+Y+D   +A +LA+ G +E LQ  CV++VER++ELWN NDEFR++YV  N R
Sbjct: 945  HEKSKNFWEYRDAATKAQELAAGGKKEELQCFCVDEVERIMELWNKNDEFRRDYVRCNTR 1004

Query: 930  STLRRLKTLDGRSLGPDEEAPLIRP-FLNDRVAKNISLTQISALEREKTEQVVPIKSEKV 988
            STLRRL+TLDGRSLGPDEE PL+ P  + +R +KNI +   + +E+EK     P +S  V
Sbjct: 1005 STLRRLQTLDGRSLGPDEE-PLVMPNAITERASKNIPMVSNTTMEQEKKS---PRESVNV 1060

Query: 989  DDKPFPEV---REQGDQIAKFKKPEKPSRAEN--VSTTVSGRDDEIEEAKEEVPKLTKEE 1043
             D+P  +V   R +  Q  K KKP KP+  E           +DE ++  EE P  TKEE
Sbjct: 1061 KDEPDSKVVAQRTETSQTTKAKKPTKPAPLEKHVARWGDESDEDEDKDKNEEEPVRTKEE 1120

Query: 1044 EEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKRIAEKAQTRAALRAQKEAE 1101
            EE+  KAE+ RKEE  AKL+E+RRLEE  KA+EAL+RKKR AEKAQ RAAL+AQKEAE
Sbjct: 1121 EELILKAEKARKEEEEAKLKEKRRLEEIEKAKEALQRKKRNAEKAQQRAALKAQKEAE 1178

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24430042|gb|AAD30594.2|AC007369_4 Hypothetical protein [Arabidopsis thaliana]

 Score =  421 bits (1083), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 258/495 (52%), Positives = 344/495 (69%), Gaps = 21/495 (4%)

Query: 627  STPEGSTVDASESRNIGVEVVKQPFYFLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAI 686
            ST E S +DASE   +  E+ K+PFYFL +VPRYDDE L EQ+K A+ +VD+KT++RDA+
Sbjct: 792  STGEVSVLDASEGLTVAAEIEKRPFYFLPRVPRYDDEKLAEQLKHAEEQVDQKTQNRDAL 851

Query: 687  RDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDG 746
            R DIQ IRA  K+Y    +A +++ERSAR+++ SKRQEI+++QS I+ +K+A SVDDID 
Sbjct: 852  RADIQKIRAICKDYDISYKAVMAEERSARKAMHSKRQEIEALQSMISRVKSAASVDDIDS 911

Query: 747  SIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKM 806
             +RNMEH + H TL L EEK  +REIKQLKQ REQISSS+G  DEV+ A D+K++ EE++
Sbjct: 912  RVRNMEHTMQHTTLSLNEEKGFMREIKQLKQLREQISSSMGTKDEVKQALDEKEKTEERL 971

Query: 807  KFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLK 866
            K LRKE D+LR ++ KAE  T+A KK    E E   +L  QF+AAD +RQEA+ H Q LK
Sbjct: 972  KVLRKELDALRNDLSKAEEITKAAKKKCDGEWEAQSKLQEQFRAADAVRQEAFVHLQDLK 1031

Query: 867  KQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNS 926
            KQ  +KN++F+KY+D+++ A+++A K DR ALQ LC +QVE  + +WNN+DEFRK YV S
Sbjct: 1032 KQQREKNKYFFKYRDNSRAASEMALKKDRAALQSLCSDQVENFMNMWNNDDEFRKYYVKS 1091

Query: 927  NIRSTLRRLKTLDGRSLGPDEEAPLIRPFLNDRVAKNISLTQISALEREKTEQVVPIKSE 986
            N RST RRL TLDGRSLGPDEE P I        A      + S+   EK E  VP + E
Sbjct: 1092 NTRSTFRRLGTLDGRSLGPDEEPPRI------TYAPRTDKLRTSSDRAEKHE-AVPAQKE 1144

Query: 987  KV----------DDKPFPEVREQGDQIAKFKKPEKPSRAENVSTTVSGRDDEIEEA---- 1032
            KV          + K   +  EQ  Q  K KK  KP +  ++ T +    +EIE++    
Sbjct: 1145 KVVKFEGSKVENNGKEVAKPTEQKSQTTKSKKAVKPDQPPSIVTELVSGKEEIEKSATPE 1204

Query: 1033 KEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKRIAEKAQTRA 1092
            +EE PKLTKEEEE+ +K EEKRK++  AK++EQ RLEE AKA+EA+ERKK+  EKA+ RA
Sbjct: 1205 EEEPPKLTKEEEELIKKEEEKRKQKEAAKMKEQHRLEEIAKAKEAMERKKKREEKAKARA 1264

Query: 1093 ALRAQKEAEQKEKVR 1107
             L+AQKEAE++EKV+
Sbjct: 1265 VLKAQKEAEEREKVK 1279

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|186478714|ref|NP_173521.2| uncharacterized protein [Arabidopsis thaliana] gi|332191928|gb|AEE30049.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  409 bits (1050), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 251/485 (51%), Positives = 334/485 (68%), Gaps = 21/485 (4%)

Query: 627  STPEGSTVDASESRNIGVEVVKQPFYFLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAI 686
            ST E S +DASE   +  E+ K+PFYFL +VPRYDDE L EQ+K A+ +VD+KT++RDA+
Sbjct: 760  STGEVSVLDASEGLTVAAEIEKRPFYFLPRVPRYDDEKLAEQLKHAEEQVDQKTQNRDAL 819

Query: 687  RDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDG 746
            R DIQ IRA  K+Y    +A +++ERSAR+++ SKRQEI+++QS I+ +K+A SVDDID 
Sbjct: 820  RADIQKIRAICKDYDISYKAVMAEERSARKAMHSKRQEIEALQSMISRVKSAASVDDIDS 879

Query: 747  SIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKM 806
             +RNMEH + H TL L EEK  +REIKQLKQ REQISSS+G  DEV+ A D+K++ EE++
Sbjct: 880  RVRNMEHTMQHTTLSLNEEKGFMREIKQLKQLREQISSSMGTKDEVKQALDEKEKTEERL 939

Query: 807  KFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLK 866
            K LRKE D+LR ++ KAE  T+A KK    E E   +L  QF+AAD +RQEA+ H Q LK
Sbjct: 940  KVLRKELDALRNDLSKAEEITKAAKKKCDGEWEAQSKLQEQFRAADAVRQEAFVHLQDLK 999

Query: 867  KQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNS 926
            KQ  +KN++F+KY+D+++ A+++A K DR ALQ LC +QVE  + +WNN+DEFRK YV S
Sbjct: 1000 KQQREKNKYFFKYRDNSRAASEMALKKDRAALQSLCSDQVENFMNMWNNDDEFRKYYVKS 1059

Query: 927  NIRSTLRRLKTLDGRSLGPDEEAPLIRPFLNDRVAKNISLTQISALEREKTEQVVPIKSE 986
            N RST RRL TLDGRSLGPDEE P I        A      + S+   EK E  VP + E
Sbjct: 1060 NTRSTFRRLGTLDGRSLGPDEEPPRI------TYAPRTDKLRTSSDRAEKHE-AVPAQKE 1112

Query: 987  KV----------DDKPFPEVREQGDQIAKFKKPEKPSRAENVSTTVSGRDDEIEEA---- 1032
            KV          + K   +  EQ  Q  K KK  KP +  ++ T +    +EIE++    
Sbjct: 1113 KVVKFEGSKVENNGKEVAKPTEQKSQTTKSKKAVKPDQPPSIVTELVSGKEEIEKSATPE 1172

Query: 1033 KEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKRIAEKAQTRA 1092
            +EE PKLTKEEEE+ +K EEKRK++  AK++EQ RLEE AKA+EA+ERKK+  EKA+ RA
Sbjct: 1173 EEEPPKLTKEEEELIKKEEEKRKQKEAAKMKEQHRLEEIAKAKEAMERKKKREEKAKARA 1232

Query: 1093 ALRAQ 1097
             L+AQ
Sbjct: 1233 VLKAQ 1237

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297845076|ref|XP_002890419.1| hypothetical protein ARALYDRAFT_472337 [Arabidopsis lyrata subsp. lyrata] gi|297336261|gb|EFH66678.1| hypothetical protein ARALYDRAFT_472337 [Arabidopsis lyrata subsp. lyrata]

 Score =  407 bits (1045), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 253/486 (52%), Positives = 342/486 (70%), Gaps = 20/486 (4%)

Query: 627  STPEGSTVDASESRNIGVEVVKQPFYFLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAI 686
            ST E S  DASE   +  E+ K+P YFL +VPRYD+E L EQ+K A+ +VD+KT+SRDA+
Sbjct: 579  STGEVSVPDASEVLTVAAEIEKRPVYFLPRVPRYDNEKLAEQLKHAEEQVDQKTQSRDAL 638

Query: 687  RDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDG 746
            R DIQ IRA  K+Y    +AA+++ERSAR+++ SKRQEI+++QS I+ +K+A SVDDID 
Sbjct: 639  RADIQKIRAICKDYDISYKAAMTEERSARKAMHSKRQEIEALQSMISRVKSAASVDDIDS 698

Query: 747  SIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKM 806
             + NMEH + H TL L EEK  +REIKQLKQ REQISSS+G  DEV+ A D+K++ EE++
Sbjct: 699  RVHNMEHMMQHTTLSLNEEKGFMREIKQLKQLREQISSSMGTKDEVKQALDEKEKTEERL 758

Query: 807  KFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLK 866
            K LRKE D+LR N+ KAE  T+A KK   EE E   +L  QF+AAD +R+EA+ H Q LK
Sbjct: 759  KVLRKELDALRNNLSKAETITKAAKKKCDEEWEAQSKLQEQFRAADAVREEAFVHLQDLK 818

Query: 867  KQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNS 926
            KQ  +KN++F+KY+D+++ A+++A K DR ALQ LC +QVE  + +WNN++EFRK YV S
Sbjct: 819  KQQREKNKYFFKYRDNSRAASEMALKKDRAALQSLCSDQVENFMNMWNNDEEFRKYYVKS 878

Query: 927  NIRSTLRRLKTLDGRSLGPDEEAPLIR--PFLN------DRVAKNISLTQISALEREKTE 978
            N RST RRL TLDGRSLGPDEE P I   P ++      DR  K+ ++  + A    + E
Sbjct: 879  NTRSTFRRLGTLDGRSLGPDEEPPRITYAPRMDKLRTSSDRAEKHEAVQPVPA----QQE 934

Query: 979  QVVPIKSEKVDD--KPFPEVREQGDQIAKFKKPEKPSR-AENVSTTVSGRDDEIEEA--- 1032
            +VV  +  KV++  K   +  EQ  Q  K KK  KP +   NV+  VSG+  EIE++   
Sbjct: 935  RVVKFEGSKVENNGKAVAKPTEQKSQTTKSKKAVKPDQPPPNVTELVSGK-KEIEKSATP 993

Query: 1033 -KEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKRIAEKAQTR 1091
             +EE PKLTKEEEE+ +K EEKRK++  AK++EQ RLEE AKA+EA+ERKK+  EKA+ R
Sbjct: 994  EEEEPPKLTKEEEELIKKEEEKRKQKEAAKMKEQHRLEEIAKAKEAMERKKKREEKAKAR 1053

Query: 1092 AALRAQ 1097
            + L+AQ
Sbjct: 1054 SVLKAQ 1059

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357438817|ref|XP_003589685.1| hypothetical protein MTR_1g035040 [Medicago truncatula] gi|355478733|gb|AES59936.1| hypothetical protein MTR_1g035040 [Medicago truncatula]

 Score =  398 bits (1023), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 231/483 (47%), Positives = 337/483 (69%), Gaps = 16/483 (3%)

Query: 631  GSTVDASESRNIGVEVVKQPFYFLVKVPRYDDE-NLREQIKAAQSKVDEKTRSRDAIRDD 689
             S  D  +++++G EVV++PFY+LV+VPRYDD+ N++EQI+ A  +V+E+T+ RD IR +
Sbjct: 691  ASATDVVDAQDMGSEVVRRPFYWLVRVPRYDDDDNVKEQIQHALQQVEEQTKIRDEIRTE 750

Query: 690  IQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIR 749
             Q  +A  KEY ++  AA+ +ER+ARE LK+KRQE+DSVQS +N + NAISV DID  IR
Sbjct: 751  SQAKKALRKEYNQEFRAAVQEERAARELLKAKRQEMDSVQSTMNRLNNAISVGDIDSKIR 810

Query: 750  NMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEE---KM 806
            NMEH I HETLPLKEEKQ+IR+IK LKQ R ++S+ I + D+ Q + D K+ +EE   ++
Sbjct: 811  NMEHMIQHETLPLKEEKQLIRQIKLLKQNRGELSNIIAKQDQSQ-SLDDKESMEEQTKRL 869

Query: 807  KFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLK 866
            + LRKE D LR N++KAEA T+A KK + EE  ++  ++ ++ AAD+ RQEA+   Q+LK
Sbjct: 870  QLLRKELDVLRSNLLKAEAITKAAKKKYEEEGNQVDEVMARYNAADDTRQEAFVKLQTLK 929

Query: 867  KQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNS 926
            +Q ++K+++FW+Y+  + +  +L ++G +E ++ LC++Q ER+ EL   NDEFRK+Y   
Sbjct: 930  RQLHEKSKYFWEYRSASMRLQELGAQGKKEDVERLCIDQAERMHELL-KNDEFRKDYYRC 988

Query: 927  NIRSTLRRLKTLDGRSLGPDEEAPLIRPFLNDRVAKNISLTQISALEREKTEQVVPIKSE 986
            N RST+RRL+TLDGR+L P EE P+I  F+ +R  KN S    S  E++K  + +P +  
Sbjct: 989  NTRSTVRRLQTLDGRTLNPGEEPPMIPAFI-ERAYKNDSSVSQSTPEQQK--KSIPTEPV 1045

Query: 987  KVD--DKPFPEVREQGDQIAKFKKPEKPSRA----ENVSTTVSGRDDEIEEAKE-EVPKL 1039
             V+  D+P  +   Q  +I++  KP+KP++     +  +  VS   DE +E KE   P  
Sbjct: 1046 TVNTKDEPASKAVVQKPEISQTSKPKKPAKLAPSEKKSADRVSRWGDESDEEKEPNEPVR 1105

Query: 1040 TKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKRIAEKAQTRAALRAQKE 1099
            TKEE+E   KAE+ RK+E  AKL+E++RLEE  KA+EAL+RKKR AEKAQ RA  +AQKE
Sbjct: 1106 TKEEDEQILKAEQARKKEEEAKLKEKKRLEEIEKAKEALQRKKRNAEKAQQRALYKAQKE 1165

Query: 1100 AEQ 1102
            AEQ
Sbjct: 1166 AEQ 1168

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	1113
TAIR|locus:2037365	1364	AT1G20970 "AT1G20970" [Arabido	0.397	0.324	0.480	5.1e-114
TAIR|locus:2124019	612	PPI1 "proton pump interactor 1	0.394	0.717	0.237	7.8e-28
TAIR|locus:2087115	589	PPI2 "proton pump interactor 2	0.280	0.529	0.215	9.1e-14
UNIPROTKB|Q8IIG7	1070	PF11_0207 "Uncharacterized pro	0.285	0.297	0.194	6e-12
TAIR|locus:504955937	734	AT2G22795 "AT2G22795" [Arabido	0.545	0.826	0.217	1e-11
TAIR|locus:2147366	576	AT5G36690 "AT5G36690" [Arabido	0.319	0.618	0.214	3e-09
TAIR|locus:2149084	576	AT5G36780 "AT5G36780" [Arabido	0.319	0.618	0.214	3e-09
DICTYBASE|DDB_G0271058	1528	vilC "villin-like protein C" [	0.381	0.278	0.207	7.9e-09
TAIR|locus:2098443	2081	AT3G28770 "AT3G28770" [Arabido	0.709	0.379	0.195	1.1e-08
UNIPROTKB|Q9X0R4	1170	smc "Chromosome partition prot	0.307	0.292	0.225	1.7e-08

TAIR|locus:2037365 AT1G20970 "AT1G20970" [Arabidopsis thaliana (taxid:3702)]

 Score = 1000 (357.1 bits), Expect = 5.1e-114, Sum P(3) = 5.1e-114
 Identities = 221/460 (48%), Positives = 309/460 (67%)

Query:   587 KTCPEVKENRGIQLT-----GGED--GDRTFQDVEG--IERSDRCETQTSTPEGSTVDAS 637
             KTC +  E++ +  T     G +D    +  ++ EG  ++R+D  +   ST E S +DAS
Sbjct:   713 KTCAQDLESKVVTSTDTIHTGAKDCVDSQPAENKEGNVVDRTD--DKVASTGEVSVLDAS 770

Query:   638 ESRNIGVEVVKQPFYFLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASY 697
             E   +  E+ K+PFYFL +VPRYDDE L EQ+K A+ +VD+KT++RDA+R DIQ IRA  
Sbjct:   771 EGLTVAAEIEKRPFYFLPRVPRYDDEKLAEQLKHAEEQVDQKTQNRDALRADIQKIRAIC 830

Query:   698 KEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAH 757
             K+Y    +A +++ERSAR+++ SKRQEI+++QS I+ +K+A SVDDID  +RNMEH + H
Sbjct:   831 KDYDISYKAVMAEERSARKAMHSKRQEIEALQSMISRVKSAASVDDIDSRVRNMEHTMQH 890

Query:   758 ETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLR 817
              TL L EEK  +REIKQLKQ REQISSS+G  DEV+ A D+K++ EE++K LRKE D+LR
Sbjct:   891 TTLSLNEEKGFMREIKQLKQLREQISSSMGTKDEVKQALDEKEKTEERLKVLRKELDALR 950

Query:   818 ENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFW 877
              ++ KAE  T+A KK    E E   +L  QF+AAD +RQEA+ H Q LKKQ  +KN++F+
Sbjct:   951 NDLSKAEEITKAAKKKCDGEWEAQSKLQEQFRAADAVRQEAFVHLQDLKKQQREKNKYFF 1010

Query:   878 KYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLKT 937
             KY+D+++ A+++A K DR ALQ LC +QVE  + +WNN+DEFRK YV SN RST RRL T
Sbjct:  1011 KYRDNSRAASEMALKKDRAALQSLCSDQVENFMNMWNNDDEFRKYYVKSNTRSTFRRLGT 1070

Query:   938 LDGRSLGPDEEAPLIR--PFLNDRVAKNISLTQISALEREKTEQVVPIKSEKVDD--KPF 993
             LDGRSLGPDEE P I   P  +     +    +  A+  +K E+VV  +  KV++  K  
Sbjct:  1071 LDGRSLGPDEEPPRITYAPRTDKLRTSSDRAEKHEAVPAQK-EKVVKFEGSKVENNGKEV 1129

Query:   994 PEVREQGDQIAKFKKPEKPSRAENVSTT-VSGRDDEIEEA 1032
              +  EQ  Q  K KK  KP +  ++ T  VSG++ EIE++
Sbjct:  1130 AKPTEQKSQTTKSKKAVKPDQPPSIVTELVSGKE-EIEKS 1168

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0005773 "vacuole" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005829 "cytosol" evidence=RCA

TAIR|locus:2124019 PPI1 "proton pump interactor 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 343 (125.8 bits), Expect = 7.8e-28, P = 7.8e-28
 Identities = 112/471 (23%), Positives = 216/471 (45%)

Query:   570 KVVVNGGIKFTSEEQNDKTCPEVKENRGIQLTGGEDGDRTFQDVEGIERSDRCETQTSTP 629
             +VV +GG +        K  PE  +N  +    G+D    F  V  + ++          
Sbjct:     4 EVVNSGGFEVAPAPFEGK--PE--KNGKLDQGKGDDAPINFGSVGELPKNAEENNNKVVN 59

Query:   630 EGSTVDASESRNIGVEVVKQPFYFLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDD 689
               +  +A+E   +  ++    FY LVK   Y D  ++ ++  A  ++++  ++R  + D 
Sbjct:    60 SDAPKNAAEEWPVAKQI--HSFY-LVKYRSYADPKIKAKLDLADKELEKLNKARTGVLDK 116

Query:   690 IQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKN---------AI- 739
             ++  RA   E  + L+   S+ +        KR+E++ +Q  +  +++         AI 
Sbjct:   117 LRAKRAERSELFDLLDPLKSERKGFNTMFDEKRKEMEPLQQALGKLRSNDGGSARGPAIC 176

Query:   740 -SVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQ 798
              S ++++  I + ++RI HE++PL EEKQI++EI+ L+  R+++ ++     +++ +  Q
Sbjct:   177 SSEEELNSMIYSYQYRIQHESIPLTEEKQILKEIRLLEGTRDKVIANAAMRAKIKESMGQ 236

Query:   799 KDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEA 858
             KD I+ ++K +    D +++      A    + +  +   +++  L  + K   E R +A
Sbjct:   237 KDDIQGQVKLMGAGLDGVKKERQAISARINELSEKLKATKDEITVLENELKTVSEKRDKA 296

Query:   859 YKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDE 918
             Y +   L++Q  + N  +++ +    +A DLA++ +   L+ L   +VE+ + LW +   
Sbjct:   297 YSNIHDLRRQRDETNSEYYQNRTVLNKARDLAAQKNISELEALANAEVEKFISLWCSKKN 356

Query:   919 FRKEYVNSNIRSTLRRLKTLDGRSLGPDEEAPLIRPFLNDRVAKNISLTQISALEREKTE 978
             FR++Y    ++S   R  + DGR   PDE+ PLI P      A +       A   E TE
Sbjct:   357 FREDYEKRILQSLDSRQLSRDGRMRNPDEK-PLIAP----EAAPS------KATPSE-TE 404

Query:   979 QVVPIKSEKVDDKPFPEVREQGDQIAKFKKPEKPSRAENVSTTVSGRDDEI 1029
              VVP    K   K  P    + D     +  EK   A  V       DDE+
Sbjct:   405 -VVPKAKAKPQPKEEPVSAPKPDATVA-QNTEKAKDAVKVKNVADDDDDEV 453

GO:0005737 "cytoplasm" evidence=ISM

GO:0005515 "protein binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IDA

GO:0010155 "regulation of proton transport" evidence=IDA;TAS

GO:0005783 "endoplasmic reticulum" evidence=IDA

GO:0005789 "endoplasmic reticulum membrane" evidence=IDA

GO:0005829 "cytosol" evidence=RCA

GO:0009506 "plasmodesma" evidence=IDA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0006820 "anion transport" evidence=RCA

GO:0006862 "nucleotide transport" evidence=RCA

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=RCA

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

GO:0015696 "ammonium transport" evidence=RCA

GO:0015802 "basic amino acid transport" evidence=RCA

GO:0043069 "negative regulation of programmed cell death" evidence=RCA

GO:0043090 "amino acid import" evidence=RCA

GO:0043269 "regulation of ion transport" evidence=RCA

TAIR|locus:2087115 PPI2 "proton pump interactor 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 197 (74.4 bits), Expect = 9.1e-14, Sum P(2) = 9.1e-14
 Identities = 73/338 (21%), Positives = 155/338 (45%)

Query:   622 CETQTSTPEGSTVDASESRNIGVEVV----KQPF-YFLVKVPRYDDENLREQIKAAQSKV 676
             C+  T T E  TV + +S   G        ++PF ++ VK P YDD  ++ +I  A  ++
Sbjct:    34 CDVSTVTTEDGTVFSGDSSPGGATEEDFPEEKPFSFYFVKQPAYDDPEIKAKIDEAGHEI 93

Query:   677 DEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMK 736
             +   + R  + +  ++ +A       ++++ +S     R  ++ K+ E D++   +  ++
Sbjct:    94 NRYNKDRIVVSNAQESEKAEILSLFGQMKSLVSKSEGYRVVIEEKKMEFDALHESLRNLR 153

Query:   737 NA------ISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHD 790
              +       S +++D  I    ++I H ++  +EE  +++E     ++ + I  S     
Sbjct:   154 CSTSDQLCFSKEELDHLIYIAHYQIEHGSIGFEEEDWVLKET----EKADGIVLSEDSLA 209

Query:   791 EVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKA 850
             E + + ++   +  ++  ++KE D++     K    +  V K     S+   R+L   KA
Sbjct:   210 EKEASINRVKSMAVELNEVKKELDAI---TWKINHLSDKVGK-----SQNNLRVLDVKKA 261

Query:   851 AD-EIRQEAYKHWQSLKKQAYDKNQH-FWKYKDDTKQANDLASKGDREALQHLCVNQVER 908
                E R  +Y+  + L+ Q  DK +  F++     ++A +LA+ G+   L+    ++ +R
Sbjct:   262 HILEERDRSYERIKMLRIQR-DKGKAAFYQSLPVMRKARELAASGNVRDLEVFASSEADR 320

Query:   909 VLELWNNNDEFRKEYVNSNIRSTLRRLKTLDGRSLGPD 946
              +  WN++  FR +YV     S   R    DGR   P+
Sbjct:   321 FMTQWNDDKAFRDDYVKRISPSLCERQLNQDGRIKDPE 358

GO:0005737 "cytoplasm" evidence=ISM

GO:0010155 "regulation of proton transport" evidence=ISS

UNIPROTKB|Q8IIG7 PF11_0207 "Uncharacterized protein PF11_0207" [Plasmodium falciparum 3D7 (taxid:36329)]

 Score = 196 (74.1 bits), Expect = 6.0e-12, Sum P(2) = 6.0e-12
 Identities = 66/339 (19%), Positives = 168/339 (49%)

Query:   663 ENLREQIKAAQSKVDEKTRSR-DAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSK 721
             E ++E+IK  + ++ E+ +     ++++I+ ++   KE  E+++  + +E   +E +K  
Sbjct:   520 EEIKEEIKEVKEEIKEEIKEEIKEVKEEIKEVKEEIKEVKEEIKE-VKEE--IKEEIKEV 576

Query:   722 RQEI-DSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEE-KQIIREIKQ-LKQR 778
             ++EI + ++  I  +K  I  +++   I+ ++  I      +KEE K+ I+E+K+ +K+ 
Sbjct:   577 KEEIKEEIKEEIKEVKEEIK-EEVKEEIKEVKEEIKEVKEEIKEEVKEEIKEVKEEIKEV 635

Query:   779 REQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREES 838
             +E+I   I E  E ++  + K++I+E++K +++E     +N I +E   +     H++E 
Sbjct:   636 KEEIKEEIKEVKE-EIKEEVKEEIKEEIKEIKEEL----KNDISSETTKEEKNTEHKKEE 690

Query:   839 EKLKRLLGQ--FKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDL----ASK 892
              + K+ + +       E++++  ++ + L++Q  ++       +  T+  +      A  
Sbjct:   691 TEKKKFIPKRVIMYQQELKEKEERNLKLLEQQRKEREMRLQLIRSKTQGTSSTFIPSAKL 750

Query:   893 GDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTLDGRSLGPDEEAPLI 952
                E+L+     +V+  ++  +NN+       N+N  + L+  K  +   +   +++  +
Sbjct:   751 KHLESLKEEKKKEVKTNIQPKDNNNNNNNNNNNNNNIAVLKNNKNEEQNVI--KKKSIFL 808

Query:   953 RPFLNDRVAKNISLTQISALEREKTEQVVPIKSEKVDDK 991
                     AK +  T I  + ++K E++   + EK+  K
Sbjct:   809 EIAEKTENAKIVEKTDIEEIAKKKREELYKKQLEKITKK 847

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0005737 "cytoplasm" evidence=NAS

GO:0016020 "membrane" evidence=NAS

TAIR|locus:504955937 AT2G22795 "AT2G22795" [Arabidopsis thaliana (taxid:3702)]

 Score = 197 (74.4 bits), Expect = 1.0e-11, P = 1.0e-11
 Identities = 146/671 (21%), Positives = 265/671 (39%)

Query:   197 VAVAGVD--LQLGMQIVRGSVTVESERGLDAGHCQYGVSETVVDDLVDPSQETAELDKPS 254
             + V GVD  ++LG + +   V VE +   D G      S+ VV+     + +    DK +
Sbjct:    53 IVVGGVDKVVKLGRKDLIPRV-VEVDEAEDEG------SKNVVESFNSGNGD----DKEN 101

Query:   255 GVAESFPFQIDPENLPVESLKTDPDVALNVSDTTAKPDVDFRDSVVTESSPSGE-VDDME 313
              + E      + E+   E + ++ D    + +      V+  +S V E   +G   ++ E
Sbjct:   102 EIVEGGEENKEKES---EGIVSNEDSNSEIEEKKDSGGVE--ESEVEEKRDNGGGTEENE 156

Query:   314 R----DNEVGKLNVGSG-KSSDSHPVDDAHVNE-VGNGPVRDDLVSVFHNSDAKSETETG 367
             +    ++EV +     G + ++    +++ V E   NG   ++  S    S+ +   E G
Sbjct:   157 KSGTEESEVEERKDNGGTEENEKSGTEESEVEERKDNGGTEENEKSGTEESEVEERKENG 216

Query:   368 FDSVDAEEKVSILASDDQRTEPEVLQGGIDGVDERSISVDNAAVESCTSESVYEESTADV 427
                 +  EK     S++   E +   GG +   E+S   + + VE        EES  + 
Sbjct:   217 --GTEENEKSG---SEESEVEEKKDNGGTEESREKS-GTEESEVEEKKDNGSSEESEVEE 270

Query:   428 KAECE-IENAYVLSFRDVPGNEALXXXXXXXXXXXXXIPEDVNVENVGIQHAGGEKDDHR 486
             K E   I+ +     +D+     +               +D + E V   H   EK    
Sbjct:   271 KKENRGIDESEESKEKDIDEKANIEEARENNYKG-----DDASSEVV---HESEEKTSES 322

Query:   487 SKXXXXXXXXXXXXXXSDDLVCKEVLENARIQFTGGGSDDQAHKEVKEKGGIQFTSGE-- 544
                              +D V K VL N     T  G      K      G +  S E  
Sbjct:   323 ENSEKVEDKSGIKTEEVEDSVIKSVLPNT----TDNGESSSDEKSTGSSSGHESDSLEGI 378

Query:   545 -SDDKTFQEVEGIQ---STDGGTDDKTCKKVVV-NGGIKFTSE-EQNDKTCPEVKENRGI 598
              S+ ++ ++ E ++   +   G    T K     +GG + TSE    +++  +  E +  
Sbjct:   379 KSEGESMEKNELLEKEFNDSNGESSVTGKSTGSGDGGSQETSEVSSQEESKGKESETKDK 438

Query:   599 QLTGG--EDGDRTFQDVEGIERSDRCETQTSTPEGST-VDAS-ESRNIGVEVVKQPFYFL 654
             + +    E  DR  +  E  E S + ET     E    V++S + +N   E  K    FL
Sbjct:   439 EESSSQEESKDRETETKEKEESSSQEETMDKETEAKEKVESSSQEKNEDKETEKIESSFL 498

Query:   655 VKVPRYDDENLREQIKAAQSKVDEK-TRSRDAIRDDIQT-IRASYKEYAEKLEAAISDER 712
              +    +DE   ++  ++Q K +EK T ++D      Q   +    E  EK EA+ S E 
Sbjct:   499 EETKEKEDETKEKEESSSQEKTEEKETETKDNEESSSQEETKDKENEKIEKEEAS-SQEE 557

Query:   713 SARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREI 772
             S     ++K +E  S Q      +N   ++  + + +       +E +  KEE     E 
Sbjct:   558 SKENETETKEKEESSSQEETKEKENE-KIEKEESAPQEETKEKENEKIE-KEESASQEET 615

Query:   773 KQLK-QRREQISSSIGEHDE-VQLAFDQKDQIEEKMKFLRKE-ADSLRENVIKAEAATQA 829
             K+ + + +E+  SS  E  E V    ++K+Q+EE  K   ++ ++S +EN +      Q+
Sbjct:   616 KEKETETKEKEESSSNESQENVNTESEKKEQVEENEKKTDEDTSESSKENSVSDTEQKQS 675

Query:   830 VKKLHREESEK 840
              +   +EES K
Sbjct:   676 EETSEKEESNK 686

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0005768 "endosome" evidence=IDA

GO:0005802 "trans-Golgi network" evidence=IDA

TAIR|locus:2147366 AT5G36690 "AT5G36690" [Arabidopsis thaliana (taxid:3702)]

 Score = 155 (59.6 bits), Expect = 3.0e-09, Sum P(2) = 3.0e-09
 Identities = 84/391 (21%), Positives = 163/391 (41%)

Query:   652 YFLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDE 711
             +++VK P YD+  ++ +I  A  ++      R  +    ++  A       ++E+ +   
Sbjct:    69 FYIVKQPVYDNPEIKAKIDEANQEIFRCNELRINVLSAKKSELAEVSSLYTQMESLVPQS 128

Query:   712 RSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIRE 771
                R  ++ K++E D++                  ++RN+    + +    KEE   +  
Sbjct:   129 EGYRMVIEEKKKEFDTLLE----------------ALRNLRCTTSDQLCFTKEELDHLSY 172

Query:   772 IKQLKQRREQISSSIGEHDEVQLAFDQKDQI---EEKMKFLRKEADSLRENVIKAE--AA 826
             I Q +   E  S  + E D +    ++ D I   E++    R ++ +L  N +K E  A 
Sbjct:   173 IAQYQI--EYGSIGLEEEDWMLKETEKPDGIILSEKEASINRVKSMALELNEVKNELDAI 230

Query:   827 TQAVKKLHRE--ESEKLKRLLGQFKAAD-EIRQEAYKHWQSLKKQAYDKNQHFWKYKDDT 883
             T  +  L  +  +S+   R+L   KA   E R   Y   + L+ Q    N  F++     
Sbjct:   231 TWKINDLSDKLWKSQNNIRVLDLEKAHILEKRDRFYARIKMLRIQRDKGNAAFFQSLSVM 290

Query:   884 KQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTLDGRSL 943
              +A +LA+ G+   L+    ++V+R + LWN++  FR++YV     S   R    DGR  
Sbjct:   291 CKAKELAASGNVRELEVFASSEVDRFMTLWNDDKAFREDYVRRISHSLCERELNEDGRIK 350

Query:   944 GPDEEAPLIRPFLNDRV-AKNISLTQ-ISALEREKTEQVVPIKSEKVDDKPFPEVREQGD 1001
               D     ++ F   +V  K I  ++ +  + RE +          + DK   E +   D
Sbjct:   351 DAD-----LQIFWEKKVPVKTIKRSEKVHKMNREDSSSNSSEDGNVITDKRKKETKS--D 403

Query:  1002 QIAKFKKPEKPSRAENVSTTVSGRDDEIEEA 1032
              I   K  +K    +  +     R++++E+A
Sbjct:   404 VIVYEKPKKKEEEIDEEALKERKREEQLEKA 434

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2149084 AT5G36780 "AT5G36780" [Arabidopsis thaliana (taxid:3702)]

 Score = 155 (59.6 bits), Expect = 3.0e-09, Sum P(2) = 3.0e-09
 Identities = 84/391 (21%), Positives = 163/391 (41%)

Query:   652 YFLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDE 711
             +++VK P YD+  ++ +I  A  ++      R  +    ++  A       ++E+ +   
Sbjct:    69 FYIVKQPVYDNPEIKAKIDEANQEIFRCNELRINVLSAKKSELAEVSSLYTQMESLVPQS 128

Query:   712 RSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIRE 771
                R  ++ K++E D++                  ++RN+    + +    KEE   +  
Sbjct:   129 EGYRMVIEEKKKEFDTLLE----------------ALRNLRCTTSDQLCFTKEELDHLSY 172

Query:   772 IKQLKQRREQISSSIGEHDEVQLAFDQKDQI---EEKMKFLRKEADSLRENVIKAE--AA 826
             I Q +   E  S  + E D +    ++ D I   E++    R ++ +L  N +K E  A 
Sbjct:   173 IAQYQI--EYGSIGLEEEDWMLKETEKPDGIILSEKEASINRVKSMALELNEVKNELDAI 230

Query:   827 TQAVKKLHRE--ESEKLKRLLGQFKAAD-EIRQEAYKHWQSLKKQAYDKNQHFWKYKDDT 883
             T  +  L  +  +S+   R+L   KA   E R   Y   + L+ Q    N  F++     
Sbjct:   231 TWKINDLSDKLWKSQNNIRVLDLEKAHILEKRDRFYARIKMLRIQRDKGNAAFFQSLSVM 290

Query:   884 KQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTLDGRSL 943
              +A +LA+ G+   L+    ++V+R + LWN++  FR++YV     S   R    DGR  
Sbjct:   291 CKAKELAASGNVRELEVFASSEVDRFMTLWNDDKAFREDYVRRISHSLCERELNEDGRIK 350

Query:   944 GPDEEAPLIRPFLNDRV-AKNISLTQ-ISALEREKTEQVVPIKSEKVDDKPFPEVREQGD 1001
               D     ++ F   +V  K I  ++ +  + RE +          + DK   E +   D
Sbjct:   351 DAD-----LQIFWEKKVPVKTIKRSEKVHKMNREDSSSNSSEDGNVITDKRKKETKS--D 403

Query:  1002 QIAKFKKPEKPSRAENVSTTVSGRDDEIEEA 1032
              I   K  +K    +  +     R++++E+A
Sbjct:   404 VIVYEKPKKKEEEIDEEALKERKREEQLEKA 434

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

DICTYBASE|DDB_G0271058 vilC "villin-like protein C" [Dictyostelium discoideum (taxid:44689)]

 Score = 174 (66.3 bits), Expect = 7.9e-09, P = 7.9e-09
 Identities = 94/454 (20%), Positives = 203/454 (44%)

Query:   577 IKFTSEEQNDKTCPEVKENRGIQLTGGEDGDRTFQDVEGIERSDRCETQTSTPEGSTVDA 636
             I+   +E+N+K   E KE    +LT  ++ +   +  + +E+ +R E + +         
Sbjct:   194 IEKLKQEENEKLEKEEKERIEKELTDKKEKEEK-ELADKLEK-ERQEKELADKLEKEKKE 251

Query:   637 SESRNIGVEVVKQPFYFLVKVPRYDDEN-LREQI-KAAQSK-VDEKTRSRDAIRDDIQTI 693
              E + +  ++ K+    L K  +  +E  L +++ K +Q K + EK      + D ++  
Sbjct:   252 KEEKELADKLEKER---LDKEKKDKEEKELADKLEKESQEKELAEKLEKEKELADKLEKE 308

Query:   694 RASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEH 753
             +   KE  E+ E  ++D+ +  +  K +++  D ++      + A   D ++      E 
Sbjct:   309 QKE-KEEKERQEKELADKLAKEQKEKEEKELADKLEKERQEKELA---DKLEKE--KQEK 362

Query:   754 RIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEA 813
              +A +    K+EK+ + ++++ KQ +E       E  E +    +K++ EEK K   KE 
Sbjct:   363 ELADKLEKEKQEKESLEKLEKEKQEKELADKLAKEQKEKE----EKEEKEEKEK-QEKEE 417

Query:   814 DSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKN 873
                ++  + A AA    +KL +E  EK K+ L + + A+++ +E  +   + K +   K 
Sbjct:   418 KERKDKELAAAAAAAETEKLEKERLEKEKKELEEKELAEKLEKEKLEKELTDKLEKEKKE 477

Query:   874 QHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTL- 932
             +      +  KQ  +LA K ++E  +     + E+ L      ++  KE  +   +    
Sbjct:   478 KELADKLEKEKQDKELADKLEKEQKEKEEKQRKEKELADKLEKEKQDKELADKLAKEKEE 537

Query:   933 --RRLKTLDGRSLGPDEEAPLIRPFLNDRVAKNISLTQISA-LEREKTEQVVPIKSEKVD 989
               R+ K L  +     ++  L      ++  K+    +    LE+E+ E+ + +K E+  
Sbjct:   538 KERKEKELADKLEKEKKDKELADKVTKEKEEKDKKEKEFKLKLEKEQKEKELKLKQER-- 595

Query:   990 DKPFPEVREQGDQIAKFKKPEKPSRAENVSTTVS 1023
                F E +E+ D++ + +K  K    E  S+T++
Sbjct:   596 --EFAE-KEERDRLER-EKISKSIEKETKSSTIT 625

GO:0007010 "cytoskeleton organization" evidence=IEA

GO:0003779 "actin binding" evidence=IEA

TAIR|locus:2098443 AT3G28770 "AT3G28770" [Arabidopsis thaliana (taxid:3702)]

 Score = 174 (66.3 bits), Expect = 1.1e-08, P = 1.1e-08
 Identities = 166/851 (19%), Positives = 326/851 (38%)

Query:   218 ESERGLDAGHCQYGVSETVVDDLVDPSQETAELDKPSGVAESFPFQIDPENLPVESLKTD 277
             ES +G +  + + G  E++  + ++      EL   + V      +   E    ES +++
Sbjct:   429 ESVKGENLEN-KAGNEESMKGENLENKVGNEELKGNASVEAKTNNESSKEEKREESQRSN 487

Query:   278 PDVALNVSDTTAKPDVDFRDSVVTESSPSGEVDDMERDNEVGKLNVGSGKSS-DSHPVDD 336
              +V +N  +TT   +V+ +   + +S+    +++ E        N   G S+ + H   +
Sbjct:   488 -EVYMN-KETTKGENVNIQGESIGDSTKDNSLENKEDVKPKVDANESDGNSTKERH--QE 543

Query:   337 AHVNE-VGNGPVRDDLVSVFHN--SDAKSETETGFDSVDAEEKVSILASDDQRTEPEVLQ 393
             A VN  V       D +       +D   E  T       E++     ++ +  + E L+
Sbjct:   544 AQVNNGVSTEDKNLDNIGADEQKKNDKSVEVTTNDGDHTKEKREETQGNNGESVKNENLE 603

Query:   394 GGIDGVDERSISVDNAAVESCTSESVYEESTADV-KAECEIENAYVLSFR--DVPGN-EA 449
                +  D++ +  D +      +E+  EE      K      N+ ++  +  +   N E 
Sbjct:   604 ---NKEDKKELKDDESVGAKTNNETSLEEKREQTQKGHDNSINSKIVDNKGGNADSNKEK 660

Query:   450 LXXXXXXXXXXXXXIPEDVNVE-----NVGIQHAGGE-KDDHRSKXXXXXXXXXXXXXXS 503
                             ED   E     N G    G E K++++                S
Sbjct:   661 EVHVGDSTNDNNMESKEDTKSEVEVKKNDGSSEKGEEGKENNKDSMEDKKLENKESQTDS 720

Query:   504 -DDLVCKEVLENARIQFTGGGSDDQA------HKEVKEKGGIQFTSGESDDKTFQEVEG- 555
              DD    +  E A+I + G   DD++       KE KE    +       +K  + V+G 
Sbjct:   721 KDDKSVDDKQEEAQI-YGGESKDDKSVEAKGKKKESKENKKTKTNENRVRNKE-ENVQGN 778

Query:   556 ---IQSTDGGT--DDKTCKKVVVNGGIKFTSEEQNDKTCPEVKENRGIQLTGGEDGDRTF 610
                 +  + G   + K  K V      K +S E  D    E KE  G      ++  + +
Sbjct:   779 KKESEKVEKGEKKESKDAKSVETKDNKKLSSTENRD----EAKERSGEDNKEDKEESKDY 834

Query:   611 QDVEGIERSDR--CETQTSTPEGSTVDASESRNIGVEVVKQPFYFLVK--VPRYDDENLR 666
             Q VE  E+++    +T     E S  D  + R++ V+  K+      +  V R D  + +
Sbjct:   835 QSVEAKEKNENGGVDTNVGNKEDSK-DLKDDRSVEVKANKEESMKKKREEVQRNDKSSTK 893

Query:   667 EQIKAAQSK-VDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEI 725
             E    A +  +D +  S ++++      +   KE   K     S ++  ++  K K++  
Sbjct:   894 EVRDFANNMDIDVQKGSGESVKYKKDEKKEGNKE-ENKDTINTSSKQKGKDKKKKKKESK 952

Query:   726 DSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSS 785
             +S   +    K     +++     N +     E   LKEE +  +E K+ +    + +  
Sbjct:   953 NSNMKKKEEDKKEYVNNELKKQEDNKKETTKSENSKLKEENKDNKEKKESEDSASK-NRE 1011

Query:   786 IGEHDEVQLAFDQKDQIEEKMKF--LRKEADSLRENVIKAEAATQAVKKLHREESEKLKR 843
               E++E +    ++ + E+K      R+E DS      K +  ++ +K   +EE  K K+
Sbjct:  1012 KKEYEEKKSKTKEEAKKEKKKSQDKKREEKDSEERKSKKEKEESRDLKAKKKEEETKEKK 1071

Query:   844 LLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCV 903
                  K+  +  ++ ++  +S+KK+  DK +   K  +++K       K D E L+    
Sbjct:  1072 ESENHKSKKKEDKKEHEDNKSMKKEE-DKKEK--KKHEESKSRKKEEDKKDMEKLEDQNS 1128

Query:   904 NQVERVLELWNNNDEFRKEYVNS-NIRSTLRRLKTLDGRSLGPDEEAPLIRPFLNDRVAK 962
             N+ +      + N++ + ++V      S  +  K  + +S   + E+   +    D+  K
Sbjct:  1129 NKKKE-----DKNEKKKSQHVKLVKKESDKKEKKENEEKSETKEIESSKSQKNEVDKKEK 1183

Query:   963 NISLTQISALERE-KTEQVVPIKSEKVDDKPFPEVREQGDQIAKFKKPEKPSRAENVSTT 1021
               S  Q    E+E K  +   +K  + D K    V E   Q    K+  KP   +  +T 
Sbjct:  1184 KSSKDQQKKKEKEMKESEEKKLKKNEEDRKKQTSVEENKKQKETKKEKNKPKDDKKNTTK 1243

Query:  1022 VSGRDDEIEEA 1032
              SG   E  E+
Sbjct:  1244 QSGGKKESMES 1254

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009827 "plant-type cell wall modification" evidence=RCA

GO:0009860 "pollen tube growth" evidence=RCA

UNIPROTKB|Q9X0R4 smc "Chromosome partition protein Smc" [Thermotoga maritima MSB8 (taxid:243274)]

 Score = 181 (68.8 bits), Expect = 1.7e-08, Sum P(2) = 1.7e-08
 Identities = 84/372 (22%), Positives = 173/372 (46%)

Query:   666 REQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDE--RSARESLKSKRQ 723
             R ++K  + +++E  R     RD++ +++   +E  +  EA +  E    +R+S  S + 
Sbjct:   668 RIKLKHLEQEMEETERQIAEKRDELASLKTE-QENLKNQEALVQRELFELSRKS-SSTKT 725

Query:   724 EIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQIS 783
              +  +   IN ++    V++++  +  +E+R   E L  + EK I  EI +LKQ RE + 
Sbjct:   726 VLSEILRSINQLQE--EVENLEKLL--VEYRAKEEGLNARREK-IFEEIDELKQNRENLQ 780

Query:   784 SSIGEHDEVQLAFDQK--DQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKL 841
              S+ E+ E +L  ++K  D++ EK+  LR E  +L E   + E   +   K+     E++
Sbjct:   781 RSLTEYSE-ELEKEKKILDELNEKIFTLRAEVGNLLETKDRYEKEMRDTGKM----IERI 835

Query:   842 KRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHL 901
              R     K      +E  ++++   ++   + +H  K  D   +A  L   G  E ++ L
Sbjct:   836 ARETEDIKLQMTSLEEEMENYRKFIREHEREIEHLKKEMDSVFEAMKLHRSGKEEKMREL 895

Query:   902 CVNQVE-RVLELWNNNDEFRKEY--VNSNIRSTLRRLKTLDGRSLGPDEEAPLIRPFLND 958
                +VE R+ EL    +  R     ++  ++ T  ++  L     G +E+       L++
Sbjct:   896 --QEVENRMDELKEEKERLRNHLHQIDLALQETRLKIANLLEEFSGNEEDVEE----LDE 949

Query:   959 RVAKNISLTQISALEREKTEQVVPIKSEKVDDKPFPEVREQGDQIAKFKKPEKPSRAENV 1018
                + I   QI  LE  K + + P+    +D+  + ++RE+ ++I K K+  + ++ + +
Sbjct:   950 EKLEEI-YRQIKDLEN-KIKYLGPVDLTAIDE--YEKLREEYEEILKQKEDLEEAKRK-L 1004

Query:  1019 STTVSGRDDEIE 1030
                +   D E E
Sbjct:  1005 EEIIEKTDREAE 1016

GO:0042802 "identical protein binding" evidence=IPI

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00002957001 SubName- Full=Chromosome chr18 scaffold_137, whole genome shotgun sequence; (662 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	1113
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-08
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-08
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	4e-08
TIGR02794	346	TIGR02794, tolA_full, TolA protein	1e-07
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-07
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	5e-07
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	8e-07
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-06
COG1340	294	COG1340, COG1340, Uncharacterized archaeal coiled-	3e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	5e-06
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	5e-06
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	5e-06
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	1e-05
TIGR02794	346	TIGR02794, tolA_full, TolA protein	2e-05
TIGR02794	346	TIGR02794, tolA_full, TolA protein	4e-05
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	4e-05
pfam07946	322	pfam07946, DUF1682, Protein of unknown function (D	5e-05
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	6e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	8e-05
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	1e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	3e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	4e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	4e-04
pfam07946	322	pfam07946, DUF1682, Protein of unknown function (D	4e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	5e-04
pfam09726	680	pfam09726, Macoilin, Transmembrane protein	7e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	0.001
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	0.002
PRK00409	782	PRK00409, PRK00409, recombination and DNA strand e	0.002
PLN02316	1036	PLN02316, PLN02316, synthase/transferase	0.002
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.003
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.003
PRK00409	782	PRK00409, PRK00409, recombination and DNA strand e	0.003
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.004

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 58.6 bits (142), Expect = 2e-08
 Identities = 39/234 (16%), Positives = 108/234 (46%), Gaps = 7/234 (2%)

Query: 663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKR 722
           E L E++   + +++E     +    +I+ +++  +E  E+LE    +    +E ++   
Sbjct: 242 EELEEELSRLEEELEELQEELEEAEKEIEELKSELEELREELEELQEELLELKEEIEELE 301

Query: 723 QEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQI 782
            EI  ++ R+  ++N +  ++++  +  ++ +I        EE++ + E  +L+Q   ++
Sbjct: 302 GEISLLRERLEELENEL--EELEERLEELKEKIE-ALKEELEERETLLE--ELEQLLAEL 356

Query: 783 SSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLK 842
             +  E +  +      +++EE  + LR+E   L   + +     + +K+      E+L+
Sbjct: 357 EEAKEELE--EKLSALLEELEELFEALREELAELEAELAEIRNELEELKREIESLEERLE 414

Query: 843 RLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDRE 896
           RL  + +   E  +E     + L+ +  + N+   + ++  ++  D   + +RE
Sbjct: 415 RLSERLEDLKEELKELEAELEELQTELEELNEELEELEEQLEELRDRLKELERE 468

Length = 1163

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 58.6 bits (141), Expect = 2e-08
 Identities = 99/457 (21%), Positives = 195/457 (42%), Gaps = 27/457 (5%)

Query: 663  ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAA---ISDERSARESLK 719
            E  +++  AA+ K +E  ++ +A + + +      +   EK EAA     + +   ++ K
Sbjct: 1325 EEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAK 1384

Query: 720  SKRQEIDSV-QSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQR 778
             K +E     +++    ++    D++         + A E     EEK+   E K+  + 
Sbjct: 1385 KKAEEKKKADEAKKKAEEDKKKADELKK--AAAAKKKADEAKKKAEEKKKADEAKKKAEE 1442

Query: 779  REQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLH--RE 836
             ++   +  + +E + A + K + EE      K+AD  ++   +A+ A +A KK    ++
Sbjct: 1443 AKKADEAKKKAEEAKKAEEAKKKAEEA-----KKADEAKKKAEEAKKADEAKKKAEEAKK 1497

Query: 837  ESEKLKRLLGQFKAADEIRQ-EAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGD- 894
            ++++ K+     K ADE ++ E  K     KK    K     K  ++ K+A++L    + 
Sbjct: 1498 KADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELKKAEEL 1557

Query: 895  REALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTLDGRSLGPDEEAPLIRP 954
            ++A +     + ++  E  + N   RK                ++      +EE  +   
Sbjct: 1558 KKAEEKKKAEEAKKAEE--DKNMALRKAEEAKKAEE-----ARIEEVMKLYEEEKKMKAE 1610

Query: 955  FLNDRVAKNISLTQISALEREKTEQVVPIKSEKVDDKPFPEVREQGDQIAKFKKPEKPSR 1014
                     I   ++   E EK +     K E  + K   E+++  ++  K K  E+  +
Sbjct: 1611 EAKKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAEELKKA-EEENKIKAAEEAKK 1669

Query: 1015 AENVSTTVSGRDDEIEEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLR-EQRRLEEKAK 1073
            AE             E+ K+    L KE EE A+KAEE +K+EA  K + E+ +  E+  
Sbjct: 1670 AEEDKKKAEEAKKAEEDEKKAAEALKKEAEE-AKKAEELKKKEAEEKKKAEELKKAEEEN 1728

Query: 1074 AQEALERKKRIAEKAQTRAALRAQKEAEQKEKVRRLK 1110
              +A E KK    +   + A  A+K+ E+K+K+  LK
Sbjct: 1729 KIKAEEAKKE--AEEDKKKAEEAKKDEEEKKKIAHLK 1763

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 57.5 bits (138), Expect = 4e-08
 Identities = 90/456 (19%), Positives = 180/456 (39%), Gaps = 27/456 (5%)

Query: 663  ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRAS---------YKEYAEKLEAAISDERS 713
            E   E+ +AA+ K +E  +  DA +   +  + +          K+ A++L+ A + ++ 
Sbjct: 1360 EAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKK 1419

Query: 714  ARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIK 773
            A E  K K +E           + A   D+     +  E + A E     EE +   E K
Sbjct: 1420 ADE-AKKKAEEKKKADEAKKKAEEAKKADEAKK--KAEEAKKAEEAKKKAEEAKKADEAK 1476

Query: 774  QLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLR--ENVIKAEAATQAVK 831
            +  +  ++   +  + +E +   D+  +  E     +K+AD  +  E   KA+ A +A +
Sbjct: 1477 KKAEEAKKADEAKKKAEEAKKKADEAKKAAEA----KKKADEAKKAEEAKKADEAKKAEE 1532

Query: 832  KLHREESEKL--KRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDL 889
                +E++K   K+   + K A+E+++   K      K+A +      +  ++ K+A + 
Sbjct: 1533 AKKADEAKKAEEKKKADELKKAEELKKAEEKKKAEEAKKAEEDKNMALRKAEEAKKAEE- 1591

Query: 890  ASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTLDGRSLGPDEEA 949
                  E ++     +  +  E     +   K      ++      K ++       EE 
Sbjct: 1592 --ARIEEVMKLYEEEKKMKAEEAKKAEEAKIKA---EELKKAEEEKKKVEQLKKKEAEEK 1646

Query: 950  PLIRPFLNDRVAKNISLTQISALEREKTEQVVPIKSEKVDDKPFPEVREQGDQIAKFKKP 1009
                          I   + +    E  ++    K  + D+K   E  ++  + AK  + 
Sbjct: 1647 KKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEE 1706

Query: 1010 EKPSRAENVSTTVSGRDDEIEEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLE 1069
             K   AE        +  E EE K +  +  KE EE  +KAEE +K+E   K     + E
Sbjct: 1707 LKKKEAEEKKKAEELKKAE-EENKIKAEEAKKEAEEDKKKAEEAKKDEEEKKKIAHLKKE 1765

Query: 1070 EKAKAQEALERKKRIAEKAQTRAALRAQKEAEQKEK 1105
            E+ KA+E  + K+ + E+       + + E ++K K
Sbjct: 1766 EEKKAEEIRKEKEAVIEEELDEEDEKRRMEVDKKIK 1801

Length = 2084

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 54.5 bits (131), Expect = 1e-07
 Identities = 32/136 (23%), Positives = 66/136 (48%), Gaps = 3/136 (2%)

Query: 970  SALEREKTEQVVPIKSEKVDDKPFPEVREQGDQIAKFKKPEKPSRAENVSTTVSGRDDEI 1029
             +++ E       I++  VD      V +Q ++I + KKP      E         ++  
Sbjct: 25   HSVKPEPGGGGEIIQAVLVDPG---AVAQQANRIQQQKKPAAKKEQERQKKLEQQAEEAE 81

Query: 1030 EEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKRIAEKAQ 1089
            ++   E  +  + E+  A +   K+ E+A  +  E+++  E+AKA++A E K +   +A+
Sbjct: 82   KQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAKAKAEAEAE 141

Query: 1090 TRAALRAQKEAEQKEK 1105
             +A   A+K+AE++ K
Sbjct: 142  KKAKEEAKKQAEEEAK 157

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 55.4 bits (134), Expect = 2e-07
 Identities = 45/273 (16%), Positives = 112/273 (41%), Gaps = 23/273 (8%)

Query: 663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKR 722
           E L E+I+  + K+ E  ++   +R +++ +    ++  ++LE       + R+ L    
Sbjct: 680 EELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISALRKDLARLE 739

Query: 723 QEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKE--------EKQIIREIKQ 774
            E++ ++ RI  +   ++  +++  I  +E R+      L E        E QI +  ++
Sbjct: 740 AEVEQLEERIAQLSKELT--ELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEE 797

Query: 775 LKQRREQISSSIGEHDEVQLAFDQKDQ-----------IEEKMKFLRKEADSLRENVIKA 823
           LK  RE +     E   +        +            E +++ L ++ + L E++   
Sbjct: 798 LKALREALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQIEELSEDIESL 857

Query: 824 EAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDT 883
            A  + +++L  E   +L+ LL +  + +E         + L ++  +      + + + 
Sbjct: 858 AAEIEELEELIEELESELEALLNERASLEEALALLRSELEELSEELRELESKRSELRREL 917

Query: 884 KQANDL--ASKGDREALQHLCVNQVERVLELWN 914
           ++  +     +   E L+    N  ER+ E ++
Sbjct: 918 EELREKLAQLELRLEGLEVRIDNLQERLSEEYS 950

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 54.0 bits (129), Expect = 5e-07
 Identities = 97/457 (21%), Positives = 192/457 (42%), Gaps = 61/457 (13%)

Query: 663  ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKR 722
            +  +++ + A+ K D   +  +  +   +  +A  +  A++ EAA     +A +  +  +
Sbjct: 1318 DEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAK 1377

Query: 723  QEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQI 782
            ++ D+ + +    K A                        +E+K+   E+K+    +++ 
Sbjct: 1378 KKADAAKKKAEEKKKADEAKK-----------------KAEEDKKKADELKKAAAAKKKA 1420

Query: 783  SSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLH-REESEKL 841
              +  + +E + A + K + EE      K+AD  ++   +A+ A +A KK    +++++ 
Sbjct: 1421 DEAKKKAEEKKKADEAKKKAEEA-----KKADEAKKKAEEAKKAEEAKKKAEEAKKADEA 1475

Query: 842  KRLLGQFKAADEIR---QEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREAL 898
            K+   + K ADE +   +EA K     KK A  K +     K +  +  D A K + EA 
Sbjct: 1476 KKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAE-EAK 1534

Query: 899  QHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTLDGRSLGPDEEAPLIRPFLND 958
            +     + E         DE +K      ++    + K  + +    D+   L +     
Sbjct: 1535 KADEAKKAEEK----KKADELKKA---EELKKAEEKKKAEEAKKAEEDKNMALRKA---- 1583

Query: 959  RVAKNISLTQISALEREKTEQVVPIKSEKVDDKPFPEVREQGDQIAKFKKPEKPSRAENV 1018
                     +    E  + E+V+ +  E+   K     + +  +I    K E+  +AE  
Sbjct: 1584 --------EEAKKAEEARIEEVMKLYEEEKKMKAEEAKKAEEAKI----KAEELKKAEEE 1631

Query: 1019 STTVSGRDDEIEEAKEEVPKLTKEEEEMA-RKAEEKRKEEATAKLREQRRLEEKAKAQE- 1076
               V     +  E K++  +L K EEE   + AEE +K E      ++++ EE  KA+E 
Sbjct: 1632 KKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKKAE-----EDKKKAEEAKKAEED 1686

Query: 1077 ---ALERKKRIAEKAQTRAALRAQKEAEQKEKVRRLK 1110
               A E  K+ AE+A+    L+ +KEAE+K+K   LK
Sbjct: 1687 EKKAAEALKKEAEEAKKAEELK-KKEAEEKKKAEELK 1722

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 53.2 bits (127), Expect = 8e-07
 Identities = 96/539 (17%), Positives = 218/539 (40%), Gaps = 49/539 (9%)

Query: 591  EVKENRGIQLTGGEDGDRTFQDVEGIERSDRCETQTSTPEGSTVDASESRNIGVEVVKQP 650
            E K      +   E    +++D +   + D    + +        A E++       ++ 
Sbjct: 1057 EGKAEAKAHVGQDEGLKPSYKDFDFDAKEDNRADEATEEAFGK--AEEAKKTETGKAEEA 1114

Query: 651  FYFLVKVPRYDDENLREQIKAAQS--KVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAI 708
                    + +D    E+ + A+   K +E  ++ DA R +I    A   E A K E A 
Sbjct: 1115 RKAEEAKKKAEDARKAEEARKAEDARKAEEARKAEDAKRVEI----ARKAEDARKAEEAR 1170

Query: 709  SDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQI 768
              E + +     K +E+     +   ++ A      + + +  E R A E    ++ K+ 
Sbjct: 1171 KAEDAKKAEAARKAEEV----RKAEELRKAEDARKAEAARKAEEERKAEEARKAEDAKKA 1226

Query: 769  --IREIKQLKQRREQ--------ISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLR- 817
              +++ ++ K+  E+         +  I + +E ++A   + Q   K +  RK AD L+ 
Sbjct: 1227 EAVKKAEEAKKDAEEAKKAEEERNNEEIRKFEEARMAHFARRQAAIKAEEARK-ADELKK 1285

Query: 818  -ENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIR---QEAYKHWQSLKKQAYDKN 873
             E   KA+ A +A +K   +++++ K+   + K ADE +   +EA K   + KK+A +  
Sbjct: 1286 AEEKKKADEAKKAEEK---KKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEA- 1341

Query: 874  QHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLR 933
                K   +  +A   A+  + EA +       ++  E     D  +K+          +
Sbjct: 1342 ----KKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKK------AEEKK 1391

Query: 934  RLKTLDGRSLGPDEEAPLIRPFLNDRVAKNISLTQISALEREKTEQVVPIKSEKVDDKPF 993
            +      ++    ++A  ++        K     +  A E++K ++      E       
Sbjct: 1392 KADEAKKKAEEDKKKADELKK--AAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEA 1449

Query: 994  PEVREQGDQIAKFKKPEKPSRAENVSTTVSGRDDEIEEAKEEVPKLTKEEEEMARKAEEK 1053
             +  E+  +  + KK  + ++  + +   +    + +EAK++  +  K+ +E  + AE K
Sbjct: 1450 KKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAK 1509

Query: 1054 RKEEATAKLREQRRLEEKAKAQEALERKKRIAEKAQTRAALRAQKEAEQKEKVRRLKPV 1112
            +K +   K  E ++ +E  KA+E      + A++A+     +   E ++ E++++ +  
Sbjct: 1510 KKADEAKKAEEAKKADEAKKAEE-----AKKADEAKKAEEKKKADELKKAEELKKAEEK 1563

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 52.1 bits (124), Expect = 2e-06
 Identities = 103/520 (19%), Positives = 212/520 (40%), Gaps = 34/520 (6%)

Query: 608  RTFQDVEGIERSDRCETQTSTPEGSTV-----DASESRNIGVEVVKQPFYFLVKVPRYDD 662
            R  ++    E + + E                DA E++    E   +      +      
Sbjct: 1206 RKAEEERKAEEARKAEDAKKAEAVKKAEEAKKDAEEAKKAEEERNNEEIRKFEEARMAHF 1265

Query: 663  ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKR 722
               +  IKA +++  ++ +  +  +   +  +A  K+ A++ +    + + A E  K K 
Sbjct: 1266 ARRQAAIKAEEARKADELKKAEEKKKADEAKKAEEKKKADEAKKKAEEAKKADE-AKKKA 1324

Query: 723  QEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQI 782
            +E    + + +  K               E   A +     EEK    E K+ ++ +++ 
Sbjct: 1325 EE---AKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKK-EEAKKKA 1380

Query: 783  SSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLH-REESEKL 841
             ++  + +E + A + K + EE     +K+AD L++     + A +A KK   ++++++ 
Sbjct: 1381 DAAKKKAEEKKKADEAKKKAEED----KKKADELKKAAAAKKKADEAKKKAEEKKKADEA 1436

Query: 842  KRLLGQFKAADEIR---QEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREAL 898
            K+   + K ADE +   +EA K  ++ KK    K     K K +  +  D A K   EA 
Sbjct: 1437 KKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAK 1496

Query: 899  QHLCVNQVERVLELWNNNDEFRK---EYVNSNIRSTLRRLKTLDGRSLGPDEEAPLIRPF 955
            +    ++ ++  E     DE +K          +      K  + +     ++A  ++  
Sbjct: 1497 KK--ADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELKKA 1554

Query: 956  LNDRVAKNISLTQISALEREKTEQVVPIKSE--KVDDKPFPEVREQGDQIAKFKKPEKPS 1013
               + A+     + +    E     +    E  K ++    EV +  ++  K K  E  +
Sbjct: 1555 EELKKAEEKKKAEEAKKAEEDKNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKAEE--A 1612

Query: 1014 RAENVSTTVSGRDDEIEEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAK 1073
            +    +   +    + EE K++V +L K+E E  +KAEE +K E   K++      E+AK
Sbjct: 1613 KKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKA----AEEAK 1668

Query: 1074 AQEALERKK---RIAEKAQTRAALRAQKEAEQKEKVRRLK 1110
              E  ++K    + AE+ + +AA   +KEAE+ +K   LK
Sbjct: 1669 KAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELK 1708

Length = 2084

>gnl|CDD|224259 COG1340, COG1340, Uncharacterized archaeal coiled-coil protein [Function unknown]

 Score = 49.7 bits (119), Expect = 3e-06
 Identities = 40/195 (20%), Positives = 89/195 (45%), Gaps = 18/195 (9%)

Query: 665 LREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQE 724
           LR++      K DE       +R+  Q +R    E  E+++            L+  R+E
Sbjct: 32  LRKEASELAEKRDELNAKVRELREKAQELREERDEINEEVQELKEKRDEINAKLQELRKE 91

Query: 725 IDSVQSRIN-MMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQIS 783
              ++ + N       S+  ++  I  +E +     L  +EE++++++IK+L++  E   
Sbjct: 92  YRELKEKRNEFNLGGRSIKSLEREIERLEKKQQTSVLTPEEERELVQKIKELRKELEDAK 151

Query: 784 SSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKR 843
            ++ E+++++    + D+       L+K+A  + E           +++L  E  E  + 
Sbjct: 152 KALEENEKLKELKAEIDE-------LKKKAREIHEK----------IQELANEAQEYHEE 194

Query: 844 LLGQFKAADEIRQEA 858
           ++  F+ ADE+R+EA
Sbjct: 195 MIKLFEEADELRKEA 209

Length = 294

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 50.5 bits (121), Expect = 5e-06
 Identities = 36/213 (16%), Positives = 92/213 (43%), Gaps = 22/213 (10%)

Query: 663  ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKR 722
            E L ++I+  + +++E     D + ++++ +    +E  E+LE   +++    + LK   
Sbjct: 824  ERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKELE 883

Query: 723  QEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREI---------- 772
            +E + ++  +  +++   + ++   I  +  R+      L+  +  + E+          
Sbjct: 884  EEKEELEEELRELES--ELAELKEEIEKLRERLEELEAKLERLEVELPELEEELEEEYED 941

Query: 773  ---KQLKQRREQISSSIGEHDEVQL-AFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQ 828
                +L++  E++   I     V L A ++ +++EE+ + L+ + + L E   K     +
Sbjct: 942  TLETELEREIERLEEEIEALGPVNLRAIEEYEEVEERYEELKSQREDLEEAKEKLLEVIE 1001

Query: 829  AVKKLHREESEKLKRLLGQFKAADEIRQEAYKH 861
             + K      EK +R    F   +E   E +K 
Sbjct: 1002 ELDK------EKRERFKETFDKINENFSEIFKE 1028

Length = 1163

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 50.5 bits (121), Expect = 5e-06
 Identities = 66/467 (14%), Positives = 182/467 (38%), Gaps = 35/467 (7%)

Query: 661  DDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKS 720
            + E   E+++     +       + + + ++++    ++  EKLE   S+     E    
Sbjct: 295  ELEREIEELEEELEGLRALLEELEELLEKLKSLEERLEKLEEKLEKLESELEELAEEKNE 354

Query: 721  KRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIRE-IKQLKQRR 779
              + ++     +        +++++  +     R+      ++E K+ + E    L++ +
Sbjct: 355  LAKLLEERLKELE-----ERLEELEKELEKALERLKQLEEAIQELKEELAELSAALEEIQ 409

Query: 780  EQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKK-----LH 834
            E++     E +E++    + +++EE++K L ++ + L    +       A +K       
Sbjct: 410  EELEELEKELEELE---RELEELEEEIKKLEEQINQLESKELMIAELAGAGEKCPVCGQE 466

Query: 835  REESEKLKRLLGQFKAADEIRQEAYK-HWQSLKKQAYDK----NQHFWKYKDDTKQANDL 889
              E  + + L       +E+ +E  +   ++  ++  ++     +   +   +  +  + 
Sbjct: 467  LPEEHEKELLELYELELEELEEELSREKEEAELREEIEELEKELRELEEELIELLELEEA 526

Query: 890  ASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTLDGRSLGPDEEA 949
              +   E L+ L       + EL    ++ + + +   +R    RL+ L        EE 
Sbjct: 527  LKEELEEKLEKL----ENLLEELEELKEKLQLQQLKEELRQLEDRLQELKEL----LEEL 578

Query: 950  PLIRPFLNDRVAKNISLTQISALERE---KTEQVVPIKSEKVDDKPFPEVREQGDQIAKF 1006
             L+R    +       L ++    +E   +  Q+  +       +   E+ E  +++   
Sbjct: 579  RLLRTRKEELEELRERLKELKKKLKELEERLSQLEELLQSLELSEAENELEEAEEELESE 638

Query: 1007 KKP--EKPSRAENVSTTVSGRDDEIEEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLRE 1064
             +    +    E +   +   ++++EE + E+ +   +  E   + EEK +E    +   
Sbjct: 639  LEKLNLQAELEELLQAALEELEEKVEELEAEIRRE-LQRIENEEQLEEKLEELEQLEEEL 697

Query: 1065 QRRLEEKAKAQEALERKKRIAEKAQTRAA--LRAQKEAEQKEKVRRL 1109
            ++  EE  +  + L   +++ E+ ++R A     +KE E+ EK   L
Sbjct: 698  EQLREELEELLKKLGEIEQLIEELESRKAELEELKKELEKLEKALEL 744

Length = 908

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 50.4 bits (121), Expect = 5e-06
 Identities = 83/426 (19%), Positives = 179/426 (42%), Gaps = 50/426 (11%)

Query: 663  ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKR 722
            EN+ E IK  + +++E  R  + I  ++  +R    E  EKLE  + +    +E ++   
Sbjct: 189  ENIEELIKEKEKELEEVLREINEISSELPELR----EELEKLEKEVKELEELKEEIEELE 244

Query: 723  QEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQI 782
            +E++S++          S   ++  IR +E RI      ++E ++ ++E+K+LK++ E+ 
Sbjct: 245  KELESLEG---------SKRKLEEKIRELEERIEELKKEIEELEEKVKELKELKEKAEEY 295

Query: 783  SSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLK 842
                  ++E     D+  +IE+++  L +E + + E + + E   + +++L ++  E  K
Sbjct: 296  IKLSEFYEEYL---DELREIEKRLSRLEEEINGIEERIKELEEKEERLEELKKKLKELEK 352

Query: 843  RLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLC 902
            RL        E R E Y+  ++ K++     +       +  +      +  +E ++   
Sbjct: 353  RL-----EELEERHELYEEAKAKKEELERLKKRLTGLTPEKLEKELEELEKAKEEIEEEI 407

Query: 903  VNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTLDGRSLGPDEEAPLIRPFLNDRVAK 962
                 R+ EL     E +K           +    + GR L  +    L+  +  +   K
Sbjct: 408  SKITARIGELKKEIKELKK---AIEELKKAKGKCPVCGRELTEEHRKELLEEYTAE--LK 462

Query: 963  NISLTQISALEREKTEQVVPIKSEKVDDKPFPEVREQGDQIAKFKKPEKPSRAENVSTTV 1022
             I        E+E+  +    + EKV                  KK  +  + + ++   
Sbjct: 463  RIEKELKEIEEKERKLRKELRELEKV-----------------LKKESELIKLKELA--- 502

Query: 1023 SGRDDEIEEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKK 1082
                ++++E +E++ K   EE E   +  EK KE+      E + L+++ +  E L++K 
Sbjct: 503  ----EQLKELEEKLKKYNLEELEKKAEEYEKLKEKLIKLKGEIKSLKKELEKLEELKKKL 558

Query: 1083 RIAEKA 1088
               EK 
Sbjct: 559  AELEKK 564

Length = 880

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 49.7 bits (119), Expect = 1e-05
 Identities = 37/210 (17%), Positives = 83/210 (39%), Gaps = 24/210 (11%)

Query: 659 RYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESL 718
           R + E L  QI A +  +       + + + I  +     E   ++E        A E L
Sbjct: 718 RKELEELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEEL 777

Query: 719 KSKRQEIDSVQSRINMMKNAIS------------VDDIDGSIRNMEHRIAHETLPLKEEK 766
                EI+ ++++I  +K  +             +  ++    N+  R+      +   +
Sbjct: 778 AEAEAEIEELEAQIEQLKEELKALREALDELRAELTLLNEEAANLRERLESLERRIAATE 837

Query: 767 QIIREI-KQLKQRREQISSSIGE-----------HDEVQLAFDQKDQIEEKMKFLRKEAD 814
           + + ++ +Q+++  E I S   E             E++   +++  +EE +  LR E +
Sbjct: 838 RRLEDLEEQIEELSEDIESLAAEIEELEELIEELESELEALLNERASLEEALALLRSELE 897

Query: 815 SLRENVIKAEAATQAVKKLHREESEKLKRL 844
            L E + + E+    +++   E  EKL +L
Sbjct: 898 ELSEELRELESKRSELRRELEELREKLAQL 927

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 47.9 bits (114), Expect = 2e-05
 Identities = 24/79 (30%), Positives = 44/79 (55%), Gaps = 3/79 (3%)

Query: 1028 EIEEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKRIAEK 1087
            + E+A ++  +  K+ EE   K   + K +A A+   +++ +E+AK Q   E K + A +
Sbjct: 106  QAEQAAKQAEEKQKQAEEAKAKQAAEAKAKAEAE--AEKKAKEEAKKQAEEEAKAKAAAE 163

Query: 1088 AQTRAA-LRAQKEAEQKEK 1105
            A+ +AA  + + EAE K K
Sbjct: 164  AKKKAAEAKKKAEAEAKAK 182

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 46.8 bits (111), Expect = 4e-05
 Identities = 36/134 (26%), Positives = 64/134 (47%), Gaps = 10/134 (7%)

Query: 973  EREKTEQVVPIKSEKVDDKPFPEVREQGDQIAKFKKPEKPSRAENVSTTVSGRDDEIEEA 1032
            E+E+ +++     E    +   E   Q +   +    +   +AE  +     +  + EEA
Sbjct: 66   EQERQKKLEQQAEEAEKQRA-AEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEA 124

Query: 1033 KEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKRIAE-KAQTR 1091
            K       K+  E   KAE + +++A  + ++Q   EE+AKA+ A E KK+ AE K +  
Sbjct: 125  KA------KQAAEAKAKAEAEAEKKAKEEAKKQA--EEEAKAKAAAEAKKKAAEAKKKAE 176

Query: 1092 AALRAQKEAEQKEK 1105
            A  +A+ EA+ K K
Sbjct: 177  AEAKAKAEAKAKAK 190

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 47.4 bits (113), Expect = 4e-05
 Identities = 69/458 (15%), Positives = 176/458 (38%), Gaps = 60/458 (13%)

Query: 663  ENLREQIKAAQSKVD----EKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESL 718
            E L+E IK A++K++    + +   + I D ++ +    KE  +  E     E    E L
Sbjct: 174  ELLKEVIKEAKAKIEELEGQLSELLEDIEDLLEALEEELKELKKLEEI---QEEQEEEEL 230

Query: 719  KSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEE-KQIIREIKQLKQ 777
            + + + ++   + +   K  +   ++   +  +E          +EE +++ R +++L++
Sbjct: 231  EQEIEALEERLAELEEEKERLE--ELKARLLEIESLELEALKIREEELRELERLLEELEE 288

Query: 778  RREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREE 837
            + E++     E +E++   +    + E+++ L ++  SL E + K E   + ++    E 
Sbjct: 289  KIERLEELEREIEELEEELEGLRALLEELEELLEKLKSLEERLEKLEEKLEKLESELEEL 348

Query: 838  SEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREA 897
            +E+   L    +   +  +E  +  +   ++A ++ +   +   + K+     S    E 
Sbjct: 349  AEEKNELAKLLEERLKELEERLEELEKELEKALERLKQLEEAIQELKEELAELSAALEEI 408

Query: 898  LQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTLDGRSLGPDEEAPLIRPFLN 957
             + L                E   E +   +      +K L+ +                
Sbjct: 409  QEEL-------------EELEKELEELERELEELEEEIKKLEEQI--------------- 440

Query: 958  DRVAKNISLTQISALEREKTEQVVPIKSEKVDDKPFPEVREQGD-QIAKFKKPEKPSRAE 1016
                  +   ++   E     +  P+  +++ ++   E+ E  + ++ + ++        
Sbjct: 441  ----NQLESKELMIAELAGAGEKCPVCGQELPEEHEKELLELYELELEELEEELS----- 491

Query: 1017 NVSTTVSGRDDEIEEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEE----KA 1072
                    R+ E  E +EE+ +L KE  E+  +  E  + E   K   + +LE+      
Sbjct: 492  --------REKEEAELREEIEELEKELRELEEELIELLELEEALKEELEEKLEKLENLLE 543

Query: 1073 KAQEALERKKRIAEKAQTRAALRAQKEAEQKEKVRRLK 1110
            + +E  E+ +    K + R      +E ++  +  RL 
Sbjct: 544  ELEELKEKLQLQQLKEELRQLEDRLQELKELLEELRLL 581

Length = 908

>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682)

 Score = 46.5 bits (111), Expect = 5e-05
 Identities = 30/84 (35%), Positives = 42/84 (50%), Gaps = 16/84 (19%)

Query: 1001 DQIAKFKKPEKPSRAENVSTTVSGRDDEIEEAKEEVPKLTKEE--EEMARKAEEKRKEEA 1058
            D++A  K   +  R          R++E E+      K  +EE  EE   K EEK+KEE 
Sbjct: 246  DKLANLKLSPEVLRK-----VDKTREEEEEKIL----KAAEEERQEEAQEKKEEKKKEER 296

Query: 1059 TAKLR-----EQRRLEEKAKAQEA 1077
             AKL      EQR+LEEK + ++A
Sbjct: 297  EAKLAKLSPEEQRKLEEKERKKQA 320

The members of this family are all hypothetical eukaryotic proteins of unknown function. One member is described as being an adipocyte-specific protein, but no evidence of this was found. Length = 322

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 46.3 bits (110), Expect = 6e-05
 Identities = 22/80 (27%), Positives = 38/80 (47%)

Query: 1028 EIEEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKRIAEK 1087
            E ++  EE  K    +++ A +A  K    A AK   + +    A  + A E KK+   +
Sbjct: 115  EQKKQAEEAAKQAALKQKQAEEAAAKAAAAAKAKAEAEAKRAAAAAKKAAAEAKKKAEAE 174

Query: 1088 AQTRAALRAQKEAEQKEKVR 1107
            A  +AA  A+K+AE +   +
Sbjct: 175  AAKKAAAEAKKKAEAEAAAK 194

Length = 387

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 46.7 bits (110), Expect = 8e-05
 Identities = 93/453 (20%), Positives = 176/453 (38%), Gaps = 43/453 (9%)

Query: 661  DDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKS 720
            D +   E    A++ V +    + + +D         KE     EA       A E+ K+
Sbjct: 1051 DIDGNHEGKAEAKAHVGQDEGLKPSYKDFDFD----AKEDNRADEATEEAFGKAEEAKKT 1106

Query: 721  KRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRRE 780
            +  + +  +      K A      + + +  + R A E    ++ K++    K    R+ 
Sbjct: 1107 ETGKAEEARKAEEAKKKAEDARKAEEARKAEDARKAEEARKAEDAKRVEIARKAEDARKA 1166

Query: 781  QISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEK 840
            + +    +  + + A  +K +   K + LRK      E+  KAEAA +A ++   EE+ K
Sbjct: 1167 EEARKAEDAKKAEAA--RKAEEVRKAEELRKA-----EDARKAEAARKAEEERKAEEARK 1219

Query: 841  LKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQH 900
                     A D  + EA K  +  KK A +        K + ++ N+   K +   + H
Sbjct: 1220 ---------AEDAKKAEAVKKAEEAKKDAEEAK------KAEEERNNEEIRKFEEARMAH 1264

Query: 901  LCVNQVERVLELWNNNDEFRK---EYVNSNIRSTLRRLKTLDGRSLGPDEEAPLIRPFLN 957
                Q     E     DE +K   +      +    + K  + +    + +         
Sbjct: 1265 FARRQAAIKAEEARKADELKKAEEKKKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKA 1324

Query: 958  DRVAKNISLTQISALEREKTEQVVPIKSEKVDDKPFPEVREQGDQIAKFKKPEKPSRAEN 1017
            +   K     +  A E +K  +    ++E   D+   E  E+  + A+ KK E   +A+ 
Sbjct: 1325 EEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEA--EAAEEKAEAAEKKKEEAKKKADA 1382

Query: 1018 VSTTVSGRDDEIEEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEA 1077
                   +  + +EAK++  +  K+ +E+ + A  K+K +   K     + EEK KA EA
Sbjct: 1383 AKKKAEEKK-KADEAKKKAEEDKKKADELKKAAAAKKKADEAKK-----KAEEKKKADEA 1436

Query: 1078 LERKKRIAEKAQTRAALRAQKEAEQKEKVRRLK 1110
               KK+  E    + A  A+K+AE+ +K    K
Sbjct: 1437 ---KKKAEEA---KKADEAKKKAEEAKKAEEAK 1463

Length = 2084

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 46.2 bits (110), Expect = 1e-04
 Identities = 28/197 (14%), Positives = 91/197 (46%), Gaps = 17/197 (8%)

Query: 663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKR 722
           E L  Q++  +SK+DE       + + ++ ++   +    +LE   ++       L+   
Sbjct: 319 EELEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEELESRLEELE 378

Query: 723 QEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQI 782
           +++++++S++  ++  I+   ++  I  +E R+          +++    ++L+Q  E++
Sbjct: 379 EQLETLRSKVAQLELQIAS--LNNEIERLEARL----------ERLEDRRERLQQEIEEL 426

Query: 783 SSSIGEHD--EVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEK 840
              + E +  E+Q   ++ ++  E+   L++E + L E + +     +  ++       +
Sbjct: 427 LKKLEEAELKELQAELEELEEELEE---LQEELERLEEALEELREELEEAEQALDAAERE 483

Query: 841 LKRLLGQFKAADEIRQE 857
           L +L  +  + + +++ 
Sbjct: 484 LAQLQARLDSLERLQEN 500

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 44.7 bits (106), Expect = 3e-04
 Identities = 30/177 (16%), Positives = 81/177 (45%), Gaps = 15/177 (8%)

Query: 663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKR 722
           + L  +I+  + +++E+ + RD + ++   ++   ++   +LE    +    R+ LK  R
Sbjct: 332 DKLLAEIEELEREIEEERKRRDKLTEEYAELKEELEDLRAELEEVDKEFAETRDELKDYR 391

Query: 723 QEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQ---------IIREIK 773
           ++++ ++  IN +K  +     +    + E    +  +   E K             EIK
Sbjct: 392 EKLEKLKREINELKRELDRLQEELQRLSEELADLNAAIAGIEAKINELEEEKEDKALEIK 451

Query: 774 QLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAV 830
           + + + EQ+++ + ++++      +   ++E+   + KE   L+  + +AEA  +A 
Sbjct: 452 KQEWKLEQLAADLSKYEQ------ELYDLKEEYDRVEKELSKLQRELAEAEAQARAS 502

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 44.3 bits (105), Expect = 4e-04
 Identities = 67/377 (17%), Positives = 149/377 (39%), Gaps = 43/377 (11%)

Query: 694  RASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEH 753
            +   KE  E+L    +      E LKS + E+ S++  +  ++  +            E 
Sbjct: 666  KRELKELEEELAELEAQLEKLEEELKSLKNELRSLEDLLEELRRQLE-----------EL 714

Query: 754  RIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEA 813
                E L  +E   +  E++QL+ R E++   + E +E      + ++++E+++ L +E 
Sbjct: 715  ERQLEEL-KRELAALEEELEQLQSRLEELEEELEELEE------ELEELQERLEELEEEL 767

Query: 814  DSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIR---QEAYKHWQSLKKQAY 870
            +SL E + K +   + +++  +   E+L+ L  + + A+      +   +  +  +++  
Sbjct: 768  ESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLE 827

Query: 871  DKNQHFWKYKDDTK-QANDLASKGDR--EALQHLCVNQVERVLELWNNNDEF-----RKE 922
             + +   +  ++ + + ++L  + +   + L+ L     E   E     DE       KE
Sbjct: 828  QEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKELEEEKE 887

Query: 923  YVNSNIRSTLRRLKTLDGRSLGPDEEAPLIRPFLNDRVAKN-ISLTQISALEREKTEQVV 981
             +   +R     L  L        EE   +R  L +  AK      ++  LE E  E+  
Sbjct: 888  ELEEELRELESELAELK-------EEIEKLRERLEELEAKLERLEVELPELEEELEEEYE 940

Query: 982  PIKSEKVDDKPFPEVREQGDQIAKFKK--PEKPSRAENVSTTVSGRDDEIEEAKEEVPKL 1039
                 +++     E+    ++I              E V         + E+ +E   KL
Sbjct: 941  DTLETELER----EIERLEEEIEALGPVNLRAIEEYEEVEERYEELKSQREDLEEAKEKL 996

Query: 1040 TKEEEEMARKAEEKRKE 1056
             +  EE+ ++  E+ KE
Sbjct: 997  LEVIEELDKEKRERFKE 1013

Length = 1163

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 44.7 bits (105), Expect = 4e-04
 Identities = 102/473 (21%), Positives = 188/473 (39%), Gaps = 46/473 (9%)

Query: 670  KAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAE---KLEAAISDERSARESLKSKRQEID 726
            KA  ++  E  R  +  R   +  +A   + AE   K E A  D   A+++ + +  E  
Sbjct: 1195 KAEDARKAEAARKAEEERKAEEARKAEDAKKAEAVKKAEEAKKDAEEAKKAEEERNNEEI 1254

Query: 727  SVQSRINMMKNAISVDDIDGS-------IRNMEHRIAHETLPLKEEKQIIREIKQLKQRR 779
                   M   A     I          ++  E +   +     EEK+   E K+  +  
Sbjct: 1255 RKFEEARMAHFARRQAAIKAEEARKADELKKAEEKKKADEAKKAEEKKKADEAKKKAEEA 1314

Query: 780  EQISSSIGEHDEVQLAFDQ-KDQIEEKMK---FLRKEADSLRENVIKAEAATQAVKKLHR 835
            ++   +  + +E +   D  K + EE  K     + EA++  +    AE   +A +K   
Sbjct: 1315 KKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKE 1374

Query: 836  EESEK---LKRLLGQFKAADEIR---QEAYKHWQSLKKQAYDKNQ--HFWKYKDDTKQAN 887
            E  +K    K+   + K ADE +   +E  K    LKK A  K +     K  ++ K+A+
Sbjct: 1375 EAKKKADAAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKAD 1434

Query: 888  DLASKGDREALQHLCVNQVE---RVLELWNNNDEFRKEYVNSNIRSTLRRLKTLDGRSLG 944
            +   K +          + E   +  E     +E +K           ++      ++  
Sbjct: 1435 EAKKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEE 1494

Query: 945  PDEEAPLIRPFLNDRVAKNISLTQISALEREKTEQVVPIKSEKVDDKPFPEVREQGDQIA 1004
              ++A           AK  +  +  A E +K E+     ++K D+    E  ++ D+  
Sbjct: 1495 AKKKA---------DEAKKAAEAKKKADEAKKAEE-----AKKADEAKKAEEAKKADEAK 1540

Query: 1005 K---FKKPEKPSRAENVSTTVSGRDDEIEEAKEEVPKLTKEEEEMARKAEEKRKEEATAK 1061
            K    KK ++  +AE +      +  E  +  EE   +   + E A+KAEE R EE    
Sbjct: 1541 KAEEKKKADELKKAEELKKAEEKKKAEEAKKAEEDKNMALRKAEEAKKAEEARIEEVMKL 1600

Query: 1062 LREQRRL--EEKAKAQEALERKKRI--AEKAQTRAALRAQKEAEQKEKVRRLK 1110
              E++++  EE  KA+EA  + + +  AE+ + +     +KEAE+K+K   LK
Sbjct: 1601 YEEEKKMKAEEAKKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAEELK 1653

Length = 2084

>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682)

 Score = 43.4 bits (103), Expect = 4e-04
 Identities = 19/81 (23%), Positives = 39/81 (48%), Gaps = 14/81 (17%)

Query: 1030 EEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKRIAEKAQ 1089
             E   +V K  +EEEE   KA E+ ++E   + +E+++ EE+      L  ++       
Sbjct: 255  PEVLRKVDKTREEEEEKILKAAEEERQEEAQEKKEEKKKEEREAKLAKLSPEE------- 307

Query: 1090 TRAALRAQKEAEQKEKVRRLK 1110
                   Q++ E+KE+ ++ +
Sbjct: 308  -------QRKLEEKERKKQAR 321

The members of this family are all hypothetical eukaryotic proteins of unknown function. One member is described as being an adipocyte-specific protein, but no evidence of this was found. Length = 322

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 44.3 bits (105), Expect = 5e-04
 Identities = 35/218 (16%), Positives = 102/218 (46%), Gaps = 16/218 (7%)

Query: 661 DDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRA---SYKEYAEKLEAAISD--ERSAR 715
           ++E L+E+++  +  +    +  + ++ +++ + A     +E   KLE A++D   R + 
Sbjct: 731 EEEKLKERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEALNDLEARLSH 790

Query: 716 ESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIK-Q 774
             +   + E+  ++  ++  +    + +I+  +  +     +    ++E ++   ++K Q
Sbjct: 791 SRIPEIQAELSKLEEEVS--RIEARLREIEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQ 848

Query: 775 LKQRREQISSSIGEHDEVQLAFDQKD----QIEEKMKFLRKEADSLRENVIKAEAATQAV 830
           +K   ++I +  G+ +E++   ++ +     +E ++  L+KE D L   + + E   + +
Sbjct: 849 IKSIEKEIENLNGKKEELEEELEELEAALRDLESRLGDLKKERDELEAQLRELERKIEEL 908

Query: 831 KKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQ 868
           +     + EK ++ L + KA  E  +E     +  K +
Sbjct: 909 E----AQIEKKRKRLSELKAKLEALEEELSEIEDPKGE 942

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|220365 pfam09726, Macoilin, Transmembrane protein

 Score = 43.4 bits (102), Expect = 7e-04
 Identities = 42/184 (22%), Positives = 79/184 (42%), Gaps = 33/184 (17%)

Query: 686 IRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDID 745
           ++ ++Q  R +  E   ++    S ERS +  L   ++E D +Q+++N M +A       
Sbjct: 418 LQAELQQARQNESELRNQISLLTSLERSLKSDLGQLKKENDMLQTKLNSMVSA------- 470

Query: 746 GSIRNMEHRIAHETLPLKEEKQIIREI-KQLKQRREQISSSIGEHDEVQLAFDQKDQIEE 804
                            +++KQ ++ + K+LK   +   ++     E QLA ++K + EE
Sbjct: 471 ----------------KQKDKQSMQSMEKRLKSEADSRVNA-----EKQLAEEKKRKKEE 509

Query: 805 KMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQS 864
           +    R  A +       AE+  QA + L  E    +K+L    K  +E  +   K  Q 
Sbjct: 510 EETAARAAAQAAASREECAESLKQAKQDLEME----IKKLEHDLKLKEEECRMLEKEAQE 565

Query: 865 LKKQ 868
           L+K 
Sbjct: 566 LRKY 569

This entry is a highly conserved protein present in eukaryotes. Length = 680

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 43.1 bits (102), Expect = 0.001
 Identities = 34/223 (15%), Positives = 98/223 (43%), Gaps = 16/223 (7%)

Query: 665 LREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQE 724
           +  ++     ++ + +R    I  +I+ +    ++  E+LE    D  S  + +++ + E
Sbjct: 700 IENRLDELSQELSDASRKIGEIEKEIEQLEQEEEKLKERLEELEEDLSSLEQEIENVKSE 759

Query: 725 IDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISS 784
           +  +++RI  ++  +    ++ ++ ++E R++H  +P  + +  + ++++   R E    
Sbjct: 760 LKELEARIEELEEDLH--KLEEALNDLEARLSHSRIPEIQAE--LSKLEEEVSRIEARLR 815

Query: 785 SIG------------EHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKK 832
            I                E+Q   +Q+  ++E++K + KE ++L     + E   + ++ 
Sbjct: 816 EIEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEELEEELEELEA 875

Query: 833 LHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQH 875
             R+   +L  L  +    +   +E  +  + L+ Q   K + 
Sbjct: 876 ALRDLESRLGDLKKERDELEAQLRELERKIEELEAQIEKKRKR 918

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 41.7 bits (98), Expect = 0.002
 Identities = 21/78 (26%), Positives = 42/78 (53%)

Query: 1028 EIEEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKRIAEK 1087
            + ++A E+      E+E +A + ++K+ EEA  +   +++  E+A A+ A   K +   +
Sbjct: 93   QQKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQAALKQKQAEEAAAKAAAAAKAKAEAE 152

Query: 1088 AQTRAALRAQKEAEQKEK 1105
            A+  AA   +  AE K+K
Sbjct: 153  AKRAAAAAKKAAAEAKKK 170

Length = 387

>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed

 Score = 42.5 bits (101), Expect = 0.002
 Identities = 28/85 (32%), Positives = 44/85 (51%), Gaps = 11/85 (12%)

Query: 1029 IEEAKEEVPKLTKEEEEMARKAEEKRKE------EATAKLREQRRL-----EEKAKAQEA 1077
            IEEAK+ + +  ++  E+    EE  +E      EA A L+E  +L     E+K K QE 
Sbjct: 504  IEEAKKLIGEDKEKLNELIASLEELERELEQKAEEAEALLKEAEKLKEELEEKKEKLQEE 563

Query: 1078 LERKKRIAEKAQTRAALRAQKEAEQ 1102
             ++    AEK   +A   A+KEA++
Sbjct: 564  EDKLLEEAEKEAQQAIKEAKKEADE 588

Length = 782

>gnl|CDD|215180 PLN02316, PLN02316, synthase/transferase

 Score = 42.2 bits (99), Expect = 0.002
 Identities = 22/60 (36%), Positives = 36/60 (60%)

Query: 1029 IEEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKRIAEKA 1088
            +EE + E+ KL KEE E  R+AEE+R+ E      E  R + KA+ ++  E+ + + +KA
Sbjct: 251  LEEKRRELEKLAKEEAERERQAEEQRRREEEKAAMEADRAQAKAEVEKRREKLQNLLKKA 310

Length = 1036

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 41.6 bits (98), Expect = 0.003
 Identities = 51/407 (12%), Positives = 149/407 (36%), Gaps = 59/407 (14%)

Query: 685  AIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDI 744
             + +++  + A      EKLE  +   ++   SL+   +E+      +            
Sbjct: 671  ELEEELAELEAQL----EKLEEELKSLKNELRSLEDLLEELRRQLEELER---------- 716

Query: 745  DGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEE 804
                              +E   +  E++QL+ R E++   + E +E      + ++++E
Sbjct: 717  ------------QLEELKRELAALEEELEQLQSRLEELEEELEELEE------ELEELQE 758

Query: 805  KMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIR---QEAYKH 861
            +++ L +E +SL E + K +   + +++  +   E+L+ L  + + A+      +   + 
Sbjct: 759  RLEELEEELESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELES 818

Query: 862  WQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRK 921
             +  +++   + +   +  ++ ++          + L+       + + EL    +E   
Sbjct: 819  LEQRRERLEQEIEELEEEIEELEE--------KLDELEEELEELEKELEELKEELEELEA 870

Query: 922  EY--VNSNIRSTLRRLKTLDGRSLGPDEEAPLIRPFLNDRVAKN--ISLTQISALEREKT 977
            E   +   ++      + L+            +R   ++       I   +    E E  
Sbjct: 871  EKEELEDELKELEEEKEELEEE----------LRELESELAELKEEIEKLRERLEELEAK 920

Query: 978  EQVVPIKSEKVDDKPFPEVREQGDQIAKFKKPEKPSRAENVSTTVSGRDDEIEEAKEEVP 1037
             + + ++  +++++   E  +  +   + +        E +        +E EE +E   
Sbjct: 921  LERLEVELPELEEELEEEYEDTLETELEREIERLEEEIEALGPVNLRAIEEYEEVEERYE 980

Query: 1038 KLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKRI 1084
            +L  + E+   +  +++  E   +L +++R   K    +  E    I
Sbjct: 981  ELKSQRED--LEEAKEKLLEVIEELDKEKRERFKETFDKINENFSEI 1025

Length = 1163

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 41.0 bits (96), Expect = 0.003
 Identities = 35/139 (25%), Positives = 61/139 (43%), Gaps = 7/139 (5%)

Query: 968  QISALEREKTEQVVPIKSEKVDDKPFPEVREQGDQIAKFKKPEKPSRAENVSTTVSGRDD 1027
            +   LE+    +    ++E+   K   E ++Q ++    +  E  ++AE        +  
Sbjct: 90   RQKELEQRAAAEKAAKQAEQ-AAKQAEEKQKQAEEAKAKQAAEAKAKAEAE---AEKKAK 145

Query: 1028 EIEEAKEEVPKLTKEEEEMARKAEE-KRKEEATAKLREQRRLEEKAKAQEALERKKRIAE 1086
            E  + + E     K   E  +KA E K+K EA AK + +   + KAKA+EA  + +    
Sbjct: 146  EEAKKQAEEEAKAKAAAEAKKKAAEAKKKAEAEAKAKAEA--KAKAKAEEAKAKAEAAKA 203

Query: 1087 KAQTRAALRAQKEAEQKEK 1105
            KA   AA +A+ EA     
Sbjct: 204  KAAAEAAAKAEAEAAAAAA 222

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed

 Score = 41.4 bits (98), Expect = 0.003
 Identities = 28/89 (31%), Positives = 52/89 (58%), Gaps = 8/89 (8%)

Query: 1027 DEIEEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKA----KAQEALERKK 1082
            ++ E+ +EE  KL +E E+ A++A ++ K+EA   ++E R+L++      KA E +E +K
Sbjct: 555  EKKEKLQEEEDKLLEEAEKEAQQAIKEAKKEADEIIKELRQLQKGGYASVKAHELIEARK 614

Query: 1083 RIAEKAQTRAALRAQKEAEQKEKVRRLKP 1111
            R+ +  + +      K+ +QKEK   LK 
Sbjct: 615  RLNKANEKKEK----KKKKQKEKQEELKV 639

Length = 782

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 40.6 bits (95), Expect = 0.004
 Identities = 27/80 (33%), Positives = 39/80 (48%), Gaps = 6/80 (7%)

Query: 1028 EIEEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKRIAE- 1086
            E E   +   +  K+  E  +KAE + K +A AK    +   E+AKA+    + K  AE 
Sbjct: 153  EEEAKAKAAAEAKKKAAEAKKKAEAEAKAKAEAK---AKAKAEEAKAKAEAAKAKAAAEA 209

Query: 1087 --KAQTRAALRAQKEAEQKE 1104
              KA+  AA  A  EAE+K 
Sbjct: 210  AAKAEAEAAAAAAAEAERKA 229

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	1113
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	99.76
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	98.91
PHA02562	562	46 endonuclease subunit; Provisional	98.35
PRK03918	880	chromosome segregation protein; Provisional	98.34
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	98.31
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	98.26
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	98.22
PHA02562	562	46 endonuclease subunit; Provisional	98.17
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	98.16
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	98.15
PRK02224	880	chromosome segregation protein; Provisional	98.14
PRK11637	428	AmiB activator; Provisional	98.14
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	98.11
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	98.11
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	98.11
PRK03918	880	chromosome segregation protein; Provisional	98.04
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	98.03
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	98.03
PRK11637	428	AmiB activator; Provisional	98.01
PRK02224	880	chromosome segregation protein; Provisional	97.98
KOG0964	1200	consensus Structural maintenance of chromosome pro	97.97
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	97.93
KOG0964	1200	consensus Structural maintenance of chromosome pro	97.91
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	97.89
KOG4673	961	consensus Transcription factor TMF, TATA element m	97.8
KOG0996	1293	consensus Structural maintenance of chromosome pro	97.7
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	97.66
PRK04778	569	septation ring formation regulator EzrA; Provision	97.61
PRK01156	895	chromosome segregation protein; Provisional	97.6
PRK04778	569	septation ring formation regulator EzrA; Provision	97.59
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	97.59
PRK01156	895	chromosome segregation protein; Provisional	97.56
PF00038	312	Filament: Intermediate filament protein; InterPro:	97.55
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	97.54
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	97.54
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	97.53
PTZ00121	2084	MAEBL; Provisional	97.49
KOG0996	1293	consensus Structural maintenance of chromosome pro	97.49
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	97.47
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	97.41
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	97.38
KOG0979	1072	consensus Structural maintenance of chromosome pro	97.26
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	97.25
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	97.25
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	97.23
COG4942	420	Membrane-bound metallopeptidase [Cell division and	97.17
PF00038	312	Filament: Intermediate filament protein; InterPro:	97.13
KOG0933	1174	consensus Structural maintenance of chromosome pro	97.11
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	97.05
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	97.02
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	97.01
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	97.01
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	97.0
PRK04863	1486	mukB cell division protein MukB; Provisional	96.99
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	96.97
KOG4673	961	consensus Transcription factor TMF, TATA element m	96.94
PRK04863	1486	mukB cell division protein MukB; Provisional	96.92
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	96.9
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	96.87
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	96.85
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	96.83
COG4942	420	Membrane-bound metallopeptidase [Cell division and	96.82
KOG0933	1174	consensus Structural maintenance of chromosome pro	96.77
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	96.75
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	96.75
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	96.73
KOG0018	1141	consensus Structural maintenance of chromosome pro	96.71
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	96.71
KOG0971	1243	consensus Microtubule-associated protein dynactin	96.68
PRK09039	343	hypothetical protein; Validated	96.67
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	96.61
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	96.53
PTZ00121	2084	MAEBL; Provisional	96.51
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	96.45
KOG0979	1072	consensus Structural maintenance of chromosome pro	96.43
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	96.4
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	96.4
TIGR00634	563	recN DNA repair protein RecN. All proteins in this	96.3
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	96.28
COG4372	499	Uncharacterized protein conserved in bacteria with	96.28
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	96.21
PRK09039	343	hypothetical protein; Validated	96.2
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	96.17
COG5185	622	HEC1 Protein involved in chromosome segregation, i	96.16
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	96.16
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	96.14
PF09728	309	Taxilin: Myosin-like coiled-coil protein; InterPro	96.14
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	96.08
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	96.06
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	96.0
PF09728	309	Taxilin: Myosin-like coiled-coil protein; InterPro	96.0
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	95.86
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	95.83
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	95.69
PF13514	1111	AAA_27: AAA domain	95.59
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	95.57
KOG0018	1141	consensus Structural maintenance of chromosome pro	95.51
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	95.51
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	95.48
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	95.44
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	95.4
COG4477	570	EzrA Negative regulator of septation ring formatio	95.38
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	95.35
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	95.24
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	95.19
PF13166	712	AAA_13: AAA domain	95.19
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	95.14
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	95.05
PF13949	296	ALIX_LYPXL_bnd: ALIX V-shaped domain binding to HI	94.94
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	94.92
PRK10869	553	recombination and repair protein; Provisional	94.87
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	94.83
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	94.72
PF12252	1439	SidE: Dot/Icm substrate protein; InterPro: IPR0210	94.66
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	94.5
KOG1850	391	consensus Myosin-like coiled-coil protein [Cytoske	94.49
KOG4809	654	consensus Rab6 GTPase-interacting protein involved	94.46
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	94.42
PF04912	388	Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamit	94.39
COG5185	622	HEC1 Protein involved in chromosome segregation, i	94.37
KOG0971	1243	consensus Microtubule-associated protein dynactin	94.34
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	94.24
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	94.21
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	94.09
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	94.05
PF13166	712	AAA_13: AAA domain	94.02
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	94.0
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	93.96
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	93.96
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	93.76
KOG2072	988	consensus Translation initiation factor 3, subunit	93.75
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	93.61
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	93.57
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	93.56
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	93.54
KOG0963	629	consensus Transcription factor/CCAAT displacement	93.45
cd08915	342	V_Alix_like Protein-interacting V-domain of mammal	93.4
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	93.38
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	93.38
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	93.37
PRK10869	553	recombination and repair protein; Provisional	93.32
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	93.21
KOG0239	670	consensus Kinesin (KAR3 subfamily) [Cytoskeleton]	92.88
KOG2751	447	consensus Beclin-like protein [Signal transduction	92.68
PRK10929	1109	putative mechanosensitive channel protein; Provisi	92.56
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	92.56
PF15450	531	DUF4631: Domain of unknown function (DUF4631)	92.52
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	92.39
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	92.34
PRK11281	1113	hypothetical protein; Provisional	92.33
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	92.21
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	91.88
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	91.79
PF06705	247	SF-assemblin: SF-assemblin/beta giardin	91.76
KOG1003	205	consensus Actin filament-coating protein tropomyos	91.69
KOG1937	521	consensus Uncharacterized conserved protein [Funct	91.56
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	91.51
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	91.48
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	91.4
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	91.23
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	91.2
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	91.12
KOG1937	521	consensus Uncharacterized conserved protein [Funct	91.12
KOG0163	1259	consensus Myosin class VI heavy chain [Cytoskeleto	90.95
COG4372	499	Uncharacterized protein conserved in bacteria with	90.68
PF15290	305	Syntaphilin: Golgi-localised syntaxin-1-binding cl	90.64
PF14662	193	CCDC155: Coiled-coil region of CCDC155	90.61
PRK10884	206	SH3 domain-containing protein; Provisional	90.48
PF10234	267	Cluap1: Clusterin-associated protein-1; InterPro:	90.37
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	90.35
PF03999	619	MAP65_ASE1: Microtubule associated protein (MAP65/	90.11
PRK10929	1109	putative mechanosensitive channel protein; Provisi	89.97
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	89.69
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	89.56
PF04782	312	DUF632: Protein of unknown function (DUF632); Inte	89.55
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	89.3
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	89.02
PF12252	1439	SidE: Dot/Icm substrate protein; InterPro: IPR0210	89.01
PF13514	1111	AAA_27: AAA domain	88.73
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	88.38
PF11600	216	CAF-1_p150: Chromatin assembly factor 1 complex p1	88.32
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	87.85
PF05384	159	DegS: Sensor protein DegS; InterPro: IPR008595 Thi	87.84
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	87.78
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	87.45
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	87.38
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	87.38
TIGR02894	161	DNA_bind_RsfA transcription factor, RsfA family. I	87.37
PRK10246	1047	exonuclease subunit SbcC; Provisional	87.35
PRK15422	79	septal ring assembly protein ZapB; Provisional	87.2
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	87.16
PLN03188	1320	kinesin-12 family protein; Provisional	87.09
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	87.02
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	86.89
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	86.74
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	86.7
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	86.66
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	86.59
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	86.36
cd09234	337	V_HD-PTP_like Protein-interacting V-domain of mamm	85.79
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	85.57
cd09235	339	V_Alix Middle V-domain of mammalian Alix and relat	85.56
cd07651	236	F-BAR_PombeCdc15_like The F-BAR (FES-CIP4 Homology	85.53
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	85.38
KOG4302	660	consensus Microtubule-associated protein essential	85.02
cd07623	224	BAR_SNX1_2 The Bin/Amphiphysin/Rvs (BAR) domain of	85.02
cd09238	339	V_Alix_like_1 Protein-interacting V-domain of an u	84.95
KOG0239	670	consensus Kinesin (KAR3 subfamily) [Cytoskeleton]	84.84
KOG1962	216	consensus B-cell receptor-associated protein and r	84.81
PRK10361	475	DNA recombination protein RmuC; Provisional	84.8
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	84.49
PF07946	321	DUF1682: Protein of unknown function (DUF1682); In	84.47
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	84.3
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	84.2
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	83.98
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	83.87
PF03904	230	DUF334: Domain of unknown function (DUF334); Inter	83.84
PF15397	258	DUF4618: Domain of unknown function (DUF4618)	83.63
PRK10698	222	phage shock protein PspA; Provisional	83.55
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	83.54
PF11600	216	CAF-1_p150: Chromatin assembly factor 1 complex p1	83.46
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	83.08
KOG4302	660	consensus Microtubule-associated protein essential	82.96
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	82.82
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	82.25
PF06705	247	SF-assemblin: SF-assemblin/beta giardin	82.11
KOG0810	297	consensus SNARE protein Syntaxin 1 and related pro	82.0
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	81.92
PRK10698	222	phage shock protein PspA; Provisional	81.91
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	81.87
cd07653	251	F-BAR_CIP4-like The F-BAR (FES-CIP4 Homology and B	81.84
PF15233	134	SYCE1: Synaptonemal complex central element protei	81.8
cd07657	237	F-BAR_Fes_Fer The F-BAR (FES-CIP4 Homology and Bin	81.63
KOG2129	552	consensus Uncharacterized conserved protein H4 [Fu	81.39
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	81.34
PF15066	527	CAGE1: Cancer-associated gene protein 1 family	80.46
TIGR03545	555	conserved hypothetical protein TIGR03545. This mod	80.36
KOG0288	459	consensus WD40 repeat protein TipD [General functi	80.18
KOG0163	1259	consensus Myosin class VI heavy chain [Cytoskeleto	80.06

>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]

Probab=99.76  E-value=1.2e-15  Score=164.46  Aligned_cols=206  Identities=18%  Similarity=0.309  Sum_probs=138.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------
Q 001257          662 DENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSR----------  731 (1113)
Q Consensus       662 DEeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsa----------  731 (1113)
                      ...+..++..+...+..++++|+.++.++++++++|++|+.+++.++++.++++..+++..+++..++..          
T Consensus         8 ~~E~e~K~~~lk~~~~e~~ekR~El~~~~~~~~ekRdeln~kvrE~~e~~~elr~~rdeineev~elK~kR~ein~kl~e   87 (294)
T COG1340           8 LDELELKRKQLKEEIEELKEKRDELRKEASELAEKRDELNAKVRELREKAQELREERDEINEEVQELKEKRDEINAKLQE   87 (294)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566677778888888888888888888888888888888888888777666666555555444443332          


Q ss_pred             -----------Hhhcc-cCCCHHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHhhhH
Q 001257          732 -----------INMMK-NAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQK  799 (1113)
Q Consensus       732 -----------L~KLR-NAKSVEEIDarIkrLE~RIQTgSLSLvEEKKLLKEIKQLKKqRKkViAnaa~rAkIQESidQK  799 (1113)
                                 ++..+ +..++..|.+.|.+|+|.++|.+||+.+|+++|++|++|++....+              ...
T Consensus        88 L~~~~~~l~e~~~~~~~~~~~~~~ler~i~~Le~~~~T~~L~~e~E~~lvq~I~~L~k~le~~--------------~k~  153 (294)
T COG1340          88 LRKEYRELKEKRNEFNLGGRSIKSLEREIERLEKKQQTSVLTPEEERELVQKIKELRKELEDA--------------KKA  153 (294)
T ss_pred             HHHHHHHHHHHhhhhhccCCCHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHH--------------HHH
Confidence                       11110 1369999999999999999999999999999999999999987652              222


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 001257          800 DQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKY  879 (1113)
Q Consensus       800 EaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqn  879 (1113)
                      .....+++.|.+++++++.+...++.++.+|..+.++++.++..+..+.+.+....|++.+.+-.+++..++.|..|-+.
T Consensus       154 ~e~~~~~~el~aei~~lk~~~~e~~eki~~la~eaqe~he~m~k~~~~~De~Rkeade~he~~ve~~~~~~e~~ee~~~~  233 (294)
T COG1340         154 LEENEKLKELKAEIDELKKKAREIHEKIQELANEAQEYHEEMIKLFEEADELRKEADELHEEFVELSKKIDELHEEFRNL  233 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            34456777888888877777666665555555555555555444444444444444444444444444444444444433


Q ss_pred             HH
Q 001257          880 KD  881 (1113)
Q Consensus       880 RR  881 (1113)
                      +.
T Consensus       234 ~~  235 (294)
T COG1340         234 QN  235 (294)
T ss_pred             HH
Confidence            33

>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]

Probab=98.91  E-value=4.9e-06  Score=91.31  Aligned_cols=70  Identities=20%  Similarity=0.275  Sum_probs=50.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 001257          818 ENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQAN  887 (1113)
Q Consensus       818 kKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnRR~irKAR  887 (1113)
                      .++..+.++++++.++..+++.+|.+|..+.++++.++.++|.+++.+|++.|++|..|.+++..+...+
T Consensus       158 ~~~~el~aei~~lk~~~~e~~eki~~la~eaqe~he~m~k~~~~~De~Rkeade~he~~ve~~~~~~e~~  227 (294)
T COG1340         158 EKLKELKAEIDELKKKAREIHEKIQELANEAQEYHEEMIKLFEEADELRKEADELHEEFVELSKKIDELH  227 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            3444455666677777777777777777777777777777777777777777777777777777665443

>PHA02562 46 endonuclease subunit; Provisional

Probab=98.35  E-value=0.00039  Score=79.79  Aligned_cols=74  Identities=8%  Similarity=0.096  Sum_probs=40.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          805 KMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWK  878 (1113)
Q Consensus       805 QIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYq  878 (1113)
                      ++..+...+.+++..+...+..+..+..+...++.+|..|......+......+..+|..|+.++.+..+..+.
T Consensus       331 ~~~~~~~~i~el~~~i~~~~~~i~~~~~~~~~l~~ei~~l~~~~~~~~~~l~~l~~~l~~~~~~~~~~~ke~~~  404 (562)
T PHA02562        331 EFNEQSKKLLELKNKISTNKQSLITLVDKAKKVKAAIEELQAEFVDNAEELAKLQDELDKIVKTKSELVKEKYH  404 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444445455555555555555555555555555666666666666666665554443

>PRK03918 chromosome segregation protein; Provisional

Probab=98.34  E-value=0.00083  Score=81.18  Aligned_cols=30  Identities=10%  Similarity=0.353  Sum_probs=17.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTI  693 (1113)
Q Consensus       664 eLKAKIdeLqKEIeELKQkRdAInaELkak  693 (1113)
                      .+..+|..++.++..++..+..+..+++.+
T Consensus       456 ~~~~ei~~l~~~~~~l~~~~~~l~~~~~~~  485 (880)
T PRK03918        456 EYTAELKRIEKELKEIEEKERKLRKELREL  485 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455566666666666666555555555443

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=98.31  E-value=0.0011  Score=81.23  Aligned_cols=33  Identities=12%  Similarity=0.302  Sum_probs=15.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTIRAS  696 (1113)
Q Consensus       664 eLKAKIdeLqKEIeELKQkRdAInaELkakRAE  696 (1113)
                      .+..++..+..++..+......+..++..++.+
T Consensus       678 ~l~~~l~~l~~~l~~l~~~~~~~~~~l~~l~~~  710 (1164)
T TIGR02169       678 RLRERLEGLKRELSSLQSELRRIENRLDELSQE  710 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555555555555544444444444444333

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent.

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=98.26  E-value=0.00081  Score=82.37  Aligned_cols=30  Identities=13%  Similarity=0.321  Sum_probs=13.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTI  693 (1113)
Q Consensus       664 eLKAKIdeLqKEIeELKQkRdAInaELkak  693 (1113)
                      .+..++..++.++..+......+..++..+
T Consensus       685 ~l~~~l~~l~~~~~~~~~~l~~l~~~~~~~  714 (1164)
T TIGR02169       685 GLKRELSSLQSELRRIENRLDELSQELSDA  714 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444444444333333

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent.

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=98.22  E-value=0.0023  Score=78.03  Aligned_cols=53  Identities=17%  Similarity=0.290  Sum_probs=28.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARE  716 (1113)
Q Consensus       664 eLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlRe  716 (1113)
                      .+..+++.++.++..+......+..++..+..+...+..++..+..+...+..
T Consensus       674 ~l~~e~~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~  726 (1179)
T TIGR02168       674 ERRREIEELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSR  726 (1179)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566666666666666655555555555555555555444444444333333

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.

>PHA02562 46 endonuclease subunit; Provisional

Probab=98.17  E-value=0.0063  Score=70.12  Aligned_cols=26  Identities=15%  Similarity=0.377  Sum_probs=10.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          666 REQIKAAQSKVDEKTRSRDAIRDDIQ  691 (1113)
Q Consensus       666 KAKIdeLqKEIeELKQkRdAInaELk  691 (1113)
                      +.++..++.+++.+......+..++.
T Consensus       173 k~~~~e~~~~i~~l~~~i~~l~~~i~  198 (562)
T PHA02562        173 KDKIRELNQQIQTLDMKIDHIQQQIK  198 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444433333

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=98.16  E-value=0.0032  Score=76.84  Aligned_cols=58  Identities=19%  Similarity=0.369  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKS  720 (1113)
Q Consensus       663 EeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~E  720 (1113)
                      ..++..+..++.++..+......+..++..++.+...+..++..+..+...++..+..
T Consensus       680 ~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  737 (1179)
T TIGR02168       680 EELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISALRKDLAR  737 (1179)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556666666666666655555555555555555444444444444443333333333

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.

>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]

Probab=98.15  E-value=0.0025  Score=80.63  Aligned_cols=108  Identities=14%  Similarity=0.203  Sum_probs=45.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 001257          806 MKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQ  885 (1113)
Q Consensus       806 IKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnRR~irK  885 (1113)
                      +..+..++...+..+..+..++..+..++.++..++..+...+..+..........+..++++....+..+-.++.....
T Consensus       809 ~~~~~~~~~~~~~~~~~~~~ei~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~~l~~~~~~~~~  888 (1163)
T COG1196         809 LDALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKELEEEKEE  888 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333344433333333444444444444444444444444444444444444444444444444444444433333322


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHHHhC
Q 001257          886 ANDLASKGDREALQHLCVNQVERVLELWNN  915 (1113)
Q Consensus       886 ARELAakgdveELeelC~~EVEkFMelWNn  915 (1113)
                      ......  .+..-...|..+++++...|+.
T Consensus       889 l~~~l~--~~~~~~~~~~~~~~~~~~~~~~  916 (1163)
T COG1196         889 LEEELR--ELESELAELKEEIEKLRERLEE  916 (1163)
T ss_pred             HHHHHH--HHHHHHHHHHHHHHHHHHHHHH
Confidence            222210  1112223345666666666643

>PRK02224 chromosome segregation protein; Provisional

Probab=98.14  E-value=0.0058  Score=74.44  Aligned_cols=41  Identities=12%  Similarity=0.246  Sum_probs=23.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 001257          850 AADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLA  890 (1113)
Q Consensus       850 ALdEkRDEAYEeLkeLRKERDEkNkeFYqnRR~irKARELA  890 (1113)
                      .+....+.+-..+..|+..........-.++..+..++.+.
T Consensus       409 ~~e~~l~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l  449 (880)
T PRK02224        409 NAEDFLEELREERDELREREAELEATLRTARERVEEAEALL  449 (880)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344455555566666665555555555666666666533

>PRK11637 AmiB activator; Provisional

Probab=98.14  E-value=0.0034  Score=71.36  Aligned_cols=68  Identities=21%  Similarity=0.326  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQS  730 (1113)
Q Consensus       663 EeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQs  730 (1113)
                      ..++.++++++++|+++.+....+..+++....+...+..+|..+..++......+...-.+|..++.
T Consensus        43 ~~~~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~  110 (428)
T PRK11637         43 SDNRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNA  110 (428)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45677777777777766666665555555555555555555544444444444443333333333333

>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]

Probab=98.11  E-value=0.0039  Score=78.95  Aligned_cols=92  Identities=14%  Similarity=0.247  Sum_probs=63.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          799 KDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWK  878 (1113)
Q Consensus       799 KEaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYq  878 (1113)
                      ...+..++..++.+++.+...++.+......+..++.++..++..+..++..+......+-+.+..++..+.+....|-.
T Consensus       392 ~~~~~~~l~~l~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~  471 (1163)
T COG1196         392 LAEIRNELEELKREIESLEERLERLSERLEDLKEELKELEAELEELQTELEELNEELEELEEQLEELRDRLKELERELAE  471 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455566666666666666666666666677767777777766666677777777777777777777777777777777


Q ss_pred             hHHHHHHHHHHH
Q 001257          879 YKDDTKQANDLA  890 (1113)
Q Consensus       879 nRR~irKARELA  890 (1113)
                      .+..+..++...
T Consensus       472 ~~~~~~~~~~~l  483 (1163)
T COG1196         472 LQEELQRLEKEL  483 (1163)
T ss_pred             HHHHHHHHHHHH
Confidence            777776666543

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=98.11  E-value=0.0026  Score=83.69  Aligned_cols=171  Identities=17%  Similarity=0.280  Sum_probs=100.8

Q ss_pred             HHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Q 001257          741 VDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENV  820 (1113)
Q Consensus       741 VEEIDarIkrLE~RIQTgSLSLvEEKKLLKEIKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIKaLKKELDELRkKL  820 (1113)
                      +..+.+.+..||-.+.-.-..|..|+++..+....++...  ......+..+.....++..+..+++....++..+..++
T Consensus      1008 ~~~l~k~~~kle~~l~~le~~le~e~~~r~e~Ek~~rkle--~el~~~~e~~~~~~~~~~el~~~l~kke~El~~l~~k~ 1085 (1930)
T KOG0161|consen 1008 AKSLNKAKAKLEQQLDDLEVTLEREKRIRMELEKAKRKLE--GELKDLQESIEELKKQKEELDNQLKKKESELSQLQSKL 1085 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4456667778888888888889999999988884333322  22223344444444556666666766666777777776


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHH--------------HHHHHHh
Q 001257          821 IKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHW-------QSLKKQAYDK--------------NQHFWKY  879 (1113)
Q Consensus       821 kkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeL-------keLRKERDEk--------------NkeFYqn  879 (1113)
                      ......+..+.+.+.++...|.+|.+++.+-...|.++=..+       .+|+.+.++.              ...|+..
T Consensus      1086 e~e~~~~~~l~k~i~eL~~~i~el~e~le~er~~r~K~ek~r~dL~~ele~l~~~Lee~~~~t~~q~e~~~k~e~e~~~l 1165 (1930)
T KOG0161|consen 1086 EDEQAEVAQLQKQIKELEARIKELEEELEAERASRAKAERQRRDLSEELEELKEELEEQGGTTAAQLELNKKREAEVQKL 1165 (1930)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence            666666666666666666666666666665555555444333       3333333332              1244545


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHh
Q 001257          880 KDDTKQANDLASKGDREALQHLCVNQVERVLELWN  914 (1113)
Q Consensus       880 RR~irKARELAakgdveELeelC~~EVEkFMelWN  914 (1113)
                      |+.+..+. +.....+..|+..|...+...-+..-
T Consensus      1166 ~~~leee~-~~~e~~~~~lr~~~~~~~~el~~qle 1199 (1930)
T KOG0161|consen 1166 RRDLEEET-LDHEAQIEELRKKHADSLAELQEQLE 1199 (1930)
T ss_pred             HHHHHHHH-HhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55544332 22344556666666666666555543

>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT)

Probab=98.11  E-value=0.0033  Score=74.39  Aligned_cols=210  Identities=17%  Similarity=0.271  Sum_probs=107.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCHHHH
Q 001257          665 LREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDI  744 (1113)
Q Consensus       665 LKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLRNAKSVEEI  744 (1113)
                      +..++...+++..++.+....|..+...++.+-..|...|...+.+...+.....+.......|......|.  ...++.
T Consensus       141 lQ~qlE~~qkE~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~kel~~~~e~l~~E~~~L~--~q~~e~  218 (546)
T PF07888_consen  141 LQNQLEECQKEKEELLKENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQKELTESSEELKEERESLK--EQLAEA  218 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHH
Confidence            566666666666666666666666666666655555555555554444444433333333333333222222  123455


Q ss_pred             HHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          745 DGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAE  824 (1113)
Q Consensus       745 DarIkrLE~RIQTgSLSLvEEKKLLKEIKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIKaLKKELDELRkKLkkLE  824 (1113)
                      ..+|..||..|.+-+=...+--+++.+++.++..+++...  ..+..++....+......+...+..+++.++.+|..++
T Consensus       219 ~~ri~~LEedi~~l~qk~~E~e~~~~~lk~~~~elEq~~~--eLk~rLk~~~~~~~~~~~~~~~~~~e~e~LkeqLr~~q  296 (546)
T PF07888_consen  219 RQRIRELEEDIKTLTQKEKEQEKELDKLKELKAELEQLEA--ELKQRLKETVVQLKQEETQAQQLQQENEALKEQLRSAQ  296 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHH
Confidence            5677777777665554556666677777766655554211  11133333333333333333445556666666655555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHhHHHHHH
Q 001257          825 AATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKK--------------QAYDKNQHFWKYKDDTKQ  885 (1113)
Q Consensus       825 eklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRK--------------ERDEkNkeFYqnRR~irK  885 (1113)
                      ..+.+..       .+..-|.+++.++...||.....+-.-|=              +..+....|.+-|..+..
T Consensus       297 e~lqaSq-------q~~~~L~~EL~~~~~~RDrt~aeLh~aRLe~aql~~qLad~~l~lke~~~q~~qEk~~l~~  364 (546)
T PF07888_consen  297 EQLQASQ-------QEAELLRKELSDAVNVRDRTMAELHQARLEAAQLKLQLADASLELKEGRSQWAQEKQALQH  364 (546)
T ss_pred             HHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555444       44444555555555555555444333222              334444566666665543

This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].

>PRK03918 chromosome segregation protein; Provisional

Probab=98.04  E-value=0.0084  Score=72.74  Aligned_cols=19  Identities=11%  Similarity=0.288  Sum_probs=9.0

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 001257          664 NLREQIKAAQSKVDEKTRS  682 (1113)
Q Consensus       664 eLKAKIdeLqKEIeELKQk  682 (1113)
                      .+..+|..++.++..+...
T Consensus       463 ~l~~~~~~l~~~~~~l~~~  481 (880)
T PRK03918        463 RIEKELKEIEEKERKLRKE  481 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4455555555544444443

>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=98.03  E-value=0.0011  Score=70.18  Aligned_cols=219  Identities=16%  Similarity=0.235  Sum_probs=131.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCHHHHHH
Q 001257          667 EQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDG  746 (1113)
Q Consensus       667 AKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLRNAKSVEEIDa  746 (1113)
                      +||..++.++.....+...+..++.....++...-.++..|..++..+-..+..--..+......|..+.  +..++.++
T Consensus         1 kK~~~l~~eld~~~~~~~~~~~~l~~~~~~~~~aE~e~~~l~rri~~lE~~le~~eerL~~~~~kL~~~e--~~~de~er   78 (237)
T PF00261_consen    1 KKIQQLKDELDEAEERLEEAEEKLKEAEKRAEKAEAEVASLQRRIQLLEEELERAEERLEEATEKLEEAE--KRADESER   78 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHCCCCHHHHHHHHHH--HHHHHHCH
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH--HHHHHHHH
Confidence            3667777777777777777777777766666666666666655544443322221111112222222211  23333333


Q ss_pred             HHHHHHHHhhcCCCChHHHHHHHHHHHHH----HHHHHHh-hhcccchhHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          747 SIRNMEHRIAHETLPLKEEKQIIREIKQL----KQRREQI-SSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVI  821 (1113)
Q Consensus       747 rIkrLE~RIQTgSLSLvEEKKLLKEIKQL----KKqRKkV-iAnaa~rAkIQESidQKEaIqEQIKaLKKELDELRkKLk  821 (1113)
                      ..+.||.+..+..-.+..=-.-|+++...    ......+ ..+......+..+...-+.+..+|+.|..+|..+...++
T Consensus        79 ~~k~lE~r~~~~eeri~~lE~~l~ea~~~~ee~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~el~~~~~~lk  158 (237)
T PF00261_consen   79 ARKVLENREQSDEERIEELEQQLKEAKRRAEEAERKYEEVERKLKVLEQELERAEERAEAAESKIKELEEELKSVGNNLK  158 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHH
Confidence            33344333333211111111111111111    1111110 001112233333334445777889999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 001257          822 KAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQAN  887 (1113)
Q Consensus       822 kLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnRR~irKAR  887 (1113)
                      .++..-..+..+.+.+..+|..|..+++.+-..-+.|-.....|-.+.+.....++..+.....++
T Consensus       159 ~lE~~~~~~~~re~~~e~~i~~L~~~lkeaE~Rae~aE~~v~~Le~~id~le~eL~~~k~~~~~~~  224 (237)
T PF00261_consen  159 SLEASEEKASEREDEYEEKIRDLEEKLKEAENRAEFAERRVKKLEKEIDRLEDELEKEKEKYKKVQ  224 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999989999999999999999999999999999999999999999999999999987777665443

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....

>TIGR00606 rad50 rad50

Probab=98.03  E-value=0.0083  Score=76.94  Aligned_cols=107  Identities=15%  Similarity=0.255  Sum_probs=59.0

Q ss_pred             CCHHHHHHHHHHHHHHhhcCCC---C-hHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHHHHHHHH
Q 001257          739 ISVDDIDGSIRNMEHRIAHETL---P-LKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEAD  814 (1113)
Q Consensus       739 KSVEEIDarIkrLE~RIQTgSL---S-LvEEKKLLKEIKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIKaLKKELD  814 (1113)
                      .|+++|...|..++..+..-.-   . ..+-.++-++|++|+.....+   -+.+.++.+.+..+..+..+|..|..++.
T Consensus       822 ~s~~ele~ei~~~~~el~~l~~~~e~l~~e~e~~~~eI~~Lq~ki~el---~~~klkl~~~l~~r~~le~~L~el~~el~  898 (1311)
T TIGR00606       822 RTVQQVNQEKQEKQHELDTVVSKIELNRKLIQDQQEQIQHLKSKTNEL---KSEKLQIGTNLQRRQQFEEQLVELSTEVQ  898 (1311)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5788888888888877766422   1 222244456666665554332   22344444555555666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          815 SLRENVIKAEAATQAVKKLHREESEKLKRLLGQF  848 (1113)
Q Consensus       815 ELRkKLkkLEeklKALkKK~DEIkaEIdELQEEL  848 (1113)
                      .++..+..+...+..+..++..+..++..+....
T Consensus       899 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  932 (1311)
T TIGR00606       899 SLIREIKDAKEQDSPLETFLEKDQQEKEELISSK  932 (1311)
T ss_pred             HHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHH
Confidence            6666655555555555544444444444433333

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK11637 AmiB activator; Provisional

Probab=98.01  E-value=0.0049  Score=70.13  Aligned_cols=72  Identities=10%  Similarity=0.218  Sum_probs=43.9

Q ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          661 DDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRI  732 (1113)
Q Consensus       661 DDEeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL  732 (1113)
                      ....++.+|..++++|..++.....+..++..+..+-..+..++..+..++......+....++|..++..|
T Consensus        48 ~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l  119 (428)
T PRK11637         48 QLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQ  119 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355677777777777777777776666666666655555555555555555555555555554444444443

>PRK02224 chromosome segregation protein; Provisional

Probab=97.98  E-value=0.012  Score=71.62  Aligned_cols=51  Identities=16%  Similarity=0.319  Sum_probs=25.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERS  713 (1113)
Q Consensus       663 EeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~Kq  713 (1113)
                      ..+...++.+...+..+...+..+..++..+......+..++..+..++..
T Consensus       345 e~~~~~~~~le~~~~~l~~~~~~l~~~~~~~~~~l~~~~~~l~~l~~el~e  395 (880)
T PRK02224        345 ESLREDADDLEERAEELREEAAELESELEEAREAVEDRREEIEELEEEIEE  395 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555566666555555555555555544444444444444444444333

>KOG0964 consensus Structural maintenance of chromosome protein 3 (sister chromatid cohesion complex Cohesin, subunit SMC3) [Cell cycle control, cell division, chromosome partitioning]

Probab=97.97  E-value=0.0051  Score=76.10  Aligned_cols=171  Identities=15%  Similarity=0.203  Sum_probs=114.8

Q ss_pred             CHHHHHHHHHHHHHHh--------hcCCCChHHH--HHHHHHHHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHHH
Q 001257          740 SVDDIDGSIRNMEHRI--------AHETLPLKEE--KQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFL  809 (1113)
Q Consensus       740 SVEEIDarIkrLE~RI--------QTgSLSLvEE--KKLLKEIKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIKaL  809 (1113)
                      ....+..+|..|+.+.        +.+..+-++|  |||=.||.+|.+...             +...+...++..|..+
T Consensus       357 ee~~~~~rl~~l~~~~~~l~~Kqgr~sqFssk~eRDkwir~ei~~l~~~i~-------------~~ke~e~~lq~e~~~~  423 (1200)
T KOG0964|consen  357 EEKRLKKRLAKLEQKQRDLLAKQGRYSQFSSKEERDKWIRSEIEKLKRGIN-------------DTKEQENILQKEIEDL  423 (1200)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhccccccCcHHHHHHHHHHHHHHHHHHHh-------------hhhhHHHHHHHHHHHH
Confidence            4455666777777633        2344555554  788888888887743             2345555667777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 001257          810 RKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDL  889 (1113)
Q Consensus       810 KKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnRR~irKAREL  889 (1113)
                      ..++.+.-.+++++...+.+...++++..+++.++..+++++...|+.++.+=++||..........-.+.+.++.+-.-
T Consensus       424 e~~l~~~~e~i~~l~~si~e~~~r~~~~~~~~~~~k~~~del~~~Rk~lWREE~~l~~~i~~~~~dl~~~~~~L~~~~~r  503 (1200)
T KOG0964|consen  424 ESELKEKLEEIKELESSINETKGRMEEFDAENTELKRELDELQDKRKELWREEKKLRSLIANLEEDLSRAEKNLRATMNR  503 (1200)
T ss_pred             HHHHHHHHHHHHHHHhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            77777777788888888888888888888899999999999999999999999999988888777776666666544221


Q ss_pred             HhcCCHHHHHHHHHHHH-----HHHHHHHhCChHHHHHH
Q 001257          890 ASKGDREALQHLCVNQV-----ERVLELWNNNDEFRKEY  923 (1113)
Q Consensus       890 AakgdveELeelC~~EV-----EkFMelWNnDkeFRkDY  923 (1113)
                      .-..=+..+...|..--     =-.|++..-+..|+--.
T Consensus       504 ~v~nGi~~v~~I~e~~k~ngv~G~v~eL~~v~~~f~tav  542 (1200)
T KOG0964|consen  504 SVANGIDSVRKIKEELKPNGVFGTVYELIKVPNKFKTAV  542 (1200)
T ss_pred             hhhhhhHHHHHHHHHhcccccceehhhhhcCCHHHHhHH
Confidence            11122222322221110     12467777777777543

>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

Probab=97.93  E-value=0.0027  Score=68.68  Aligned_cols=164  Identities=17%  Similarity=0.250  Sum_probs=95.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCHHHHHHHHHHHHHHhhcCCCChHHHHHHHHH
Q 001257          692 TIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIRE  771 (1113)
Q Consensus       692 akRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLRNAKSVEEIDarIkrLE~RIQTgSLSLvEEKKLLKE  771 (1113)
                      .+.-+++.++..|+.+++++..++..+..+..+++.|......+.  ..+.++.++|..++.++ ...-+..+=+.|-.|
T Consensus        21 rl~~~~~~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e--~ei~~~r~r~~~~e~kl-~~v~~~~e~~aL~~E   97 (239)
T COG1579          21 RLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLE--SEIQEIRERIKRAEEKL-SAVKDERELRALNIE   97 (239)
T ss_pred             HHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHH-hccccHHHHHHHHHH
Confidence            333444455555555555555555555555556665555544443  46677788899999999 443444444667778


Q ss_pred             HHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          772 IKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAA  851 (1113)
Q Consensus       772 IKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkAL  851 (1113)
                      |..++..+..+             ..+...+.+++..|.+++..++..+..++..+.+       +...   +..++..+
T Consensus        98 ~~~ak~r~~~l-------------e~el~~l~~~~~~l~~~i~~l~~~~~~~e~~~~e-------~~~~---~e~e~~~i  154 (239)
T COG1579          98 IQIAKERINSL-------------EDELAELMEEIEKLEKEIEDLKERLERLEKNLAE-------AEAR---LEEEVAEI  154 (239)
T ss_pred             HHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHH---HHHHHHHH
Confidence            88877776542             1222233444444445555555444443333333       3333   55666677


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 001257          852 DEIRQEAYKHWQSLKKQAYDKNQHFWKYKD  881 (1113)
Q Consensus       852 dEkRDEAYEeLkeLRKERDEkNkeFYqnRR  881 (1113)
                      ++.+...+.++..|....+..--.||+..+
T Consensus       155 ~e~~~~~~~~~~~L~~~l~~ell~~yeri~  184 (239)
T COG1579         155 REEGQELSSKREELKEKLDPELLSEYERIR  184 (239)
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            777777888888888777776667775443

>KOG0964 consensus Structural maintenance of chromosome protein 3 (sister chromatid cohesion complex Cohesin, subunit SMC3) [Cell cycle control, cell division, chromosome partitioning]

Probab=97.91  E-value=0.0091  Score=73.98  Aligned_cols=245  Identities=12%  Similarity=0.229  Sum_probs=138.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCHH
Q 001257          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVD  742 (1113)
Q Consensus       663 EeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLRNAKSVE  742 (1113)
                      .+|.+.++.++.+|+..+++.++++..++..-..|.....+...|+.+............+.+.+....|..++  .+..
T Consensus       681 ~~l~~~L~~~r~~i~~~~~~i~q~~~~~qk~e~~~~~~~~~~~~l~~e~~~~k~e~~~v~~s~~~k~~~Le~i~--~~l~  758 (1200)
T KOG0964|consen  681 KELQESLDEVRNEIEDIDQKIDQLNNNMQKVENDRNAFKREHEKLKRELNTIKGEKSRVQESLEPKGKELEEIK--TSLH  758 (1200)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhhHHHHHHHHHH--HHHH
Confidence            34666677777777777777777777777766666655555555555554444444444444444444444443  3555


Q ss_pred             HHHHHHHHHHHHhhcCC---CChHHHH---HHHHHHHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHHHHHHHH-H
Q 001257          743 DIDGSIRNMEHRIAHET---LPLKEEK---QIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEAD-S  815 (1113)
Q Consensus       743 EIDarIkrLE~RIQTgS---LSLvEEK---KLLKEIKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIKaLKKELD-E  815 (1113)
                      .+...-..+|..+.+.-   |++.+..   ++=.+|.+|......+.+             .+-.|...+.++...+. .
T Consensus       759 ~~~~~~~~~e~el~sel~sqLt~ee~e~l~kLn~eI~~l~~kl~~~~~-------------er~~~~~rk~~le~~l~~k  825 (1200)
T KOG0964|consen  759 KLESQSNYFESELGSELFSQLTPEELERLSKLNKEINKLSVKLRALRE-------------ERIDIETRKTALEANLNTK  825 (1200)
T ss_pred             HHHHHHHhHHHHHhHHHHhhcCHHHHHHHHHhhHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHH
Confidence            55556666666665543   5666553   344566666555433211             11112223333333322 2


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhcCCH
Q 001257          816 LRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDR  895 (1113)
Q Consensus       816 LRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnRR~irKARELAakgdv  895 (1113)
                      |...++.+++.+..+.  ......++...+.++..+..+...+..++..|...-+...+.--+.+..+-+++.|+.....
T Consensus       826 L~~r~~~l~~ei~~~~--d~~~~~el~~~~~el~~~~~~~e~~~~el~~l~~~i~~~~a~~~~~~~~lE~~~~lek~~~~  903 (1200)
T KOG0964|consen  826 LYKRVNELEQEIGDLN--DSSRRSELELEKSELESEEKRVEAAILELKTLQDSIDKKKAEIKEIKKELEKAKNLEKEKKD  903 (1200)
T ss_pred             HHhhhhHHHHHhhhcc--cccchhhhhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3333333333333332  12223455555566666666666677777777777777777777777777778877543322


Q ss_pred             HHHHHHHHHHHHHHHHHHhCChHHHHHHHHhh
Q 001257          896 EALQHLCVNQVERVLELWNNNDEFRKEYVNSN  927 (1113)
Q Consensus       896 eELeelC~~EVEkFMelWNnDkeFRkDYeKrn  927 (1113)
                      . +.  ...++|+.|.+-+.-..=|++|.++|
T Consensus       904 ~-~~--~dKe~Ek~~~rk~~Ll~KreE~~ekI  932 (1200)
T KOG0964|consen  904 N-IN--FDKELEKLVRRKHMLLKKREECCEKI  932 (1200)
T ss_pred             h-hh--hhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2 22  33899999999888888888888863

>TIGR00606 rad50 rad50

Probab=97.89  E-value=0.017  Score=74.30  Aligned_cols=40  Identities=13%  Similarity=0.148  Sum_probs=20.0

Q ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          661 DDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEY  700 (1113)
Q Consensus       661 DDEeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdEL  700 (1113)
                      ....+..+|..++.++..+......+..+...+..+...|
T Consensus       823 s~~ele~ei~~~~~el~~l~~~~e~l~~e~e~~~~eI~~L  862 (1311)
T TIGR00606       823 TVQQVNQEKQEKQHELDTVVSKIELNRKLIQDQQEQIQHL  862 (1311)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3355666666666666665444444444444433333333

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]

Probab=97.80  E-value=0.19  Score=61.20  Aligned_cols=207  Identities=17%  Similarity=0.216  Sum_probs=98.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hcccCCCHHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHHH
Q 001257          696 SYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRIN-MMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQ  774 (1113)
Q Consensus       696 ERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~-KLRNAKSVEEIDarIkrLE~RIQTgSLSLvEEKKLLKEIKQ  774 (1113)
                      -|.+|..++..|..+...+-..++..+.+++.|+..|. ++.. .-..|-|..|+.|...=+-  |    =|+.|.+=..
T Consensus       403 l~~e~~QRva~lEkKvqa~~kERDalr~e~kslk~ela~~l~~-DeLaEkdE~I~~lm~EGEk--L----SK~ql~qs~i  475 (961)
T KOG4673|consen  403 LREEYHQRVATLEKKVQALTKERDALRREQKSLKKELAAALLK-DELAEKDEIINQLMAEGEK--L----SKKQLAQSAI  475 (961)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhhh-HHHHHHHHHHHHHHHHHHH--h----HHHHHHHHHH
Confidence            35666666666666666666666666777776666553 2221 2345567777776432110  1    1566666555


Q ss_pred             HHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHH
Q 001257          775 LKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLREN--------------VIKAEAATQAVKKLHREESEK  840 (1113)
Q Consensus       775 LKKqRKkViAnaa~rAkIQESidQKEaIqEQIKaLKKELDELRkK--------------LkkLEeklKALkKK~DEIkaE  840 (1113)
                      .+++|.+...+-.+.+          ...++|+.|..|.+.|+.-              +.++.+.++-..+.|...+..
T Consensus       476 IkKLRAk~ke~etl~~----------K~ge~i~~L~sE~~~lk~il~~Kee~Ek~~~E~I~k~~ae~~rq~~~~~~sr~~  545 (961)
T KOG4673|consen  476 IKKLRAKIKEAETLEE----------KKGELITKLQSEENKLKSILRDKEETEKLLQETIEKHQAELTRQKDYYSNSRAL  545 (961)
T ss_pred             HHHHHHHhhhhhHHHH----------HhhhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHH
Confidence            5555544222111111          1123444444444433332              222333333333334444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHH---hCCh
Q 001257          841 LKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELW---NNND  917 (1113)
Q Consensus       841 IdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnRR~irKARELAakgdveELeelC~~EVEkFMelW---NnDk  917 (1113)
                      +..|+.+..++.+--|.||..+                     .++..|- +-..++=+..+..||+-.-.-+   -..-
T Consensus       546 ~~~le~~~~a~qat~d~a~~Dl---------------------qk~nrlk-Qdear~~~~~lvqqv~dLR~~L~~~Eq~a  603 (961)
T KOG4673|consen  546 AAALEAQALAEQATNDEARSDL---------------------QKENRLK-QDEARERESMLVQQVEDLRQTLSKKEQQA  603 (961)
T ss_pred             HHHHHHHHHHHHHhhhhhhhhH---------------------HHHhhhh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444422                     1111110 1112222233334444332222   2345


Q ss_pred             HHHHHHHHhhhhhHhhhhhccCCC
Q 001257          918 EFRKEYVNSNIRSTLRRLKTLDGR  941 (1113)
Q Consensus       918 eFRkDYeKrnl~Sl~rRqlT~DGR  941 (1113)
                      ++|++|.+.-..-|.||+.--.-|
T Consensus       604 arrEd~~R~Ei~~LqrRlqaaE~R  627 (961)
T KOG4673|consen  604 ARREDMFRGEIEDLQRRLQAAERR  627 (961)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            789999999999999998755433

>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=97.70  E-value=0.023  Score=71.65  Aligned_cols=34  Identities=29%  Similarity=0.280  Sum_probs=20.8

Q ss_pred             cCCCCCCCcccccccccCCccccCccccccccccccCCC
Q 001257          442 RDVPGNEALVPESEVVSGSVSSIPEDVNVENVGIQHAGG  480 (1113)
Q Consensus       442 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  480 (1113)
                      .|-||--.     |+|+||-.+|---..-.|-+-.|..|
T Consensus       170 iD~~~~~~-----E~vp~s~~~ItRtA~~~NsSkY~Ing  203 (1293)
T KOG0996|consen  170 IDKPGGTY-----EVVPDSEFTITRTAFRDNSSKYYING  203 (1293)
T ss_pred             eccCCCce-----eecCCCeeEEEehhhhCCCceEeECC
Confidence            46665432     88888877775555555555544433

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=97.66  E-value=0.12  Score=62.02  Aligned_cols=75  Identities=12%  Similarity=0.117  Sum_probs=43.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          804 EKMKFLRKEADSLRENVIKA--EAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWK  878 (1113)
Q Consensus       804 EQIKaLKKELDELRkKLkkL--EeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYq  878 (1113)
                      .+++.+..+++.+..+|...  .+.+..+.++++++..++.++..++..+..++..+...+..|+++..........
T Consensus       398 ~~~~~~e~el~~l~~~l~~~~~~e~i~~l~e~l~~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~  474 (650)
T TIGR03185       398 KELRELEEELAEVDKKISTIPSEEQIAQLLEELGEAQNELFRSEAEIEELLRQLETLKEAIEALRKTLDEKTKQKIN  474 (650)
T ss_pred             HHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            44445555555555555431  2345556666666666666666666666666666666666666666554444433

This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=97.61  E-value=0.043  Score=65.15  Aligned_cols=226  Identities=16%  Similarity=0.235  Sum_probs=98.2

Q ss_pred             CChHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 001257          660 YDDENLREQIKAAQSKVDEKTRSR-----DAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINM  734 (1113)
Q Consensus       660 PDDEeLKAKIdeLqKEIeELKQkR-----dAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~K  734 (1113)
                      |..+.|..+|+.+..++.+.....     .+.+.-+..++..-..|...+..+=.-++.+...+=..   ++.|+.-.++
T Consensus       165 ~a~~~le~~l~~~e~~f~~f~~l~~~Gd~~~A~e~l~~l~~~~~~l~~~~~~iP~l~~~~~~~~P~q---l~el~~gy~~  241 (569)
T PRK04778        165 PALDELEKQLENLEEEFSQFVELTESGDYVEAREILDQLEEELAALEQIMEEIPELLKELQTELPDQ---LQELKAGYRE  241 (569)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHH---HHHHHHHHHH
Confidence            567789999999988887766532     22333444444444444333333322223333322222   3333343333


Q ss_pred             ccc--C-CCHHHHHHHHHHHHHHhhc-----CCCChHHH----HHHHHHHHHHHHHHHHhh-hcccchhHHHHHhhhHHH
Q 001257          735 MKN--A-ISVDDIDGSIRNMEHRIAH-----ETLPLKEE----KQIIREIKQLKQRREQIS-SSIGEHDEVQLAFDQKDQ  801 (1113)
Q Consensus       735 LRN--A-KSVEEIDarIkrLE~RIQT-----gSLSLvEE----KKLLKEIKQLKKqRKkVi-Anaa~rAkIQESidQKEa  801 (1113)
                      |..  + -..-.|+.+|..|..++..     +.+.|.+=    ..|-.+|.+|-...++-. +.-.....+.........
T Consensus       242 m~~~gy~~~~~~i~~~i~~l~~~i~~~~~~l~~l~l~~~~~~~~~i~~~Id~Lyd~lekE~~A~~~vek~~~~l~~~l~~  321 (569)
T PRK04778        242 LVEEGYHLDHLDIEKEIQDLKEQIDENLALLEELDLDEAEEKNEEIQERIDQLYDILEREVKARKYVEKNSDTLPDFLEH  321 (569)
T ss_pred             HHHcCCCCCCCChHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            331  1 1222344555555544444     33333333    334444444444432110 000000000000111123


Q ss_pred             HHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          802 IEEKMKFLRKEADSLREN----------VIKAEAATQAVKKL--------------HREESEKLKRLLGQFKAADEIRQE  857 (1113)
Q Consensus       802 IqEQIKaLKKELDELRkK----------LkkLEeklKALkKK--------------~DEIkaEIdELQEELkALdEkRDE  857 (1113)
                      +.++...|..+++.|+..          ...+..+++.+.+.              |+++..++..+.+++..+...+.+
T Consensus       322 ~~e~~~~l~~Ei~~l~~sY~l~~~e~~~~~~lekeL~~Le~~~~~~~~~i~~~~~~ysel~e~leel~e~leeie~eq~e  401 (569)
T PRK04778        322 AKEQNKELKEEIDRVKQSYTLNESELESVRQLEKQLESLEKQYDEITERIAEQEIAYSELQEELEEILKQLEEIEKEQEK  401 (569)
T ss_pred             HHHHHHHHHHHHHHHHHccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444          33344444444444              444445555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 001257          858 AYKHWQSLKKQAYDKNQHFWKYKDDTKQAND  888 (1113)
Q Consensus       858 AYEeLkeLRKERDEkNkeFYqnRR~irKARE  888 (1113)
                      ..+.+..||+.-......+-.++..+...+.
T Consensus       402 i~e~l~~Lrk~E~eAr~kL~~~~~~L~~ikr  432 (569)
T PRK04778        402 LSEMLQGLRKDELEAREKLERYRNKLHEIKR  432 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555544444444444443333

>PRK01156 chromosome segregation protein; Provisional

Probab=97.60  E-value=0.12  Score=63.76  Aligned_cols=30  Identities=17%  Similarity=0.227  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTI  693 (1113)
Q Consensus       664 eLKAKIdeLqKEIeELKQkRdAInaELkak  693 (1113)
                      .+..+|..+.+++.+++.....|..++..+
T Consensus       473 ~~~~~i~~l~~~i~~l~~~~~~l~~~~~~~  502 (895)
T PRK01156        473 HYNEKKSRLEEKIREIEIEVKDIDEKIVDL  502 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555566666666655555555544443

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=97.59  E-value=0.12  Score=61.60  Aligned_cols=225  Identities=15%  Similarity=0.265  Sum_probs=123.8

Q ss_pred             HHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc-
Q 001257          663 ENLREQIKAAQSKVDE-----KTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMK-  736 (1113)
Q Consensus       663 EeLKAKIdeLqKEIeE-----LKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLR-  736 (1113)
                      |.+...|-.+...+..     .+..-+.+...|+....+-..+...|..|.......|..+...++.++.++..+-..+ 
T Consensus        82 ~~ie~~l~~ae~~~~~~~f~~a~~~~~~~~~~l~~~e~~~~~i~~~l~~l~~~e~~nr~~v~~l~~~y~~~rk~ll~~~~  161 (569)
T PRK04778         82 PDIEEQLFEAEELNDKFRFRKAKHEINEIESLLDLIEEDIEQILEELQELLESEEKNREEVEQLKDLYRELRKSLLANRF  161 (569)
T ss_pred             hhHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence            4566666666665443     3344556677777778888888888888888888888888888888888888775444 


Q ss_pred             -cCCCHHHHHHHHHHHHHHhhc-----CCCChHHHHHHHHHHHH----HHHHHHHhhh-------cc-cchhHHHHHhhh
Q 001257          737 -NAISVDDIDGSIRNMEHRIAH-----ETLPLKEEKQIIREIKQ----LKQRREQISS-------SI-GEHDEVQLAFDQ  798 (1113)
Q Consensus       737 -NAKSVEEIDarIkrLE~RIQT-----gSLSLvEEKKLLKEIKQ----LKKqRKkViA-------na-a~rAkIQESidQ  798 (1113)
                       ...+...|+.+|..||.....     .+--..+=+.+|.+|+.    |+..-+.+=.       .+ .-.++++....+
T Consensus       162 ~~G~a~~~le~~l~~~e~~f~~f~~l~~~Gd~~~A~e~l~~l~~~~~~l~~~~~~iP~l~~~~~~~~P~ql~el~~gy~~  241 (569)
T PRK04778        162 SFGPALDELEKQLENLEEEFSQFVELTESGDYVEAREILDQLEEELAALEQIMEEIPELLKELQTELPDQLQELKAGYRE  241 (569)
T ss_pred             cccchHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence             236888888888888876542     23333333334333322    2221111100       00 001111111111


Q ss_pred             H---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HH
Q 001257          799 K---------DQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADE--------------IR  855 (1113)
Q Consensus       799 K---------EaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdE--------------kR  855 (1113)
                      .         ..|..+|..|+.++......|..++  ++.+..+++.+..+|+.|+..+..-..              ..
T Consensus       242 m~~~gy~~~~~~i~~~i~~l~~~i~~~~~~l~~l~--l~~~~~~~~~i~~~Id~Lyd~lekE~~A~~~vek~~~~l~~~l  319 (569)
T PRK04778        242 LVEEGYHLDHLDIEKEIQDLKEQIDENLALLEELD--LDEAEEKNEEIQERIDQLYDILEREVKARKYVEKNSDTLPDFL  319 (569)
T ss_pred             HHHcCCCCCCCChHHHHHHHHHHHHHHHHHHHhcC--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            1         1344566666666666555555555  566666666666666665554443332              22


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 001257          856 QEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDL  889 (1113)
Q Consensus       856 DEAYEeLkeLRKERDEkNkeFYqnRR~irKAREL  889 (1113)
                      ..+-+....|..+.+..+..|.-+-.....++.+
T Consensus       320 ~~~~e~~~~l~~Ei~~l~~sY~l~~~e~~~~~~l  353 (569)
T PRK04778        320 EHAKEQNKELKEEIDRVKQSYTLNESELESVRQL  353 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHccccCchhHHHHHHH
Confidence            3334444455555555555655433334334433

>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]

Probab=97.59  E-value=0.13  Score=64.88  Aligned_cols=139  Identities=19%  Similarity=0.256  Sum_probs=83.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          799 KDQIEEKMKFLRKEADSLRENVIKAEAAT-QAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFW  877 (1113)
Q Consensus       799 KEaIqEQIKaLKKELDELRkKLkkLEekl-KALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFY  877 (1113)
                      ...++..|..++++++.+++.+..++++. +.+..+..+..+++..|..+...+..+...+-.+++.++..........+
T Consensus       360 ~~~~~n~i~~~k~~~d~l~k~I~~~~~~~~~~~~~~~~e~e~k~~~L~~evek~e~~~~~L~~e~~~~~~~~~~~~ee~~  439 (1074)
T KOG0250|consen  360 IREIENSIRKLKKEVDRLEKQIADLEKQTNNELGSELEERENKLEQLKKEVEKLEEQINSLREELNEVKEKAKEEEEEKE  439 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence            34566778888888888888888888777 66666666666666666666666666666666666666666555555444


Q ss_pred             HhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHhCChHHHHHHHHhhhhhHhhhhhccCCCcCCCC
Q 001257          878 KYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTLDGRSLGPD  946 (1113)
Q Consensus       878 qnRR~irKARELAakgdveELeelC~~EVEkFMelWNnDkeFRkDYeKrnl~Sl~rRqlT~DGR~lnPD  946 (1113)
                      .-++.+...+-- -+.+-..|+.+...+-++.+       .|= .|+-.+|.-..||-.-.-+-..||=
T Consensus       440 ~i~~~i~~l~k~-i~~~~~~l~~lk~~k~dkvs-------~FG-~~m~~lL~~I~r~~~~f~~~P~GPl  499 (1074)
T KOG0250|consen  440 HIEGEILQLRKK-IENISEELKDLKKTKTDKVS-------AFG-PNMPQLLRAIERRKRRFQTPPKGPL  499 (1074)
T ss_pred             HHHHHHHHHHHH-HHHHHHHHHHHHhcccchhh-------hcc-hhhHHHHHHHHHHHhcCCCCCCCCc
Confidence            443332221111 12234555555555554443       344 6777777777776655444444443

>PRK01156 chromosome segregation protein; Provisional

Probab=97.56  E-value=0.12  Score=63.58  Aligned_cols=31  Identities=10%  Similarity=0.083  Sum_probs=14.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          671 AAQSKVDEKTRSRDAIRDDIQTIRASYKEYA  701 (1113)
Q Consensus       671 eLqKEIeELKQkRdAInaELkakRAERdELi  701 (1113)
                      ....+|..+...-..|..++..+......+.
T Consensus       473 ~~~~~i~~l~~~i~~l~~~~~~l~~~~~~~~  503 (895)
T PRK01156        473 HYNEKKSRLEEKIREIEIEVKDIDEKIVDLK  503 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444433

>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope

Probab=97.55  E-value=0.19  Score=54.47  Aligned_cols=64  Identities=17%  Similarity=0.455  Sum_probs=38.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEID  726 (1113)
Q Consensus       663 EeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEId  726 (1113)
                      ..+...|..++..|..+...+..+..+++.++.....+..++......+..+...+...+++++
T Consensus        50 ~~ye~el~~lr~~id~~~~eka~l~~e~~~l~~e~~~~r~k~e~e~~~~~~le~el~~lrk~ld  113 (312)
T PF00038_consen   50 EMYEEELRELRRQIDDLSKEKARLELEIDNLKEELEDLRRKYEEELAERKDLEEELESLRKDLD  113 (312)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhhHHHHhHHhhhhHHHHhhHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhh
Confidence            3467777777777777777777776666666666555555555555444444444444444443

They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....

>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function

Probab=97.54  E-value=0.12  Score=62.35  Aligned_cols=35  Identities=17%  Similarity=0.135  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          806 MKFLRKEADSLRENVIKAEAATQAVKKLHREESEK  840 (1113)
Q Consensus       806 IKaLKKELDELRkKLkkLEeklKALkKK~DEIkaE  840 (1113)
                      |-.+.+-|..-+..|.+.-..++.|++.++.+..+
T Consensus       493 IlEIv~NI~KQk~eI~KIl~DTr~lQkeiN~l~gk  527 (594)
T PF05667_consen  493 ILEIVKNIRKQKEEIEKILSDTRELQKEINSLTGK  527 (594)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333344444444444444

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=97.54  E-value=0.17  Score=60.88  Aligned_cols=49  Identities=16%  Similarity=0.330  Sum_probs=32.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          662 DENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISD  710 (1113)
Q Consensus       662 DEeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE  710 (1113)
                      ...+.++++.+++++..+......+..++..++.++..+..++..++.+
T Consensus       204 ~~~~~~~~~~le~el~~l~~~~e~l~~~i~~l~~ele~a~~~l~~l~~~  252 (650)
T TIGR03185       204 PSSILSEIEALEAELKEQSEKYEDLAQEIAHLRNELEEAQRSLESLEKK  252 (650)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4456677777777777777766666666666666666666666555443

This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.

>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]

Probab=97.53  E-value=0.051  Score=68.44  Aligned_cols=145  Identities=15%  Similarity=0.272  Sum_probs=104.9

Q ss_pred             CChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--Hhhccc
Q 001257          660 YDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSR--INMMKN  737 (1113)
Q Consensus       660 PDDEeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsa--L~KLRN  737 (1113)
                      ++...+...|..|+.++..++..-..+....+.++....++...++.|..++.+....+..++.+|..|+..  ..-+ .
T Consensus       654 ~~~~s~d~~ie~le~e~~~l~~~~~~l~~~~~~~e~~l~e~~~~~~~l~~~~~q~~~~~~~~~~em~el~n~~e~~~~-~  732 (1074)
T KOG0250|consen  654 VDEFSFDDEIEDLEREASRLQKEILELENQRREAEKNLEELEKKLRELSEHIEQIKRRIRKKRAEMTELKNTAEEKQV-D  732 (1074)
T ss_pred             ccchhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhc-c
Confidence            456678888999999988888877888888888888888888888888888888888888888888888873  1111 1


Q ss_pred             CCCHHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHH
Q 001257          738 AISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMK  807 (1113)
Q Consensus       738 AKSVEEIDarIkrLE~RIQTgSLSLvEEKKLLKEIKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIK  807 (1113)
                      -.+++++-.+|...+..|..--.++.+.+.=+..|....+...  ..|.+.+..++..+...+++.+.++
T Consensus       733 ~~~~~~l~~ei~~~~~eIe~~~~~~e~l~~e~e~~~~e~~e~~--~~~~~~~~~l~~e~~~l~~l~~el~  800 (1074)
T KOG0250|consen  733 ISKLEDLAREIKKKEKEIEEKEAPLEKLKEELEHIELEAQELE--EYYAAGREKLQGEISKLDALKEELK  800 (1074)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            3688889999999999998887777777766666665544432  2344455555555554444444443

>PTZ00121 MAEBL; Provisional

Probab=97.49  E-value=0.072  Score=68.53  Aligned_cols=24  Identities=25%  Similarity=0.306  Sum_probs=15.2

Q ss_pred             cCCCChHHHHHHHHHHHHHHHHHH
Q 001257          757 HETLPLKEEKQIIREIKQLKQRRE  780 (1113)
Q Consensus       757 TgSLSLvEEKKLLKEIKQLKKqRK  780 (1113)
                      -+-++..||.|.+.||.+.+..|.
T Consensus      1239 aEEAkraEEeR~~EE~Rk~Eear~ 1262 (2084)
T PTZ00121       1239 AEEAKKAEEERNNEEIRKFEEARM 1262 (2084)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345566666666777766666664

>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=97.49  E-value=0.11  Score=66.08  Aligned_cols=33  Identities=15%  Similarity=0.202  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 001257          848 FKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYK  880 (1113)
Q Consensus       848 LkALdEkRDEAYEeLkeLRKERDEkNkeFYqnR  880 (1113)
                      +..+..++.++-.++..||++...++...+..|
T Consensus       551 l~~~k~e~~~~~k~l~~~~~e~~~~~~~~~~~r  583 (1293)
T KOG0996|consen  551 LPSLKQELKEKEKELPKLRKEERNLKSQLNKLR  583 (1293)
T ss_pred             hhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            333333333334444444443333333333333

>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT)

Probab=97.47  E-value=0.16  Score=60.74  Aligned_cols=44  Identities=9%  Similarity=0.262  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          668 QIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDE  711 (1113)
Q Consensus       668 KIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~  711 (1113)
                      +...|.+....+++....+..++..+.........++..|..+.
T Consensus       151 E~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~  194 (546)
T PF07888_consen  151 EKEELLKENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQ  194 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444444333333333333333333

This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=97.41  E-value=0.17  Score=67.67  Aligned_cols=84  Identities=13%  Similarity=0.224  Sum_probs=69.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 001257          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYK  880 (1113)
Q Consensus       801 aIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnR  880 (1113)
                      ..++.+..++.....+..++.+.+.++..+..++++.+..+..+++.++.+...+.++-+.+.+.|..+.+.-+.++...
T Consensus      1052 ~~~e~~~~~~~~~~el~~~l~kke~El~~l~~k~e~e~~~~~~l~k~i~eL~~~i~el~e~le~er~~r~K~ek~r~dL~ 1131 (1930)
T KOG0161|consen 1052 DLQESIEELKKQKEELDNQLKKKESELSQLQSKLEDEQAEVAQLQKQIKELEARIKELEEELEAERASRAKAERQRRDLS 1131 (1930)
T ss_pred             HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33445555667777777788888888889999999999999999999999999999999999999999988888777666


Q ss_pred             HHHH
Q 001257          881 DDTK  884 (1113)
Q Consensus       881 R~ir  884 (1113)
                      ..+.
T Consensus      1132 ~ele 1135 (1930)
T KOG0161|consen 1132 EELE 1135 (1930)
T ss_pred             HHHH
Confidence            6554

>PF10174 Cast: RIM-binding protein of the cytomatrix active zone; InterPro: IPR019323 This entry represents a family of proteins that form part of the CAZ (cytomatrix at the active zone) complex which is involved in determining the site of synaptic vesicle fusion []

Probab=97.38  E-value=0.19  Score=62.40  Aligned_cols=233  Identities=13%  Similarity=0.221  Sum_probs=130.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc-------cc-----CCCHHHHHHHHHHHHH
Q 001257          686 IRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMM-------KN-----AISVDDIDGSIRNMEH  753 (1113)
Q Consensus       686 InaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KL-------RN-----AKSVEEIDarIkrLE~  753 (1113)
                      +...+.++..+..-|.+.+.+|+.++......+..|.+.+..++..+..+       +.     -.-+.-|..+|..|+.
T Consensus       327 lkesl~~ke~~~~~Lqsdve~Lr~rle~k~~~l~kk~~~~~~~qeE~~~~~~Ei~~l~d~~d~~e~ki~~Lq~kie~Lee  406 (775)
T PF10174_consen  327 LKESLRAKEQEAEMLQSDVEALRFRLEEKNSQLEKKQAQIEKLQEEKSRLQGEIEDLRDMLDKKERKINVLQKKIENLEE  406 (775)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444455566666666666666666666666666555555543322       11     0122223333444443


Q ss_pred             HhhcCCCChHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHH--------HHHHHHHHHHHHHHHHH
Q 001257          754 RIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKF--------LRKEADSLRENVIKAEA  825 (1113)
Q Consensus       754 RIQTgSLSLvEEKKLLKEIKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIKa--------LKKELDELRkKLkkLEe  825 (1113)
                      .+-      ..++++-..-..|..+ ..+...-.....+.+++..++.+...|..        ...+++.+++++..++.
T Consensus       407 ~l~------ekd~ql~~~k~Rl~~~-~d~~~~~~~~~~lEea~~eker~~e~l~e~r~~~e~e~~Eele~~~~e~~~lk~  479 (775)
T PF10174_consen  407 QLR------EKDRQLDEEKERLSSQ-ADSSNEDEALETLEEALREKERLQERLEEQRERAEKERQEELETYQKELKELKA  479 (775)
T ss_pred             HHH------HHHHHHHHHHHHHhcc-ccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            332      2344444444444410 00001111223334444444444444333        35667777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhcC-CHHHH------
Q 001257          826 ATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKG-DREAL------  898 (1113)
Q Consensus       826 klKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnRR~irKARELAakg-dveEL------  898 (1113)
                      .+..+.+++.+-...+..+..+.-.+.....+.+..|..|.......+..+-.-...+.+++..+-.. .+..|      
T Consensus       480 ~~~~LQ~eLsEk~~~l~~~kee~s~l~s~~~K~~s~i~~l~I~lEk~rek~~kl~~ql~k~~~~~e~~~r~~~Le~ev~~  559 (775)
T PF10174_consen  480 KLESLQKELSEKELQLEDAKEEASKLASSQEKKDSEIERLEIELEKKREKHEKLEKQLEKLRANAELRDRIQQLEQEVTR  559 (775)
T ss_pred             HHHHHhhhhHHHHHHHHHhhhHHHHHhhccchhhhHHHHHHHHHHHhhhHHHHHHHHHHHHHhCHhhcchHHHHHHHHHH
Confidence            78888888888777777788888888888888888888888888888887777666666643222111 22122      


Q ss_pred             ----HHHHHHHHHHHHHHHhCChHHHHHHHH
Q 001257          899 ----QHLCVNQVERVLELWNNNDEFRKEYVN  925 (1113)
Q Consensus       899 ----eelC~~EVEkFMelWNnDkeFRkDYeK  925 (1113)
                          -.-|.+||||.|...-.-..-+.+-.+
T Consensus       560 ~~ee~~kaq~EVERLl~~L~~~E~EK~~ke~  590 (775)
T PF10174_consen  560 YREESEKAQAEVERLLDILREAENEKNDKEK  590 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence                335789999999877555555555444

Located at the C terminus is a PDZ-binding motif that binds directly to RIM (a small G protein Rab-3A effector). These proteins also contain four coiled-coil domains [].

>KOG0979 consensus Structural maintenance of chromosome protein SMC5/Spr18, SMC superfamily [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.26  E-value=0.073  Score=66.70  Aligned_cols=219  Identities=16%  Similarity=0.245  Sum_probs=102.5

Q ss_pred             ccCceEEecCCCCChHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHH-------H----HHHHHHHHHHHHHHHHHH
Q 001257          648 KQPFYFLVKVPRYDDENLREQIKAAQSKVDEKTR----SRDAIRDDIQTI-------R----ASYKEYAEKLEAAISDER  712 (1113)
Q Consensus       648 K~pFyYfVKVPRPDDEeLKAKIdeLqKEIeELKQ----kRdAInaELkak-------R----AERdELiEQLKeLReE~K  712 (1113)
                      +.|+|| +-=-.+....+...++.+..+|..+-+    .|=.=.++|...       |    .+.-.+...|..|+...+
T Consensus       113 k~S~y~-iN~~a~t~s~i~elv~~fNIQi~NLCqFLpQDkV~EFa~L~pi~LL~eTekAig~~~ll~~h~eL~~lr~~e~  191 (1072)
T KOG0979|consen  113 KESKYF-INDSATTKSEIEELVAHFNIQIDNLCQFLPQDKVKEFARLSPIELLVETEKAIGAEELLQYHIELMDLREDEK  191 (1072)
T ss_pred             CCccee-eccchhhhHHHHHHHHHHhcccCchhhhccHHHHHHHHcCChHHHHHHHHHhcCchhhHHHHHHHHHHHHHHH
Confidence            568884 555556777888888888888877664    222222222221       1    234555556666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhcccCCCHHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHHHhhh------cc
Q 001257          713 SARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISS------SI  786 (1113)
Q Consensus       713 qlReel~EKIKEIdsLQsaL~KLRNAKSVEEIDarIkrLE~RIQTgSLSLvEEKKLLKEIKQLKKqRKkViA------na  786 (1113)
                      ++...+..+-..++.|.+.+.++.  ++|+-+                  .+..+....|.-|.+.++.|.-      |.
T Consensus       192 ~Le~~~~~~~~~l~~L~~~~~~l~--kdVE~~------------------rer~~~~~~Ie~l~~k~~~v~y~~~~~ey~  251 (1072)
T KOG0979|consen  192 SLEDKLTTKTEKLNRLEDEIDKLE--KDVERV------------------RERERKKSKIELLEKKKKWVEYKKHDREYN  251 (1072)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHH--HHHHHH------------------HHHHHHHHHHHHHHHhccccchHhhhHHHH
Confidence            666666666555555555555543  233322                  2333444444444443332211      00


Q ss_pred             cchhHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          787 GEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLK  866 (1113)
Q Consensus       787 a~rAkIQESidQKEaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLR  866 (1113)
                      +-++...-...+...+.+.++.+...+..|+++..+...+.+.....+++....+.++.+.++.+.+...+++..+..|+
T Consensus       252 ~~k~~~~r~k~~~r~l~k~~~pi~~~~eeLe~~~~et~~~~s~~~~~~~e~~~k~~~~~ek~~~~~~~v~~~~~~le~lk  331 (1072)
T KOG0979|consen  252 AYKQAKDRAKKELRKLEKEIKPIEDKKEELESEKKETRSKISQKQRELNEALAKVQEKFEKLKEIEDEVEEKKNKLESLK  331 (1072)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhhhhhhHHhHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            00000000011111111222222222222222333333334444444444445555555555555566666666666666


Q ss_pred             HHHHHHHHHHHHhHHHHHHHH
Q 001257          867 KQAYDKNQHFWKYKDDTKQAN  887 (1113)
Q Consensus       867 KERDEkNkeFYqnRR~irKAR  887 (1113)
                      ++........-+.+..+..++
T Consensus       332 ~~~~~rq~~i~~~~k~i~~~q  352 (1072)
T KOG0979|consen  332 KAAEKRQKRIEKAKKMILDAQ  352 (1072)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            666655555555555554433

>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins

Probab=97.25  E-value=0.45  Score=61.31  Aligned_cols=73  Identities=16%  Similarity=0.394  Sum_probs=55.8

Q ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 001257          661 DDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRIN  733 (1113)
Q Consensus       661 DDEeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~  733 (1113)
                      +.+.|+++++.+...|..+.....++...+.....+...+...+..+..+.+..+..+.....+...++..+.
T Consensus       601 ~ee~L~~~l~~~~~~l~~~~~~~~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  673 (1201)
T PF12128_consen  601 SEEELRERLEQAEDQLQSAEERQEELEKQLKQINKKIEELKREITQAEQELKQAEQDLQRLKNEREQLKQEIE  673 (1201)
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence            6778999999999999999988888888888877777777777777777666666666666666555555443

>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins

Probab=97.25  E-value=0.83  Score=59.04  Aligned_cols=36  Identities=11%  Similarity=0.312  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          681 RSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARE  716 (1113)
Q Consensus       681 QkRdAInaELkakRAERdELiEQLKeLReE~KqlRe  716 (1113)
                      +.+..++.+++.+++.-..+..+|+.|..++..|..
T Consensus       306 e~~~~~~~~~~~~~~~l~~~~~~L~~i~~~~~~ye~  341 (1201)
T PF12128_consen  306 ELRDELNKELSALNADLARIKSELDEIEQQKKDYED  341 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555555556666666666666666666555543

>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=97.23  E-value=0.062  Score=65.82  Aligned_cols=13  Identities=23%  Similarity=0.243  Sum_probs=8.6

Q ss_pred             HHHHHHHHHHHHH
Q 001257          694 RASYKEYAEKLEA  706 (1113)
Q Consensus       694 RAERdELiEQLKe  706 (1113)
                      |++|.++..|...
T Consensus       415 rar~qem~~Qk~r  427 (1118)
T KOG1029|consen  415 RARRQEMLNQKNR  427 (1118)
T ss_pred             HHHHHHHHhhhhH
Confidence            4777777766654

>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]

Probab=97.17  E-value=0.6  Score=54.64  Aligned_cols=66  Identities=14%  Similarity=0.186  Sum_probs=34.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          662 DENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDS  727 (1113)
Q Consensus       662 DEeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIds  727 (1113)
                      .-....++++.+++|.+++.+......+.+++..+...+...+..+..++.+.-..+....+.|..
T Consensus        33 ~~a~~~~l~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~   98 (420)
T COG4942          33 AAADDKQLKQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIAD   98 (420)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHH
Confidence            333345666666676666666555555555555555555555555555544444444444333333

>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope

Probab=97.13  E-value=0.47  Score=51.54  Aligned_cols=11  Identities=18%  Similarity=0.413  Sum_probs=4.7

Q ss_pred             HHHHHHHHHhh
Q 001257          746 GSIRNMEHRIA  756 (1113)
Q Consensus       746 arIkrLE~RIQ  756 (1113)
                      .+|..|..+++
T Consensus       142 eEi~~L~~~~~  152 (312)
T PF00038_consen  142 EEIEELREQIQ  152 (312)
T ss_dssp             HHHHTTSTT--
T ss_pred             hhhhhhhhccc
Confidence            34555555554

They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....

>KOG0933 consensus Structural maintenance of chromosome protein 2 (chromosome condensation complex Condensin, subunit E) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=97.11  E-value=0.23  Score=62.57  Aligned_cols=77  Identities=12%  Similarity=0.129  Sum_probs=36.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFW  877 (1113)
Q Consensus       801 aIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFY  877 (1113)
                      ....+|..|+.+++.++.++...+...+++..++.++++.+..+..++..+-...++...+.....-++.++...+-
T Consensus       840 ~~~~~~~~l~~e~~~l~~kv~~~~~~~~~~~~el~~~k~k~~~~dt~i~~~~~~~e~~~~e~~~~~l~~kkle~e~~  916 (1174)
T KOG0933|consen  840 QLEKQISSLKSELGNLEAKVDKVEKDVKKAQAELKDQKAKQRDIDTEISGLLTSQEKCLSEKSDGELERKKLEHEVT  916 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHHHHhhhHHHhhhhhHHHHHHHHhhcccchHHHHHhHHH
Confidence            33344445555555555555555544555554444444444444444444444444444444444444444444443

>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site

Probab=97.05  E-value=0.81  Score=54.77  Aligned_cols=225  Identities=16%  Similarity=0.293  Sum_probs=117.3

Q ss_pred             HHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc-
Q 001257          663 ENLREQIKAAQSKVD-----EKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMK-  736 (1113)
Q Consensus       663 EeLKAKIdeLqKEIe-----ELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLR-  736 (1113)
                      +++...+..+...+.     +.++.-..+...+.....+-..+...|..|.......|..+....+.++.++..+-..+ 
T Consensus        78 ~~ie~~L~~ae~~~~~~rf~ka~~~i~~~~~~l~~~e~~i~~i~~~l~~L~~~e~~nr~~i~~l~~~y~~lrk~ll~~~~  157 (560)
T PF06160_consen   78 PEIEEQLFEAEEYADKYRFKKAKQAIKEIEEQLDEIEEDIKEILDELDELLESEEKNREEIEELKEKYRELRKELLAHSF  157 (560)
T ss_pred             HHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            455555555555443     23334445666666667777777777777777777777777777777777777665444 


Q ss_pred             -cCCCHHHHHHHHHHHHHHhhc-----CCCChHHHHHHHHHHHH----HHHHHHHhhhc-------c-cchhHHHHHhhh
Q 001257          737 -NAISVDDIDGSIRNMEHRIAH-----ETLPLKEEKQIIREIKQ----LKQRREQISSS-------I-GEHDEVQLAFDQ  798 (1113)
Q Consensus       737 -NAKSVEEIDarIkrLE~RIQT-----gSLSLvEEKKLLKEIKQ----LKKqRKkViAn-------a-a~rAkIQESidQ  798 (1113)
                       ...+.+.|+.++..||....+     .+--..+=+.+|.+|+.    |+..-+.+=.+       + ...+++++...+
T Consensus       158 ~~G~a~~~Le~~L~~ie~~F~~f~~lt~~GD~~~A~eil~~l~~~~~~l~~~~e~IP~l~~~l~~~~P~ql~eL~~gy~~  237 (560)
T PF06160_consen  158 SYGPAIEELEKQLENIEEEFSEFEELTENGDYLEAREILEKLKEETDELEEIMEDIPKLYKELQKEFPDQLEELKEGYRE  237 (560)
T ss_pred             hhchhHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhHHHHHHHHHHHHH
Confidence             236788888887777765542     22233333444444432    22221111000       0 001111111111


Q ss_pred             H---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHH
Q 001257          799 K---------DQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAAD--------------EIR  855 (1113)
Q Consensus       799 K---------EaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALd--------------EkR  855 (1113)
                      .         ..+..+|+.++..+......|..++  ++.+....+++..+|+.|+..+..=.              ...
T Consensus       238 m~~~gy~l~~~~i~~~i~~i~~~l~~~~~~L~~l~--l~~~~~~~~~i~~~Id~lYd~le~E~~Ak~~V~~~~~~l~~~l  315 (560)
T PF06160_consen  238 MEEEGYYLEHLDIEEEIEQIEEQLEEALALLKNLE--LDEVEEENEEIEERIDQLYDILEKEVEAKKYVEKNLKELYEYL  315 (560)
T ss_pred             HHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHcCC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            1         1344566666666666666666655  66666666666666666654444322              333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 001257          856 QEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDL  889 (1113)
Q Consensus       856 DEAYEeLkeLRKERDEkNkeFYqnRR~irKAREL  889 (1113)
                      ..+...-+.|..+.+.....|.-+-..+..++.|
T Consensus       316 ~~~~~~~~~l~~e~~~v~~sY~L~~~e~~~~~~l  349 (560)
T PF06160_consen  316 EHAKEQNKELKEELERVSQSYTLNHNELEIVREL  349 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHH
Confidence            3333344444444444444444444444444444

EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane

>KOG0612 consensus Rho-associated, coiled-coil containing protein kinase [Signal transduction mechanisms]

Probab=97.02  E-value=1.6  Score=56.41  Aligned_cols=101  Identities=11%  Similarity=0.184  Sum_probs=53.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCHHHHHH
Q 001257          668 QIKAAQSKVDEKTRSRDAIRD-DIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDG  746 (1113)
Q Consensus       668 KIdeLqKEIeELKQkRdAIna-ELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLRNAKSVEEIDa  746 (1113)
                      .+.+|+..|.+++..+..+.. +...+..+.+++..++...+++++.+...+..+..+++-++.....++  .+.+.+..
T Consensus       466 ~~keL~e~i~~lk~~~~el~~~q~~l~q~~~ke~~ek~~~~~~~~~~l~~~~~~~~eele~~q~~~~~~~--~~~~kv~~  543 (1317)
T KOG0612|consen  466 MDKELEETIEKLKSEESELQREQKALLQHEQKEVEEKLSEEEAKKRKLEALVRQLEEELEDAQKKNDNAA--DSLEKVNS  543 (1317)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHhhHHH
Confidence            334444455555555555553 323334555666666777777777777777777777776666554443  24444444


Q ss_pred             HHHHHHHHhhcCCCChHHHHHHHH
Q 001257          747 SIRNMEHRIAHETLPLKEEKQIIR  770 (1113)
Q Consensus       747 rIkrLE~RIQTgSLSLvEEKKLLK  770 (1113)
                      .-+.|+-+..-..--..+++++-.
T Consensus       544 ~rk~le~~~~d~~~e~~~~~kl~~  567 (1317)
T KOG0612|consen  544 LRKQLEEAELDMRAESEDAGKLRK  567 (1317)
T ss_pred             HHHHHHHhhhhhhhhHHHHhhHhh
Confidence            444444444443333444444433

>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site

Probab=97.01  E-value=0.51  Score=56.42  Aligned_cols=53  Identities=21%  Similarity=0.312  Sum_probs=26.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARE  716 (1113)
Q Consensus       664 eLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlRe  716 (1113)
                      .-+..|..++..|......-..|...++.+...=..-+..+..|+..++.+|.
T Consensus        98 ka~~~i~~~~~~l~~~e~~i~~i~~~l~~L~~~e~~nr~~i~~l~~~y~~lrk  150 (560)
T PF06160_consen   98 KAKQAIKEIEEQLDEIEEDIKEILDELDELLESEEKNREEIEELKEKYRELRK  150 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555555555555555555555555543333333344444444443333

EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane

>KOG4674 consensus Uncharacterized conserved coiled-coil protein [Function unknown]

Probab=97.01  E-value=1.4  Score=58.89  Aligned_cols=190  Identities=16%  Similarity=0.123  Sum_probs=103.2

Q ss_pred             CCCChHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHhhhH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          758 ETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQK-DQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHRE  836 (1113)
Q Consensus       758 gSLSLvEEKKLLKEIKQLKKqRKkViAnaa~rAkIQESidQK-EaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DE  836 (1113)
                      ....+.+=+++-.+|.+|+......   -...+.+...+... +.++.+++.+..++..+.+++..++..-..+...+.+
T Consensus      1302 k~~d~~~~~kL~~ei~~Lk~el~~k---e~~~~el~~~~~~~q~~~k~qld~l~~e~~~lt~~~~ql~~~~~rL~~~~~e 1378 (1822)
T KOG4674|consen 1302 KDSDKNDYEKLKSEISRLKEELEEK---ENLIAELKKELNRLQEKIKKQLDELNNEKANLTKELEQLEDLKTRLAAALSE 1378 (1822)
T ss_pred             hcCCHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455666677788888888776521   11223333333322 4666777777777777777777777766777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHH-----------HHHH--HHHHHHHHHHHHHHHHHHHhHHHHHHHH--------------HH
Q 001257          837 ESEKLKRLLGQFKAADEIR-----------QEAY--KHWQSLKKQAYDKNQHFWKYKDDTKQAN--------------DL  889 (1113)
Q Consensus       837 IkaEIdELQEELkALdEkR-----------DEAY--EeLkeLRKERDEkNkeFYqnRR~irKAR--------------EL  889 (1113)
                      .++++-++.....+.+..+           .++|  .++..|++++.+.+.-+-..+....+..              .-
T Consensus      1379 ~~~q~~el~~~~~~~~~~~e~t~rk~e~~~~k~~~~~e~~sl~eeL~e~~q~~~~~~s~~e~i~~e~~~~~k~~~~~~~e 1458 (1822)
T KOG4674|consen 1379 KNAQELELSDKKKAHELMQEDTSRKLEKLKEKLELSEELESLKEELEELQQLQATLQSETEAITKELFEAKKEEEKSTTE 1458 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhHHHHhhhhHHHHHHHHHHHHHHhhhhHHH
Confidence            7777666665555555443           2223  5556666666554333333222221111              11


Q ss_pred             HhcCCHHHHHHHHHHHHHHHHHHHhC----ChHHHHHHHHhhhhhHhhhhhccCCCcCCCCCCCC
Q 001257          890 ASKGDREALQHLCVNQVERVLELWNN----NDEFRKEYVNSNIRSTLRRLKTLDGRSLGPDEEAP  950 (1113)
Q Consensus       890 AakgdveELeelC~~EVEkFMelWNn----DkeFRkDYeKrnl~Sl~rRqlT~DGR~lnPDEkPp  950 (1113)
                      --...+..+....+......-....+    .+.++++|..--.+.+..-.-..+=|+|-|.+.-+
T Consensus      1459 ~~~~~i~~~~e~~~~~~~~~~~~~~~le~~k~e~~~e~e~~~~~~~~~~~E~lk~r~Rl~~eeq~ 1523 (1822)
T KOG4674|consen 1459 RLLEEIKKLLETVRKKTVDADSKSENLEGTKKELESEKEELKQRLTELAAENLKLRSRLAKEEQY 1523 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhhcchhHHH
Confidence            11122333344444433333333333    34445555554455555556677888999998843

>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]

Probab=97.00  E-value=0.92  Score=54.62  Aligned_cols=36  Identities=6%  Similarity=0.133  Sum_probs=19.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          674 SKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAIS  709 (1113)
Q Consensus       674 KEIeELKQkRdAInaELkakRAERdELiEQLKeLRe  709 (1113)
                      ++|..||.+..-.+.+++-+-++-..|.-.|..|+.
T Consensus        42 ~El~~LNDRLA~YIekVR~LEaqN~~L~~di~~lr~   77 (546)
T KOG0977|consen   42 KELQELNDRLAVYIEKVRFLEAQNRKLEHDINLLRG   77 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            455555555555555555555555555555555443

>PRK04863 mukB cell division protein MukB; Provisional

Probab=96.99  E-value=0.5  Score=62.34  Aligned_cols=73  Identities=14%  Similarity=0.284  Sum_probs=47.4

Q ss_pred             EecCCCCChHHHHHHHHHHHHHHHHHHHHHHHHH------------------------------HHHHHHHHHHHHHHHH
Q 001257          654 LVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIR------------------------------DDIQTIRASYKEYAEK  703 (1113)
Q Consensus       654 fVKVPRPDDEeLKAKIdeLqKEIeELKQkRdAIn------------------------------aELkakRAERdELiEQ  703 (1113)
                      |..+|.+-..+.++.|..|+.+++.+-..-..+.                              ..|..++.+|.++..+
T Consensus       773 ~p~~p~~gr~are~~~~~l~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~f~~~pe~~~~~~~~~~~~~~~~  852 (1486)
T PRK04863        773 FPEVPLFGRAAREKRIEQLRAEREELAERYATLSFDVQKLQRLHQAFSRFIGSHLAVAFEADPEAELRQLNRRRVELERA  852 (1486)
T ss_pred             CCCcccccHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhCcchhcCCCcHHHHHHHHHHHHHHHHH
Confidence            4777778899999999999998887765322221                              2334446677777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 001257          704 LEAAISDERSARESLKSKRQEID  726 (1113)
Q Consensus       704 LKeLReE~KqlReel~EKIKEId  726 (1113)
                      |..+..+..+.+..+..-...+.
T Consensus       853 l~~~~~~~~~~~~~~~~~~~~~~  875 (1486)
T PRK04863        853 LADHESQEQQQRSQLEQAKEGLS  875 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            77776666666654444443333

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=96.97  E-value=0.6  Score=61.09  Aligned_cols=38  Identities=8%  Similarity=0.219  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          666 REQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEK  703 (1113)
Q Consensus       666 KAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQ  703 (1113)
                      ..+|++|+.+|.++......+.+++..+.+++..|...
T Consensus       741 ~~ri~el~~~IaeL~~~i~~l~~~l~~l~~r~~~L~~e  778 (1353)
T TIGR02680       741 LRRIAELDARLAAVDDELAELARELRALGARQRALADE  778 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555544444444444444444444333

Members of this protein family belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria). Proteins in this family average over 1400 amino acids in length.

>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]

Probab=96.94  E-value=0.52  Score=57.66  Aligned_cols=36  Identities=22%  Similarity=0.415  Sum_probs=29.1

Q ss_pred             CChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          660 YDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRA  695 (1113)
Q Consensus       660 PDDEeLKAKIdeLqKEIeELKQkRdAInaELkakRA  695 (1113)
                      ++.+++-.+|+.|.+.++.+...|++++.+++.+|.
T Consensus       402 sl~~e~~QRva~lEkKvqa~~kERDalr~e~kslk~  437 (961)
T KOG4673|consen  402 SLREEYHQRVATLEKKVQALTKERDALRREQKSLKK  437 (961)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            566677788888888888888888888888887653

>PRK04863 mukB cell division protein MukB; Provisional

Probab=96.92  E-value=2.5  Score=56.26  Aligned_cols=152  Identities=15%  Similarity=0.192  Sum_probs=74.0

Q ss_pred             CCHHHHHHHHHHHHHHhhcCCCChHHHHHHHHH----HHHHHHHHHHhhhcccchhH--HHHHhhhH-------HHHHHH
Q 001257          739 ISVDDIDGSIRNMEHRIAHETLPLKEEKQIIRE----IKQLKQRREQISSSIGEHDE--VQLAFDQK-------DQIEEK  805 (1113)
Q Consensus       739 KSVEEIDarIkrLE~RIQTgSLSLvEEKKLLKE----IKQLKKqRKkViAnaa~rAk--IQESidQK-------EaIqEQ  805 (1113)
                      -|.++|...+...+.+++.-.-.+.+-++-+..    +++|++....+....+....  .|...-..       ..+-++
T Consensus       435 ~SdEeLe~~LenF~aklee~e~qL~elE~kL~~lea~leql~~~~~~l~~~~Gkv~~~~a~~~~~~~~~~~~~~~~~~~~  514 (1486)
T PRK04863        435 LTADNAEDWLEEFQAKEQEATEELLSLEQKLSVAQAAHSQFEQAYQLVRKIAGEVSRSEAWDVARELLRRLREQRHLAEQ  514 (1486)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHHHhHHHHHHHHh
Confidence            488899999888888887777666655444433    34444444444333222211  11111100       011122


Q ss_pred             HHHHHHHHHHHHHHHHH---HHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          806 MKFLRKEADSLRENVIK---AEAAT--------------QAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQ  868 (1113)
Q Consensus       806 IKaLKKELDELRkKLkk---LEekl--------------KALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKE  868 (1113)
                      +-.++.++.+|+..+..   +..-+              ..+..-..+..+.+..+......+.+.|...-..+..|..+
T Consensus       515 ~~~~~~~~~~l~~~~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~qL~~~  594 (1486)
T PRK04863        515 LQQLRMRLSELEQRLRQQQRAERLLAEFCKRLGKNLDDEDELEQLQEELEARLESLSESVSEARERRMALRQQLEQLQAR  594 (1486)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            22333333333331111   00011              12222233333444555555555666666665555555555


Q ss_pred             HHHHHH---HHHHhHHHHHHHHHHH
Q 001257          869 AYDKNQ---HFWKYKDDTKQANDLA  890 (1113)
Q Consensus       869 RDEkNk---eFYqnRR~irKARELA  890 (1113)
                      ......   .|.++...+.+-++..
T Consensus       595 i~~l~~~ap~W~~a~~al~~L~eq~  619 (1486)
T PRK04863        595 IQRLAARAPAWLAAQDALARLREQS  619 (1486)
T ss_pred             HHHHHHhChHHHhhHHHHHHHHHhc
Confidence            544443   7888888888777774

>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

Probab=96.90  E-value=0.3  Score=53.47  Aligned_cols=66  Identities=18%  Similarity=0.256  Sum_probs=43.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 001257          668 QIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRIN  733 (1113)
Q Consensus       668 KIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~  733 (1113)
                      +|+.++.++..+.-++..+...+++++++...++..+-++..+...+...+...-.++..+++.+.
T Consensus        11 ~iq~lD~e~~rl~~~~~~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~   76 (239)
T COG1579          11 AIQKLDLEKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIK   76 (239)
T ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            566677777777777777777777777777777777766666666666655555555555555443

>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes

Probab=96.87  E-value=0.3  Score=60.11  Aligned_cols=140  Identities=21%  Similarity=0.344  Sum_probs=66.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCHHHHHHHHHHHHHHhhcCCCChHHH
Q 001257          686 IRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEE  765 (1113)
Q Consensus       686 InaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLRNAKSVEEIDarIkrLE~RIQTgSLSLvEE  765 (1113)
                      |+++|+..|..=.+|+.+|..|..-.+.++..+..++++.+.|+..+..|..  +-..=...|..||.+       |.+|
T Consensus       430 LraeLq~~Rq~E~ELRsqis~l~~~Er~lk~eL~qlr~ene~Lq~Kl~~L~~--aRq~DKq~l~~LEkr-------L~eE  500 (697)
T PF09726_consen  430 LRAELQSSRQSEQELRSQISSLTNNERSLKSELSQLRQENEQLQNKLQNLVQ--ARQQDKQSLQQLEKR-------LAEE  500 (697)
T ss_pred             HHHHHHhhhhhHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHH-------HHHH
Confidence            4455555566666666666666665566666666677777776666655531  111112236666666       4455


Q ss_pred             HHHHHHH-HHHHHHHH---Hhhhcccchh--HHHHHh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          766 KQIIREI-KQLKQRRE---QISSSIGEHD--EVQLAF-DQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHR  835 (1113)
Q Consensus       766 KKLLKEI-KQLKKqRK---kViAnaa~rA--kIQESi-dQKEaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~D  835 (1113)
                      ++.=..+ +||...|+   ..... +.++  ..+... +--+....+.+.|..|++.||.+++..++.+..+...+.
T Consensus       501 ~~~R~~lEkQL~eErk~r~~ee~~-aar~~~~~~~~r~e~~e~~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~~  576 (697)
T PF09726_consen  501 RRQRASLEKQLQEERKARKEEEEK-AARALAQAQATRQECAESCRQRRRQLESELKKLRRELKQKEEQIRELESELQ  576 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHh-hhhccccchhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4433333 23333332   21110 1111  000001 111234445555555666666655555555555544443

; GO: 0016021 integral to membrane

>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function

Probab=96.85  E-value=0.97  Score=53.74  Aligned_cols=57  Identities=12%  Similarity=0.200  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQE  857 (1113)
Q Consensus       801 aIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDE  857 (1113)
                      .++..+..|+.+|...+..+..++.........+..+..++..+..++..+...-.+
T Consensus       306 ~L~~~vesL~~ELe~~K~el~~lke~e~~a~~~v~~L~~eL~~~r~eLea~~~~e~~  362 (522)
T PF05701_consen  306 SLRASVESLRSELEKEKEELERLKEREKEASSEVSSLEAELNKTRSELEAAKAEEEK  362 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHHHHHHHHhhhcc
Confidence            444444455555555555555555444444444455555555555555444433333

Several sequences in this family are described as being myosin heavy chain-like.

>PF15070 GOLGA2L5: Putative golgin subfamily A member 2-like protein 5

Probab=96.83  E-value=2  Score=52.47  Aligned_cols=37  Identities=22%  Similarity=0.160  Sum_probs=15.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 001257          844 LLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYK  880 (1113)
Q Consensus       844 LQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnR  880 (1113)
                      ++.++..+.+.....-.++..|..+++.....+-+|.
T Consensus       207 l~~~l~~~~e~le~K~qE~~~Lq~q~dq~~~~Lqqy~  243 (617)
T PF15070_consen  207 LQEKLHNLKEKLELKSQEAQSLQEQRDQYLGHLQQYV  243 (617)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333344444444444444444443

>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]

Probab=96.82  E-value=1.5  Score=51.44  Aligned_cols=34  Identities=15%  Similarity=0.425  Sum_probs=13.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASY  697 (1113)
Q Consensus       664 eLKAKIdeLqKEIeELKQkRdAInaELkakRAER  697 (1113)
                      .+...|..+.+.|....+.+..|..+|+.+..+-
T Consensus        42 q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i   75 (420)
T COG4942          42 QIQKEIAALEKKIREQQDQRAKLEKQLKSLETEI   75 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444433333

>KOG0933 consensus Structural maintenance of chromosome protein 2 (chromosome condensation complex Condensin, subunit E) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=96.77  E-value=1  Score=57.21  Aligned_cols=17  Identities=18%  Similarity=0.022  Sum_probs=8.8

Q ss_pred             HHHHHHHHHHHHHHHHH
Q 001257          897 ALQHLCVNQVERVLELW  913 (1113)
Q Consensus       897 ELeelC~~EVEkFMelW  913 (1113)
                      +-+..|++|+..++..|
T Consensus       878 ~k~~~~dt~i~~~~~~~  894 (1174)
T KOG0933|consen  878 AKQRDIDTEISGLLTSQ  894 (1174)
T ss_pred             HHHHhhhHHHhhhhhHH
Confidence            33444555555555555

>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association []

Probab=96.75  E-value=0.9  Score=50.84  Aligned_cols=50  Identities=6%  Similarity=-0.033  Sum_probs=24.9

Q ss_pred             CChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------H----HHHHHHHHHHHHHHHH
Q 001257          660 YDDENLREQIKAAQSKVDEKTRSRDAIRDDIQT--------I----RASYKEYAEKLEAAIS  709 (1113)
Q Consensus       660 PDDEeLKAKIdeLqKEIeELKQkRdAInaELka--------k----RAERdELiEQLKeLRe  709 (1113)
                      |..+-+.--..+|.+-|.+-+..-..+.+++..        +    -..|..+..+++-++.
T Consensus        68 P~Lely~~~c~EL~~~I~egr~~~~~~E~~~~~~nPpLf~EY~~a~~d~r~~m~~q~~~vK~  129 (325)
T PF08317_consen   68 PMLELYQFSCRELKKYISEGRQIFEEIEEETYESNPPLFREYYTADPDMRLLMDNQFQLVKT  129 (325)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            344444444445555555544444444444322        1    1456667777766654

>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]

Probab=96.75  E-value=0.29  Score=58.65  Aligned_cols=45  Identities=20%  Similarity=0.287  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          804 EKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQF  848 (1113)
Q Consensus       804 EQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEEL  848 (1113)
                      +++..++-.++.||.++.+++..-..+.+++++|+.++.+-+..+
T Consensus       296 EEl~~~R~~i~~Lr~klselE~~n~~L~~~I~dL~~ql~e~~r~~  340 (546)
T KOG0977|consen  296 EELRRIRSRISGLRAKLSELESRNSALEKRIEDLEYQLDEDQRSF  340 (546)
T ss_pred             HHHHHHHhcccchhhhhccccccChhHHHHHHHHHhhhhhhhhhh
Confidence            334444444444444444444444444545555444443333333

>KOG4674 consensus Uncharacterized conserved coiled-coil protein [Function unknown]

Probab=96.73  E-value=1.7  Score=58.21  Aligned_cols=64  Identities=11%  Similarity=0.184  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          667 EQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQS  730 (1113)
Q Consensus       667 AKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQs  730 (1113)
                      .....+.+.|..+.++-..+..+.+.+|.+++.++.+|..+..++..+.-.+.....++..|+.
T Consensus        52 q~~~~~ekK~~~l~q~~~~~~~q~~~~~~e~s~l~~~L~~~~~~~~~l~~~~~~~~~~~~~l~~  115 (1822)
T KOG4674|consen   52 QQLSELEKKILRLEQRLSDLSRQAKLLRNELSDLRNELEQLSSERSNLSWEIDALKLENSQLRR  115 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhhhhhHHHHH
Confidence            3344555566666666666666666666666666666666666555555554444444444443

>KOG0018 consensus Structural maintenance of chromosome protein 1 (sister chromatid cohesion complex Cohesin, subunit SMC1) [Cell cycle control, cell division, chromosome partitioning]

Probab=96.71  E-value=0.41  Score=60.70  Aligned_cols=90  Identities=16%  Similarity=0.193  Sum_probs=76.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          798 QKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFW  877 (1113)
Q Consensus       798 QKEaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFY  877 (1113)
                      ....++++++.++..+..+...++.+...++++..-+.++...+++|+...-.+..+-.++..++..++.+.......++
T Consensus       403 ~~~elE~r~k~l~~sver~~~~~~~L~~~i~s~~~~~~e~~~d~~~l~~~~~~~~~~~~e~n~eL~~~~~ql~das~dr~  482 (1141)
T KOG0018|consen  403 RRAELEARIKQLKESVERLDKRRNKLAAKITSLSRSYEELKHDLDSLESLVSSAEEEPYELNEELVEVLDQLLDASADRH  482 (1141)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHhhhhhhc
Confidence            34577788899999998888998999988999998999999999999999988888888888999988888888888888


Q ss_pred             HhHHHHHHHH
Q 001257          878 KYKDDTKQAN  887 (1113)
Q Consensus       878 qnRR~irKAR  887 (1113)
                      ..-|.++...
T Consensus       483 e~sR~~~~~e  492 (1141)
T KOG0018|consen  483 EGSRRSRKQE  492 (1141)
T ss_pred             ccHHHHHHHH
Confidence            7776665443

>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]

Probab=96.71  E-value=2.8  Score=52.73  Aligned_cols=42  Identities=10%  Similarity=0.235  Sum_probs=27.3

Q ss_pred             CHHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHHHh
Q 001257          740 SVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQI  782 (1113)
Q Consensus       740 SVEEIDarIkrLE~RIQTgSLSLvEEKKLLKEIKQLKKqRKkV  782 (1113)
                      ...+|..+...|+..+++- +.......+=..++.|...+..+
T Consensus       601 ~~~~l~~~~~~l~~~~~~~-~~~~~~~e~~~~~~~l~~~~~~l  642 (908)
T COG0419         601 KLKELEERLSQLEELLQSL-ELSEAENELEEAEEELESELEKL  642 (908)
T ss_pred             HHHHHHHHHHHHHHHHHhh-hhHHHHHHHHHHHHHHHHHHHHH
Confidence            4667777777777777777 55555555556666666665553

>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=96.68  E-value=0.4  Score=59.99  Aligned_cols=68  Identities=18%  Similarity=0.191  Sum_probs=50.4

Q ss_pred             HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhcCCHHHHHHHH
Q 001257          834 HREESEKLKRLLGQFK-AADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLC  902 (1113)
Q Consensus       834 ~DEIkaEIdELQEELk-ALdEkRDEAYEeLkeLRKERDEkNkeFYqnRR~irKARELAakgdveELeelC  902 (1113)
                      ++++++++.+.+.++. .|.++.|.+--+++.|..+.+......|.+--.|.|.|+|.++-+ ..|+++.
T Consensus       477 lee~~EQL~Esn~ele~DLreEld~~~g~~kel~~r~~aaqet~yDrdqTI~KfRelva~Lq-dqlqe~~  545 (1243)
T KOG0971|consen  477 LEEMNEQLQESNRELELDLREELDMAKGARKELQKRVEAAQETVYDRDQTIKKFRELVAHLQ-DQLQELT  545 (1243)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH-HHHHHHH
Confidence            3445566555555544 677888889888899999999999999999999999999976542 3344443

>PRK09039 hypothetical protein; Validated

Probab=96.67  E-value=0.47  Score=53.72  Aligned_cols=52  Identities=13%  Similarity=0.181  Sum_probs=36.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          665 LREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARE  716 (1113)
Q Consensus       665 LKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlRe  716 (1113)
                      |...|...++++..+...-.++-..+.--+.....+...|..++.++..++.
T Consensus        44 Ls~~i~~~~~eL~~L~~qIa~L~e~L~le~~~~~~l~~~l~~l~~~l~~a~~   95 (343)
T PRK09039         44 LSREISGKDSALDRLNSQIAELADLLSLERQGNQDLQDSVANLRASLSAAEA   95 (343)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence            5666777777777776666666666666778888888888888777665444

>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function

Probab=96.61  E-value=1.6  Score=49.68  Aligned_cols=116  Identities=14%  Similarity=0.236  Sum_probs=58.3

Q ss_pred             HHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHH
Q 001257          665 LREQIKA---AQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAI---------------------SDERSARESLKS  720 (1113)
Q Consensus       665 LKAKIde---LqKEIeELKQkRdAInaELkakRAERdELiEQLKeLR---------------------eE~KqlReel~E  720 (1113)
                      |..|.++   +.++++++...|++....+..++.++..|..+.+++.                     .-+...|..-..
T Consensus         4 L~SK~eAL~IL~~eLe~cq~ErDqyKlMAEqLqer~q~LKkk~~el~~~~~~~~d~~~~~~~~~~~La~lL~~sre~Nk~   83 (319)
T PF09789_consen    4 LQSKSEALLILSQELEKCQSERDQYKLMAEQLQERYQALKKKYRELIQEAAGFGDPSIPPEKENKNLAQLLSESREQNKK   83 (319)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccCCccCCcccchhhHHHHHHHHHHHHHH
Confidence            3444443   3456777777777777777777666666655555544                     111233333333


Q ss_pred             HHHHHHHHHHHHhhcccCCCHHHHHHHHHHHHHHhhcCCC--ChHHHHHHHHHHHHHHHHHHHh
Q 001257          721 KRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETL--PLKEEKQIIREIKQLKQRREQI  782 (1113)
Q Consensus       721 KIKEIdsLQsaL~KLRNAKSVEEIDarIkrLE~RIQTgSL--SLvEEKKLLKEIKQLKKqRKkV  782 (1113)
                      ...|+..|++.+..+.  ..+.-|...|+++.-..+....  .+.+--.+|.++..++.+..++
T Consensus        84 L~~Ev~~Lrqkl~E~q--GD~KlLR~~la~~r~~~~~~~~~~~~~ere~lV~qLEk~~~q~~qL  145 (319)
T PF09789_consen   84 LKEEVEELRQKLNEAQ--GDIKLLREKLARQRVGDEGIGARHFPHEREDLVEQLEKLREQIEQL  145 (319)
T ss_pred             HHHHHHHHHHHHHHHh--chHHHHHHHHHhhhhhhccccccccchHHHHHHHHHHHHHHHHHHH
Confidence            3334444444443332  2333344444443332222221  1255567777777777776553

>KOG0612 consensus Rho-associated, coiled-coil containing protein kinase [Signal transduction mechanisms]

Probab=96.53  E-value=2.9  Score=54.25  Aligned_cols=39  Identities=31%  Similarity=0.298  Sum_probs=32.1

Q ss_pred             cchhhhccccCCCCcccccccccccccccccccccccch
Q 001257          387 TEPEVLQGGIDGVDERSISVDNAAVESCTSESVYEESTA  425 (1113)
Q Consensus       387 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  425 (1113)
                      .-|||||...+|-++--...|--.+--|.-+-+|.+.|.
T Consensus       243 ISPEvLqs~~~~~g~yG~ecDwWSlGV~~YEMlyG~TPF  281 (1317)
T KOG0612|consen  243 ISPEVLQSQGDGKGEYGRECDWWSLGVFMYEMLYGETPF  281 (1317)
T ss_pred             cCHHHHHhhcCCccccCCccchhhhHHHHHHHHcCCCcc
Confidence            469999999999888878888888888888888887775

>PTZ00121 MAEBL; Provisional

Probab=96.51  E-value=4.9  Score=53.13  Aligned_cols=13  Identities=8%  Similarity=0.202  Sum_probs=6.2

Q ss_pred             cccCccccccccc
Q 001257          462 SSIPEDVNVENVG  474 (1113)
Q Consensus       462 ~~~~~~~~~~~~~  474 (1113)
                      ..-|.-.++.|..
T Consensus       908 tKCPPR~PLkn~k  920 (2084)
T PTZ00121        908 EKCPPRFPLKSKS  920 (2084)
T ss_pred             ccCCCCCCCCCCc
Confidence            3445445555543

>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=96.45  E-value=3  Score=52.05  Aligned_cols=65  Identities=17%  Similarity=0.196  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSL  865 (1113)
Q Consensus       801 aIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeL  865 (1113)
                      +++.+++.|...+..+|-.+-..+..+..+.+.++-.-.+|+.|+.+++++.+.-.++.-+.+.|
T Consensus       448 tLn~k~qqls~kl~Dvr~~~tt~kt~ie~~~~q~e~~isei~qlqarikE~q~kl~~l~~Ekq~l  512 (1118)
T KOG1029|consen  448 TLNFKLQQLSGKLQDVRVDITTQKTEIEEVTKQRELMISEIDQLQARIKELQEKLQKLAPEKQEL  512 (1118)
T ss_pred             HHHHHHHHHhhhhhhheeccchHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHH
Confidence            44444444444444444444444444444444444444444444444444444433333333333

>KOG0979 consensus Structural maintenance of chromosome protein SMC5/Spr18, SMC superfamily [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.43  E-value=2.8  Score=53.47  Aligned_cols=47  Identities=23%  Similarity=0.244  Sum_probs=29.5

Q ss_pred             cccCCccccCccccccccccc-cCCCCCCccchhHHhhhccccccCCcCCchhHHHHh
Q 001257          456 VVSGSVSSIPEDVNVENVGIQ-HAGGEKDDHRSKELEENMETEFTGEESDDLVCKEVL  512 (1113)
Q Consensus       456 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  512 (1113)
                      .++|||+.|    .++|.-+- |.---.-.      -=||----.|..-++++|-=+|
T Consensus        17 f~~GsIvrI----~l~NF~Ty~~~e~~pgp------sLNmIiGpNGSGKSSiVcAIcL   64 (1072)
T KOG0979|consen   17 FPDGSIVRI----ELHNFLTYDHTEFLPGP------SLNMIIGPNGSGKSSIVCAICL   64 (1072)
T ss_pred             CCCCceEEE----EEeeeeeeeeeeecCCC------ceeeEECCCCCCchHHHHHHHH
Confidence            678999998    77776542 11000000      1266666678888999998765

>PF15070 GOLGA2L5: Putative golgin subfamily A member 2-like protein 5

Probab=96.40  E-value=1.8  Score=53.01  Aligned_cols=49  Identities=14%  Similarity=0.198  Sum_probs=26.0

Q ss_pred             HHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHhHHHHHHHHHHHhcCC
Q 001257          846 GQFKAADEIRQEAYKHWQ-------SLKKQAYDKNQHFWKYKDDTKQANDLASKGD  894 (1113)
Q Consensus       846 EELkALdEkRDEAYEeLk-------eLRKERDEkNkeFYqnRR~irKARELAakgd  894 (1113)
                      .++..+...|+..+.+++       .|-.+...++..|+.--..+...+-.-.+|.
T Consensus       223 qE~~~Lq~q~dq~~~~Lqqy~a~~q~l~~e~e~L~~q~l~Qtql~d~lq~eE~q~~  278 (617)
T PF15070_consen  223 QEAQSLQEQRDQYLGHLQQYVAAYQQLASEKEELHKQLLQQTQLMDRLQHEESQGK  278 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH
Confidence            344444455555544444       4455666777776655555555554444443

>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=96.40  E-value=1.1  Score=47.97  Aligned_cols=35  Identities=11%  Similarity=0.330  Sum_probs=16.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          666 REQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEY  700 (1113)
Q Consensus       666 KAKIdeLqKEIeELKQkRdAInaELkakRAERdEL  700 (1113)
                      ..++..+...+.....++..+-+++..+..+..-|
T Consensus        14 ~~~~~~~~~~l~~~~~~~~~aE~e~~~l~rri~~l   48 (237)
T PF00261_consen   14 EERLEEAEEKLKEAEKRAEKAEAEVASLQRRIQLL   48 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444555555555544433333

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....

>TIGR00634 recN DNA repair protein RecN

Probab=96.30  E-value=1.4  Score=52.51  Aligned_cols=30  Identities=10%  Similarity=-0.002  Sum_probs=20.8

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 001257          861 HWQSLKKQAYDKNQHFWKYKDDTKQANDLA  890 (1113)
Q Consensus       861 eLkeLRKERDEkNkeFYqnRR~irKARELA  890 (1113)
                      .+..|.++..+..+.|..+-..+.+.|.-+
T Consensus       347 ~le~L~~el~~l~~~l~~~a~~Ls~~R~~~  376 (563)
T TIGR00634       347 SLEALEEEVDKLEEELDKAAVALSLIRRKA  376 (563)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            566777777777777777766666666555

All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.

>KOG0962 consensus DNA repair protein RAD50, ABC-type ATPase/SMC superfamily [Replication, recombination and repair]

Probab=96.28  E-value=1.6  Score=56.82  Aligned_cols=192  Identities=10%  Similarity=0.159  Sum_probs=114.0

Q ss_pred             CHHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Q 001257          740 SVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLREN  819 (1113)
Q Consensus       740 SVEEIDarIkrLE~RIQTgSLSLvEEKKLLKEIKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIKaLKKELDELRkK  819 (1113)
                      ..+....+|..+-....|......-...+..|-..+...+..+..-   ....+....+.......+..++.++-     
T Consensus       796 d~~~~~k~ie~~~s~l~~~~d~i~t~~E~~~Ek~~~~~~~~~~rke---~E~~~k~~~~~~~~i~~l~~~~~e~k-----  867 (1294)
T KOG0962|consen  796 DLKLREKEIEELVSELDSSVDGIRTVDELRKEKSKKQESLDKLRKE---IECLQKEVIEQEREISRLINLRNELK-----  867 (1294)
T ss_pred             HHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH-----
Confidence            4455566777777777775555554455555555533333222110   00011111111111112222222222     


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhcCCHHHHH
Q 001257          820 VIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQ  899 (1113)
Q Consensus       820 LkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnRR~irKARELAakgdveELe  899 (1113)
                        .....+...-.+...+..++..|+++...++..++++-+.+..|+...++....|++-....+. -++.++..+..+.
T Consensus       868 --~~~~~~~~~l~~~~qle~~~~~l~e~~~~~~s~~~e~~~~~~~~~~~l~e~~s~~e~~k~~~~~-~~~~aqk~~~~in  944 (1294)
T KOG0962|consen  868 --EEKQKIERSLARLQQLEEDIEELSEEITRLDSKVKELLERIQPLKVELEEAQSEKEELKNERNT-SEKLAQKKRNDIN  944 (1294)
T ss_pred             --HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHhhhcchhhhHHHHHHHHHHHHHHhhH-HHHHHHHHHHHHH
Confidence              2222233333455566688888999999999999999999999999999999999987766554 3343444444443


Q ss_pred             HHHHHHHHHHHHHHhCChHHHH----HHHHhhhhhHhhhhhccCCCcCCCC
Q 001257          900 HLCVNQVERVLELWNNNDEFRK----EYVNSNIRSTLRRLKTLDGRSLGPD  946 (1113)
Q Consensus       900 elC~~EVEkFMelWNnDkeFRk----DYeKrnl~Sl~rRqlT~DGR~lnPD  946 (1113)
                          .=+..|.....-+..||.    +|-..+++....|+..+|+|++.--
T Consensus       945 ----e~~s~l~~~~~~~~~~~~~~~~~~~~~~l~~~~e~l~~~~~~~~~~~  991 (1294)
T KOG0962|consen  945 ----EKVSLLHQIYKLNECFEQYGFDDLRIAQLSESEEHLEERDNEVNEIK  991 (1294)
T ss_pred             ----HHHHHHHHHHHhHHHHHHHhhhhhchHHHHHHHHHHHHHHHHHHHHH
Confidence                456677777777777775    3445677889999999998887543

>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

Probab=96.28  E-value=3.4  Score=48.37  Aligned_cols=91  Identities=12%  Similarity=0.072  Sum_probs=45.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 001257          806 MKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQ  885 (1113)
Q Consensus       806 IKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnRR~irK  885 (1113)
                      +..+.+|+......+...-+.+....++++....+|..-.+.+.+--.+-+.+-....-|-.+.....++|..|++....
T Consensus       212 ~q~r~~ela~r~aa~Qq~~q~i~qrd~~i~q~~q~iaar~e~I~~re~~lq~lEt~q~~leqeva~le~yyQ~y~~lr~q  291 (499)
T COG4372         212 AQARTEELARRAAAAQQTAQAIQQRDAQISQKAQQIAARAEQIRERERQLQRLETAQARLEQEVAQLEAYYQAYVRLRQQ  291 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33444444444443333333344444444444444444444444433444444445555555666677777778887765


Q ss_pred             HHHHHhcCCHHH
Q 001257          886 ANDLASKGDREA  897 (1113)
Q Consensus       886 ARELAakgdveE  897 (1113)
                      +--+. .|.+-+
T Consensus       292 ~~a~~-rGQvla  302 (499)
T COG4372         292 AAATQ-RGQVLA  302 (499)
T ss_pred             HHHHH-HHHHHH
Confidence            54443 455443

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=96.21  E-value=2.2  Score=45.39  Aligned_cols=89  Identities=15%  Similarity=0.285  Sum_probs=47.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCHHHHH
Q 001257          666 REQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDID  745 (1113)
Q Consensus       666 KAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLRNAKSVEEID  745 (1113)
                      --+|..|+.+|..+...-.++..+.+.++.-..---..|.........+=..+...-.|++.|+..|++...  ..-++.
T Consensus        11 ~~ki~~L~n~l~elq~~l~~l~~ENk~Lk~lq~Rq~kAL~k~e~~e~~Lpqll~~h~eEvr~Lr~~LR~~q~--~~r~~~   88 (194)
T PF15619_consen   11 LHKIKELQNELAELQRKLQELRKENKTLKQLQKRQEKALQKYEDTEAELPQLLQRHNEEVRVLRERLRKSQE--QERELE   88 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHH
Confidence            345666666666666666666666666553222222222222223344444566777777778877766542  334444


Q ss_pred             HHHHHHHHHhh
Q 001257          746 GSIRNMEHRIA  756 (1113)
Q Consensus       746 arIkrLE~RIQ  756 (1113)
                      .+|...+..+.
T Consensus        89 ~klk~~~~el~   99 (194)
T PF15619_consen   89 RKLKDKDEELL   99 (194)
T ss_pred             HHHHHHHHHHH
Confidence            44444444443

>PRK09039 hypothetical protein; Validated

Probab=96.20  E-value=0.81  Score=51.89  Aligned_cols=69  Identities=16%  Similarity=0.136  Sum_probs=41.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          804 EKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDK  872 (1113)
Q Consensus       804 EQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEk  872 (1113)
                      .++..+..++...+......+..+..|+.++..++.++..|+..+.++.++..++...|..|.......
T Consensus       116 ~~~~~l~~~L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a  184 (343)
T PRK09039        116 GRAGELAQELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVA  184 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445555555555555555556666666666666666666666666666666666666665554443

>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function

Probab=96.17  E-value=4.3  Score=48.48  Aligned_cols=71  Identities=14%  Similarity=0.183  Sum_probs=37.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          804 EKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQ  874 (1113)
Q Consensus       804 EQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNk  874 (1113)
                      ..+..+..+|+..+..|......+..+...+.-|+.+|.....++..+...-..+...+..|..+......
T Consensus       281 ~~l~s~~~ELe~ak~~L~~~k~E~~~L~~~vesL~~ELe~~K~el~~lke~e~~a~~~v~~L~~eL~~~r~  351 (522)
T PF05701_consen  281 SSLASAKKELEEAKKELEKAKEEASSLRASVESLRSELEKEKEELERLKEREKEASSEVSSLEAELNKTRS  351 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHH
Confidence            34555566666666666555555555555555555555555555555555444444444444444444333

Several sequences in this family are described as being myosin heavy chain-like.

>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]

Probab=96.16  E-value=2.9  Score=49.86  Aligned_cols=118  Identities=15%  Similarity=0.248  Sum_probs=75.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHH--------------HHHHH
Q 001257          662 DENLREQIKAAQSKVDEKTRSRDAIRDDIQTI----------RASYKEYAEKLEAAISDER--------------SARES  717 (1113)
Q Consensus       662 DEeLKAKIdeLqKEIeELKQkRdAInaELkak----------RAERdELiEQLKeLReE~K--------------qlRee  717 (1113)
                      ...|+..|..-..+|+.++..|+.|..++...          -++|-+|...|..+..+..              +.-..
T Consensus       332 l~kl~~eie~kEeei~~L~~~~d~L~~q~~kq~Is~e~fe~mn~Ere~L~reL~~i~~~~~~L~k~V~~~~leaq~~~~s  411 (622)
T COG5185         332 LEKLKSEIELKEEEIKALQSNIDELHKQLRKQGISTEQFELMNQEREKLTRELDKINIQSDKLTKSVKSRKLEAQGIFKS  411 (622)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHhHHHHHHHHHHH
Confidence            34566777777777777777777776666553          2566666655554433333              23334


Q ss_pred             HHHHHHHHHHHHHHHhhcc-------c-----------C-----------CCHHHHHHHHHHHHHHhhcCCCChHHHHHH
Q 001257          718 LKSKRQEIDSVQSRINMMK-------N-----------A-----------ISVDDIDGSIRNMEHRIAHETLPLKEEKQI  768 (1113)
Q Consensus       718 l~EKIKEIdsLQsaL~KLR-------N-----------A-----------KSVEEIDarIkrLE~RIQTgSLSLvEEKKL  768 (1113)
                      +..+...++.|...|..-+       +           +           +++.+|+..|..+-+..+..+|+|.|-..-
T Consensus       412 lek~~~~~~sl~~~i~~~~~~i~~~~nd~~l~iN~E~~~~~~sg~~~~I~~~i~eln~~i~~~~~~e~nksi~Lee~i~~  491 (622)
T COG5185         412 LEKTLRQYDSLIQNITRSRSQIGHNVNDSSLKINIEQLFPKGSGINESIKKSILELNDEIQERIKTEENKSITLEEDIKN  491 (622)
T ss_pred             HHHHHHHHHHHHHHhcccHHHHhhcCCCCceeeccccCCccccCchHhHHHHHHHHhHHHHHHHHHHhccceeHHHHhhh
Confidence            4555556666666554332       1           0           489999999999999999999999988665


Q ss_pred             HHH-HHHHHHHH
Q 001257          769 IRE-IKQLKQRR  779 (1113)
Q Consensus       769 LKE-IKQLKKqR  779 (1113)
                      ++- |..|....
T Consensus       492 ~~~~i~El~~~l  503 (622)
T COG5185         492 LKHDINELTQIL  503 (622)
T ss_pred             HHhHHHHHHHHH
Confidence            543 44444443

>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]

Probab=96.16  E-value=3.6  Score=53.21  Aligned_cols=99  Identities=14%  Similarity=0.264  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC--CCHHHHHHHHHH
Q 001257          673 QSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNA--ISVDDIDGSIRN  750 (1113)
Q Consensus       673 qKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLRNA--KSVEEIDarIkr  750 (1113)
                      +.+|...+..-.++...+...+.+-++...+-+.+..+-+..+...++-+++++.|.+.++.+-..  .+.+.|    +.
T Consensus      1421 ~~~l~~~~ae~eq~~~~v~ea~~~aseA~~~Aq~~~~~a~as~~q~~~s~~el~~Li~~v~~Flt~~~adp~si----~~ 1496 (1758)
T KOG0994|consen 1421 DTQLRSKLAEAEQTLSMVREAKLSASEAQQSAQRALEQANASRSQMEESNRELRNLIQQVRDFLTQPDADPDSI----EE 1496 (1758)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHH----HH
Confidence            333333333333344444444444444445555555555666666666666676666666554321  233333    23


Q ss_pred             HHHHhhcCCCChHHHHHHHHHHHHHHHHHH
Q 001257          751 MEHRIAHETLPLKEEKQIIREIKQLKQRRE  780 (1113)
Q Consensus       751 LE~RIQTgSLSLvEEKKLLKEIKQLKKqRK  780 (1113)
                      |=.++---.|+|.-     .+|.+|-....
T Consensus      1497 vA~~vL~l~lp~tp-----eqi~~L~~~I~ 1521 (1758)
T KOG0994|consen 1497 VAEEVLALELPLTP-----EQIQQLTGEIQ 1521 (1758)
T ss_pred             HHHHHHhccCCCCH-----HHHHHHHHHHH
Confidence            33333334455543     35666665543

>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function

Probab=96.14  E-value=1.6  Score=53.14  Aligned_cols=30  Identities=7%  Similarity=0.060  Sum_probs=17.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          836 EESEKLKRLLGQFKAADEIRQEAYKHWQSL  865 (1113)
Q Consensus       836 EIkaEIdELQEELkALdEkRDEAYEeLkeL  865 (1113)
                      .+-.+...||++++.+..+-+.-|.-..+|
T Consensus       509 KIl~DTr~lQkeiN~l~gkL~RtF~v~dEl  538 (594)
T PF05667_consen  509 KILSDTRELQKEINSLTGKLDRTFTVTDEL  538 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            333455566666666666666666655544

>PF09728 Taxilin: Myosin-like coiled-coil protein; InterPro: IPR019132 Taxilin contains an extraordinarily long coiled-coil domain in its C-terminal half and is ubiquitously expressed

Probab=96.14  E-value=3.2  Score=46.75  Aligned_cols=71  Identities=13%  Similarity=0.125  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 001257          812 EADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDD  882 (1113)
Q Consensus       812 ELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnRR~  882 (1113)
                      .+..+...-..++.++..+..+|++..+-|..-++-+......+++....+..|-++-......|-.+-..
T Consensus       203 ~~~~~~~~E~~Lr~QL~~Y~~Kf~efq~tL~kSNe~F~tfk~Emekm~Kk~kklEKE~~~~k~k~e~~n~~  273 (309)
T PF09728_consen  203 QVQTLKETEKELREQLNLYSEKFEEFQDTLNKSNEVFETFKKEMEKMSKKIKKLEKENQTWKSKWEKSNKA  273 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence            55556656666667777777777777777777777777777888888777777766655555555444433

It is a novel binding partner of several syntaxin family members and is possibly involved in Ca(2+)-dependent exocytosis in neuroendocrine cells []. Gamma-taxilin, described as leucine zipper protein Factor Inhibiting ATF4-mediated Transcription (FIAT), localises to the nucleus in osteoblasts and dimerises with ATF4 to form inactive dimers, thus inhibiting ATF4-mediated transcription [].

>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family

Probab=96.08  E-value=2.4  Score=47.10  Aligned_cols=23  Identities=13%  Similarity=0.115  Sum_probs=12.2

Q ss_pred             ChHHHHHHHHHHHHHHHHHHHHH
Q 001257          661 DDENLREQIKAAQSKVDEKTRSR  683 (1113)
Q Consensus       661 DDEeLKAKIdeLqKEIeELKQkR  683 (1113)
                      +...+..++..++.++..+....
T Consensus        75 d~~~~~~~l~~l~~~~~~l~a~~   97 (423)
T TIGR01843        75 DATDVEADAAELESQVLRLEAEV   97 (423)
T ss_pred             ccchhhhHHHHHHHHHHHHHHHH
Confidence            33455556666666655554443

Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.

>smart00787 Spc7 Spc7 kinetochore protein

Probab=96.06  E-value=3.6  Score=46.59  Aligned_cols=50  Identities=8%  Similarity=-0.065  Sum_probs=23.8

Q ss_pred             CChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------H----HHHHHHHHHHHHHHHH
Q 001257          660 YDDENLREQIKAAQSKVDEKTRSRDAIRDDIQT--------I----RASYKEYAEKLEAAIS  709 (1113)
Q Consensus       660 PDDEeLKAKIdeLqKEIeELKQkRdAInaELka--------k----RAERdELiEQLKeLRe  709 (1113)
                      |..+-+.---.+|.+-|.+-+..-.++.++...        +    -..|.-+..|++-++.
T Consensus        63 P~LElY~~sC~EL~~~I~egr~~~~~~E~et~~~nPpLF~EY~~a~~d~r~lm~~Qf~lvK~  124 (312)
T smart00787       63 PLLELYQFSCKELKKYISEGRDLFKEIEEETLINNPPLFKEYFSASPDVKLLMDKQFQLVKT  124 (312)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            445444444445555555444433333333322        1    1456666666665544

This domain is found in cell division proteins which are required for kinetochore-spindle association.

>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily

Probab=96.00  E-value=1.4  Score=50.97  Aligned_cols=30  Identities=17%  Similarity=0.254  Sum_probs=12.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          702 EKLEAAISDERSARESLKSKRQEIDSVQSR  731 (1113)
Q Consensus       702 EQLKeLReE~KqlReel~EKIKEIdsLQsa  731 (1113)
                      +++..+..++...+..+......++.|++.
T Consensus       204 ~~l~~l~~~l~~~~~~l~~~~a~~~~l~~~  233 (498)
T TIGR03007       204 SEISEAQEELEAARLELNEAIAQRDALKRQ  233 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444333333333344433

Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.

>PF09728 Taxilin: Myosin-like coiled-coil protein; InterPro: IPR019132 Taxilin contains an extraordinarily long coiled-coil domain in its C-terminal half and is ubiquitously expressed

Probab=96.00  E-value=2.5  Score=47.54  Aligned_cols=84  Identities=18%  Similarity=0.238  Sum_probs=59.2

Q ss_pred             HHHhhhcccchhHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          779 REQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEA  858 (1113)
Q Consensus       779 RKkViAnaa~rAkIQESidQKEaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEA  858 (1113)
                      |.++-.|...+.+.++++.   ...+-+...++|++...+++..++.....+..+++..+..|-.+.++...........
T Consensus       215 r~QL~~Y~~Kf~efq~tL~---kSNe~F~tfk~Emekm~Kk~kklEKE~~~~k~k~e~~n~~l~~m~eer~~~~~~~~~~  291 (309)
T PF09728_consen  215 REQLNLYSEKFEEFQDTLN---KSNEVFETFKKEMEKMSKKIKKLEKENQTWKSKWEKSNKALIEMAEERQKLEKELEKL  291 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHH---HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence            5566667777777776555   3345566788899988888888888888888888888888888877766555444444


Q ss_pred             HHHHHHH
Q 001257          859 YKHWQSL  865 (1113)
Q Consensus       859 YEeLkeL  865 (1113)
                      -..+..|
T Consensus       292 ~~k~~kL  298 (309)
T PF09728_consen  292 KKKIEKL  298 (309)
T ss_pred             HHHHHHH
Confidence            4433333

It is a novel binding partner of several syntaxin family members and is possibly involved in Ca(2+)-dependent exocytosis in neuroendocrine cells []. Gamma-taxilin, described as leucine zipper protein Factor Inhibiting ATF4-mediated Transcription (FIAT), localises to the nucleus in osteoblasts and dimerises with ATF4 to form inactive dimers, thus inhibiting ATF4-mediated transcription [].

>PF10174 Cast: RIM-binding protein of the cytomatrix active zone; InterPro: IPR019323 This entry represents a family of proteins that form part of the CAZ (cytomatrix at the active zone) complex which is involved in determining the site of synaptic vesicle fusion []

Probab=95.86  E-value=7.8  Score=48.84  Aligned_cols=31  Identities=16%  Similarity=0.463  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTIR  694 (1113)
Q Consensus       664 eLKAKIdeLqKEIeELKQkRdAInaELkakR  694 (1113)
                      .+.+.+..++..|..+++.++...+.+..+.
T Consensus       132 ~lr~~lE~~q~~~e~~q~~l~~~~eei~kL~  162 (775)
T PF10174_consen  132 RLRKTLEELQLRIETQQQTLDKADEEIEKLQ  162 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555555555555555555555554443

Located at the C terminus is a PDZ-binding motif that binds directly to RIM (a small G protein Rab-3A effector). These proteins also contain four coiled-coil domains [].

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=95.83  E-value=5.9  Score=52.32  Aligned_cols=40  Identities=13%  Similarity=0.152  Sum_probs=28.2

Q ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          661 DDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEY  700 (1113)
Q Consensus       661 DDEeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdEL  700 (1113)
                      -..+|..+|+.++.+|..+...+.++...+..+..++..+
T Consensus       743 ri~el~~~IaeL~~~i~~l~~~l~~l~~r~~~L~~e~~~~  782 (1353)
T TIGR02680       743 RIAELDARLAAVDDELAELARELRALGARQRALADELAGA  782 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            3567788888888888877777777777777766554443

Members of this protein family belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria). Proteins in this family average over 1400 amino acids in length.

>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=95.69  E-value=1.2  Score=45.08  Aligned_cols=43  Identities=19%  Similarity=0.263  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          690 IQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRI  732 (1113)
Q Consensus       690 LkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL  732 (1113)
                      |..+|.+.+....+...+.++.+.+......+=.+|.+|+..+
T Consensus         2 m~~lk~E~d~a~~r~e~~e~~~K~le~~~~~~E~EI~sL~~K~   44 (143)
T PF12718_consen    2 MQALKLEADNAQDRAEELEAKVKQLEQENEQKEQEITSLQKKN   44 (143)
T ss_pred             hHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556666666666677777776666766666666666666543

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].

>PF13514 AAA_27: AAA domain

Probab=95.59  E-value=11  Score=48.64  Aligned_cols=11  Identities=36%  Similarity=0.785  Sum_probs=6.4

Q ss_pred             hhccccccccC
Q 001257          108 AELGDQKFESG  118 (1113)
Q Consensus       108 ~~~~~~~~~~~  118 (1113)
                      -++|..-|..|
T Consensus       112 gdlg~~Lf~ag  122 (1111)
T PF13514_consen  112 GDLGQLLFSAG  122 (1111)
T ss_pred             hHHHHHHHHhc
Confidence            34666666655

>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]

Probab=95.57  E-value=8.2  Score=47.03  Aligned_cols=40  Identities=10%  Similarity=0.222  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHHH
Q 001257          742 DDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQ  781 (1113)
Q Consensus       742 EEIDarIkrLE~RIQTgSLSLvEEKKLLKEIKQLKKqRKk  781 (1113)
                      +-|...+..|.++|.--.++..+=+++-.|-.+|.+....
T Consensus       311 e~lq~~~d~Lk~~Ie~Q~iS~~dve~mn~Er~~l~r~l~~  350 (581)
T KOG0995|consen  311 EKLQKENDELKKQIELQGISGEDVERMNLERNKLKRELNK  350 (581)
T ss_pred             HHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHH
Confidence            3344566777777777788888888888887777777554

>KOG0018 consensus Structural maintenance of chromosome protein 1 (sister chromatid cohesion complex Cohesin, subunit SMC1) [Cell cycle control, cell division, chromosome partitioning]

Probab=95.51  E-value=7.9  Score=49.94  Aligned_cols=69  Identities=16%  Similarity=0.313  Sum_probs=50.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 001257          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMM  735 (1113)
Q Consensus       663 EeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KL  735 (1113)
                      +.|+.+.+.|..+|.++..+|.    ++......+..|...++-++-+..+.+..+.....|+..+.+.+.++
T Consensus       655 ~~L~~~k~rl~eel~ei~~~~~----e~~~v~~~i~~le~~~~~~~~~~~~~k~~l~~~~~El~~~~~~i~~~  723 (1141)
T KOG0018|consen  655 DQLKEKKERLLEELKEIQKRRK----EVSSVESKIHGLEMRLKYSKLDLEQLKRSLEQNELELQRTESEIDEF  723 (1141)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhh----hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3677888888888888888555    66677777777877777777777777777777777777666665544

>KOG0976 consensus Rho/Rac1-interacting serine/threonine kinase Citron [Signal transduction mechanisms]

Probab=95.51  E-value=10  Score=47.81  Aligned_cols=75  Identities=9%  Similarity=0.058  Sum_probs=41.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 001257          805 KMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKY  879 (1113)
Q Consensus       805 QIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqn  879 (1113)
                      ++..|+-.|-+.|-++..+.+++.+|.|+.+.+-..+..|++.+..+....+.+....-++..|.|+.....|.+
T Consensus       331 qkadirc~LlEarrk~egfddk~~eLEKkrd~al~dvr~i~e~k~nve~elqsL~~l~aerqeQidelKn~if~~  405 (1265)
T KOG0976|consen  331 QKADIRCALLEARRKAEGFDDKLNELEKKRDMALMDVRSIQEKKENVEEELQSLLELQAERQEQIDELKNHIFRL  405 (1265)
T ss_pred             HHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence            333444444444444444455555555565555566666666666666666666655555566666655555443

>KOG0976 consensus Rho/Rac1-interacting serine/threonine kinase Citron [Signal transduction mechanisms]

Probab=95.48  E-value=11  Score=47.75  Aligned_cols=65  Identities=11%  Similarity=0.125  Sum_probs=34.4

Q ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          661 DDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEI  725 (1113)
Q Consensus       661 DDEeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEI  725 (1113)
                      |.-.|+..+.+++.+|..+..+-..+-.+++++.+-+..+.++++...-++...+..+...++++
T Consensus        93 dv~llEddlk~~~sQiriLQn~c~~lE~ekq~lQ~ti~~~q~d~ke~etelE~~~srlh~le~eL  157 (1265)
T KOG0976|consen   93 DVNLLEDDLKHHESQIRILQNKCLRLEMEKQKLQDTIQGAQDDKKENEIEIENLNSRLHKLEDEL  157 (1265)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            44455666666666666665555555555555555555555555555444444444444443333

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=95.44  E-value=3.9  Score=47.46  Aligned_cols=32  Identities=16%  Similarity=0.228  Sum_probs=24.3

Q ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          661 DDENLREQIKAAQSKVDEKTRSRDAIRDDIQT  692 (1113)
Q Consensus       661 DDEeLKAKIdeLqKEIeELKQkRdAInaELka  692 (1113)
                      |+..+.+.+..++.++..+...+..|.++++.
T Consensus        91 d~~~~~~~~~~~~~~~~~~~~~~~rL~a~~~~  122 (457)
T TIGR01000        91 DNGNEENQKQLLEQQLDNLKDQKKSLDTLKQS  122 (457)
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77788888888888888887777777666654

This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.

>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]

Probab=95.40  E-value=11  Score=47.53  Aligned_cols=9  Identities=22%  Similarity=0.483  Sum_probs=6.6

Q ss_pred             CCCCCCccC
Q 001257          945 PDEEAPLIR  953 (1113)
Q Consensus       945 PDEkPpvip  953 (1113)
                      |++..||--
T Consensus       456 ~~~~CPvCg  464 (908)
T COG0419         456 AGEKCPVCG  464 (908)
T ss_pred             CCCCCCCCC
Confidence            788888743

>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]

Probab=95.38  E-value=8.4  Score=46.75  Aligned_cols=62  Identities=16%  Similarity=0.216  Sum_probs=41.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          810 RKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYD  871 (1113)
Q Consensus       810 KKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDE  871 (1113)
                      -++|+++++.+..+-+.+.+-...|..+...+..+.+.+..+.....++.++++.||+.--+
T Consensus       353 e~eL~el~~~~~~i~~~~~~~~~~yS~lq~~l~~~~~~l~~i~~~q~~~~e~L~~LrkdEl~  414 (570)
T COG4477         353 EKELKELESVLDEILENIEAQEVAYSELQDNLEEIEKALTDIEDEQEKVQEHLTSLRKDELE  414 (570)
T ss_pred             HHHHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence            44455555555555444555555667777777778888888888888888888888875444

>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association []

Probab=95.35  E-value=6.3  Score=44.32  Aligned_cols=17  Identities=18%  Similarity=0.305  Sum_probs=8.7

Q ss_pred             HHHHHHHHHHHHHHHHH
Q 001257          664 NLREQIKAAQSKVDEKT  680 (1113)
Q Consensus       664 eLKAKIdeLqKEIeELK  680 (1113)
                      +|+..|.+-+..+.++.
T Consensus        79 EL~~~I~egr~~~~~~E   95 (325)
T PF08317_consen   79 ELKKYISEGRQIFEEIE   95 (325)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            55555555555444443

>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs

Probab=95.24  E-value=4  Score=50.81  Aligned_cols=101  Identities=15%  Similarity=0.320  Sum_probs=60.2

Q ss_pred             HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHhhcccCCCH
Q 001257          666 REQIKAAQSK-VDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARES---LKSKRQEIDSVQSRINMMKNAISV  741 (1113)
Q Consensus       666 KAKIdeLqKE-IeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlRee---l~EKIKEIdsLQsaL~KLRNAKSV  741 (1113)
                      ..-+..++.+ |..+...|.+|...++.++.++..-..+|..+.++++.++..   +.++++++..-|+.|         
T Consensus       542 ~~a~~vlreeYi~~~~~ar~ei~~rv~~Lk~~~e~Ql~~L~~l~e~~~~l~~~ae~LaeR~e~a~d~Qe~L---------  612 (717)
T PF10168_consen  542 SQATKVLREEYIEKQDLAREEIQRRVKLLKQQKEQQLKELQELQEERKSLRESAEKLAERYEEAKDKQEKL---------  612 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------
Confidence            3344445555 566666788888888888877777777777777766665543   345555555444433         


Q ss_pred             HHHHHHHHHHHHHhhc--CCCChHHHHHHHHHHHHHHHHH
Q 001257          742 DDIDGSIRNMEHRIAH--ETLPLKEEKQIIREIKQLKQRR  779 (1113)
Q Consensus       742 EEIDarIkrLE~RIQT--gSLSLvEEKKLLKEIKQLKKqR  779 (1113)
                         .+|++.|=..++.  -.|+. .||++.+|+..++...
T Consensus       613 ---~~R~~~vl~~l~~~~P~LS~-AEr~~~~EL~~~~~~l  648 (717)
T PF10168_consen  613 ---MKRVDRVLQLLNSQLPVLSE-AEREFKKELERMKDQL  648 (717)
T ss_pred             ---HHHHHHHHHHHhccCCCCCH-HHHHHHHHHHHHHHHH
Confidence               3344444333333  22443 3588888877776654

It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].

>KOG0946 consensus ER-Golgi vesicle-tethering protein p115 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.19  E-value=1.6  Score=54.56  Aligned_cols=71  Identities=7%  Similarity=0.097  Sum_probs=43.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 001257          666 REQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMK  736 (1113)
Q Consensus       666 KAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLR  736 (1113)
                      ++...+++..+.+++..+..+..++..++..-.+|.-+.+.|.++...+........++++-|+..|++.+
T Consensus       649 ~k~~e~l~~~~~kyK~lI~~lD~~~e~lkQ~~~~l~~e~eeL~~~vq~~~s~hsql~~q~~~Lk~qLg~~~  719 (970)
T KOG0946|consen  649 EKYHEELDDIQQKYKGLIRELDYQIENLKQMEKELQVENEELEEEVQDFISEHSQLKDQLDLLKNQLGIIS  719 (970)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            34445566666667776666666666666665666555566666655555555566666666666666443

>PF13166 AAA_13: AAA domain

Probab=95.19  E-value=10  Score=45.85  Aligned_cols=12  Identities=17%  Similarity=0.199  Sum_probs=6.7

Q ss_pred             CChHHHHHHHHH
Q 001257          660 YDDENLREQIKA  671 (1113)
Q Consensus       660 PDDEeLKAKIde  671 (1113)
                      |..++++.+|..
T Consensus       265 ~l~~~~~~~l~~  276 (712)
T PF13166_consen  265 PLSEERKERLEK  276 (712)
T ss_pred             CCcHHHHHHHHH
Confidence            345566666654

>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=95.14  E-value=2.3  Score=43.15  Aligned_cols=53  Identities=13%  Similarity=0.321  Sum_probs=26.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSAR  715 (1113)
Q Consensus       663 EeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlR  715 (1113)
                      +....+.+.+...++.+.+....+-.+|.++..+...|-.+|..+..++..++
T Consensus        10 d~a~~r~e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k   62 (143)
T PF12718_consen   10 DNAQDRAEELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAK   62 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555555555555555555555554444444444444433333

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.05  E-value=7.5  Score=43.55  Aligned_cols=52  Identities=8%  Similarity=0.266  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          669 IKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKS  720 (1113)
Q Consensus       669 IdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~E  720 (1113)
                      |.+++++...+...-..|.+++..+..+++++..++..+.++.+.++..+..
T Consensus        40 l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~   91 (265)
T COG3883          40 LSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAE   91 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333344444444444444444444433333

>PF13949 ALIX_LYPXL_bnd: ALIX V-shaped domain binding to HIV ; PDB: 2XS1_A 2XS8_A 2R03_A 2R02_A 2OEX_B 2OEV_A 2OJQ_A 2R05_A

Probab=94.94  E-value=6.6  Score=42.37  Aligned_cols=31  Identities=16%  Similarity=0.268  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          846 GQFKAADEIRQEAYKHWQSLKKQAYDKNQHFW  877 (1113)
Q Consensus       846 EELkALdEkRDEAYEeLkeLRKERDEkNkeFY  877 (1113)
                      .++..+-..-..+|..+..|+....++.. ||
T Consensus       241 ~~r~~~~~~l~~a~~~y~el~~~l~eG~~-FY  271 (296)
T PF13949_consen  241 KERESALQRLEAAYDAYKELSSNLEEGLK-FY  271 (296)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHH-HH
Confidence            44455555566777888888887777777 55

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.92  E-value=8.2  Score=43.29  Aligned_cols=38  Identities=21%  Similarity=0.466  Sum_probs=14.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          669 IKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEA  706 (1113)
Q Consensus       669 IdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKe  706 (1113)
                      |...+.++..+...-..|-.+|+.+-++-.++..+++.
T Consensus        33 i~~~ds~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~   70 (265)
T COG3883          33 IQNQDSKLSELQKEKKNIQNEIESLDNQIEEIQSKIDE   70 (265)
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333333333

>PRK10869 recombination and repair protein; Provisional

Probab=94.87  E-value=7.6  Score=46.80  Aligned_cols=30  Identities=10%  Similarity=0.058  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 001257          861 HWQSLKKQAYDKNQHFWKYKDDTKQANDLA  890 (1113)
Q Consensus       861 eLkeLRKERDEkNkeFYqnRR~irKARELA  890 (1113)
                      .+..|.++..+..+.|......+.++|.-+
T Consensus       342 ~l~~Le~e~~~l~~~l~~~A~~LS~~R~~a  371 (553)
T PRK10869        342 DLETLALAVEKHHQQALETAQKLHQSRQRY  371 (553)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555555555555554444443

>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues

Probab=94.83  E-value=9.4  Score=43.58  Aligned_cols=78  Identities=10%  Similarity=0.141  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 001257          810 RKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQAN  887 (1113)
Q Consensus       810 KKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnRR~irKAR  887 (1113)
                      ..+....+.+|..+-.++-.+..++..+..+-.+|+..+.+.++.....-.++..|++.+.+...-|...+..+++-|
T Consensus       226 ~Ee~~rQQEEIt~LlsqivdlQ~r~k~~~~EnEeL~q~L~~ske~Q~~L~aEL~elqdkY~E~~~mL~EaQEElk~lR  303 (306)
T PF04849_consen  226 TEENRRQQEEITSLLSQIVDLQQRCKQLAAENEELQQHLQASKESQRQLQAELQELQDKYAECMAMLHEAQEELKTLR  303 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            333344444444555555555666666667777788888888888888888888888888887777777776665443

HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].

>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily

Probab=94.72  E-value=3.6  Score=47.73  Aligned_cols=38  Identities=29%  Similarity=0.521  Sum_probs=17.0

Q ss_pred             HHHHHHHHHHHHhhcCCCChHHH----HHHHHHHHHHHHHHH
Q 001257          743 DIDGSIRNMEHRIAHETLPLKEE----KQIIREIKQLKQRRE  780 (1113)
Q Consensus       743 EIDarIkrLE~RIQTgSLSLvEE----KKLLKEIKQLKKqRK  780 (1113)
                      .+..+|..|+-++..-.....++    +.+-++|..|++...
T Consensus       251 ~l~~~l~~l~~~l~~l~~~y~~~hP~v~~l~~qi~~l~~~l~  292 (498)
T TIGR03007       251 ELDGRIEALEKQLDALRLRYTDKHPDVIATKREIAQLEEQKE  292 (498)
T ss_pred             chHHHHHHHHHHHHHHHHHhcccChHHHHHHHHHHHHHHHHH
Confidence            44444555544444322222221    344456666666543

Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.

>PF12252 SidE: Dot/Icm substrate protein; InterPro: IPR021014 This entry represents bacterial proteins that are typically between 397 and 1543 amino acids in length including SidE protein in the Dot/Icm pathway of Legionella pneumophila bacteria

Probab=94.66  E-value=3.5  Score=52.87  Aligned_cols=44  Identities=18%  Similarity=0.168  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHhcCC--HHHHHHHHHHH
Q 001257          862 WQSLKKQAYDKNQHFWKYKDDTKQANDLASKGD--REALQHLCVNQ  905 (1113)
Q Consensus       862 LkeLRKERDEkNkeFYqnRR~irKARELAakgd--veELeelC~~E  905 (1113)
                      ..++|++.-+.+..|..-+.+.-+.-+|.++-+  +-.|++||..-
T Consensus      1300 a~Kqk~di~kl~~~lv~kQKAYP~M~QlQ~ksealI~qLRelC~~h 1345 (1439)
T PF12252_consen 1300 AQKQKEDIVKLNDFLVEKQKAYPAMVQLQFKSEALIIQLRELCEAH 1345 (1439)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhchHHHHHhhhhHHHHHHHHHHHHHh
Confidence            345566666667777776666666666665553  67889999864

There is little literature describing the family.

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=94.50  E-value=7.7  Score=47.66  Aligned_cols=66  Identities=9%  Similarity=0.087  Sum_probs=27.7

Q ss_pred             CceEEecCCCCChHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          650 PFYFLVKVPRYDDENLREQIKAAQSKVDE---KTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARE  716 (1113)
Q Consensus       650 pFyYfVKVPRPDDEeLKAKIdeLqKEIeE---LKQkRdAInaELkakRAERdELiEQLKeLReE~KqlRe  716 (1113)
                      +..+-|.+.- .+|++-+.|..+-.+.--   +..++........-+..+..++..++.....+...|+.
T Consensus       154 s~ii~Is~~~-~dP~~Aa~iaN~la~~Y~~~~~~~k~~~~~~a~~~L~~ql~~l~~~l~~aE~~l~~fk~  222 (754)
T TIGR01005       154 TRIIAIEFRS-EDPKLAAAIPDAIAAAYIAGQGAAKSESNTAAADFLAPEIADLSKQSRDAEAEVAAYRA  222 (754)
T ss_pred             cEEEEEEEec-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333455555 456666666543332211   11112222222233344445555555554444444443

The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.

>KOG1850 consensus Myosin-like coiled-coil protein [Cytoskeleton]

Probab=94.49  E-value=12  Score=43.21  Aligned_cols=117  Identities=16%  Similarity=0.235  Sum_probs=65.0

Q ss_pred             HHHHHHHHHHHHHHH-HhhhcccchhHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          766 KQIIREIKQLKQRRE-QISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRL  844 (1113)
Q Consensus       766 KKLLKEIKQLKKqRK-kViAnaa~rAkIQESidQKEaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdEL  844 (1113)
                      |.+|.++.+-..+.+ +..-|++.+.+.|..+.   ...+-+...+.|+..+-+++.+++.+.--...+++..+..+-.|
T Consensus       207 k~~~e~~~~~e~qlK~ql~lY~aKyeefq~tl~---KSNE~F~~fK~E~ekmtKk~kklEKE~l~wr~K~e~aNk~vL~l  283 (391)
T KOG1850|consen  207 KIMLEEMKQVEGQLKEQLALYMAKYEEFQTTLA---KSNELFTKFKQEMEKMTKKIKKLEKETLIWRTKWENANKAVLQL  283 (391)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHH
Confidence            445555555444433 23346666666665544   22344556677888888888888866666677777777666555


Q ss_pred             HHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhcCCH
Q 001257          845 LGQF-------KAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDR  895 (1113)
Q Consensus       845 QEEL-------kALdEkRDEAYEeLkeLRKERDEkNkeFYqnRR~irKARELAakgdv  895 (1113)
                      ..+.       ..+..+++.+-.=.++|+.+|.+.|.          .++++.+++..
T Consensus       284 a~ekt~~~k~~~~lq~kiq~LekLcRALq~ernel~~----------~~~~~e~~v~~  331 (391)
T KOG1850|consen  284 AEEKTVRDKEYETLQKKIQRLEKLCRALQTERNELNK----------KLEDLEAQVSA  331 (391)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHH----------HHHHHhcccch
Confidence            5442       22333333333333445555555554          56667555543

>KOG4809 consensus Rab6 GTPase-interacting protein involved in endosome-to-TGN transport [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.46  E-value=16  Score=44.61  Aligned_cols=13  Identities=31%  Similarity=0.603  Sum_probs=8.1

Q ss_pred             HHHHHHHHHHHHh
Q 001257          902 CVNQVERVLELWN  914 (1113)
Q Consensus       902 C~~EVEkFMelWN  914 (1113)
                      ++++|++.+++..
T Consensus       440 aqaevdrlLeilk  452 (654)
T KOG4809|consen  440 AQAEVDRLLEILK  452 (654)
T ss_pred             HHHHHHHHHHHHH
Confidence            3566777766653

>PF13851 GAS: Growth-arrest specific micro-tubule binding

Probab=94.42  E-value=8.3  Score=41.11  Aligned_cols=100  Identities=16%  Similarity=0.326  Sum_probs=58.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCHHHHHH
Q 001257          667 EQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDG  746 (1113)
Q Consensus       667 AKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLRNAKSVEEIDa  746 (1113)
                      +.|..|..+|..++..-......+..+..+-..|.+-|+.+..+...++..+..    +..-+..|..++  .....++.
T Consensus        27 ~lIksLKeei~emkk~e~~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~L~~----y~kdK~~L~~~k--~rl~~~ek  100 (201)
T PF13851_consen   27 ELIKSLKEEIAEMKKKEERNEKLMAEISQENKRLSEPLKKAEEEVEELRKQLKN----YEKDKQSLQNLK--ARLKELEK  100 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHH--HHHHHHHH
Confidence            456666666666666555555566666666666666666666665555553333    333333333333  24556788


Q ss_pred             HHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHHHh
Q 001257          747 SIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQI  782 (1113)
Q Consensus       747 rIkrLE~RIQTgSLSLvEEKKLLKEIKQLKKqRKkV  782 (1113)
                      +|..|.|..+-          +.+...+|.+.|..+
T Consensus       101 ~l~~Lk~e~ev----------L~qr~~kle~ErdeL  126 (201)
T PF13851_consen  101 ELKDLKWEHEV----------LEQRFEKLEQERDEL  126 (201)
T ss_pred             HHHHHHHHHHH----------HHHHHHHHHHHHHHH
Confidence            88888886553          445566666666654

>PF04912 Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamitin is a subunit of the microtubule-dependent motor complex, it is also implicated in cell adhesion by binding to macrophage-enriched myristoylated alanine-rice C kinase substrate (MacMARCKS) []

Probab=94.39  E-value=10  Score=43.52  Aligned_cols=70  Identities=16%  Similarity=0.313  Sum_probs=49.8

Q ss_pred             CCHHHHHHHHHHHHHHhhcCC--CChH----HHHHHHHHHHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHHHHHH
Q 001257          739 ISVDDIDGSIRNMEHRIAHET--LPLK----EEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKE  812 (1113)
Q Consensus       739 KSVEEIDarIkrLE~RIQTgS--LSLv----EEKKLLKEIKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIKaLKKE  812 (1113)
                      ..+.+||+||..||..|.+++  |+.-    .-+-|+.-|..|......+-            -...+.|..+++.|..+
T Consensus       209 a~~a~LE~RL~~LE~~lG~~~~~~~~l~~~~~~~~l~~~l~~L~~~lslL~------------~~~Ld~i~~rl~~L~~~  276 (388)
T PF04912_consen  209 ARAADLEKRLARLESALGIDSDKMSSLDSDTSSSPLLPALNELERQLSLLD------------PAKLDSIERRLKSLLSE  276 (388)
T ss_pred             HHHHHHHHHHHHHHHHhCCCccccccccccCCcchHHHHHHHHHHHHHhcC------------HHHHHHHHHHHHHHHHH
Confidence            478999999999999999943  2222    25678888888888754421            02345777888888888


Q ss_pred             HHHHHHHH
Q 001257          813 ADSLRENV  820 (1113)
Q Consensus       813 LDELRkKL  820 (1113)
                      ++.|.+..
T Consensus       277 ~~~l~~~~  284 (388)
T PF04912_consen  277 LEELAEKR  284 (388)
T ss_pred             HHHHHhcc
Confidence            88776543

It is also thought to modulate cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organisation during mitosis. Dynamitin is also involved in anchoring microtubules to centrosomes and may play a role in synapse formation during brain development []. ; GO: 0007017 microtubule-based process, 0005869 dynactin complex

>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]

Probab=94.37  E-value=16  Score=44.10  Aligned_cols=41  Identities=7%  Similarity=0.288  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHHH
Q 001257          741 VDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQ  781 (1113)
Q Consensus       741 VEEIDarIkrLE~RIQTgSLSLvEEKKLLKEIKQLKKqRKk  781 (1113)
                      ++.|...|..|.+++..-.+++.+=+.+.+|=.+|-+....
T Consensus       346 i~~L~~~~d~L~~q~~kq~Is~e~fe~mn~Ere~L~reL~~  386 (622)
T COG5185         346 IKALQSNIDELHKQLRKQGISTEQFELMNQEREKLTRELDK  386 (622)
T ss_pred             HHHHHhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHH
Confidence            34455567888888888888888888888888888777654

>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=94.34  E-value=22  Score=45.68  Aligned_cols=255  Identities=18%  Similarity=0.261  Sum_probs=124.1

Q ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          661 DDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIR-----------------ASYKEYAEKLEAAISDERSARESLKSKRQ  723 (1113)
Q Consensus       661 DDEeLKAKIdeLqKEIeELKQkRdAInaELkakR-----------------AERdELiEQLKeLReE~KqlReel~EKIK  723 (1113)
                      +...|.+++.+|..+++.++.+|.+=..++..+-                 .+...|..+|+..|.+.+++.+.-.....
T Consensus       225 te~eLr~QvrdLtEkLetlR~kR~EDk~Kl~ElekmkiqleqlqEfkSkim~qqa~Lqrel~raR~e~keaqe~ke~~k~  304 (1243)
T KOG0971|consen  225 TEEELRAQVRDLTEKLETLRLKRAEDKAKLKELEKMKIQLEQLQEFKSKIMEQQADLQRELKRARKEAKEAQEAKERYKE  304 (1243)
T ss_pred             chHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556888888899999888888887666665541                 23334444444444444444444444444


Q ss_pred             HHHHHHHHHhhccc--------C----CCHHHHHHHHHHHHH-------HhhcC-----CCChHHHHHHHHHHHHHHHHH
Q 001257          724 EIDSVQSRINMMKN--------A----ISVDDIDGSIRNMEH-------RIAHE-----TLPLKEEKQIIREIKQLKQRR  779 (1113)
Q Consensus       724 EIdsLQsaL~KLRN--------A----KSVEEIDarIkrLE~-------RIQTg-----SLSLvEEKKLLKEIKQLKKqR  779 (1113)
                      +|..+...+-.+-=        +    .-++-+..+|..|+-       .|+-+     ..+-.+=|+|=.+=.+|+...
T Consensus       305 emad~ad~iEmaTldKEmAEERaesLQ~eve~lkEr~deletdlEILKaEmeekG~~~~~~ss~qfkqlEqqN~rLKdal  384 (1243)
T KOG0971|consen  305 EMADTADAIEMATLDKEMAEERAESLQQEVEALKERVDELETDLEILKAEMEEKGSDGQAASSYQFKQLEQQNARLKDAL  384 (1243)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHH
Confidence            44433332221110        0    122233333333322       22211     123333344433333343332


Q ss_pred             HHhhhccc-chhHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------
Q 001257          780 EQISSSIG-EHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAAD------  852 (1113)
Q Consensus       780 KkViAnaa-~rAkIQESidQKEaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALd------  852 (1113)
                      =.++...+ .+-              .+..+-+|+.-.+.++..++.....|+.+++.....|..|+++++++-      
T Consensus       385 VrLRDlsA~ek~--------------d~qK~~kelE~k~sE~~eL~r~kE~Lsr~~d~aEs~iadlkEQVDAAlGAE~MV  450 (1243)
T KOG0971|consen  385 VRLRDLSASEKQ--------------DHQKLQKELEKKNSELEELRRQKERLSRELDQAESTIADLKEQVDAALGAEEMV  450 (1243)
T ss_pred             HHHHhcchHHHH--------------HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcHHHHH
Confidence            22111110 000              011233444445555555555555566666666666666666666543      


Q ss_pred             ----------HHHHH----HH---HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHhC
Q 001257          853 ----------EIRQE----AY---KHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNN  915 (1113)
Q Consensus       853 ----------EkRDE----AY---EeLkeLRKERDEkNkeFYqnRR~irKARELAakgdveELeelC~~EVEkFMelWNn  915 (1113)
                                +.|-+    -.   +.+..+-+++-+.|.   +.-.++++--|++ +|.+++|+.--.+..|...-+-.+
T Consensus       451 ~qLtdknlnlEekVklLeetv~dlEalee~~EQL~Esn~---ele~DLreEld~~-~g~~kel~~r~~aaqet~yDrdqT  526 (1243)
T KOG0971|consen  451 EQLTDKNLNLEEKVKLLEETVGDLEALEEMNEQLQESNR---ELELDLREELDMA-KGARKELQKRVEAAQETVYDRDQT  526 (1243)
T ss_pred             HHHHhhccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHH-hhHHHHHHHHHHHHHHHHHhHHHH
Confidence                      11111    12   222222233333332   2233445555554 788899988888888888777777


Q ss_pred             ChHHHHHHHHhhhhhHhhhh
Q 001257          916 NDEFRKEYVNSNIRSTLRRL  935 (1113)
Q Consensus       916 DkeFRkDYeKrnl~Sl~rRq  935 (1113)
                      =..||+---+  |.+.++-+
T Consensus       527 I~KfRelva~--Lqdqlqe~  544 (1243)
T KOG0971|consen  527 IKKFRELVAH--LQDQLQEL  544 (1243)
T ss_pred             HHHHHHHHHH--HHHHHHHH
Confidence            7888876544  44444433

>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=94.24  E-value=1.2  Score=48.39  Aligned_cols=71  Identities=17%  Similarity=0.237  Sum_probs=36.4

Q ss_pred             hhHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          789 HDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLK  866 (1113)
Q Consensus       789 rAkIQESidQKEaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLR  866 (1113)
                      ...|.+.+...+....-|..+++|++.|..+.....+++..|+       .+|+.|..-++.+...|.+..+.+..|+
T Consensus        17 k~~i~~e~~~~e~ee~~L~e~~kE~~~L~~Er~~h~eeLrqI~-------~DIn~lE~iIkqa~~er~~~~~~i~r~~   87 (230)
T PF10146_consen   17 KNEILQEVESLENEEKCLEEYRKEMEELLQERMAHVEELRQIN-------QDINTLENIIKQAESERNKRQEKIQRLY   87 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444443344344556666666666666555555555555       5555555555555544544444444333

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.

>smart00787 Spc7 Spc7 kinetochore protein

Probab=94.21  E-value=1.2  Score=50.25  Aligned_cols=43  Identities=26%  Similarity=0.376  Sum_probs=27.5

Q ss_pred             ccccceeeeeCcccccccccccCCCccccccccccccCCCCCCCcccccc
Q 001257          565 DKTCKKVVVNGGIKFTSEEQNDKTCPEVKENRGIQLTGGEDGDRTFQDVE  614 (1113)
Q Consensus       565 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  614 (1113)
                      +-+---+|+.|-+.+.--|...-.|-|++.+-       .+|.+-|.+++
T Consensus        48 ~~sl~~~v~A~~~~iP~LElY~~sC~EL~~~I-------~egr~~~~~~E   90 (312)
T smart00787       48 DCSLDQYVVAGYCTVPLLELYQFSCKELKKYI-------SEGRDLFKEIE   90 (312)
T ss_pred             CCCHHHHHHHhcCCCcHHHHHHHHHHHHHHHH-------HHHHHHHHHHH
Confidence            33444567777788777777888888887653       24455555543

This domain is found in cell division proteins which are required for kinetochore-spindle association.

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=94.09  E-value=12  Score=43.65  Aligned_cols=25  Identities=12%  Similarity=0.223  Sum_probs=17.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          662 DENLREQIKAAQSKVDEKTRSRDAI  686 (1113)
Q Consensus       662 DEeLKAKIdeLqKEIeELKQkRdAI  686 (1113)
                      ...++.++..++.++..+...+..+
T Consensus        99 ~~~~~~~~~~~~~~~~rL~a~~~~~  123 (457)
T TIGR01000        99 KQLLEQQLDNLKDQKKSLDTLKQSI  123 (457)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4457777777777777776666543

This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.

>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]

Probab=94.05  E-value=28  Score=45.80  Aligned_cols=22  Identities=18%  Similarity=0.382  Sum_probs=12.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHH
Q 001257          662 DENLREQIKAAQSKVDEKTRSR  683 (1113)
Q Consensus       662 DEeLKAKIdeLqKEIeELKQkR  683 (1113)
                      +..|..++++++.-+.-+.+.+
T Consensus      1421 ~~~l~~~~ae~eq~~~~v~ea~ 1442 (1758)
T KOG0994|consen 1421 DTQLRSKLAEAEQTLSMVREAK 1442 (1758)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            4456666666666555554443

>PF13166 AAA_13: AAA domain

Probab=94.02  E-value=17  Score=44.05  Aligned_cols=27  Identities=7%  Similarity=0.257  Sum_probs=12.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          664 NLREQIKAAQSKVDEKTRSRDAIRDDI  690 (1113)
Q Consensus       664 eLKAKIdeLqKEIeELKQkRdAInaEL  690 (1113)
                      .+...+..+...++.+......+...+
T Consensus       281 ~~~~~~~~l~~~~~~~~~~~~~~~~~l  307 (712)
T PF13166_consen  281 EYEKLIEELEKAIKKLEKAIENIIEQL  307 (712)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444455555555554444443333

>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]

Probab=94.00  E-value=20  Score=43.92  Aligned_cols=26  Identities=19%  Similarity=0.340  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhcc
Q 001257          711 ERSARESLKSKRQEIDSVQSRINMMK  736 (1113)
Q Consensus       711 ~KqlReel~EKIKEIdsLQsaL~KLR  736 (1113)
                      ...+...+.+|..|++.|++....|+
T Consensus       296 l~~l~~Eie~kEeE~e~lq~~~d~Lk  321 (581)
T KOG0995|consen  296 LEMLKSEIEEKEEEIEKLQKENDELK  321 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555666666666665554444

>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family

Probab=93.96  E-value=13  Score=41.50  Aligned_cols=21  Identities=19%  Similarity=0.262  Sum_probs=14.5

Q ss_pred             ChHHHHHHHHHHHHHHHHHHH
Q 001257          661 DDENLREQIKAAQSKVDEKTR  681 (1113)
Q Consensus       661 DDEeLKAKIdeLqKEIeELKQ  681 (1113)
                      +...++.++..++.++..+..
T Consensus        82 ~l~~l~~~~~~l~a~~~~l~~  102 (423)
T TIGR01843        82 DAAELESQVLRLEAEVARLRA  102 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            345688888888777766544

Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.

>KOG0999 consensus Microtubule-associated protein Bicaudal-D [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.96  E-value=20  Score=43.88  Aligned_cols=145  Identities=14%  Similarity=0.247  Sum_probs=76.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCHHHHH-----HHHHHHHHHhhcCCCChHHHHHHH
Q 001257          695 ASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDID-----GSIRNMEHRIAHETLPLKEEKQII  769 (1113)
Q Consensus       695 AERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLRNAKSVEEID-----arIkrLE~RIQTgSLSLvEEKKLL  769 (1113)
                      ++-..|..++-.|..+++++|..+..++.|.+.|-+...++....+--|++     ..|+.+-+          .|-++|
T Consensus       100 akE~~yl~kI~eleneLKq~r~el~~~q~E~erl~~~~sd~~e~~~~~E~qR~rlr~elKe~Kf----------RE~Rll  169 (772)
T KOG0999|consen  100 AKEEYYLQKILELENELKQLRQELTNVQEENERLEKVHSDLKESNAAVEDQRRRLRDELKEYKF----------REARLL  169 (772)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhhHHHHHHHHHHHHHHHH----------HHHHHH
Confidence            455567777788888888888888888888877776655554211111221     12222222          244555


Q ss_pred             HHHHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          770 REIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFL---RKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLG  846 (1113)
Q Consensus       770 KEIKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIKaL---KKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQE  846 (1113)
                      .+-+.|+..-                    -.++.++..|   .-|+..+|-.++-+++.+.-++       .++.+...
T Consensus       170 seYSELEEEN--------------------IsLQKqVs~LR~sQVEyEglkheikRleEe~elln-------~q~ee~~~  222 (772)
T KOG0999|consen  170 SEYSELEEEN--------------------ISLQKQVSNLRQSQVEYEGLKHEIKRLEEETELLN-------SQLEEAIR  222 (772)
T ss_pred             HHHHHHHHhc--------------------chHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHH-------HHHHHHHH
Confidence            5555554431                    1233334344   2355666666666665555544       23222222


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          847 QFKAADEIRQEAYKHWQSLKKQAYDKNQHF  876 (1113)
Q Consensus       847 ELkALdEkRDEAYEeLkeLRKERDEkNkeF  876 (1113)
                      -..-+..+..+|..-++.=|+++..+.+.+
T Consensus       223 Lk~IAekQlEEALeTlq~EReqk~alkkEL  252 (772)
T KOG0999|consen  223 LKEIAEKQLEEALETLQQEREQKNALKKEL  252 (772)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            222334456677777665555555544433

>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes

Probab=93.76  E-value=8.3  Score=48.02  Aligned_cols=204  Identities=16%  Similarity=0.248  Sum_probs=99.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCH
Q 001257          662 DENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISV  741 (1113)
Q Consensus       662 DEeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLRNAKSV  741 (1113)
                      -..|++.|..|+.+|+..++.=.+|+.++..+-+....+..+|..++.+..+++..+....+....=++.|..+-  +-+
T Consensus       420 ~~rLE~dvkkLraeLq~~Rq~E~ELRsqis~l~~~Er~lk~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~LE--krL  497 (697)
T PF09726_consen  420 ISRLEADVKKLRAELQSSRQSEQELRSQISSLTNNERSLKSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQLE--KRL  497 (697)
T ss_pred             HHHHHHHHHHHHHHHHhhhhhHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHH
Confidence            346778888888888888877777888877777766678888888888777666644443332222111111111  112


Q ss_pred             HHHHHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHhh-hHHHHHHHHHHHHHHHHHHHHHH
Q 001257          742 DDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFD-QKDQIEEKMKFLRKEADSLRENV  820 (1113)
Q Consensus       742 EEIDarIkrLE~RIQTgSLSLvEEKKLLKEIKQLKKqRKkViAnaa~rAkIQESid-QKEaIqEQIKaLKKELDELRkKL  820 (1113)
                      .+..+.=..||.+       |.+||+-=++=.. ...|....+ ...+.+-.+..- .+.+++.+++.|+.|+......+
T Consensus       498 ~eE~~~R~~lEkQ-------L~eErk~r~~ee~-~aar~~~~~-~~~r~e~~e~~r~r~~~lE~E~~~lr~elk~kee~~  568 (697)
T PF09726_consen  498 AEERRQRASLEKQ-------LQEERKARKEEEE-KAARALAQA-QATRQECAESCRQRRRQLESELKKLRRELKQKEEQI  568 (697)
T ss_pred             HHHHHHHHHHHHH-------HHHHHHHHhHHHH-hhhhccccc-hhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2333333444444       3444433222100 111211000 111111112122 22355556666666666666666


Q ss_pred             HHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          821 IKAEAATQAVKK--------------LHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHF  876 (1113)
Q Consensus       821 kkLEeklKALkK--------------K~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeF  876 (1113)
                      ..++.++.++.+              .+..++++-.-|.+.|.+=+..+.++|..|..-|.|........
T Consensus       569 ~~~e~~~~~lr~~~~e~~~~~e~L~~aL~amqdk~~~LE~sLsaEtriKldLfsaLg~akrq~ei~~~~~  638 (697)
T PF09726_consen  569 RELESELQELRKYEKESEKDTEVLMSALSAMQDKNQHLENSLSAETRIKLDLFSALGDAKRQLEIAQGQL  638 (697)
T ss_pred             HHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            665555544442              22222233333333333444555556666665555555544433

; GO: 0016021 integral to membrane

>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]

Probab=93.75  E-value=27  Score=44.55  Aligned_cols=87  Identities=7%  Similarity=0.086  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 001257          829 AVKKLHREESEKLKRLLGQFKAA-DEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVE  907 (1113)
Q Consensus       829 ALkKK~DEIkaEIdELQEELkAL-dEkRDEAYEeLkeLRKERDEkNkeFYqnRR~irKARELAakgdveELeelC~~EVE  907 (1113)
                      ++.|.-.++...+..+.+.++-+ .+.|-+..--|.+-.+++-..-..||..+..-+.....              ++-|
T Consensus       674 el~Ke~kElq~rL~~q~KkiDh~ERA~R~EeiPL~e~~~~~~~~~d~e~~e~~Ek~Ri~~~~--------------ae~e  739 (988)
T KOG2072|consen  674 ELEKERKELQSRLQYQEKKIDHLERAKRLEEIPLIEKAYDERQEEDRELYEAREKQRIEAAI--------------AERE  739 (988)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHH--------------HHHH
Confidence            44444444444444444444432 25566666666666666666667888665554433333              4557


Q ss_pred             HHHHHHhCChHHHHHHHHhhhh
Q 001257          908 RVLELWNNNDEFRKEYVNSNIR  929 (1113)
Q Consensus       908 kFMelWNnDkeFRkDYeKrnl~  929 (1113)
                      .-|..|+.-.-|+.+|.+--..
T Consensus       740 ~~vk~k~~l~rm~~d~~~f~e~  761 (988)
T KOG2072|consen  740 SAVKDKKRLSRMYDDRDKFKEH  761 (988)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHH
Confidence            7799999988888888774333

>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT)

Probab=93.61  E-value=6.5  Score=38.99  Aligned_cols=13  Identities=23%  Similarity=0.225  Sum_probs=4.7

Q ss_pred             HHHHHHHHHHHHH
Q 001257          839 EKLKRLLGQFKAA  851 (1113)
Q Consensus       839 aEIdELQEELkAL  851 (1113)
                      ..+..|..+.+-|
T Consensus       112 ~r~~dL~~QN~lL  124 (132)
T PF07926_consen  112 QRIEDLNEQNKLL  124 (132)
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333333333

These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore

>PF05622 HOOK: HOOK protein; InterPro: IPR008636 This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms

Probab=93.57  E-value=0.02  Score=69.37  Aligned_cols=63  Identities=13%  Similarity=0.164  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          808 FLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAY  870 (1113)
Q Consensus       808 aLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERD  870 (1113)
                      .++..+..++.++..++.++.....+++.+.-++..|.+++.++...+.....++..||....
T Consensus       360 ~~~~qle~~k~qi~eLe~~l~~~~~~~~~l~~e~~~L~ek~~~l~~eke~l~~e~~~L~e~~e  422 (713)
T PF05622_consen  360 ALKSQLEEYKKQIQELEQKLSEESRRADKLEFENKQLEEKLEALEEEKERLQEERDSLRETNE  422 (713)
T ss_dssp             ---------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555555555555555555555555555555555666666555555555555555554333

The different members of the Homo sapiens gene family are HOOK1, HOOK2 and HOOK3. Different domains have been identified in the three Homo sapiens HOOK proteins, and it was demonstrated that the highly conserved NH2-domain mediates attachment to microtubules, whereas the central coiled-coil motif mediates homodimerisation and the more divergent C-terminal domains are involved in binding to specific organelles (organelle-binding domains). It has been demonstrated that endogenous HOOK3 binds to Golgi membranes [], whereas both HOOK1 and HOOK2 are localised to discrete but unidentified cellular structures. In mice the Hook1 gene is predominantly expressed in the testis. Hook1 function is necessary for the correct positioning of microtubular structures within the haploid germ cell. Disruption of Hook1 function in mice causes abnormal sperm head shape and fragile attachment of the flagellum to the sperm head [].; GO: 0008017 microtubule binding, 0000226 microtubule cytoskeleton organization, 0005737 cytoplasm; PDB: 1WIX_A.

>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional

Probab=93.56  E-value=13  Score=46.79  Aligned_cols=19  Identities=21%  Similarity=0.366  Sum_probs=12.5

Q ss_pred             CCChHHHHHHHHHHHHHHH
Q 001257          659 RYDDENLREQIKAAQSKVD  677 (1113)
Q Consensus       659 RPDDEeLKAKIdeLqKEIe  677 (1113)
                      .|..+.|..+|+.|..+++
T Consensus       454 ~~~~~~L~e~IeKLk~E~d  472 (762)
T PLN03229        454 KPSELALNEMIEKLKKEID  472 (762)
T ss_pred             CCCChHHHHHHHHHHHHHH
Confidence            4556667777776666655

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=93.54  E-value=14  Score=45.55  Aligned_cols=33  Identities=18%  Similarity=0.218  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 001257          702 EKLEAAISDERSARESLKSKRQEIDSVQSRINM  734 (1113)
Q Consensus       702 EQLKeLReE~KqlReel~EKIKEIdsLQsaL~K  734 (1113)
                      .+|..|..++...+..+......++.++..+..
T Consensus       237 ~~L~~l~~ql~~a~~~~~~a~a~~~~l~~~l~~  269 (754)
T TIGR01005       237 QQLAELNTELSRARANRAAAEGTADSVKKALQN  269 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            567777777777776666666666666666543

The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.

>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]

Probab=93.45  E-value=10  Score=46.56  Aligned_cols=40  Identities=15%  Similarity=0.101  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          804 EKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRL  844 (1113)
Q Consensus       804 EQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdEL  844 (1113)
                      .+|..|-+++...+..|..++.+++.- .-|++|+.++.-|
T Consensus       317 ~qI~~le~~l~~~~~~leel~~kL~~~-sDYeeIK~ELsiL  356 (629)
T KOG0963|consen  317 AQISALEKELKAKISELEELKEKLNSR-SDYEEIKKELSIL  356 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhh-ccHHHHHHHHHHH
Confidence            334444444444444333333333332 2444555444433

>cd08915 V_Alix_like Protein-interacting V-domain of mammalian Alix and related domains

Probab=93.40  E-value=16  Score=40.96  Aligned_cols=34  Identities=21%  Similarity=0.329  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          844 LLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWK  878 (1113)
Q Consensus       844 LQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYq  878 (1113)
                      ...++..+-..-..||..+..|+.-..++.+ ||+
T Consensus       289 ~~~~r~~~l~~L~~ay~~y~el~~~l~eG~~-FY~  322 (342)
T cd08915         289 SLDPREEALQDLEASYKKYLELKENLNEGSK-FYN  322 (342)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHhHHHHHH-HHH
Confidence            3455566666677778888888887777776 553

This superfamily contains the V-shaped (V) domain of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, and related domains. Alix, HD-PTP, Bro1, and Rim20 all interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Alix, also known as apoptosis-linked gene-2 interacting protein 1 (AIP1), participates in membrane remodeling processes during the budding of enveloped viruses, vesicle budding inside late endosomal multivesicular bodies (MVBs), and the abscission reactions of mammalian cell division. It also functions in apoptosis. HD-PTP functions in cell migration and endosomal trafficking, Bro1 in endosomal trafficking, and Rim20 in the response to the external pH via the Rim101 pathway. The Alix V-domain contains

>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells

Probab=93.38  E-value=14  Score=40.16  Aligned_cols=23  Identities=30%  Similarity=0.318  Sum_probs=9.2

Q ss_pred             HHHHHHHHHHHHhHHHHHHHHHH
Q 001257          867 KQAYDKNQHFWKYKDDTKQANDL  889 (1113)
Q Consensus       867 KERDEkNkeFYqnRR~irKAREL  889 (1113)
                      .+........-+.+..+..|..+
T Consensus       234 ~~~~~~~~~L~~a~~~L~~a~~l  256 (264)
T PF06008_consen  234 EQQNEVSETLKEAEDLLDQANDL  256 (264)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333444444444444

Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex

>KOG0962 consensus DNA repair protein RAD50, ABC-type ATPase/SMC superfamily [Replication, recombination and repair]

Probab=93.38  E-value=38  Score=45.10  Aligned_cols=68  Identities=19%  Similarity=0.238  Sum_probs=35.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAY  870 (1113)
Q Consensus       801 aIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERD  870 (1113)
                      .+..+++.+..++..+..++....  +.....++.-|..++..+..+..-+.......-..+..+|.++.
T Consensus      1012 ~l~~q~~e~~re~~~ld~Qi~~~~--~~~~~ee~~~L~~~~~~l~se~~~~lg~~ke~e~~i~~~k~eL~ 1079 (1294)
T KOG0962|consen 1012 NLERKLKELERELSELDKQILEAD--IKSVKEERVKLEEEREKLSSEKNLLLGEMKQYESQIKKLKQELR 1079 (1294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhH--HHHHHHHHHHHHHHHHHhhhHhhHHHHHHHHHHHHHHHHHHHhh
Confidence            455666677777776666665555  44444444444444444444444444444444444555555444

>KOG0946 consensus ER-Golgi vesicle-tethering protein p115 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.37  E-value=19  Score=45.79  Aligned_cols=25  Identities=28%  Similarity=0.288  Sum_probs=16.1

Q ss_pred             CCccchhHHhhhccccccCCcCCch
Q 001257          482 KDDHRSKELEENMETEFTGEESDDL  506 (1113)
Q Consensus       482 ~~~~~~~~~~~~~~~~~~~~~~~~~  506 (1113)
                      .+||++.+|-+---+--||...+++
T Consensus       455 dn~~~kEeLlrV~l~~~~gn~p~tl  479 (970)
T KOG0946|consen  455 DNDQLKEELLRVPLAVDTGNDPDTL  479 (970)
T ss_pred             HhHHHHHHHHhhhhcccCCCCchHH
Confidence            3567777777766666666665554

>PRK10869 recombination and repair protein; Provisional

Probab=93.32  E-value=15  Score=44.39  Aligned_cols=74  Identities=12%  Similarity=0.097  Sum_probs=42.1

Q ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHH-Hhc-CCHHHHHHHHHHHHHHHHHHHhCChHHHHHHHHhhhhhHhhhh
Q 001257          862 WQSLKKQAYDKNQHFWKYKDDTKQANDL-ASK-GDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRL  935 (1113)
Q Consensus       862 LkeLRKERDEkNkeFYqnRR~irKAREL-Aak-gdveELeelC~~EVEkFMelWNnDkeFRkDYeKrnl~Sl~rRq  935 (1113)
                      |+.|...+.---.....|+..+.+--+. ... .+..+|+..+..--+.++.+=..-...|+.+-+....++..-+
T Consensus       308 l~~L~rKyg~~~~~~~~~~~~l~~eL~~L~~~e~~l~~Le~e~~~l~~~l~~~A~~LS~~R~~aA~~l~~~v~~~L  383 (553)
T PRK10869        308 QISLARKHHVSPEELPQHHQQLLEEQQQLDDQEDDLETLALAVEKHHQQALETAQKLHQSRQRYAKELAQLITESM  383 (553)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444433334555555554332222 111 1466677666666677777777778889888887766664433

>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells

Probab=93.21  E-value=15  Score=39.97  Aligned_cols=22  Identities=18%  Similarity=0.246  Sum_probs=9.2

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHH
Q 001257          868 QAYDKNQHFWKYKDDTKQANDL  889 (1113)
Q Consensus       868 ERDEkNkeFYqnRR~irKAREL  889 (1113)
                      +........-.....+..|+.+
T Consensus       228 k~~~l~~~~~~~~~~L~~a~~~  249 (264)
T PF06008_consen  228 KKQELSEQQNEVSETLKEAEDL  249 (264)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333444444444444444

Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex

>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]

Probab=92.88  E-value=2.7  Score=51.94  Aligned_cols=89  Identities=10%  Similarity=0.109  Sum_probs=51.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          799 KDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWK  878 (1113)
Q Consensus       799 KEaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYq  878 (1113)
                      ...+..+|..|..++..++..+..+......+...+.+....+..++.++..+...-.+.+ ....+|+++...--++--
T Consensus       236 ~~~~~~~i~~l~~~l~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~~-~e~~~r~kL~N~i~eLkG  314 (670)
T KOG0239|consen  236 ESTIKKKIQALQQELEELKAELKELNDQVSLLTREVQEALKESNTLQSDLESLEENLVEKK-KEKEERRKLHNEILELKG  314 (670)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhhc
Confidence            3445556777777777777777777777777777777777666666555555555555555 444444443333333333


Q ss_pred             hHHHHHHHHH
Q 001257          879 YKDDTKQAND  888 (1113)
Q Consensus       879 nRR~irKARE  888 (1113)
                      |-|+....|-
T Consensus       315 nIRV~CRvRP  324 (670)
T KOG0239|consen  315 NIRVFCRVRP  324 (670)
T ss_pred             CceEEEEecC
Confidence            4444433333

>KOG2751 consensus Beclin-like protein [Signal transduction mechanisms]

Probab=92.68  E-value=18  Score=43.03  Aligned_cols=93  Identities=13%  Similarity=0.286  Sum_probs=62.1

Q ss_pred             CCHHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHHHHHHHHHHHH
Q 001257          739 ISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRE  818 (1113)
Q Consensus       739 KSVEEIDarIkrLE~RIQTgSLSLvEEKKLLKEIKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIKaLKKELDELRk  818 (1113)
                      .+++++..+.+.|.+          ||++++++++.|.+....+                    ...+..+..+..    
T Consensus       176 ~~~~~~~~e~~~l~~----------eE~~L~q~lk~le~~~~~l--------------------~~~l~e~~~~~~----  221 (447)
T KOG2751|consen  176 VSEEDLLKELKNLKE----------EEERLLQQLEELEKEEAEL--------------------DHQLKELEFKAE----  221 (447)
T ss_pred             cchHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHH--------------------HHHHHHHHHHHH----
Confidence            466777766666653          7888888888888876543                    122222222222    


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          819 NVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQ  868 (1113)
Q Consensus       819 KLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKE  868 (1113)
                         .+.++-..+.+.|...+-++-+.+.+++.+..+|.=+-..++.||+.
T Consensus       222 ---~~~e~~~~~~~ey~~~~~q~~~~~del~Sle~q~~~s~~qldkL~kt  268 (447)
T KOG2751|consen  222 ---RLNEEEDQYWREYNNFQRQLIEHQDELDSLEAQIEYSQAQLDKLRKT  268 (447)
T ss_pred             ---HHHHHHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHHHHHHHhh
Confidence               22223345556666667777778899999999999999999988885

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=92.56  E-value=14  Score=48.31  Aligned_cols=95  Identities=12%  Similarity=0.172  Sum_probs=42.5

Q ss_pred             CCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 001257          659 RYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQT---IRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMM  735 (1113)
Q Consensus       659 RPDDEeLKAKIdeLqKEIeELKQkRdAInaELka---kRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KL  735 (1113)
                      .|+...++.+++++.+.  +.-. ...+...++.   .-.+.+++..+.+.+......+-....+..+++..+++.....
T Consensus        22 ~p~~~~iq~~l~~~~~~--~~~~-~k~~~~~l~~tl~~l~~~~~~~~~~~~~~~~i~~ap~~~~~~~~~l~~~~~~~~~~   98 (1109)
T PRK10929         22 APDEKQITQELEQAKAA--KTPA-QAEIVEALQSALNWLEERKGSLERAKQYQQVIDNFPKLSAELRQQLNNERDEPRSV   98 (1109)
T ss_pred             CCCHHHHHHHHHHhhcC--CChh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhcccccc
Confidence            37778899998887663  1111 1112222211   1233344444444444444333333333333333222211111


Q ss_pred             ccCCCHHHHHHHHHHHHHHhh
Q 001257          736 KNAISVDDIDGSIRNMEHRIA  756 (1113)
Q Consensus       736 RNAKSVEEIDarIkrLE~RIQ  756 (1113)
                      ..-.|..+|+.++.....+++
T Consensus        99 ~~~~s~~~Leq~l~~~~~~L~  119 (1109)
T PRK10929         99 PPNMSTDALEQEILQVSSQLL  119 (1109)
T ss_pred             cccCCHHHHHHHHHHHHHHHH
Confidence            011467888877776666543

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=92.56  E-value=2.3  Score=47.93  Aligned_cols=39  Identities=13%  Similarity=0.026  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          829 AVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKK  867 (1113)
Q Consensus       829 ALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRK  867 (1113)
                      .+-..++.+.-++..++++++.+..+.+-+..++..||+
T Consensus        96 ~~~~~~n~~~~~l~~~~~e~~sl~~q~~~~~~~L~~L~k  134 (314)
T PF04111_consen   96 EYWREYNELQLELIEFQEERDSLKNQYEYASNQLDRLRK  134 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            333344444455555556666666666666666655554

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.

>PF15450 DUF4631: Domain of unknown function (DUF4631)

Probab=92.52  E-value=32  Score=41.95  Aligned_cols=121  Identities=12%  Similarity=0.141  Sum_probs=64.8

Q ss_pred             CCHHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHHHHHHHHHHHH
Q 001257          739 ISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRE  818 (1113)
Q Consensus       739 KSVEEIDarIkrLE~RIQTgSLSLvEEKKLLKEIKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIKaLKKELDELRk  818 (1113)
                      ..+.+|+.+|-.|-|++.|      .|+-+=..|..++......         ++.++.   .|..=-+.+.+.+..++.
T Consensus       358 ~~lkDLd~~~~aLs~rld~------qEqtL~~rL~e~~~e~~~~---------~r~~le---kl~~~q~e~~~~l~~v~e  419 (531)
T PF15450_consen  358 RQLKDLDDHILALSWRLDL------QEQTLNLRLSEAKNEWESD---------ERKSLE---KLDQWQNEMEKHLKEVQE  419 (531)
T ss_pred             HHHHHHHHHHHHHhhhhhH------HHHHHHHHHHHHHHHHHHH---------HHHHHH---HHHHHHHHHHHHHHHHHH
Confidence            5677778888888887654      2444444555554433211         111111   111111233444555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 001257          819 NVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDT  883 (1113)
Q Consensus       819 KLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnRR~i  883 (1113)
                      +++.+-..+..|+.+++-++.+++-      -++.+-..-|..+.++|.++.......--.+...
T Consensus       420 KVd~LpqqI~~vs~Kc~~~Ksd~d~------kIdtE~k~R~~eV~~vRqELa~lLssvQ~~~e~~  478 (531)
T PF15450_consen  420 KVDSLPQQIEEVSDKCDLHKSDSDT------KIDTEGKAREREVGAVRQELATLLSSVQLLKEDN  478 (531)
T ss_pred             HHHhhhHHHHHHHHHHHHHHhhhhh------hccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            5555555555666555555544322      2344556668888889998888777655444443

>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional

Probab=92.39  E-value=14  Score=46.55  Aligned_cols=14  Identities=14%  Similarity=0.425  Sum_probs=6.8

Q ss_pred             HHHHHHHHHHHHHH
Q 001257          665 LREQIKAAQSKVDE  678 (1113)
Q Consensus       665 LKAKIdeLqKEIeE  678 (1113)
                      |+.+++-|+.++.+
T Consensus       484 Lk~kL~~Lr~E~sK  497 (762)
T PLN03229        484 LQERLENLREEFSK  497 (762)
T ss_pred             HHHHHHHHHHHHHh
Confidence            55555555544443

>KOG4643 consensus Uncharacterized coiled-coil protein [Function unknown]

Probab=92.34  E-value=46  Score=43.40  Aligned_cols=23  Identities=22%  Similarity=0.374  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhcc
Q 001257          764 EEKQIIREIKQLKQRREQISSSI  786 (1113)
Q Consensus       764 EEKKLLKEIKQLKKqRKkViAna  786 (1113)
                      .+|.++.|-.+|...-..+...+
T Consensus       437 ~~K~L~~E~ekl~~e~~t~~~s~  459 (1195)
T KOG4643|consen  437 LEKKLQFELEKLLEETSTVTRSL  459 (1195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhH
Confidence            35666666666666555443333

>PRK11281 hypothetical protein; Provisional

Probab=92.33  E-value=14  Score=48.38  Aligned_cols=99  Identities=13%  Similarity=0.225  Sum_probs=49.7

Q ss_pred             CCChHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          659 RYDDENLREQIKAAQSKVDEKTRSRD----------AIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSV  728 (1113)
Q Consensus       659 RPDDEeLKAKIdeLqKEIeELKQkRd----------AInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsL  728 (1113)
                      .|+...++++|+++.+. +.......          ....+++..+++.++|..++..+-++.+..+       ++++.+
T Consensus        35 ~p~~~~iq~~l~~~~~~-~~~~~~~k~~~~~l~~tL~~L~qi~~~~~~~~~L~k~l~~Ap~~l~~a~-------~~Le~L  106 (1113)
T PRK11281         35 LPTEADVQAQLDALNKQ-KLLEAEDKLVQQDLEQTLALLDKIDRQKEETEQLKQQLAQAPAKLRQAQ-------AELEAL  106 (1113)
T ss_pred             CCCHHHHHHHHHHhhcC-CCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH-------HHHHHh
Confidence            47777788888887652 11111111          1222223333444444444444444433333       334333


Q ss_pred             HHHHhhcc----cCCCHHHHHHHHHHHHHHhhcCCCChHHH
Q 001257          729 QSRINMMK----NAISVDDIDGSIRNMEHRIAHETLPLKEE  765 (1113)
Q Consensus       729 QsaL~KLR----NAKSVEEIDarIkrLE~RIQTgSLSLvEE  765 (1113)
                      ++......    ...|..+|+.++.+++..++...=.|.+.
T Consensus       107 k~~~~~~~~~~~~~~Sl~qLEq~L~q~~~~Lq~~Q~~La~~  147 (1113)
T PRK11281        107 KDDNDEETRETLSTLSLRQLESRLAQTLDQLQNAQNDLAEY  147 (1113)
T ss_pred             hccccccccccccccCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33111110    12577889999998888777765555555

>PF05483 SCP-1: Synaptonemal complex protein 1 (SCP-1); InterPro: IPR008827 Synaptonemal complex protein 1 (SCP-1) is the major component of the transverse filaments of the synaptonemal complex

Probab=92.21  E-value=40  Score=42.39  Aligned_cols=109  Identities=16%  Similarity=0.228  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH-----
Q 001257          806 MKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYK-----  880 (1113)
Q Consensus       806 IKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnR-----  880 (1113)
                      |+.+...+..||+++..-..-+.++...-..++.++..-.+++..+.-+..+.-.++..+.+.+.+++..|..--     
T Consensus       589 ~k~lenk~~~LrKqvEnk~K~ieeLqqeNk~LKKk~~aE~kq~~~~eikVn~L~~E~e~~kk~~eE~~~~~~keie~K~~  668 (786)
T PF05483_consen  589 MKILENKCNNLRKQVENKNKNIEELQQENKALKKKITAESKQSNVYEIKVNKLQEELENLKKKHEEETDKYQKEIESKSI  668 (786)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhhh
Confidence            344444444444443333333333444444444444444444555555555555566666666666666555422     


Q ss_pred             ------HHHHHHHHHHhc--CCHHHHHHHHHHHHHHHHHHHh
Q 001257          881 ------DDTKQANDLASK--GDREALQHLCVNQVERVLELWN  914 (1113)
Q Consensus       881 ------R~irKARELAak--gdveELeelC~~EVEkFMelWN  914 (1113)
                            ....++|-.|..  +..++..--|+-.+--+++|.-
T Consensus       669 ~e~~L~~EveK~k~~a~EAvK~q~EtdlrCQhKIAeMVALME  710 (786)
T PF05483_consen  669 SEEELLGEVEKAKLTADEAVKLQEETDLRCQHKIAEMVALME  710 (786)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence                  223455555433  3566666677766655555553

Synaptonemal complexes are structures that are formed between homologous chromosomes during meiotic prophase [].; GO: 0007130 synaptonemal complex assembly, 0000795 synaptonemal complex

>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []

Probab=91.88  E-value=22  Score=44.64  Aligned_cols=41  Identities=12%  Similarity=0.208  Sum_probs=28.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          837 ESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFW  877 (1113)
Q Consensus       837 IkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFY  877 (1113)
                      -.+.+..|.+++..+...-.+....|...++++-.....++
T Consensus       417 ~qeri~~LE~ELr~l~~~A~E~q~~LnsAQDELvtfSEeLA  457 (717)
T PF09730_consen  417 DQERISELEKELRALSKLAGESQGSLNSAQDELVTFSEELA  457 (717)
T ss_pred             hHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence            34677777788888887778877777777777655554433

Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus

>PF09755 DUF2046: Uncharacterized conserved protein H4 (DUF2046); InterPro: IPR019152 This is the conserved N-terminal 350 residues of a family of proteins of unknown function possibly containing a coiled-coil domain

Probab=91.79  E-value=29  Score=39.91  Aligned_cols=42  Identities=24%  Similarity=0.367  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDE  711 (1113)
Q Consensus       663 EeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~  711 (1113)
                      +.+..+|..|+++       -..++.++...|.+...|...++.|++..
T Consensus        23 ~~l~~~~~sL~qe-------n~~Lk~El~~ek~~~~~L~~e~~~lr~~s   64 (310)
T PF09755_consen   23 EQLRKRIESLQQE-------NRVLKRELETEKARCKHLQEENRALREAS   64 (310)
T ss_pred             HHHHHHHHHHHHH-------hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555555554       44466678888888888888888887654

>PF06705 SF-assemblin: SF-assemblin/beta giardin

Probab=91.76  E-value=22  Score=38.47  Aligned_cols=17  Identities=24%  Similarity=0.526  Sum_probs=7.7

Q ss_pred             CHHHHHHHHHHHHHHhh
Q 001257          740 SVDDIDGSIRNMEHRIA  756 (1113)
Q Consensus       740 SVEEIDarIkrLE~RIQ  756 (1113)
                      .++.|..+|..|+..++
T Consensus        93 ~l~~L~~ri~~L~~~i~  109 (247)
T PF06705_consen   93 RLDSLNDRIEALEEEIQ  109 (247)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            34444444554444443

>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]

Probab=91.69  E-value=23  Score=38.58  Aligned_cols=64  Identities=19%  Similarity=0.230  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          800 DQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQ  863 (1113)
Q Consensus       800 EaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLk  863 (1113)
                      +....+|+.+-..|.+--.....++-.+..|.+.++++..++.....++..+....|.++..+.
T Consensus       140 d~~e~~ik~ltdKLkEaE~rAE~aERsVakLeke~DdlE~kl~~~k~ky~~~~~eLD~~~~~L~  203 (205)
T KOG1003|consen  140 EKYEEELKELTDKLKEAETRAEFAERRVAKLEKERDDLEEKLEEAKEKYEEAKKELDETLQELE  203 (205)
T ss_pred             HHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHcccHHHHHHhhHHHHHHHHHHHHHHHHHHHHhh
Confidence            4555566666555554444444555556666666666666666666666666666666665553

>KOG1937 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.56  E-value=38  Score=40.82  Aligned_cols=101  Identities=16%  Similarity=0.165  Sum_probs=56.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHH----HHHHHHHHHHHHHHH
Q 001257          799 KDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAAD---EIRQ----EAYKHWQSLKKQAYD  871 (1113)
Q Consensus       799 KEaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALd---EkRD----EAYEeLkeLRKERDE  871 (1113)
                      +.....+|+++.+-+...+..|-+.-..+++|+|+.+-+...++--..=.+.+-   .+.|    .||+-+..|-.-..+
T Consensus       384 rk~ytqrikEi~gniRKq~~DI~Kil~etreLqkq~ns~se~L~Rsfavtdellf~sakhddhvR~aykllt~iH~nc~e  463 (521)
T KOG1937|consen  384 RKVYTQRIKEIDGNIRKQEQDIVKILEETRELQKQENSESEALNRSFAVTDELLFMSAKHDDHVRLAYKLLTRIHLNCME  463 (521)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHH
Confidence            445556777777777777777777777777888777777766443332222221   2222    344444444333333


Q ss_pred             HHHHHHHhHHHHHHHHHHHhcCCHHHHH
Q 001257          872 KNQHFWKYKDDTKQANDLASKGDREALQ  899 (1113)
Q Consensus       872 kNkeFYqnRR~irKARELAakgdveELe  899 (1113)
                      ...-.-.+=+..++.++|..+=..+.+.
T Consensus       464 i~E~i~~tg~~~revrdlE~qI~~E~~k  491 (521)
T KOG1937|consen  464 ILEMIRETGALKREVRDLESQIYVEEQK  491 (521)
T ss_pred             HHHHHHHcchHHHHHHHHHHHHhHHHHH
Confidence            3334444455667788886555544443

>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs

Probab=91.51  E-value=18  Score=45.38  Aligned_cols=85  Identities=14%  Similarity=0.245  Sum_probs=42.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-cccCCCHHH--HHHH
Q 001257          671 AAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINM-MKNAISVDD--IDGS  747 (1113)
Q Consensus       671 eLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~K-LRNAKSVEE--IDar  747 (1113)
                      ++++.+..++..+..-..+|..++.+|..+.+.-..|.++++.+.+.-....+.++.+...+.. ++ ..|.+|  .-++
T Consensus       562 ei~~rv~~Lk~~~e~Ql~~L~~l~e~~~~l~~~ae~LaeR~e~a~d~Qe~L~~R~~~vl~~l~~~~P-~LS~AEr~~~~E  640 (717)
T PF10168_consen  562 EIQRRVKLLKQQKEQQLKELQELQEERKSLRESAEKLAERYEEAKDKQEKLMKRVDRVLQLLNSQLP-VLSEAEREFKKE  640 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC-CCCHHHHHHHHH
Confidence            3444444555555555556666666666666666666666555555444444444444333322 12 134433  3334


Q ss_pred             HHHHHHHhh
Q 001257          748 IRNMEHRIA  756 (1113)
Q Consensus       748 IkrLE~RIQ  756 (1113)
                      ++.|..+++
T Consensus       641 L~~~~~~l~  649 (717)
T PF10168_consen  641 LERMKDQLQ  649 (717)
T ss_pred             HHHHHHHHH
Confidence            555555443

It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].

>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure

Probab=91.48  E-value=38  Score=40.63  Aligned_cols=30  Identities=10%  Similarity=0.324  Sum_probs=13.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          665 LREQIKAAQSKVDEKTRSRDAIRDDIQTIR  694 (1113)
Q Consensus       665 LKAKIdeLqKEIeELKQkRdAInaELkakR  694 (1113)
                      +..++..+.-.+.++.+.+..++.++..++
T Consensus       107 l~~e~a~lk~~l~e~~~El~~l~~~l~~l~  136 (511)
T PF09787_consen  107 LSSELAVLKIRLQELDQELRRLRRQLEELQ  136 (511)
T ss_pred             ccchhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444444454443

They stimulate the formation of Golgi stacks and ribbons, and are involved in intra-Golgi retrograde transport. Two main interactions have been characterised: one with RAB1A that has been activated by GTP-binding and another with isoform CASP of CUTL1 [].

>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []

Probab=91.40  E-value=7.1  Score=39.05  Aligned_cols=24  Identities=17%  Similarity=0.520  Sum_probs=18.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHH
Q 001257          885 QANDLASKGDREALQHLCVNQVERVL  910 (1113)
Q Consensus       885 KARELAakgdveELeelC~~EVEkFM  910 (1113)
                      .+.+|  +.|+..|+.+|..||+..|
T Consensus        97 ~veEL--~~Dv~DlK~myr~Qi~~lv  120 (120)
T PF12325_consen   97 EVEEL--RADVQDLKEMYREQIDQLV  120 (120)
T ss_pred             HHHHH--HHHHHHHHHHHHHHHHHhC
Confidence            44555  6788999999999998653

The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].

>PF06818 Fez1: Fez1; InterPro: IPR009638 This family represents the eukaryotic Fez1 protein

Probab=91.23  E-value=13  Score=40.40  Aligned_cols=42  Identities=5%  Similarity=0.052  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 001257          848 FKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDL  889 (1113)
Q Consensus       848 LkALdEkRDEAYEeLkeLRKERDEkNkeFYqnRR~irKAREL  889 (1113)
                      ...+...-+.+-.+|..+|..++.....|-.-|+.+..=|+-
T Consensus       133 ~~~l~~e~erL~aeL~~er~~~e~q~~~Fe~ER~~W~eEKek  174 (202)
T PF06818_consen  133 LGSLRREVERLRAELQRERQRREEQRSSFEQERRTWQEEKEK  174 (202)
T ss_pred             chhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            444555566677777788888888888888888888765554

Fez1 contains a leucine-zipper region with similarity to the DNA-binding domain of the cAMP-responsive activating-transcription factor 5 []. There is evidence that Fez1 inhibits cancer cell growth through regulation of mitosis, and that its alterations result in abnormal cell growth []. Note that some family members contain more than one copy of this region.; GO: 0005737 cytoplasm, 0016020 membrane

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=91.20  E-value=33  Score=39.36  Aligned_cols=12  Identities=17%  Similarity=0.432  Sum_probs=5.5

Q ss_pred             HHHHHHHHHHHH
Q 001257          741 VDDIDGSIRNME  752 (1113)
Q Consensus       741 VEEIDarIkrLE  752 (1113)
                      +..+..+|..++
T Consensus       256 i~~l~~~l~~le  267 (444)
T TIGR03017       256 IQNLKTDIARAE  267 (444)
T ss_pred             HHHHHHHHHHHH
Confidence            344444444444

Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=91.12  E-value=4.6  Score=45.57  Aligned_cols=66  Identities=17%  Similarity=0.284  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          806 MKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYD  871 (1113)
Q Consensus       806 IKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDE  871 (1113)
                      +..+.+++..+..+...+.++++++.+...++..++..+..+...+.....+.+...+.+.-++..
T Consensus        45 ~~~~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~~eE~~~~~~~n~~~~~l~~  110 (314)
T PF04111_consen   45 IEELEEELEKLEQEEEELLQELEELEKEREELDQELEELEEELEELDEEEEEYWREYNELQLELIE  110 (314)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444445555555555566666666666666666666666666555544444

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.

>KOG1937 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.12  E-value=42  Score=40.49  Aligned_cols=108  Identities=19%  Similarity=0.394  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          663 ENLREQIKAAQSKVDEKTRS----RDAIRDDIQTIRASYKEY------AEKLEAAISDERSARESLKSKRQEIDSVQSRI  732 (1113)
Q Consensus       663 EeLKAKIdeLqKEIeELKQk----RdAInaELkakRAERdEL------iEQLKeLReE~KqlReel~EKIKEIdsLQsaL  732 (1113)
                      .+|..++..+++.+..+++.    |-.+-.+.-.+|.....+      +.++..+.+.+.+.-..++.+-.....|++.|
T Consensus       296 aKL~~~l~~~~~~~~~ltqqwed~R~pll~kkl~Lr~~l~~~e~e~~e~~~IqeleqdL~a~~eei~~~eel~~~Lrsel  375 (521)
T KOG1937|consen  296 AKLMGKLAELNKQMEELTQQWEDTRQPLLQKKLQLREELKNLETEDEEIRRIQELEQDLEAVDEEIESNEELAEKLRSEL  375 (521)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            34555566666665555553    333333322222211110      34455555555555555555555555677777


Q ss_pred             hhcccC-------CCHHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHH
Q 001257          733 NMMKNA-------ISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRRE  780 (1113)
Q Consensus       733 ~KLRNA-------KSVEEIDarIkrLE~RIQTgSLSLvEEKKLLKEIKQLKKqRK  780 (1113)
                      .++...       .-+.||+.-|+.++--|.          ||+.+-.+|+++..
T Consensus       376 e~lp~dv~rk~ytqrikEi~gniRKq~~DI~----------Kil~etreLqkq~n  420 (521)
T KOG1937|consen  376 EKLPDDVQRKVYTQRIKEIDGNIRKQEQDIV----------KILEETRELQKQEN  420 (521)
T ss_pred             hcCCchhHHHHHHHHHHHHHhHHHHHHHHHH----------HHHHHHHHHHHHHH
Confidence            766531       367788888888776665          45555555555543

>KOG0163 consensus Myosin class VI heavy chain [Cytoskeleton]

Probab=90.95  E-value=54  Score=41.81  Aligned_cols=96  Identities=18%  Similarity=0.188  Sum_probs=58.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCHHHHHHHHHHHHHHhhcCCCChH
Q 001257          684 DAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLK  763 (1113)
Q Consensus       684 dAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLRNAKSVEEIDarIkrLE~RIQTgSLSLv  763 (1113)
                      .++..++.+++..-.+.++-+-.|..-+..++..++....+|+.|.+.|..-+  .+-.+++..+..+..-+++-+-.|.
T Consensus       836 i~~~~K~~~l~kns~k~~ei~s~lke~r~e~~~~~~~~~~~id~lv~~IK~~~--~tq~~~~~~~d~~~~~~e~~~~~l~  913 (1259)
T KOG0163|consen  836 IAGIRKINALLKNSLKTIEILSRLKEGREEIISGANSTYRQIDDLVKKIKMPR--ITQREMNSEYDVAVKNYEKLVKRLD  913 (1259)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHhcchHHHHhhhhhHHHHHHHHHHHhcccc--cchHHHHHHHHHHHHHHHHHHHHhh
Confidence            33333334444333344443333333344556666666667777766654322  5678888888888887777777776


Q ss_pred             -HHHHHHHHHHHHHHHHHH
Q 001257          764 -EEKQIIREIKQLKQRREQ  781 (1113)
Q Consensus       764 -EEKKLLKEIKQLKKqRKk  781 (1113)
                       .|++.+.+.+.|++.-+.
T Consensus       914 sk~~q~~~e~er~rk~qE~  932 (1259)
T KOG0163|consen  914 SKEQQQIEELERLRKIQEL  932 (1259)
T ss_pred             hhHHHHHHHHHHHHHHHHH
Confidence             788888887777776544

>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

Probab=90.68  E-value=43  Score=39.84  Aligned_cols=39  Identities=15%  Similarity=0.285  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          689 DIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDS  727 (1113)
Q Consensus       689 ELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIds  727 (1113)
                      ++...+.+|..-+.+|...+.+.+..+..+..-.+++-+
T Consensus        96 ~k~~~e~er~~~~~El~~~r~e~~~v~~~~~~a~~n~~k  134 (499)
T COG4372          96 EKRAAETEREAARSELQKARQEREAVRQELAAARQNLAK  134 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445556666666666666555555554444444433

>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp

Probab=90.64  E-value=3.9  Score=46.15  Aligned_cols=71  Identities=34%  Similarity=0.479  Sum_probs=45.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCHHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHHHhhhccc
Q 001257          708 ISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIG  787 (1113)
Q Consensus       708 ReE~KqlReel~EKIKEIdsLQsaL~KLRNAKSVEEIDarIkrLE~RIQTgSLSLvEEKKLLKEIKQLKKqRKkViAnaa  787 (1113)
                      +.++++-...+.++--||+.|+..|.+|+    .+=|+.+-.+.|.++.     |   |.+=+||+||++-.+.+.++.+
T Consensus        74 kakLkes~~~l~dRetEI~eLksQL~RMr----EDWIEEECHRVEAQLA-----L---KEARkEIkQLkQvieTmrssL~  141 (305)
T PF15290_consen   74 KAKLKESENRLHDRETEIDELKSQLARMR----EDWIEEECHRVEAQLA-----L---KEARKEIKQLKQVIETMRSSLA  141 (305)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHH-----H---HHHHHHHHHHHHHHHHHHhhhc
Confidence            33444444455556677888888888887    3456666666666643     4   3455788899888887766555


Q ss_pred             chh
Q 001257          788 EHD  790 (1113)
Q Consensus       788 ~rA  790 (1113)
                      .++
T Consensus       142 ekD  144 (305)
T PF15290_consen  142 EKD  144 (305)
T ss_pred             hhh
Confidence            443

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=90.61  E-value=28  Score=37.69  Aligned_cols=60  Identities=10%  Similarity=0.065  Sum_probs=24.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 001257          823 AEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDD  882 (1113)
Q Consensus       823 LEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnRR~  882 (1113)
                      +-++.+.+.+....+-.+|..|+++...+...++..-.....|..+........|.|-..
T Consensus        86 L~aq~rqlEkE~q~L~~~i~~Lqeen~kl~~e~~~lk~~~~eL~~~~~~Lq~Ql~~~e~l  145 (193)
T PF14662_consen   86 LLAQARQLEKEQQSLVAEIETLQEENGKLLAERDGLKKRSKELATEKATLQRQLCEFESL  145 (193)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            333333333333344444444444444444444444444444433333333333333333

>PRK10884 SH3 domain-containing protein; Provisional

Probab=90.48  E-value=4.7  Score=43.33  Aligned_cols=68  Identities=13%  Similarity=0.105  Sum_probs=32.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYD  871 (1113)
Q Consensus       801 aIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDE  871 (1113)
                      .++.++..++.+++.++.+.+   +...++..++.+....+.+|.++.+.|.++-..+-.++..|+.+.+.
T Consensus        97 ~le~el~~l~~~l~~~~~~~~---~~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~  164 (206)
T PRK10884         97 DLENQVKTLTDKLNNIDNTWN---QRTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDD  164 (206)
T ss_pred             HHHHHHHHHHHHHHHHHhHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555554433   22334444444444445555555555555444444444444444333

>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin

Probab=90.37  E-value=14  Score=41.43  Aligned_cols=84  Identities=7%  Similarity=0.183  Sum_probs=62.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 001257          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYK  880 (1113)
Q Consensus       801 aIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnR  880 (1113)
                      .++..|+.+..++..++..+..+...-..|..|++.-+.++.-.++.++.|...|=...++...|-.++.+....|+..=
T Consensus       166 ~l~~ai~~~~~~~~~~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~sLq~vRPAfmdEyEklE~EL~~lY~~Y~~kf  245 (267)
T PF10234_consen  166 ALKEAIKAVQQQLQQTQQQLNNLASDEANLEAKIEKKKQELERNQKRLQSLQSVRPAFMDEYEKLEEELQKLYEIYVEKF  245 (267)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455666677777777777777766777777788888888888888888888888888888888888888777666544


Q ss_pred             HHHH
Q 001257          881 DDTK  884 (1113)
Q Consensus       881 R~ir  884 (1113)
                      |++.
T Consensus       246 RNl~  249 (267)
T PF10234_consen  246 RNLD  249 (267)
T ss_pred             HhHH
Confidence            4443

Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].

>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6

Probab=90.35  E-value=2.7  Score=39.71  Aligned_cols=26  Identities=15%  Similarity=0.311  Sum_probs=11.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          801 QIEEKMKFLRKEADSLRENVIKAEAA  826 (1113)
Q Consensus       801 aIqEQIKaLKKELDELRkKLkkLEek  826 (1113)
                      .+..+.+.+..+++.++.+.+.+..+
T Consensus        33 ~ld~~~r~l~~~~e~lr~~rN~~sk~   58 (108)
T PF02403_consen   33 ELDQERRELQQELEELRAERNELSKE   58 (108)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence            33344444445555555544443333

1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....

>PF03999 MAP65_ASE1: Microtubule associated protein (MAP65/ASE1 family); InterPro: IPR007145 This is a family of microtubule associated proteins

Probab=90.11  E-value=0.14  Score=61.47  Aligned_cols=74  Identities=16%  Similarity=0.266  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Q 001257          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREES-EKLKRLLGQFKAADEIRQEAYKHW-QSLKKQAYDKNQ  874 (1113)
Q Consensus       801 aIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIk-aEIdELQEELkALdEkRDEAYEeL-keLRKERDEkNk  874 (1113)
                      ....++..|+.++..|...|+.+.+.+...-.....+. ..|..+..+++-|.+.|.+....+ ..+|.+..+.++
T Consensus       225 ~r~~~~~~l~~~i~~LW~~L~~~~ee~~~F~~~~~~ls~~~i~~l~~El~RL~~lK~~~lk~~I~~~R~ei~elWd  300 (619)
T PF03999_consen  225 EREEKLQELREKIEELWNRLDVPEEEREAFLEENSGLSLDTIEALEEELERLEELKKQNLKEFIEKKRQEIEELWD  300 (619)
T ss_dssp             ----------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCHHHHHHHhhccCcchHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            33455666677777777766666555553322222211 334445555555544443333322 333444444333

One of its members is the yeast anaphase spindle elongation protein.; PDB: 3NRX_A 3NRY_A.

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=89.97  E-value=80  Score=41.83  Aligned_cols=18  Identities=11%  Similarity=0.320  Sum_probs=13.7

Q ss_pred             CHHHHHHHHHHHHHHhhc
Q 001257          740 SVDDIDGSIRNMEHRIAH  757 (1113)
Q Consensus       740 SVEEIDarIkrLE~RIQT  757 (1113)
                      ...+..+++..++.+++.
T Consensus       145 ~~~~~~~~l~~i~~~L~~  162 (1109)
T PRK10929        145 QQTEARRQLNEIERRLQT  162 (1109)
T ss_pred             hHHHHHHHHHHHHHHHhC
Confidence            337778888888888777

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=89.69  E-value=0.77  Score=57.02  Aligned_cols=44  Identities=34%  Similarity=0.401  Sum_probs=25.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhC
Q 001257         1067 RLEEKAKAQEALERKKRIAEKAQTRAALRAQKEAEQKEKVRRLK 1110 (1113)
Q Consensus      1067 r~ee~~Kak~a~eRKkk~aeK~a~~A~~ra~KEAEkKeKErEKK 1110 (1113)
                      |++|-+-++++++|++++.+-++++-+.+++||+|+..++|-|.
T Consensus       235 reeEE~~r~eeEEer~~ee~E~~~eEak~kkKekekek~er~Ka  278 (1064)
T KOG1144|consen  235 REEEERLRREEEEERRREEEEAQEEEAKEKKKEKEKEKKERKKA  278 (1064)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            33333335556666666666666665666777777666655543

>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences

Probab=89.56  E-value=5.5  Score=40.55  Aligned_cols=29  Identities=28%  Similarity=0.426  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          801 QIEEKMKFLRKEADSLRENVIKAEAATQA  829 (1113)
Q Consensus       801 aIqEQIKaLKKELDELRkKLkkLEeklKA  829 (1113)
                      .+..+|..|+.++..++..++.++.++..
T Consensus        76 ~ld~ei~~L~~el~~l~~~~k~l~~eL~~  104 (169)
T PF07106_consen   76 ELDAEIKELREELAELKKEVKSLEAELAS  104 (169)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444433333

TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].

>PF04782 DUF632: Protein of unknown function (DUF632); InterPro: IPR006867 This conserved region contains a leucine zipper-like domain

Probab=89.55  E-value=29  Score=39.71  Aligned_cols=155  Identities=17%  Similarity=0.176  Sum_probs=88.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          763 KEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLK  842 (1113)
Q Consensus       763 vEEKKLLKEIKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEId  842 (1113)
                      .-||||.+|++.-++.|..-   .-.-..++ ..+.+.+-...|...|+.+..|..++.-.-..++.+.++|+.++++  
T Consensus        92 aWEKKLY~EVKa~E~~r~~y---eKK~~~Lr-~~d~kg~~~~kidkTra~v~~L~tri~Vaiq~v~siS~~I~kLRDe--  165 (312)
T PF04782_consen   92 AWEKKLYDEVKAEEKLRIEY---EKKCKQLR-KQDAKGADSSKIDKTRASVKDLHTRIRVAIQSVDSISKRIEKLRDE--  165 (312)
T ss_pred             HHHHHHHHHHHccHHHHHHH---HHHHHHHH-HHHhCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--
Confidence            57999999999888887541   11111111 1122222223444555555555555555554455555444444433  


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----HHHHHHHHHHHhc---CCHHHHHHHHHHHHHHHHHHHhC
Q 001257          843 RLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKY----KDDTKQANDLASK---GDREALQHLCVNQVERVLELWNN  915 (1113)
Q Consensus       843 ELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqn----RR~irKARELAak---gdveELeelC~~EVEkFMelWNn  915 (1113)
                                    ++|-.|.+|-.=+-.|++.+|+.    ...+..++-|...   .-..+.......|.|.-+..|+.
T Consensus       166 --------------EL~PQL~eLi~Gl~~MWk~M~ecHq~Q~~ii~~~k~l~~~~~~~~~s~~h~~at~~Le~el~~W~~  231 (312)
T PF04782_consen  166 --------------ELYPQLVELIQGLMRMWKSMLECHQKQFQIIQEAKSLDSSPSNEPTSESHRQATLQLEAELQNWHS  231 (312)
T ss_pred             --------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccCCCCChHHHHHHHHHHHHHHHHHH
Confidence                          56677777777777777766654    3345556644322   24456666677777777777776


Q ss_pred             Ch----HHHHHHHHhhhhhHhhhhhcc
Q 001257          916 ND----EFRKEYVNSNIRSTLRRLKTL  938 (1113)
Q Consensus       916 Dk----eFRkDYeKrnl~Sl~rRqlT~  938 (1113)
                      ..    ..=++|++. |..-+++-+..
T Consensus       232 sF~~~i~~Qk~YV~a-Ln~WL~~~l~~  257 (312)
T PF04782_consen  232 SFCKWIKAQKSYVKA-LNGWLKLCLMQ  257 (312)
T ss_pred             HHHHHHHHHHHHHHH-HHHHHHHhccc
Confidence            54    456788885 45556665543

The proteins are found only in plants and their functions are unknown.

>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []

Probab=89.30  E-value=6.1  Score=39.53  Aligned_cols=72  Identities=19%  Similarity=0.348  Sum_probs=41.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 001257          665 LREQIKAAQSKVDEKTRSRDAIRDDIQTIRA----------SYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINM  734 (1113)
Q Consensus       665 LKAKIdeLqKEIeELKQkRdAInaELkakRA----------ERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~K  734 (1113)
                      +.-++..++.++..+...|+.++++|-.+..          +...|..+++.|..++..+...+.+|-.+++.|+..+..
T Consensus        28 ~E~E~~~l~~el~~l~~~r~~l~~Eiv~l~~~~e~~~~~~~~~~~L~~el~~l~~ry~t~LellGEK~E~veEL~~Dv~D  107 (120)
T PF12325_consen   28 LEGELASLQEELARLEAERDELREEIVKLMEENEELRALKKEVEELEQELEELQQRYQTLLELLGEKSEEVEELRADVQD  107 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH
Confidence            4455666666666677777777777666533          333445555555555555555666666666666655544


Q ss_pred             cc
Q 001257          735 MK  736 (1113)
Q Consensus       735 LR  736 (1113)
                      ++
T Consensus       108 lK  109 (120)
T PF12325_consen  108 LK  109 (120)
T ss_pred             HH
Confidence            43

The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=89.02  E-value=8.2  Score=46.02  Aligned_cols=108  Identities=18%  Similarity=0.215  Sum_probs=77.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 001257          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYK  880 (1113)
Q Consensus       801 aIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnR  880 (1113)
                      ...+....+..+.++++...+.+++..+.+..++.+++.++..++++++.+.+.-..+.+....++..+.+++...-..+
T Consensus       351 n~k~~~e~~~~e~~~l~~~~~~~e~~kk~~e~k~~q~q~k~~k~~kel~~~~E~n~~l~knq~vw~~kl~~~~e~~~~~~  430 (493)
T KOG0804|consen  351 NQKQYYELLITEADSLKQESSDLEAEKKIVERKLQQLQTKLKKCQKELKEEREENKKLIKNQDVWRGKLKELEEREKEAL  430 (493)
T ss_pred             hHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence            33345556677788888888888888888889999999999999999999998888888888888888888776333222


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHhCChHHH
Q 001257          881 DDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFR  920 (1113)
Q Consensus       881 R~irKARELAakgdveELeelC~~EVEkFMelWNnDkeFR  920 (1113)
                      .    +++.    .+.+|+    .|+--.|-..-+...|-
T Consensus       431 ~----s~d~----~I~dLq----EQlrDlmf~le~qqklk  458 (493)
T KOG0804|consen  431 G----SKDE----KITDLQ----EQLRDLMFFLEAQQKLK  458 (493)
T ss_pred             H----HHHH----HHHHHH----HHHHhHheehhhhhhhh
Confidence            2    2222    355555    56777777766655543

>PF12252 SidE: Dot/Icm substrate protein; InterPro: IPR021014 This entry represents bacterial proteins that are typically between 397 and 1543 amino acids in length including SidE protein in the Dot/Icm pathway of Legionella pneumophila bacteria

Probab=89.01  E-value=33  Score=44.86  Aligned_cols=87  Identities=21%  Similarity=0.150  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhcCCHHHHH
Q 001257          832 KLHREESEKLKRLLGQFKAADEIRQEA------------YKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQ  899 (1113)
Q Consensus       832 KK~DEIkaEIdELQEELkALdEkRDEA------------YEeLkeLRKERDEkNkeFYqnRR~irKARELAakgdveELe  899 (1113)
                      +.+.+++..+..+.+.+..+.-.|++.            +..+.+|+.++...|.+....  .++..|...         
T Consensus      1197 KnltdvK~missf~d~laeiE~LrnErIKkHGaSkePLDlSDlDkLk~~LQ~iNQ~LV~~--LIn~iR~sl--------- 1265 (1439)
T PF12252_consen 1197 KNLTDVKSMISSFNDRLAEIEFLRNERIKKHGASKEPLDLSDLDKLKGQLQKINQNLVKA--LINTIRVSL--------- 1265 (1439)
T ss_pred             CchhhHHHHHHHHHhhhhHHHHHHHHHhhccCCCCCccchhhHHHHHHHHHHHHHHHHHH--HHHHHHHHH---------
Confidence            344456666666666666666666655            456778888888877755532  233333332         


Q ss_pred             HHHHHHHHHHHHHHhCChHHHHHHHHhhhhhHhhhhhccC
Q 001257          900 HLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTLD  939 (1113)
Q Consensus       900 elC~~EVEkFMelWNnDkeFRkDYeKrnl~Sl~rRqlT~D  939 (1113)
                          +|++      ++...--+.|.+.|+.-|..=.-|+|
T Consensus      1266 ----nqme------~~tf~~q~~eiq~n~~ll~~L~~tlD 1295 (1439)
T PF12252_consen 1266 ----NQME------VKTFEEQEKEIQQNLQLLDKLEKTLD 1295 (1439)
T ss_pred             ----HHhh------hhhhhhhhHHHHHHHHHHHHHHHHhc
Confidence                2222      22223346788888888877777777

There is little literature describing the family.

>PF13514 AAA_27: AAA domain

Probab=88.73  E-value=90  Score=40.76  Aligned_cols=10  Identities=20%  Similarity=0.561  Sum_probs=5.5

Q ss_pred             cCCCCCCCCc
Q 001257          942 SLGPDEEAPL  951 (1113)
Q Consensus       942 ~lnPDEkPpv  951 (1113)
                      +.++|..+|+
T Consensus      1001 ~~d~d~~~~~ 1010 (1111)
T PF13514_consen 1001 RVDEDGDKPV 1010 (1111)
T ss_pred             eeccccCccc
Confidence            4566665544

>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=88.38  E-value=26  Score=37.97  Aligned_cols=103  Identities=14%  Similarity=0.185  Sum_probs=51.9

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
Q 001257          796 FDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQ-  874 (1113)
Q Consensus       796 idQKEaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNk-  874 (1113)
                      .+++..+..++..+.++++.++..       .+.+.+.++..+.++.+|+.++..+...+.+..--+...-+.+...-. 
T Consensus        48 ~~e~~~L~~e~~~l~~e~e~L~~~-------~~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l~p~m~~m~~~L~~~v~~  120 (251)
T PF11932_consen   48 DDEKQELLAEYRQLEREIENLEVY-------NEQLERQVASQEQELASLEQQIEQIEETRQELVPLMEQMIDELEQFVEL  120 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            344445555555555555555555       444444555555666666666666666666555544444444433222 


Q ss_pred             ----HHHHhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHH
Q 001257          875 ----HFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELW  913 (1113)
Q Consensus       875 ----eFYqnRR~irKARELAakgdveELeelC~~EVEkFMelW  913 (1113)
                          ..-+.+.-+..-+.+....++.-        .|+|..+|
T Consensus       121 d~Pf~~~eR~~Rl~~L~~~l~~~dv~~--------~ek~r~vl  155 (251)
T PF11932_consen  121 DLPFLLEERQERLARLRAMLDDADVSL--------AEKFRRVL  155 (251)
T ss_pred             CCCCChHHHHHHHHHHHHhhhccCCCH--------HHHHHHHH
Confidence                11122333345556665666433        35555555

However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.

>PF11600 CAF-1_p150: Chromatin assembly factor 1 complex p150 subunit, N-terminal; InterPro: IPR021644 P150 is a polypeptide subunit of CAF-1, which functions in depositing newly synthesised and acetylated histones H3/H4 into chromatin during DNA replication and repair []

Probab=88.32  E-value=2.7  Score=44.71  Aligned_cols=19  Identities=21%  Similarity=0.387  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHHHhhh
Q 001257         1090 TRAALRAQKEAEQKEKVRR 1108 (1113)
Q Consensus      1090 ~~A~~ra~KEAEkKeKErE 1108 (1113)
                      ++.+.+.+|+.+++.++.+
T Consensus       154 ~k~eek~~keeekr~~eE~  172 (216)
T PF11600_consen  154 AKEEEKRKKEEEKRKKEEE  172 (216)
T ss_pred             hHHHHHHHHHHHHHhhHHH
Confidence            4445555566655555443

P150 is the HP1 interaction site of CAF-1 and lies within the N-terminal region of the protein [].

>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences

Probab=87.85  E-value=7.4  Score=39.66  Aligned_cols=20  Identities=25%  Similarity=0.315  Sum_probs=9.6

Q ss_pred             CCChHHHHHHHHHHHHHHHH
Q 001257          759 TLPLKEEKQIIREIKQLKQR  778 (1113)
Q Consensus       759 SLSLvEEKKLLKEIKQLKKq  778 (1113)
                      +++..+-..+=.+|.+|+..
T Consensus        68 ~~s~eel~~ld~ei~~L~~e   87 (169)
T PF07106_consen   68 VPSPEELAELDAEIKELREE   87 (169)
T ss_pred             CCCchhHHHHHHHHHHHHHH
Confidence            34444444444455555444

TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].

>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins

Probab=87.84  E-value=39  Score=35.50  Aligned_cols=101  Identities=20%  Similarity=0.348  Sum_probs=54.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHH--------------HHHH
Q 001257          803 EEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAAD-EIRQEAYKHWQ--------------SLKK  867 (1113)
Q Consensus       803 qEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALd-EkRDEAYEeLk--------------eLRK  867 (1113)
                      ..+...+++||.+++.++...-+..+.+..+.-..+..+.+....+.... +.+.+||++..              .||.
T Consensus        26 R~E~~~l~~EL~evk~~v~~~I~evD~Le~~er~aR~rL~eVS~~f~~ysE~dik~AYe~A~~lQ~~L~~~re~E~qLr~  105 (159)
T PF05384_consen   26 RQEYERLRKELEEVKEEVSEVIEEVDKLEKRERQARQRLAEVSRNFDRYSEEDIKEAYEEAHELQVRLAMLREREKQLRE  105 (159)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555566666655555555555555555555555555444444333 33455555544              4555


Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHhCC
Q 001257          868 QAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNN  916 (1113)
Q Consensus       868 ERDEkNkeFYqnRR~irKARELAakgdveELeelC~~EVEkFMelWNnD  916 (1113)
                      .||..-...-+....+.+|..|+             +||-=.|++..+|
T Consensus       106 rRD~LErrl~~l~~tierAE~l~-------------sqi~vvl~yL~~d  141 (159)
T PF05384_consen  106 RRDELERRLRNLEETIERAENLV-------------SQIGVVLNYLSGD  141 (159)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHhh
Confidence            55555555555555556666663             5555555555444

The DegS-DegU two-component regulatory system of Bacillus subtilis controls various processes that characterise the transition from the exponential to the stationary growth phase, including the induction of extracellular degradative enzymes, expression of late competence genes and down-regulation of the sigma D regulon []. The entry also contains one sequence Q8R9D3 from SWISSPROT from Thermoanaerobacter tengcongensis which is described as a sensory transduction histidine kinase.; GO: 0016301 kinase activity, 0007165 signal transduction

>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion

Probab=87.78  E-value=32  Score=35.31  Aligned_cols=63  Identities=25%  Similarity=0.327  Sum_probs=27.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          804 EKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLK  866 (1113)
Q Consensus       804 EQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLR  866 (1113)
                      .++..+.++++.+...+......+..+...+............+++.++......+..+..|+
T Consensus        88 ~~l~~l~~el~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~e~~~l~  150 (191)
T PF04156_consen   88 QQLQQLQEELDQLQERIQELESELEKLKEDLQELRELLKSVEERLDSLDESIKELEKEIRELQ  150 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444444444444444444444444444444

The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].

>PF06818 Fez1: Fez1; InterPro: IPR009638 This family represents the eukaryotic Fez1 protein

Probab=87.45  E-value=48  Score=36.18  Aligned_cols=68  Identities=18%  Similarity=0.321  Sum_probs=43.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 001257          668 QIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMM  735 (1113)
Q Consensus       668 KIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KL  735 (1113)
                      +|+-|..++.+....-+.-..+|-.+|....+++.++.....+...++..+..|--++......|...
T Consensus        11 EIsLLKqQLke~q~E~~~K~~Eiv~Lr~ql~e~~~~l~~~~~~~~~l~~~~~~K~~ELE~ce~ELqr~   78 (202)
T PF06818_consen   11 EISLLKQQLKESQAEVNQKDSEIVSLRAQLRELRAELRNKESQIQELQDSLRTKQLELEVCENELQRK   78 (202)
T ss_pred             hHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhHhHHHhHHHHHHH
Confidence            46666666555555555555556666777777777777776677777777777777776666555443

Fez1 contains a leucine-zipper region with similarity to the DNA-binding domain of the cAMP-responsive activating-transcription factor 5 []. There is evidence that Fez1 inhibits cancer cell growth through regulation of mitosis, and that its alterations result in abnormal cell growth []. Note that some family members contain more than one copy of this region.; GO: 0005737 cytoplasm, 0016020 membrane

>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=87.38  E-value=9.8  Score=39.82  Aligned_cols=29  Identities=14%  Similarity=0.198  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          688 DDIQTIRASYKEYAEKLEAAISDERSARE  716 (1113)
Q Consensus       688 aELkakRAERdELiEQLKeLReE~KqlRe  716 (1113)
                      .++..+...|.++..+|..+..+...++.
T Consensus        81 ~ELael~r~~~el~~~L~~~~~~l~~l~~  109 (194)
T PF08614_consen   81 EELAELYRSKGELAQQLVELNDELQELEK  109 (194)
T ss_dssp             -----------------------------
T ss_pred             ccccccccccccccccccccccccchhhh
Confidence            33333344444444444444333333333

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.

>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion

Probab=87.38  E-value=22  Score=36.40  Aligned_cols=54  Identities=20%  Similarity=0.348  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          672 AQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEI  725 (1113)
Q Consensus       672 LqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEI  725 (1113)
                      +..++.+.++....+..++..+...-.++...+..++......+..+......+
T Consensus        79 ~~~e~~~~~~~l~~l~~el~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l  132 (191)
T PF04156_consen   79 LQGELSELQQQLQQLQEELDQLQERIQELESELEKLKEDLQELRELLKSVEERL  132 (191)
T ss_pred             hhhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            333444444444444455555555555555555555444444443333333333

The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].

>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family

Probab=87.37  E-value=11  Score=39.80  Aligned_cols=52  Identities=15%  Similarity=0.226  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          808 FLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAY  859 (1113)
Q Consensus       808 aLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAY  859 (1113)
                      .+..|...++.++..+..+.+.|.+++..+..++..+++.+.++...++.|-
T Consensus       101 ~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~~~eDY~~L~~Im~RAR  152 (161)
T TIGR02894       101 ALQKENERLKNQNESLQKRNEELEKELEKLRQRLSTIEEDYQTLIDIMDRAR  152 (161)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444455554455555555555555555666666666666666665553

In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.

>PRK10246 exonuclease subunit SbcC; Provisional

Probab=87.35  E-value=1.1e+02  Score=40.05  Aligned_cols=7  Identities=43%  Similarity=0.938  Sum_probs=3.8

Q ss_pred             hCChHHH
Q 001257          914 NNNDEFR  920 (1113)
Q Consensus       914 NnDkeFR  920 (1113)
                      ++.+.||
T Consensus       889 ~~g~kf~  895 (1047)
T PRK10246        889 KEGDKFR  895 (1047)
T ss_pred             ccCchHH
Confidence            3445666

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=87.20  E-value=3.3  Score=39.15  Aligned_cols=63  Identities=13%  Similarity=0.253  Sum_probs=50.5

Q ss_pred             HHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          663 ENLREQIKA-------AQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEI  725 (1113)
Q Consensus       663 EeLKAKIde-------LqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEI  725 (1113)
                      +.|.+||.+       |+-+|++++.+-..+..+++.+++.|.+|..+...|++++..|...+...+-.|
T Consensus         7 eqLE~KIqqAvdtI~LLqmEieELKekn~~L~~e~~~~~~~r~~L~~en~qLk~E~~~WqerLr~LLGkm   76 (79)
T PRK15422          7 EKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQALLGRM   76 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            455666554       567889999999999999999999999999999999999999887655554433

>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms

Probab=87.16  E-value=39  Score=39.31  Aligned_cols=57  Identities=12%  Similarity=0.194  Sum_probs=32.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          802 IEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEA  858 (1113)
Q Consensus       802 IqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEA  858 (1113)
                      |..++..+..++..++.++.....+.+.++.-+.+...+++.|.+++..++.++++.
T Consensus       264 iN~qle~l~~eYr~~~~~ls~~~~~y~~~s~~V~~~t~~L~~IseeLe~vK~emeer  320 (359)
T PF10498_consen  264 INNQLEPLIQEYRSAQDELSEVQEKYKQASEGVSERTRELAEISEELEQVKQEMEER  320 (359)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            334555555555555555555555555555555555566666666666665555544

Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.

>PLN03188 kinesin-12 family protein; Provisional

Probab=87.09  E-value=1.3e+02  Score=40.58  Aligned_cols=33  Identities=27%  Similarity=0.302  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          839 EKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYD  871 (1113)
Q Consensus       839 aEIdELQEELkALdEkRDEAYEeLkeLRKERDE  871 (1113)
                      ....--+++...+-.+-.++|..|.+|++.++.
T Consensus      1211 ea~~~a~~r~~~~eqe~~~~~k~~~klkrkh~~ 1243 (1320)
T PLN03188       1211 EALTVAQKRAMDAEQEAAEAYKQIDKLKRKHEN 1243 (1320)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444445566666777788999999999988744

>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []

Probab=87.02  E-value=99  Score=39.30  Aligned_cols=43  Identities=7%  Similarity=0.107  Sum_probs=27.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 001257          694 RASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMK  736 (1113)
Q Consensus       694 RAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLR  736 (1113)
                      .++=..|..+|.+|..+.++.|..+.....|.+-|......++
T Consensus        26 a~~E~~~~~~i~~l~~elk~~~~~~~~~~~e~~rl~~~~~~~~   68 (717)
T PF09730_consen   26 ASKEAYLQQRILELENELKQLRQELSNVQAENERLSQLNQELR   68 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445566666777777777777766666666666665554444

Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus

>KOG0999 consensus Microtubule-associated protein Bicaudal-D [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.89  E-value=90  Score=38.73  Aligned_cols=181  Identities=12%  Similarity=0.165  Sum_probs=79.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC---CCHH
Q 001257          666 REQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNA---ISVD  742 (1113)
Q Consensus       666 KAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLRNA---KSVE  742 (1113)
                      ....+.++.+|..+...-.+...+.-....==-++.++--.|..++..+...++.-+.||+.+++++++.+..   ....
T Consensus         7 eq~ve~lr~eierLT~el~q~t~e~~qaAeyGL~lLeeK~~Lkqq~eEleaeyd~~R~Eldqtkeal~q~~s~hkk~~~~   86 (772)
T KOG0999|consen    7 EQEVEKLRQEIERLTEELEQTTEEKIQAAEYGLELLEEKEDLKQQLEELEAEYDLARTELDQTKEALGQYRSQHKKVARD   86 (772)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            3445555556655555544433322111111112233334455555666666666777788888877766520   0111


Q ss_pred             HHHHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHH----HHHHHHHHHH
Q 001257          743 DIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKF----LRKEADSLRE  818 (1113)
Q Consensus       743 EIDarIkrLE~RIQTgSLSLvEEKKLLKEIKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIKa----LKKELDELRk  818 (1113)
                      .+.    +=|..++-   |-..|--++..|-.|+...++.+.-..   ..++..+........++.    +-.+.-.+|.
T Consensus        87 g~e----~EesLLqE---SaakE~~yl~kI~eleneLKq~r~el~---~~q~E~erl~~~~sd~~e~~~~~E~qR~rlr~  156 (772)
T KOG0999|consen   87 GEE----REESLLQE---SAAKEEYYLQKILELENELKQLRQELT---NVQEENERLEKVHSDLKESNAAVEDQRRRLRD  156 (772)
T ss_pred             chh----hHHHHHHH---HHHhHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHhhhcchhhHHHHHHHHH
Confidence            111    11111221   234455566666666555554322111   111111111111111111    1112222333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          819 NVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQ  856 (1113)
Q Consensus       819 KLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRD  856 (1113)
                      +|+.++-.-.-+-..|.++..+--.||+..-.|..-.-
T Consensus       157 elKe~KfRE~RllseYSELEEENIsLQKqVs~LR~sQV  194 (772)
T KOG0999|consen  157 ELKEYKFREARLLSEYSELEEENISLQKQVSNLRQSQV  194 (772)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHhhhhh
Confidence            33333322233445677777777778887777665443

>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=86.74  E-value=9.8  Score=39.82  Aligned_cols=67  Identities=15%  Similarity=0.217  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          804 EKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFW  877 (1113)
Q Consensus       804 EQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFY  877 (1113)
                      ..|..|..++..++.++..++..+++..+-++.+++++..|+-++..+.       +++..|.++...+-.-|-
T Consensus       116 ~~l~~l~~~~~~L~~~~~~l~~~l~ek~k~~e~l~DE~~~L~l~~~~~e-------~k~~~l~~En~~Lv~Rwm  182 (194)
T PF08614_consen  116 RRLAELEAELAQLEEKIKDLEEELKEKNKANEILQDELQALQLQLNMLE-------EKLRKLEEENRELVERWM  182 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHH
Confidence            4556666666666666666666666666555555555555555544443       334444444444444443

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.

>KOG0980 consensus Actin-binding protein SLA2/Huntingtin-interacting protein Hip1 [Cytoskeleton]

Probab=86.70  E-value=1.1e+02  Score=39.62  Aligned_cols=47  Identities=13%  Similarity=0.283  Sum_probs=22.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          686 IRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRI  732 (1113)
Q Consensus       686 InaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL  732 (1113)
                      +-+.+...|.....|..++.++.-++.+.+-..++-+.+-..|+..+
T Consensus       349 l~~~~~ear~~~~q~~~ql~~le~~~~e~q~~~qe~~~e~eqLr~el  395 (980)
T KOG0980|consen  349 LENLKEEARRRIEQYENQLLALEGELQEQQREAQENREEQEQLRNEL  395 (980)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            33333344555555556666665555444444444444444444433

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=86.66  E-value=36  Score=40.94  Aligned_cols=22  Identities=14%  Similarity=0.152  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 001257          710 DERSARESLKSKRQEIDSVQSR  731 (1113)
Q Consensus       710 E~KqlReel~EKIKEIdsLQsa  731 (1113)
                      |++..+..+..++.+.++|...
T Consensus       348 qlen~k~~~e~~~~e~~~l~~~  369 (493)
T KOG0804|consen  348 QLENQKQYYELLITEADSLKQE  369 (493)
T ss_pred             HHHhHHHHHHHHHHHHHhhhhh
Confidence            5555555556666666655543

>KOG4643 consensus Uncharacterized coiled-coil protein [Function unknown]

Probab=86.59  E-value=1.2e+02  Score=39.89  Aligned_cols=35  Identities=9%  Similarity=0.305  Sum_probs=18.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          662 DENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRAS  696 (1113)
Q Consensus       662 DEeLKAKIdeLqKEIeELKQkRdAInaELkakRAE  696 (1113)
                      .+-++.+..+|...-.-+-....-+.++|+.+|++
T Consensus       259 s~fykdRveelkedN~vLleekeMLeeQLq~lrar  293 (1195)
T KOG4643|consen  259 SDFYKDRVEELKEDNRVLLEEKEMLEEQLQKLRAR  293 (1195)
T ss_pred             hHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhc
Confidence            33355555555555444444444555555555543

>PF05622 HOOK: HOOK protein; InterPro: IPR008636 This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms

Probab=86.36  E-value=0.22  Score=60.77  Aligned_cols=45  Identities=16%  Similarity=0.354  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAI  708 (1113)
Q Consensus       664 eLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLR  708 (1113)
                      .+++++..++.++.++...|+.+..++..+..+-.+|+.+...|.
T Consensus       243 ~l~~ql~~L~~el~~~e~~~~d~~~~~e~le~ei~~L~q~~~eL~  287 (713)
T PF05622_consen  243 DLRAQLRRLREELERLEEQRDDLKIELEELEKEIDELRQENEELQ  287 (713)
T ss_dssp             ---------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            466777777777766666666555555544444444444444443

The different members of the Homo sapiens gene family are HOOK1, HOOK2 and HOOK3. Different domains have been identified in the three Homo sapiens HOOK proteins, and it was demonstrated that the highly conserved NH2-domain mediates attachment to microtubules, whereas the central coiled-coil motif mediates homodimerisation and the more divergent C-terminal domains are involved in binding to specific organelles (organelle-binding domains). It has been demonstrated that endogenous HOOK3 binds to Golgi membranes [], whereas both HOOK1 and HOOK2 are localised to discrete but unidentified cellular structures. In mice the Hook1 gene is predominantly expressed in the testis. Hook1 function is necessary for the correct positioning of microtubular structures within the haploid germ cell. Disruption of Hook1 function in mice causes abnormal sperm head shape and fragile attachment of the flagellum to the sperm head [].; GO: 0008017 microtubule binding, 0000226 microtubule cytoskeleton organization, 0005737 cytoplasm; PDB: 1WIX_A.

>cd09234 V_HD-PTP_like Protein-interacting V-domain of mammalian His-Domain type N23 protein tyrosine phosphatase and related domains

Probab=85.79  E-value=70  Score=36.38  Aligned_cols=19  Identities=16%  Similarity=0.625  Sum_probs=14.7

Q ss_pred             HHHHHHHHHHHHHHHHhhh
Q 001257          766 KQIIREIKQLKQRREQISS  784 (1113)
Q Consensus       766 KKLLKEIKQLKKqRKkViA  784 (1113)
                      +.+|.++..|+..|..++.
T Consensus       194 r~ll~kl~~lk~eR~~l~~  212 (337)
T cd09234         194 KRILNKVNEMRKQRRSLEQ  212 (337)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            6688888888888887644

This family contains the V-shaped (V) domain of mammalian His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23) and related domains. It belongs to the V_Alix_like superfamily which includes the V domains of Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, mammalian Alix (apoptosis-linked gene-2 interacting protein X/ also known as apoptosis-linked gene-2 interacting protein 1, AIP1), and related domains. HD_PTP interacts with the ESCRT (Endosomal Sorting Complexes Required for Transport) system, and participates in cell migration and endosomal trafficking. The related Alix V-domain (belonging to a different family in this superfamily) contains a binding site, partially conserved in the superfamily, for the retroviral late assembly (L) domain YPXnL motif. The Alix V-domain is also a dimerization domain. In addi

>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation

Probab=85.57  E-value=13  Score=34.29  Aligned_cols=63  Identities=17%  Similarity=0.268  Sum_probs=40.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEI  725 (1113)
Q Consensus       663 EeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEI  725 (1113)
                      +.|..||..|-.-|..++..-..+..+-..+..++..|..+...|+.++.++..-+...+..|
T Consensus         7 ~~LE~ki~~aveti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~e~~~~~~rl~~LL~kl   69 (72)
T PF06005_consen    7 EQLEEKIQQAVETIALLQMENEELKEKNNELKEENEELKEENEQLKQERNAWQERLRSLLGKL   69 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            456667776666666666666666666666666677777777777666666665555444444

It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.

>cd09235 V_Alix Middle V-domain of mammalian Alix and related domains are dimerization and protein interaction modules

Probab=85.56  E-value=72  Score=36.35  Aligned_cols=19  Identities=32%  Similarity=0.641  Sum_probs=15.4

Q ss_pred             HHHHHHHHHHHHHHHHhhh
Q 001257          766 KQIIREIKQLKQRREQISS  784 (1113)
Q Consensus       766 KKLLKEIKQLKKqRKkViA  784 (1113)
                      +.+|.++..|++.|..+..
T Consensus       194 r~~l~~l~~lk~eR~~~~~  212 (339)
T cd09235         194 RQLMEQVETIKAEREVIES  212 (339)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            8888899999999887533

This family contains the middle V-shaped (V) domain of mammalian Alix (apoptosis-linked gene-2 interacting protein X) and related domains. It belongs to the V_Alix_like superfamily which includes the V-domains of Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, mammalian His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), and related domains. Alix, also known as apoptosis-linked gene-2 interacting protein 1 (AIP1), is part of the ESCRT (Endosomal Sorting Complexes Required for Transport) system, and participates in membrane remodeling processes, including the budding of enveloped viruses, vesicle budding inside late endosomal multivesicular bodies (MVBs), the abscission reactions of mammalian cell division, and in apoptosis. The Alix V-domain is a dimerization domain, and contains a binding site, partially conserved in the

>cd07651 F-BAR_PombeCdc15_like The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Schizosaccharomyces pombe Cdc15, and similar proteins

Probab=85.53  E-value=56  Score=35.03  Aligned_cols=108  Identities=8%  Similarity=0.084  Sum_probs=59.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHh
Q 001257          813 ADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAAD-EIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLAS  891 (1113)
Q Consensus       813 LDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALd-EkRDEAYEeLkeLRKERDEkNkeFYqnRR~irKARELAa  891 (1113)
                      +..+.+........+...+++|+..-.++..+..+.+.+. ...+++-.++.............|..+...++..     
T Consensus       109 ~~k~~k~~~~~~~~l~KaK~~Y~~~c~~~e~~~~~~~~~~~ke~eK~~~k~~k~~~~~~~~~~~Y~~~v~~~~~~-----  183 (236)
T cd07651         109 MEKLLKKKQDQEKYLEKAREKYEADCSKINSYTLQSQLTWGKELEKNNAKLNKAQSSINSSRRDYQNAVKALREL-----  183 (236)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHcccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----
Confidence            3344444444444455555666655555555544432221 2234444444444444444444444444433333     


Q ss_pred             cCCHHHHHHHHHHHHHHHHHHHhCChHHHHHHHHhhhhhHh
Q 001257          892 KGDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTL  932 (1113)
Q Consensus       892 kgdveELeelC~~EVEkFMelWNnDkeFRkDYeKrnl~Sl~  932 (1113)
                             ...+..+|-.++..+-.-.+.|-.+.|.++|+..
T Consensus       184 -------~~~~~~~~~~~~~~~Q~lEe~Ri~~lk~~l~~~a  217 (236)
T cd07651         184 -------NEIWNREWKAALDDFQDLEEERIQFLKSNCWTFA  217 (236)
T ss_pred             -------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                   3346677777777777778889999998887754

F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. This subfamily is composed of Schizosaccharomyces pombe Cdc15 and Imp2, and similar proteins. These proteins contain an N-terminal F-BAR domain and a C-terminal SH3 domain. S. pombe Cdc15 and Imp2 play both distinct and overlapping roles in the maintenance and strengthening of the contractile ring at the division site, which is required in cell division. Cdc15 is a component of the actomyosin ring and is required in normal cytokinesis. Imp2 colocalizes with the medial ring during septation and is required for normal septation. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation

>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6

Probab=85.38  E-value=3.9  Score=38.61  Aligned_cols=61  Identities=16%  Similarity=0.330  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          665 LREQIKAAQSKVDEKTRSRDAIRDDIQTIRA---SYKEYAEKLEAAISDERSARESLKSKRQEI  725 (1113)
Q Consensus       665 LKAKIdeLqKEIeELKQkRdAInaELkakRA---ERdELiEQLKeLReE~KqlReel~EKIKEI  725 (1113)
                      +..+...+..+++.++..|+.+..++..++.   .+.+|..+.+.++.+.+.+...+.....++
T Consensus        34 ld~~~r~l~~~~e~lr~~rN~~sk~I~~~~~~~~~~~~l~~e~~~lk~~i~~le~~~~~~e~~l   97 (108)
T PF02403_consen   34 LDQERRELQQELEELRAERNELSKEIGKLKKAGEDAEELKAEVKELKEEIKELEEQLKELEEEL   97 (108)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHTTCCTHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444455555555555555555554433   345555555555555444444443333333

1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....

>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=85.02  E-value=1.2e+02  Score=38.34  Aligned_cols=33  Identities=18%  Similarity=0.213  Sum_probs=20.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          842 KRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQ  874 (1113)
Q Consensus       842 dELQEELkALdEkRDEAYEeLkeLRKERDEkNk  874 (1113)
                      ..|.+-+..+.+.+.+-..+++.|+.+.-+++.
T Consensus       229 ~~L~~~v~~l~~~k~qr~~kl~~l~~~~~~LWn  261 (660)
T KOG4302|consen  229 DRLDKMVKKLKEEKKQRLQKLQDLRTKLLELWN  261 (660)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555566666666667777777776666544

>cd07623 BAR_SNX1_2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 1 and 2

Probab=85.02  E-value=60  Score=34.93  Aligned_cols=153  Identities=11%  Similarity=0.202  Sum_probs=81.1

Q ss_pred             HHHHHHHHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Q 001257          766 KQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAA-TQAVKKLHREESEKLKRL  844 (1113)
Q Consensus       766 KKLLKEIKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIKaLKKELDELRkKLkkLEek-lKALkKK~DEIkaEIdEL  844 (1113)
                      |++.+.+..|-+.|+.+....+.++..-..++.-+. ...+...-..+-.+-.++..+... ...-.-.+-+.=.++-.+
T Consensus        29 k~l~~~~e~lv~~r~ela~~~~~f~~s~~~L~~~E~-~~~Ls~al~~la~~~~ki~~~~~~qa~~d~~~l~e~L~eY~r~  107 (224)
T cd07623          29 RKLHASVESLVNHRKELALNTGSFAKSAAMLSNCEE-HTSLSRALSQLAEVEEKIEQLHGEQADTDFYILAELLKDYIGL  107 (224)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc-chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456667777778888776666655544333332221 011222222222232333332211 222222233333444555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHhHHHHHHHHH--HHhcCCHHHHHHHHHHHHHHHH
Q 001257          845 LGQFKAADEIRQEAYKHWQSLKKQAYDKNQH------------FWKYKDDTKQAND--LASKGDREALQHLCVNQVERVL  910 (1113)
Q Consensus       845 QEELkALdEkRDEAYEeLkeLRKERDEkNke------------FYqnRR~irKARE--LAakgdveELeelC~~EVEkFM  910 (1113)
                      ....+.+-..|.++|..|+.+...+.++...            +.+....+..+..  -.++.+...+-..+..|+.+|-
T Consensus       108 i~svk~~f~~R~~a~~~~q~a~~~l~kkr~~~~Kl~~~~~~~K~~~~~~ev~~~e~~~~~a~~~fe~is~~~k~El~rF~  187 (224)
T cd07623         108 IGAIKDVFHERVKVWQNWQNAQQTLTKKREAKAKLELSGRTDKLDQAQQEIKEWEAKVDRGQKEFEEISKTIKKEIERFE  187 (224)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5666677777888887777766655554443            3333444433332  2335578888999999999997


Q ss_pred             HHHhCChHHHH
Q 001257          911 ELWNNNDEFRK  921 (1113)
Q Consensus       911 elWNnDkeFRk  921 (1113)
                      ..+.  ..||.
T Consensus       188 ~erv--~dfk~  196 (224)
T cd07623         188 KNRV--KDFKD  196 (224)
T ss_pred             HHHH--HHHHH
Confidence            6553  34544

BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX1, SNX2, and similar proteins. SNX1 and SNX2 are components of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), wh

>cd09238 V_Alix_like_1 Protein-interacting V-domain of an uncharacterized family of the V_Alix_like superfamily

Probab=84.95  E-value=77  Score=36.17  Aligned_cols=18  Identities=22%  Similarity=0.420  Sum_probs=13.5

Q ss_pred             HHHHHHHHHHHHHHHHhh
Q 001257          766 KQIIREIKQLKQRREQIS  783 (1113)
Q Consensus       766 KKLLKEIKQLKKqRKkVi  783 (1113)
                      +.+|.++..|+..|..+.
T Consensus       198 r~~l~~l~~lk~eR~~l~  215 (339)
T cd09238         198 RSNLEELEALGNERAGIE  215 (339)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            448888888888887643

This domain family is comprised of uncharacterized plant proteins. It belongs to the V_Alix_like superfamily which includes the V-shaped (V) domains of Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, mammalian Alix (apoptosis-linked gene-2 interacting protein X), (His-Domain) type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), and related domains. Alix, also known as apoptosis-linked gene-2 interacting protein 1 (AIP1), participates in membrane remodeling processes during the budding of enveloped viruses, vesicle budding inside late endosomal multivesicular bodies (MVBs), and the abscission reactions of mammalian cell division. It also functions in apoptosis. HD-PTP functions in cell migration and endosomal trafficking, Bro1 in endosomal trafficking, and Rim20 in the response to the external pH via the Rim101 pathway. Alix, HD-PTP, Bro1, a

>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]

Probab=84.84  E-value=35  Score=42.62  Aligned_cols=40  Identities=10%  Similarity=0.163  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          808 FLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQ  847 (1113)
Q Consensus       808 aLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEE  847 (1113)
                      .+......++++++.+..++.++.+++.+++..+..++.+
T Consensus       231 ~l~~~~~~~~~~i~~l~~~l~~l~~~~~~l~~~~~~~~~~  270 (670)
T KOG0239|consen  231 PLEGLESTIKKKIQALQQELEELKAELKELNDQVSLLTRE  270 (670)
T ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333444443333444444334333

>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]

Probab=84.81  E-value=12  Score=41.04  Aligned_cols=81  Identities=21%  Similarity=0.285  Sum_probs=39.2

Q ss_pred             HHHHHHHHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          766 KQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLL  845 (1113)
Q Consensus       766 KKLLKEIKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQ  845 (1113)
                      +++++++.+|++.-..-..                        +..|.+.+.+++..+++++++..++++....+..+|.
T Consensus       130 ~~~~~~~~~lk~~~~~~~~------------------------~~~~~~~~~~~~~kL~~el~~~~~~Le~~~~~~~al~  185 (216)
T KOG1962|consen  130 EKAMKENEALKKQLENSSK------------------------LEEENDKLKADLEKLETELEKKQKKLEKAQKKVDALK  185 (216)
T ss_pred             HHHHHHHHHHHHhhhcccc------------------------hhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6777777777777543111                        2222333333333333334444444444444445555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          846 GQFKAADEIRQEAYKHWQSLKKQAY  870 (1113)
Q Consensus       846 EELkALdEkRDEAYEeLkeLRKERD  870 (1113)
                      ++.+.+..+-|.+.++-..||++..
T Consensus       186 Kq~e~~~~EydrLlee~~~Lq~~i~  210 (216)
T KOG1962|consen  186 KQSEGLQDEYDRLLEEYSKLQEQIE  210 (216)
T ss_pred             HHHHHcccHHHHHHHHHHHHHHHHh
Confidence            5555555555555555555555543

>PRK10361 DNA recombination protein RmuC; Provisional

Probab=84.80  E-value=1e+02  Score=37.45  Aligned_cols=8  Identities=13%  Similarity=0.343  Sum_probs=4.4

Q ss_pred             cCCHHHHH
Q 001257          892 KGDREALQ  899 (1113)
Q Consensus       892 kgdveELe  899 (1113)
                      +|+..|++
T Consensus       202 rG~WGE~q  209 (475)
T PRK10361        202 QGNWGEVV  209 (475)
T ss_pred             CcchHHHH
Confidence            45555654

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=84.49  E-value=85  Score=36.25  Aligned_cols=196  Identities=19%  Similarity=0.283  Sum_probs=100.7

Q ss_pred             ChHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHH--
Q 001257          661 DDENLREQIKAAQSKVD----EKTRSRDAIRDDIQTIRASYKEYAEKLEA-------AISDERSARESLKSKRQEIDS--  727 (1113)
Q Consensus       661 DDEeLKAKIdeLqKEIe----ELKQkRdAInaELkakRAERdELiEQLKe-------LReE~KqlReel~EKIKEIds--  727 (1113)
                      |.+.++.+.+.|++.|+    .+++.....+.++..++++-.-|.++|..       |-.+..+|+..+..-+.+.+.  
T Consensus        32 diei~Kekn~~Lqk~lKLneE~ltkTi~qy~~QLn~L~aENt~L~SkLe~EKq~kerLEtEiES~rsRLaaAi~d~dqsq  111 (305)
T PF14915_consen   32 DIEILKEKNDDLQKSLKLNEETLTKTIFQYNGQLNVLKAENTMLNSKLEKEKQNKERLETEIESYRSRLAAAIQDHDQSQ  111 (305)
T ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHHHHHhHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence            45567777777777654    34444555566666666555555555522       222333444444444443332  


Q ss_pred             -------------------HHHHH----hhccc-----CCCHHHHHHHHHHHHHHhhcCCCChHHHHHHH-----HHHHH
Q 001257          728 -------------------VQSRI----NMMKN-----AISVDDIDGSIRNMEHRIAHETLPLKEEKQII-----REIKQ  774 (1113)
Q Consensus       728 -------------------LQsaL----~KLRN-----AKSVEEIDarIkrLE~RIQTgSLSLvEEKKLL-----KEIKQ  774 (1113)
                                         |+..+    ..++.     ..-...-+.++..|+..+.+..-.|.| |-++     ++.+|
T Consensus       112 ~skrdlelafqr~rdEw~~lqdkmn~d~S~lkd~ne~LsQqLskaesK~nsLe~elh~trdaLrE-KtL~lE~~QrdL~Q  190 (305)
T PF14915_consen  112 TSKRDLELAFQRARDEWVRLQDKMNSDVSNLKDNNEILSQQLSKAESKFNSLEIELHHTRDALRE-KTLALESVQRDLSQ  190 (305)
T ss_pred             hhHHHHHHHHHHHhhHHHHHHHHhcchHHhHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHH
Confidence                               22111    11110     012233345577777777777666653 3332     22333


Q ss_pred             HHHHHHHhhh-cccchhHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          775 LKQRREQISS-SIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADE  853 (1113)
Q Consensus       775 LKKqRKkViA-naa~rAkIQESidQKEaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdE  853 (1113)
                      -..+.+.+.. |-..++++...++..+.++++|-.|..|--=||.+|+++..+...-.+-+-.+...+..+...+++=.+
T Consensus       191 tq~q~KE~e~m~qne~~kv~k~~~Kqes~eERL~QlqsEN~LLrQQLddA~~K~~~kek~ViniQ~~f~d~~~~L~ae~e  270 (305)
T PF14915_consen  191 TQCQIKEIEHMYQNEQDKVNKYIGKQESLEERLSQLQSENMLLRQQLDDAHNKADNKEKTVINIQDQFQDIVKKLQAESE  270 (305)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence            3333332222 334567777788888888888777666655666666666544444344455555555555555555444


Q ss_pred             HHHH
Q 001257          854 IRQE  857 (1113)
Q Consensus       854 kRDE  857 (1113)
                      ++.=
T Consensus       271 kq~l  274 (305)
T PF14915_consen  271 KQVL  274 (305)
T ss_pred             HHHH
Confidence            4333

>PF07946 DUF1682: Protein of unknown function (DUF1682); InterPro: IPR012879 The members of this family are all hypothetical eukaryotic proteins of unknown function

Probab=84.47  E-value=3.5  Score=46.35  Aligned_cols=30  Identities=37%  Similarity=0.532  Sum_probs=12.1

Q ss_pred             HHHHHhhhHHHHHHHH--HHHHHHHHHHHHHH
Q 001257         1048 RKAEEKRKEEATAKLR--EQRRLEEKAKAQEA 1077 (1113)
Q Consensus      1048 ~k~~~~~~e~~~ak~k--E~kr~ee~~Kak~a 1077 (1113)
                      +|+...|.++.++-.|  ++.|+|+.+.+|++
T Consensus       258 ~K~~k~R~~~~~~~~K~~~~~r~E~~~~~k~e  289 (321)
T PF07946_consen  258 KKAKKNREEEEEKILKEAHQERQEEAQEKKEE  289 (321)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444433333  33444444333333

One member (Q920S6 from SWISSPROT) is described as being an adipocyte-specific protein, but no evidence of this was found.

>PF01576 Myosin_tail_1: Myosin tail; InterPro: IPR002928 Muscle contraction is caused by sliding between the thick and thin filaments of the myofibril

Probab=84.30  E-value=0.31  Score=61.01  Aligned_cols=37  Identities=19%  Similarity=0.405  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHhhcCCCChHH---H--HHHHHHHHHHHHHHHH
Q 001257          745 DGSIRNMEHRIAHETLPLKE---E--KQIIREIKQLKQRREQ  781 (1113)
Q Consensus       745 DarIkrLE~RIQTgSLSLvE---E--KKLLKEIKQLKKqRKk  781 (1113)
                      ...|..+-.++.+..+...+   |  |++.++|..|......
T Consensus       298 ~~El~~~k~K~e~e~~~~~EelEeaKKkL~~~L~el~e~le~  339 (859)
T PF01576_consen  298 NAELEQWKKKYEEEAEQRTEELEEAKKKLERKLQELQEQLEE  339 (859)
T ss_dssp             ------------------------------------------
T ss_pred             hhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444555555554222   2  5777777777766554

Myosin is a major component of thick filaments and exists as a hexamer of 2 heavy chains [], 2 alkali light chains, and 2 regulatory light chains. The heavy chain can be subdivided into the N-terminal globular head and the C-terminal coiled-coil rod-like tail, although some forms have a globular region in their C-terminal. There are many cell-specific isoforms of myosin heavy chains, coded for by a multi-gene family []. Myosin interacts with actin to convert chemical energy, in the form of ATP, to mechanical energy []. The 3-D structure of the head portion of myosin has been determined [] and a model for actin-myosin complex has been constructed []. This family consists of the coiled-coil myosin heavy chain tail region. The coiled-coil is composed of the tail from two molecules of myosin. These can then assemble into the macromolecular thick filament []. The coiled-coil region provides the structural backbone of the thick filament [].; GO: 0003774 motor activity, 0016459 myosin complex; PDB: 2LNK_C 3ZWH_Q.

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=84.20  E-value=64  Score=34.64  Aligned_cols=18  Identities=22%  Similarity=0.420  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 001257          664 NLREQIKAAQSKVDEKTR  681 (1113)
Q Consensus       664 eLKAKIdeLqKEIeELKQ  681 (1113)
                      .|...|..++..++.+..
T Consensus        16 ~L~n~l~elq~~l~~l~~   33 (194)
T PF15619_consen   16 ELQNELAELQRKLQELRK   33 (194)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            455556666665555544

>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast)

Probab=83.98  E-value=18  Score=38.33  Aligned_cols=65  Identities=20%  Similarity=0.260  Sum_probs=38.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 001257          815 SLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYK  880 (1113)
Q Consensus       815 ELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnR  880 (1113)
                      .++..+..+.+.+..+.+++.++..+|...... +.-...|.+..+++..|+++...+.+.+-.|+
T Consensus        66 ~~~~~~~~l~~~~~~~~~~i~~l~~~i~~~~~~-r~~~~eR~~~l~~l~~l~~~~~~l~~el~~~~  130 (188)
T PF03962_consen   66 KRQNKLEKLQKEIEELEKKIEELEEKIEEAKKG-REESEEREELLEELEELKKELKELKKELEKYS  130 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333443344444444444444555555555322 23347788888888888888888777665443

The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].

>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=83.87  E-value=52  Score=35.68  Aligned_cols=10  Identities=20%  Similarity=0.242  Sum_probs=3.6

Q ss_pred             HHHHHHHHHH
Q 001257          810 RKEADSLREN  819 (1113)
Q Consensus       810 KKELDELRkK  819 (1113)
                      ..+...+..+
T Consensus        48 ~~e~~~L~~e   57 (251)
T PF11932_consen   48 DDEKQELLAE   57 (251)
T ss_pred             HHHHHHHHHH
Confidence            3333333333

However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.

>PF03904 DUF334: Domain of unknown function (DUF334); InterPro: IPR005602 This is a family of proteins found in Staphylococcus aureus plasmid with no characterised function

Probab=83.84  E-value=24  Score=39.02  Aligned_cols=18  Identities=33%  Similarity=0.521  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHHhhhcccc
Q 001257          771 EIKQLKQRREQISSSIGE  788 (1113)
Q Consensus       771 EIKQLKKqRKkViAnaa~  788 (1113)
                      ||+.|+++-+-+.+++..
T Consensus        44 e~~eLk~qnkli~K~l~e   61 (230)
T PF03904_consen   44 EIQELKRQNKLIIKYLSE   61 (230)
T ss_pred             HHHHHHHhhHHHHHHHHH
Confidence            889999988766555443

>PF15397 DUF4618: Domain of unknown function (DUF4618)

Probab=83.63  E-value=81  Score=35.59  Aligned_cols=128  Identities=16%  Similarity=0.193  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          766 KQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFL----RKEADSLRENVIKAEAATQAVKKLHREESEKL  841 (1113)
Q Consensus       766 KKLLKEIKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIKaL----KKELDELRkKLkkLEeklKALkKK~DEIkaEI  841 (1113)
                      +.++++|...+.+         .-.++...+.+.+.+..-+..|    .+.+...+.+|...+++..          .++
T Consensus        23 ~~L~~~IqdtE~s---------t~~~Vr~lLqqy~~~~~~i~~le~~~~~~l~~ak~eLqe~eek~e----------~~l   83 (258)
T PF15397_consen   23 KELIKEIQDTEDS---------TALKVRKLLQQYDIYRTAIDILEYSNHKQLQQAKAELQEWEEKEE----------SKL   83 (258)
T ss_pred             HHHHHHHHhHHhh---------HHHHHHHHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHHHH----------hHH


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHH
Q 001257          842 KRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQ----HFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELW  913 (1113)
Q Consensus       842 dELQEELkALdEkRDEAYEeLkeLRKERDEkNk----eFYqnRR~irKARELAakgdveELeelC~~EVEkFMelW  913 (1113)
                      ..|+.++..++++..++.+++.-|+-=.|.-.-    ..++-.+.+..+++.. +-+..+|.+.|..+...|-..|
T Consensus        84 ~~Lq~ql~~l~akI~k~~~el~~L~TYkD~EYPvK~vqIa~L~rqlq~lk~~q-qdEldel~e~~~~el~~l~~~~  158 (258)
T PF15397_consen   84 SKLQQQLEQLDAKIQKTQEELNFLSTYKDHEYPVKAVQIANLVRQLQQLKDSQ-QDELDELNEMRQMELASLSRKI  158 (258)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH

>PRK10698 phage shock protein PspA; Provisional

Probab=83.55  E-value=72  Score=34.68  Aligned_cols=59  Identities=15%  Similarity=0.227  Sum_probs=37.2

Q ss_pred             HHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          794 LAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAAD  852 (1113)
Q Consensus       794 ESidQKEaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALd  852 (1113)
                      .++.++.....++..|..+++.....+..+...+..|..+|.+.+.+-..|....+.+.
T Consensus        89 ~AL~~K~~~~~~~~~l~~~~~~~~~~~~~L~~~l~~L~~ki~eak~k~~~L~aR~~~A~  147 (222)
T PRK10698         89 AALIEKQKLTDLIATLEHEVTLVDETLARMKKEIGELENKLSETRARQQALMLRHQAAS  147 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555566666777777777777777666666666666666666666555555555444

>PF13851 GAS: Growth-arrest specific micro-tubule binding

Probab=83.54  E-value=68  Score=34.41  Aligned_cols=13  Identities=15%  Similarity=0.399  Sum_probs=5.9

Q ss_pred             HHHHHHHHHHHHH
Q 001257          767 QIIREIKQLKQRR  779 (1113)
Q Consensus       767 KLLKEIKQLKKqR  779 (1113)
                      ++..|...|++..
T Consensus        66 ~a~~e~~eL~k~L   78 (201)
T PF13851_consen   66 KAEEEVEELRKQL   78 (201)
T ss_pred             HHHHHHHHHHHHH
Confidence            3444444444443

>PF11600 CAF-1_p150: Chromatin assembly factor 1 complex p150 subunit, N-terminal; InterPro: IPR021644 P150 is a polypeptide subunit of CAF-1, which functions in depositing newly synthesised and acetylated histones H3/H4 into chromatin during DNA replication and repair []

Probab=83.46  E-value=7.7  Score=41.41  Aligned_cols=9  Identities=33%  Similarity=0.530  Sum_probs=3.2

Q ss_pred             HHHHHHHhh
Q 001257         1099 EAEQKEKVR 1107 (1113)
Q Consensus      1099 EAEkKeKEr 1107 (1113)
                      +.|+..|+.
T Consensus       156 ~eek~~kee  164 (216)
T PF11600_consen  156 EEEKRKKEE  164 (216)
T ss_pred             HHHHHHHHH
Confidence            333333333

P150 is the HP1 interaction site of CAF-1 and lies within the N-terminal region of the protein [].

>PF05911 DUF869: Plant protein of unknown function (DUF869); InterPro: IPR008587 This family consists of a number of sequences found in plants

Probab=83.08  E-value=1.5e+02  Score=38.03  Aligned_cols=70  Identities=14%  Similarity=0.126  Sum_probs=46.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          807 KFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHF  876 (1113)
Q Consensus       807 KaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeF  876 (1113)
                      ..|.......-.++..+...+..+.|....++=++..+++++.--+..|+=-......-++|+-+.-+..
T Consensus       123 ~~l~~~~~~~e~~~~~l~~~l~~~eken~~Lkye~~~~~keleir~~E~~~~~~~ae~a~kqhle~vkki  192 (769)
T PF05911_consen  123 AELSEEKSQAEAEIEDLMARLESTEKENSSLKYELHVLSKELEIRNEEREYSRRAAEAASKQHLESVKKI  192 (769)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            3444444445555556666677777777777788888888888877777776666666666666554433

The function of this family is unknown.

>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=82.96  E-value=1.4e+02  Score=37.66  Aligned_cols=76  Identities=16%  Similarity=0.225  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc----------C----------CCHHHHHHHHHHHHHHhhcCC
Q 001257          700 YAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKN----------A----------ISVDDIDGSIRNMEHRIAHET  759 (1113)
Q Consensus       700 LiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLRN----------A----------KSVEEIDarIkrLE~RIQTgS  759 (1113)
                      |..++..|...+.++|...+++++|+..|...+.++..          +          ...+++..+|..|+...   +
T Consensus       101 Lke~l~~l~~~le~lr~qk~eR~~ef~el~~qie~l~~~l~g~~~~~~~~~~D~~dlsl~kLeelr~~L~~L~~ek---~  177 (660)
T KOG4302|consen  101 LKEQLESLKPYLEGLRKQKDERRAEFKELYHQIEKLCEELGGPEDLPSFLIADESDLSLEKLEELREHLNELQKEK---S  177 (660)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccCCcccccCcccccHHHHHHHHHHHHHHHHHH---H
Confidence            56777888888889999999999999888887766641          0          23455555555555433   3


Q ss_pred             CChHHHHHHHHHHHHHHHH
Q 001257          760 LPLKEEKQIIREIKQLKQR  778 (1113)
Q Consensus       760 LSLvEEKKLLKEIKQLKKq  778 (1113)
                      ..|.+=-.++.+|..|-..
T Consensus       178 ~Rlekv~~~~~~I~~l~~~  196 (660)
T KOG4302|consen  178 DRLEKVLELKEEIKSLCSV  196 (660)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3444444555555555554

>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=82.82  E-value=52  Score=36.28  Aligned_cols=25  Identities=16%  Similarity=0.290  Sum_probs=9.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          839 EKLKRLLGQFKAADEIRQEAYKHWQ  863 (1113)
Q Consensus       839 aEIdELQEELkALdEkRDEAYEeLk  863 (1113)
                      ++|..+...++.+......+-.+..
T Consensus        53 eeLrqI~~DIn~lE~iIkqa~~er~   77 (230)
T PF10146_consen   53 EELRQINQDINTLENIIKQAESERN   77 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.

>PF01576 Myosin_tail_1: Myosin tail; InterPro: IPR002928 Muscle contraction is caused by sliding between the thick and thin filaments of the myofibril

Probab=82.25  E-value=0.42  Score=59.89  Aligned_cols=32  Identities=34%  Similarity=0.384  Sum_probs=0.0

Q ss_pred             cchhhhhcccccchhhhhccccccccCCcccc
Q 001257           92 SCADQENQLLNLSAKEAELGDQKFESGGAESG  123 (1113)
Q Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (1113)
                      .++--+.+--.|+.--.+|.++-=++||+-..
T Consensus        61 ~R~kaek~r~dL~~ELe~l~~~Lee~~~~t~a   92 (859)
T PF01576_consen   61 ARAKAEKQRRDLSEELEELKERLEEAGGATQA   92 (859)
T ss_dssp             --------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhCcHHh
Confidence            34444555556666666666666666666443

Myosin is a major component of thick filaments and exists as a hexamer of 2 heavy chains [], 2 alkali light chains, and 2 regulatory light chains. The heavy chain can be subdivided into the N-terminal globular head and the C-terminal coiled-coil rod-like tail, although some forms have a globular region in their C-terminal. There are many cell-specific isoforms of myosin heavy chains, coded for by a multi-gene family []. Myosin interacts with actin to convert chemical energy, in the form of ATP, to mechanical energy []. The 3-D structure of the head portion of myosin has been determined [] and a model for actin-myosin complex has been constructed []. This family consists of the coiled-coil myosin heavy chain tail region. The coiled-coil is composed of the tail from two molecules of myosin. These can then assemble into the macromolecular thick filament []. The coiled-coil region provides the structural backbone of the thick filament [].; GO: 0003774 motor activity, 0016459 myosin complex; PDB: 2LNK_C 3ZWH_Q.

>PF06705 SF-assemblin: SF-assemblin/beta giardin

Probab=82.11  E-value=81  Score=34.25  Aligned_cols=47  Identities=6%  Similarity=0.176  Sum_probs=18.9

Q ss_pred             HHHHHhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHhCChHHHH
Q 001257          874 QHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRK  921 (1113)
Q Consensus       874 keFYqnRR~irKARELAakgdveELeelC~~EVEkFMelWNnDkeFRk  921 (1113)
                      ..+...+..+...+..- ...-..++.+...|+..+-.-.+--..=|.
T Consensus       175 ~~~~~l~~~le~~~~~~-~~~~e~f~~~v~~Ei~~lk~~l~~e~~~R~  221 (247)
T PF06705_consen  175 SKLSELRSELEEVKRRR-EKGDEQFQNFVLEEIAALKNALALESQERE  221 (247)
T ss_pred             HHHHHHHHHHHHHHHHH-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444332 222234444444444444444433333343

>KOG0810 consensus SNARE protein Syntaxin 1 and related proteins [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.00  E-value=1e+02  Score=35.32  Aligned_cols=103  Identities=8%  Similarity=0.139  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCHHH
Q 001257          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDD  743 (1113)
Q Consensus       664 eLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLRNAKSVEE  743 (1113)
                      .++.-|+.+...++++.+.=..+.......++-|+.|...+..++..-+.++.    |++.++.-.......+.+...  
T Consensus        44 ~Ir~~i~~l~~~~~~l~~~hs~~l~~~~~~~~~k~~l~~~~~~~~~~a~~Ik~----kL~~~e~~~~~~~~~~~~~~~--  117 (297)
T KOG0810|consen   44 EIRDDIEKLDEDVEKLQKLHSKSLHSPNADKELKRKLESLVDEIRRRARKIKT----KLKALEKENEADETQNRSSAG--  117 (297)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhHhccccccHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHhccccCCCCcc--
Confidence            45555555555444444433333333333345555555555555555444444    555555444443332211111  


Q ss_pred             HHHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHHHh
Q 001257          744 IDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQI  782 (1113)
Q Consensus       744 IDarIkrLE~RIQTgSLSLvEEKKLLKEIKQLKKqRKkV  782 (1113)
                        .++    ++.||++++    |++..-|...+..+...
T Consensus       118 --~r~----rrtq~~~~~----kkf~~~M~~f~~~~~~~  146 (297)
T KOG0810|consen  118 --LRT----RRTQTSALS----KKLKELMNEFNRTQSKY  146 (297)
T ss_pred             --chh----HHHHHHHHH----HHHHHHHHHHHHHHHHH
Confidence              112    345666666    88888888888887653

>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]

Probab=81.92  E-value=87  Score=34.47  Aligned_cols=16  Identities=13%  Similarity=0.299  Sum_probs=10.9

Q ss_pred             HHHHHHHHHHHHHHHH
Q 001257          766 KQIIREIKQLKQRREQ  781 (1113)
Q Consensus       766 KKLLKEIKQLKKqRKk  781 (1113)
                      +.+|.+|..|+.+.+.
T Consensus        88 r~al~~~~~le~~~~~  103 (225)
T COG1842          88 REALEEKQSLEDLAKA  103 (225)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            5677777777777643

>PRK10698 phage shock protein PspA; Provisional

Probab=81.91  E-value=19  Score=39.01  Aligned_cols=19  Identities=16%  Similarity=0.298  Sum_probs=14.6

Q ss_pred             CHHHHHHHHHHHHHHhhcC
Q 001257          740 SVDDIDGSIRNMEHRIAHE  758 (1113)
Q Consensus       740 SVEEIDarIkrLE~RIQTg  758 (1113)
                      -.+.++.+|.+||.+.+..
T Consensus       167 ~f~rmE~ki~~~Ea~aea~  185 (222)
T PRK10698        167 RFESFERRIDQMEAEAESH  185 (222)
T ss_pred             HHHHHHHHHHHHHHHHhHh
Confidence            4456888899999888874

>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure

Probab=81.87  E-value=1e+02  Score=37.04  Aligned_cols=9  Identities=33%  Similarity=0.564  Sum_probs=4.1

Q ss_pred             HHHHHHHHh
Q 001257          747 SIRNMEHRI  755 (1113)
Q Consensus       747 rIkrLE~RI  755 (1113)
                      +|..|+.+|
T Consensus       289 e~~~l~~Qi  297 (511)
T PF09787_consen  289 EIQLLERQI  297 (511)
T ss_pred             HHHHHHHHH
Confidence            344444444

They stimulate the formation of Golgi stacks and ribbons, and are involved in intra-Golgi retrograde transport. Two main interactions have been characterised: one with RAB1A that has been activated by GTP-binding and another with isoform CASP of CUTL1 [].

>cd07653 F-BAR_CIP4-like The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Cdc42-Interacting Protein 4 and similar proteins

Probab=81.84  E-value=78  Score=33.87  Aligned_cols=191  Identities=13%  Similarity=0.162  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHHHhh-------------------hcccchhHHHHHhhhHHHHH
Q 001257          743 DIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQIS-------------------SSIGEHDEVQLAFDQKDQIE  803 (1113)
Q Consensus       743 EIDarIkrLE~RIQTgSLSLvEEKKLLKEIKQLKKqRKkVi-------------------Anaa~rAkIQESidQKEaIq  803 (1113)
                      +|-..+..|..+++.|.--+.+=..++++-..++...-+-.                   .+......+..........+
T Consensus         2 ~L~d~~~~l~~~~~~g~~~~~~l~~f~keRa~iE~eYak~L~kLa~k~~~~~~~~~~~~~s~~~aw~~i~~e~~~~a~~H   81 (251)
T cd07653           2 ELWDQFDNLEKHTQKGIDFLERYGKFVKERAAIEQEYAKKLRKLVKKYLPKKKEEDEYSFSSVKAFRSILNEVNDIAGQH   81 (251)
T ss_pred             cchhhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCccccccHHHHHHHHHHHHHHHHHHH


Q ss_pred             HHHHH-HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 001257          804 EKMKF-LRKEA-DSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKD  881 (1113)
Q Consensus       804 EQIKa-LKKEL-DELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnRR  881 (1113)
                      .++.. |..++ +.|..-+...+..++.+..-+..+...+..+..++......=..++......+..+..........+.
T Consensus        82 ~~~a~~l~~~v~~~l~~~~~~~~~~rK~~~~~~~kl~~~~~~~~~~l~kskk~Y~~~~ke~~~a~~k~~~~~~~~~~s~~  161 (251)
T cd07653          82 ELIAENLNSNVCKELKTLISELRQERKKHLSEGSKLQQKLESSIKQLEKSKKAYEKAFKEAEKAKQKYEKADADMNLTKA  161 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccchh


Q ss_pred             HHHHHHHHHhcC--CHHHHHHHHHHHHHHHHHHHhCChHHHHHHHHhhhhhHhhhhhccCC
Q 001257          882 DTKQANDLASKG--DREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLKTLDG  940 (1113)
Q Consensus       882 ~irKARELAakg--dveELeelC~~EVEkFMelWNnDkeFRkDYeKrnl~Sl~rRqlT~DG  940 (1113)
                      .+.|++....+.  .....+.-|...|..+       -.+...|+..-++.++.++...++
T Consensus       162 ~~eK~~~k~~k~~~~~~~a~~~Y~~~l~~~-------N~~~~~~y~~~~p~~~~~~q~le~  215 (251)
T cd07653         162 DVEKAKANANLKTQAAEEAKNEYAAQLQKF-------NKEQRQHYSTDLPQIFDKLQELDE  215 (251)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHhhhHHHHHHHHHHhH

F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. This subfamily is composed of Cdc42-Interacting Protein 4 (CIP4), Formin Binding Protein 17 (FBP17), FormiN Binding Protein 1-Like (FNBP1L), and similar proteins. CIP4 and FNBP1L are Cdc42 effectors that bind Wiskott-Aldrich syndrome protein (WASP) and function in endocytosis. CIP4 and FBP17 bind to the Fas ligand and may be implicated in the inflammatory response. CIP4 may also play a role in phagocytosis. Members of this subfamily typically contain an N-terminal F-BAR domain and a C-terminal SH3 domain. In addition, some members such as FNBP1L contain a central Cdc42-binding HR1 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged l

>PF15233 SYCE1: Synaptonemal complex central element protein 1

Probab=81.80  E-value=63  Score=33.46  Aligned_cols=48  Identities=23%  Similarity=0.354  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          767 QIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAAT  827 (1113)
Q Consensus       767 KLLKEIKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIKaLKKELDELRkKLkkLEekl  827 (1113)
                      -+|..|..|.+.+++...             .....+.-..+|.+|+|.|..+.-.++..+
T Consensus        10 ~LInrInelQQaKKk~~E-------------ELgEa~~l~eaL~~ELDsL~~EkvhLeeil   57 (134)
T PF15233_consen   10 DLINRINELQQAKKKSSE-------------ELGEAQALWEALQRELDSLNGEKVHLEEIL   57 (134)
T ss_pred             HHHHHHHHHHHHHHHhHH-------------HHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            378888888887766321             122333445577777777777644444333

>cd07657 F-BAR_Fes_Fer The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Fes (feline sarcoma) and Fer (Fes related) tyrosine kinases

Probab=81.63  E-value=88  Score=34.34  Aligned_cols=19  Identities=26%  Similarity=0.316  Sum_probs=13.5

Q ss_pred             HHHHHHHHHHHHHHHHhhh
Q 001257          766 KQIIREIKQLKQRREQISS  784 (1113)
Q Consensus       766 KKLLKEIKQLKKqRKkViA  784 (1113)
                      ..+|.++.++=++|+.+..
T Consensus        68 ~~iL~ete~~A~~~~~~ae   86 (237)
T cd07657          68 KEIMDSTDQLSKLIKQHAE   86 (237)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4577888888888776533

F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Fes (feline sarcoma), also called Fps (Fujinami poultry sarcoma), and Fer (Fes related) are cytoplasmic (or nonreceptor) tyrosine kinases that play roles in haematopoiesis, inflammation and immunity, growth factor signaling, cytoskeletal regulation, cell migration and adhesion, and the regulation of cell-cell interactions. Although Fes and Fer show redundancy in their biological functions, they show differences in their expression patterns. Fer is ubiquitously expressed while Fes is expressed predominantly in myeloid and endothelial cells. Fes and Fer contain an N-terminal F-BAR domain, an SH2 domain, and a C-terminal catalytic kinase domain. F-BAR domains form banana-shaped dimers with a posit

>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]

Probab=81.39  E-value=1.3e+02  Score=36.27  Aligned_cols=41  Identities=12%  Similarity=0.307  Sum_probs=24.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          662 DENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAIS  709 (1113)
Q Consensus       662 DEeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLRe  709 (1113)
                      .+.|.++|.-|.       ++-..+..++..++..|.-+.+.-..|+.
T Consensus        45 ~e~l~~rv~sls-------q~Nkvlk~elet~k~kcki~qeenr~l~~   85 (552)
T KOG2129|consen   45 GESLGARVSSLS-------QRNKVLKGELETLKGKCKIMQEENRPLLL   85 (552)
T ss_pred             HHHHHHHHHHHH-------hhhhhhhhhHHhhhhHHHHHHhcCchhhh
Confidence            445555555444       44445677777777777777666555543

>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues

Probab=81.34  E-value=1.1e+02  Score=35.34  Aligned_cols=34  Identities=15%  Similarity=0.286  Sum_probs=21.7

Q ss_pred             CChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          660 YDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTI  693 (1113)
Q Consensus       660 PDDEeLKAKIdeLqKEIeELKQkRdAInaELkak  693 (1113)
                      +..+.|..|+..|+.+-..++.....|..+-..+
T Consensus       160 ~~le~Lq~Klk~LEeEN~~LR~Ea~~L~~et~~~  193 (306)
T PF04849_consen  160 IQLEALQEKLKSLEEENEQLRSEASQLKTETDTY  193 (306)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhc
Confidence            3567778888777777666666655555544433

HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].

>PF15066 CAGE1: Cancer-associated gene protein 1 family

Probab=80.46  E-value=1.5e+02  Score=36.25  Aligned_cols=89  Identities=19%  Similarity=0.287  Sum_probs=42.7

Q ss_pred             HHHHHHHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          767 QIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLG  846 (1113)
Q Consensus       767 KLLKEIKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQE  846 (1113)
                      +.+.||++-.+.--+       -.+|..++.+++.=-+++..||.++...-..      -++-|+..-+.-..++-.||+
T Consensus       433 ry~~eiQqKnksvsq-------clEmdk~LskKeeeverLQ~lkgelEkat~S------ALdlLkrEKe~~EqefLslqe  499 (527)
T PF15066_consen  433 RYMTEIQQKNKSVSQ-------CLEMDKTLSKKEEEVERLQQLKGELEKATTS------ALDLLKREKETREQEFLSLQE  499 (527)
T ss_pred             HHHHHHHHhhhHHHH-------HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHH
Confidence            466777776665433       2334445566654345666666666632211      112222222333355555666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          847 QFKAADEIRQEAYKHWQSLKKQAYD  871 (1113)
Q Consensus       847 ELkALdEkRDEAYEeLkeLRKERDE  871 (1113)
                      +++...+   +-.+++++|+-.+.+
T Consensus       500 EfQk~ek---enl~ERqkLKs~leK  521 (527)
T PF15066_consen  500 EFQKHEK---ENLEERQKLKSRLEK  521 (527)
T ss_pred             HHHHHHH---hhHHHHHHHHHHHHH
Confidence            6554332   224455555554444

>TIGR03545 conserved hypothetical protein TIGR03545

Probab=80.36  E-value=43  Score=41.05  Aligned_cols=54  Identities=15%  Similarity=0.219  Sum_probs=27.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          808 FLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQS  864 (1113)
Q Consensus       808 aLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLke  864 (1113)
                      ..+++++.|+++++...+.++.++   ++++.....++.++.++....++-|..|..
T Consensus       216 ~~~~e~d~lk~e~~~~~~~i~~~~---~~l~~~~~~~~~~~~~lk~ap~~D~~~L~~  269 (555)
T TIGR03545       216 KIKEEFDKLKKEGKADKQKIKSAK---NDLQNDKKQLKADLAELKKAPQNDLKRLEN  269 (555)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHhHHHHHHHHHHHHhccHhHHHHHHH
Confidence            334455555554444443344433   233333444666666666666666666653

This model represents a relatively rare but broadly distributed uncharacterized protein family, distributed in 1-2 percent of bacterial genomes, all of which have outer membranes. In many of these genomes, it is part of a two-gene pair.

>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]

Probab=80.18  E-value=53  Score=39.30  Aligned_cols=51  Identities=12%  Similarity=0.261  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 001257          685 AIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMM  735 (1113)
Q Consensus       685 AInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KL  735 (1113)
                      .++.++..--.+...+++|+-.++++.+.+++.+..+-.+|+.||..+..+
T Consensus        17 ~~~~~laq~~k~~s~~~aq~~~~~a~~~ai~a~~~~~E~~l~~Lq~e~~~l   67 (459)
T KOG0288|consen   17 DLNTELAQCEKAQSRLSAQLVILRAESRAIKAKLQEKELELNRLQEENTQL   67 (459)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444455555555666666666666666666666666554433

>KOG0163 consensus Myosin class VI heavy chain [Cytoskeleton]

Probab=80.06  E-value=7.9  Score=48.59  Aligned_cols=39  Identities=38%  Similarity=0.464  Sum_probs=18.5

Q ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257         1042 EEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALER 1080 (1113)
Q Consensus      1042 Eeee~~~k~~~~~~e~~~ak~kE~kr~ee~~Kak~a~eR 1080 (1113)
                      |++|+.|.+++..+.-++.+...+|-+||++|++++.+|
T Consensus       941 Eaeek~rre~ee~k~~k~e~e~kRK~eEeqr~~qee~e~  979 (1259)
T KOG0163|consen  941 EAEEKRRREEEEKKRAKAEMETKRKAEEEQRKAQEEEER  979 (1259)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHH
Confidence            444544444443333334444445555556655554443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	1113
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-10
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	4e-08
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	1e-06
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	6e-06
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	4e-05
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	3e-04
2xs1_A	704	Programmed cell death 6-interacting protein; prote	4e-04

>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 = 66.8 bits (162), Expect = 3e-11
 Identities = 53/401 (13%), Positives = 112/401 (27%), Gaps = 111/401 (27%)

Query: 788  EHDEVQLAFDQKDQIEEKMKFLRKE------ADSLRENVIKAEAATQAVKKLHREESEKL 841
            E  E Q  +  KD +                 D  + +++  E     +           
Sbjct: 10   ETGEHQYQY--KDILSVFEDAFVDNFDCKDVQDMPK-SILSKEEIDHIIMSKDAVS--GT 64

Query: 842  KRLLGQFKAADEIRQEAYKHW-QSLKKQAYDKNQHFW---KYKDDTKQANDLASKGDREA 897
             RL     +  E   E  + + + + +  Y      +     K + +Q            
Sbjct: 65   LRLFWTLLSKQE---EMVQKFVEEVLRINYK-----FLMSPIKTEQRQ---------PSM 107

Query: 898  LQHLCVNQVERVLELWNNNDEFRKEYVN-----SNIRSTLRRLK-----TLDG------- 940
            +  + + Q +R   L+N+N  F K  V+       +R  L  L+      +DG       
Sbjct: 108  MTRMYIEQRDR---LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKT 164

Query: 941  -------R---------------SLGPDEEAPLIRPFLND---RVAKN-ISLTQISALER 974
                                   +L        +   L     ++  N  S +  S+  +
Sbjct: 165  WVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK 224

Query: 975  EKTEQVVPIKSEKVDDKPFPE-------VREQGDQIAKFKKPEK---PSRAENVSTTVSG 1024
             +   +       +  KP+         V+        F    K    +R + V+  +S 
Sbjct: 225  LRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA-WNAFNLSCKILLTTRFKQVTDFLSA 283

Query: 1025 RDDEIEEAKEEVPKLTKEE-EEM-ARKAEEKRK---EEAT-----------AKLREQRRL 1068
                          LT +E + +  +  + + +    E               +R+    
Sbjct: 284  ATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLAT 343

Query: 1069 EEKAKAQEALERKKRIAEKAQTRAALRAQKEAEQKEKVRRL 1109
             +  K     ++   I E     ++L   + AE ++   RL
Sbjct: 344  WDNWK-HVNCDKLTTIIE-----SSLNVLEPAEYRKMFDRL 378

>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 = 62.6 bits (151), Expect = 6e-10
 Identities = 87/650 (13%), Positives = 185/650 (28%), Gaps = 198/650 (30%)

Query: 290 KPDVDFRD------SVVTESSPSGEVDDM--ERDNEVGKLNV-GSGKSSDSHPVDDAHVN 340
             + D +D      S+++      E+D +   +D   G L +  +  S     V    V 
Sbjct: 30  VDNFDCKDVQDMPKSILS----KEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKF-VE 84

Query: 341 EVGNGPVRDD---LVSVFHNSD-AKSETETGFDSVDAEEKVSILASDDQ--------RTE 388
           EV    +R +   L+S         S     +      E+   L +D+Q        R +
Sbjct: 85  EV----LRINYKFLMSPIKTEQRQPSMMTRMY-----IEQRDRLYNDNQVFAKYNVSRLQ 135

Query: 389 P-EVLQGGIDGV-DERSISVDNA--------AVESCTSESVYEESTADVKAECEIENA-Y 437
           P   L+  +  +   +++ +D          A++ C S  V          +C+++   +
Sbjct: 136 PYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKV----------QCKMDFKIF 185

Query: 438 VLSFRDVPGNEALVPESEVVSGSVSSIPEDVNVENVGIQHAGGEKDDHRSKELEENMETE 497
            L+      N            S  ++ E +      I      + DH S      +   
Sbjct: 186 WLNL----KNC----------NSPETVLEMLQKLLYQIDPNWTSRSDHSSNI---KLRIH 228

Query: 498 FTGEESDDLVCKEVLENARIQFTGGGSDDQAHKEVKEKGGIQ----FTSGES------DD 547
               E   L+  +  EN  +        +  + +      +      T+           
Sbjct: 229 SIQAELRRLLKSKPYENCLLVL-----LNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSA 283

Query: 548 KTFQEVEGIQSTDGGTDDKT---CKKVVVNGGIKFTSE-EQNDKTCPEVKENRGIQLTGG 603
            T   +     +   T D+      K +     +      +   T P       + +   
Sbjct: 284 ATTTHISLDHHSMTLTPDEVKSLLLKYL---DCRPQDLPREVLTTNPRR-----LSIIA- 334

Query: 604 EDGDRTFQDVEGIERSDR-----CETQTSTPEGSTVDASESRNIGVEVVKQPFYFL---- 654
                + +D  G+   D      C+  T+  E S ++  E         ++ F  L    
Sbjct: 335 ----ESIRD--GLATWDNWKHVNCDKLTTIIESS-LNVLEP-----AEYRKMFDRLSVFP 382

Query: 655 --VKVP--------RYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKL 704
               +P            ++    +      V++  +     +          KE    +
Sbjct: 383 PSAHIPTILLSLIWFDVIKSDVMVV------VNKLHKYSLVEKQ--------PKESTISI 428

Query: 705 EAAISDERSARESLKSK-RQEIDSVQSRINMMKNAISVDDIDGSI--------------- 748
            +   + +   E+  +  R  +D          + +    +D                  
Sbjct: 429 PSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPE 488

Query: 749 ------------RNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAF 796
                       R +E +I H++        I+  ++QLK  +  I     ++D     +
Sbjct: 489 RMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYIC----DNDP---KY 541

Query: 797 DQKDQIEEKMKFLR---------KEADSLR------ENVIKAEAATQAVK 831
           ++   +   + FL          K  D LR      +  I  EA  Q  +
Sbjct: 542 ERL--VNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQR 589

>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 = 62.2 bits (150), Expect = 8e-10
 Identities = 72/485 (14%), Positives = 140/485 (28%), Gaps = 135/485 (27%)

Query: 559 TDGGTDDKTCKKVVVNGGIKFTSEEQNDKTCPEVKEN-RGIQLTGGEDGDRTFQDVEGIE 617
            + G      K ++      F     ++  C +V++  + I L+  E+ D      + + 
Sbjct: 9   FETGEHQYQYKDILSV----FEDAFVDNFDCKDVQDMPKSI-LSK-EEIDHIIMSKDAVS 62

Query: 618 RSDR-----CETQTSTPEGSTVDASESRNIGVEVVKQPFY-FLVKVPRYDDENLREQIKA 671
            + R        Q        V         VE V +  Y FL+         ++ + + 
Sbjct: 63  GTLRLFWTLLSKQEEM-----VQKF------VEEVLRINYKFLM-------SPIKTEQRQ 104

Query: 672 AQSKVDEKTRSRDAIRDDIQTIRA---SYKEYAEKLEAAISDERS--------------- 713
                      RD + +D Q       S  +   KL  A+ + R                
Sbjct: 105 PSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKT 164

Query: 714 --ARESLKSKRQEIDSVQSRINM------MKNAISVDDIDGSIRNMEHRIAHETLPLKE- 764
             A +   S +     VQ +++       +KN  S + +   ++ + ++I        + 
Sbjct: 165 WVALDVCLSYK-----VQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDH 219

Query: 765 EKQIIREIKQLKQR-REQISSSIGEH-----DEVQ-----LAFDQKDQIEEKMKFL---- 809
              I   I  ++   R  + S   E+       VQ      AF+   +I      L    
Sbjct: 220 SSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKI------LLTTR 273

Query: 810 -RKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQ 868
            ++  D L        +       L  +E + L  LL   K  D   Q+       L ++
Sbjct: 274 FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL--LL---KYLDCRPQD-------LPRE 321

Query: 869 AYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNI 928
                             N             +    +   L  W+N      + + + I
Sbjct: 322 V--------------LTTNPRRLS--------IIAESIRDGLATWDNWKHVNCDKLTTII 359

Query: 929 RSTLRRLKTLDGRSLGPDEEAPLIRPF--LNDRVAKNISLTQISALEREKTEQVVPIKSE 986
            S+L  L+        P E   +             +I    +S +  +  +  V     
Sbjct: 360 ESSLNVLE--------PAEYRKMFDRLSVFPPSA--HIPTILLSLIWFDVIKSDV----M 405

Query: 987 KVDDK 991
            V +K
Sbjct: 406 VVVNK 410

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 56.8 bits (137), Expect = 4e-08
 Identities = 59/409 (14%), Positives = 141/409 (34%), Gaps = 83/409 (20%)

Query: 697  YKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIA 756
             +   E+L+     ++ A   LK   Q+   +    N++                E   A
Sbjct: 859  MQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLL---------------QEKLQA 903

Query: 757  HETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSL 816
               L  + E+  +R   + ++  E +         ++   ++  Q++ + K ++++   L
Sbjct: 904  ETELYAEAEEMRVRLAAKKQELEEILH---EMEARIEEEEERSQQLQAEKKKMQQQMLDL 960

Query: 817  RENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHF 876
             E + + EAA Q ++        K+K++       ++   +  K  + L+++  D   + 
Sbjct: 961  EEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNL 1020

Query: 877  WKYKDDTKQANDLASKGDREALQHLCVNQVERVLELWNNNDEFRKEYVNSNIRSTLRRLK 936
             + ++  K    L +K +        ++++E  L+      +  K       +   +  +
Sbjct: 1021 AEEEEKAKNLTKLKNKHESM------ISELEVRLK------KEEKSR-----QELEKIKR 1063

Query: 937  TLDGRSLGPDEEAPLIRPFLNDRVAKNISLTQISALEREKTEQVVPIKSEKVDDKPFPEV 996
             L+G                      +    QI+ L+ +  E    +             
Sbjct: 1064 KLEGE--------------------SSDLHEQIAELQAQIAELKAQLAK----------- 1092

Query: 997  REQGDQIAKFKKPEKPSRAENVSTTVSGRDDEIEEAKEEVPKLTKEEEEMARKAEEKRKE 1056
            +E+  Q A  +  ++ S+  N    +   +  I + +E++     E E+ AR   EK+K 
Sbjct: 1093 KEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDL-----ESEKAARNKAEKQKR 1147

Query: 1057 EATAKLREQRRLEEKAKAQEALERKKRIAEKAQTRAALRAQKEAEQKEK 1105
            + + +L            +  LE         Q    LR     +  +K
Sbjct: 1148 DLSEELEA---------LKTELEDTLDTTATQQ---ELRGSDYKDDDDK 1184

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 52.1 bits (125), Expect = 1e-06
 Identities = 28/200 (14%), Positives = 84/200 (42%), Gaps = 14/200 (7%)

Query: 663  ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKR 722
            + + + I   + + ++ T+ R  + + +  +  +  E  EK +  ++  ++  E      
Sbjct: 986  KKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKN-LTKLKNKHE------ 1038

Query: 723  QEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIK-QLKQRREQ 781
              I  ++ R+   + +    +++   R +E   +     + E +  I E+K QL ++ E+
Sbjct: 1039 SMISELEVRLKKEEKS--RQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEE 1096

Query: 782  ISSSIGEHDEVQLAFD----QKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREE 837
            + +++   ++     +    +  ++E  +  L+++ +S +    KAE   + + +     
Sbjct: 1097 LQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARNKAEKQKRDLSEELEAL 1156

Query: 838  SEKLKRLLGQFKAADEIRQE 857
              +L+  L       E+R  
Sbjct: 1157 KTELEDTLDTTATQQELRGS 1176

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 47.1 bits (111), Expect = 6e-06
 Identities = 18/63 (28%), Positives = 33/63 (52%), Gaps = 5/63 (7%)

Query: 1049 KAEEKRKE-EATAKLREQR--RLEEKAKAQEALERKKRIAEKAQTRAALRAQKEAEQKEK 1105
            +A+   +E E+  K RE++  RL+E   A +    ++   EKA+       Q+++EQ EK
Sbjct: 76   QADRLTQEPESIRKWREEQRKRLQELDAASK--VMEQEWREKAKKDLEEWNQRQSEQVEK 133

Query: 1106 VRR 1108
             + 
Sbjct: 134  NKI 136

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 44.8 bits (105), Expect = 4e-05
 Identities = 18/83 (21%), Positives = 36/83 (43%), Gaps = 10/83 (12%)

Query: 1024 GRDDEIEEAKEEVPKLTKE-EEEMARKAEEKRKEEATAKLREQRRLEE-KAKAQEALERK 1081
             + D + +  E + K  +E  + +       +  E   + + ++ LEE   +  E +E+ 
Sbjct: 75   AQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKN 134

Query: 1082 K---RIAEKAQTRAALRAQKEAE 1101
            K   RIA+KA        Q +A+
Sbjct: 135  KINNRIADKA-----FYQQPDAD 152

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 43.9 bits (104), Expect = 3e-04
 Identities = 17/86 (19%), Positives = 30/86 (34%)

Query: 1025 RDDEIEEAKEEVPKLTKEEEEMARKAEEKRKEEATAKLREQRRLEEKAKAQEALERKKRI 1084
             ++       E  KL  + E +    EE +         ++   + + +  +    KK I
Sbjct: 951  MNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTI 1010

Query: 1085 AEKAQTRAALRAQKEAEQKEKVRRLK 1110
             E A        Q  +E KE+   LK
Sbjct: 1011 EEWADKYKHETEQLVSELKEQNTLLK 1036

>2xs1_A Programmed cell death 6-interacting protein; protein transport-viral protein complex, cell cycle; 2.30A {Homo sapiens} PDB: 2xs8_A 2oev_A 2r05_A 2r02_A 2r03_A 2oex_A 2ojq_A Length = 704

 Score = 43.4 bits (101), Expect = 4e-04
 Identities = 43/268 (16%), Positives = 90/268 (33%), Gaps = 35/268 (13%)

Query: 663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAA------ISDERSARE 716
           + L E ++  +  +DE  R  D        +RA +KE  ++  +        ++  + R 
Sbjct: 444 KELPELLQRNREILDESLRLLDEEEATDNDLRAKFKERWQRTPSNELYKPLRAEGTNFRT 503

Query: 717 SLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRI-AHETLPLKEEKQIIREIKQL 775
            L    Q    V+      ++ I +  +      +   I +       +  +++  +K L
Sbjct: 504 VLDKAVQADGQVKECYQSHRDTIVL--LCKPEPELNAAIPSANPAKTMQGSEVVNVLKSL 561

Query: 776 KQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHR 835
               +++               +++ +E  +K +  +  S     +  +           
Sbjct: 562 LSNLDEVKK-------------EREGLENDLKSVNFDMTSKFLTALAQDGVIN------- 601

Query: 836 EESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDR 895
           EE+  +  L   +       QE+ K  + L K     +Q F K K    +AN       R
Sbjct: 602 EEALSVTELDRVYGGLTTKVQESLKKQEGLLKNIQVSHQEFSKMKQSNNEANL------R 655

Query: 896 EALQHLCVNQVERVLELWNNNDEFRKEY 923
           E +        +  +EL  N  E  K Y
Sbjct: 656 EEVLKNLATAYDNFVELVANLKEGTKFY 683

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	1113
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	98.67
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	98.47
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	98.07
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	97.79
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	97.61
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	97.58
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	96.12
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	95.84
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	95.82
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	94.86
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	94.33
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	94.25
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	92.81
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	92.63
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	92.46
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	91.56
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	91.56
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	91.52
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	91.32
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	90.6
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	90.17
3q8t_A	96	Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90	89.89
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	89.82
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	89.4
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	89.31
2xs1_A	704	Programmed cell death 6-interacting protein; prote	89.2
2nrj_A	346	HBL B protein; enterotoxin, hemolysis, transmembra	86.5
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	86.09
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	85.92
3bas_A	89	Myosin heavy chain, striated muscle/general contro	85.22
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	84.53
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	84.05
3haj_A	486	Human pacsin2 F-BAR; pacsin,syndapin,FAP52,F-BAR,	82.01
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	80.68

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=98.67  E-value=0.00023  Score=69.05  Aligned_cols=71  Identities=8%  Similarity=0.233  Sum_probs=48.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 001257          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRIN  733 (1113)
Q Consensus       663 EeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~  733 (1113)
                      +.|++++..+..++..+......+..++..++.....+...+..+..++..++..+.....++..++..+.
T Consensus         2 ~~~~~~~~~l~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   72 (284)
T 1c1g_A            2 DAIKKKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKYSEALKDAQEKLE   72 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46788888888888888777777777777777777777666666666666666555555555555444443

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=98.47  E-value=0.0011  Score=64.27  Aligned_cols=43  Identities=9%  Similarity=0.241  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          665 LREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAA  707 (1113)
Q Consensus       665 LKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeL  707 (1113)
                      +...++.+..++..+......+...+..++.....+...+..+
T Consensus        18 ~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   60 (284)
T 1c1g_A           18 ALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKY   60 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444333333333333333333333333333

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=98.07  E-value=0.00065  Score=70.92  Aligned_cols=84  Identities=13%  Similarity=0.249  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCHHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHH
Q 001257          694 RASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIK  773 (1113)
Q Consensus       694 RAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLRNAKSVEEIDarIkrLE~RIQTgSLSLvEEKKLLKEIK  773 (1113)
                      +.+|..+-.++..|..+...++..+.....++..+...+.++.  ..++++..+|.+.+.++...+ +-.|=..+.+||.
T Consensus        24 ~~~~~~lp~el~~le~~~~~l~~~~~~~~~~l~d~~~~~~~~e--~~i~~~~~ri~~~~~~l~~v~-~~kE~~aL~kEie  100 (256)
T 3na7_A           24 EPLIREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNE--QTLQDTNAKIASIQKKMSEIK-SERELRSLNIEED  100 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHCS-SSSHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHccC-CHHHHHHHHHHHH
Confidence            3333333444444444444444444444444444444443333  245555666777777776554 4444455666666


Q ss_pred             HHHHHHH
Q 001257          774 QLKQRRE  780 (1113)
Q Consensus       774 QLKKqRK  780 (1113)
                      .++....
T Consensus       101 ~~~~~i~  107 (256)
T 3na7_A          101 IAKERSN  107 (256)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6665543

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=97.79  E-value=0.0048  Score=64.48  Aligned_cols=86  Identities=8%  Similarity=0.102  Sum_probs=49.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-------hcccCCCHH
Q 001257          670 KAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRIN-------MMKNAISVD  742 (1113)
Q Consensus       670 deLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~-------KLRNAKSVE  742 (1113)
                      +.++.+|..+...|..+-.++..+..+...+..++..+..+...+...+...-.++..++..+.       ..++.+-..
T Consensus        14 Q~lD~~i~~l~~~~~~lp~el~~le~~~~~l~~~~~~~~~~l~d~~~~~~~~e~~i~~~~~ri~~~~~~l~~v~~~kE~~   93 (256)
T 3na7_A           14 SHLDKEIDSLEPLIREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQKKMSEIKSERELR   93 (256)
T ss_dssp             HHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSSSSHHH
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHHHH
Confidence            3555666666666666667777766666666666666666665555555555555555544443       333334455


Q ss_pred             HHHHHHHHHHHHh
Q 001257          743 DIDGSIRNMEHRI  755 (1113)
Q Consensus       743 EIDarIkrLE~RI  755 (1113)
                      .|.++|..++.++
T Consensus        94 aL~kEie~~~~~i  106 (256)
T 3na7_A           94 SLNIEEDIAKERS  106 (256)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            5555666555443

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A

Probab=97.61  E-value=8.4e-06  Score=100.36  Aligned_cols=49  Identities=10%  Similarity=0.085  Sum_probs=15.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDE  711 (1113)
Q Consensus       663 EeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~  711 (1113)
                      ..+..++..+..++.++......+..++..+..+...+..++..+..++
T Consensus       916 ~~l~~~~~~Le~~l~ele~elee~ee~l~el~~e~~~le~el~~L~~el  964 (1184)
T 1i84_S          916 VRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQL  964 (1184)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHC----------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455566666666666655555555544444444444444443333333

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A

Probab=97.58  E-value=0.00013  Score=90.15  Aligned_cols=25  Identities=28%  Similarity=0.310  Sum_probs=13.5

Q ss_pred             ccccccCCCCCCccchhHHhhhccc
Q 001257          472 NVGIQHAGGEKDDHRSKELEENMET  496 (1113)
Q Consensus       472 ~~~~~~~~~~~~~~~~~~~~~~~~~  496 (1113)
                      ..+|.|..|.-.-.-..-|+.|+.+
T Consensus       579 ~F~i~Hyag~V~Y~~~gfl~kN~d~  603 (1184)
T 1i84_S          579 EFCILHYAGKVTYNASAWLTKNMDP  603 (1184)
T ss_dssp             EEEEECSSCEEEEECTTHHHHHHCC
T ss_pred             cEEEECCCceEEeccCCchhhccCc
Confidence            3555666665555555555555543

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=96.12  E-value=0.23  Score=61.64  Aligned_cols=27  Identities=22%  Similarity=0.180  Sum_probs=18.0

Q ss_pred             cccccccCCCCCCccchhHHhhhcccc
Q 001257          471 ENVGIQHAGGEKDDHRSKELEENMETE  497 (1113)
Q Consensus       471 ~~~~~~~~~~~~~~~~~~~~~~~~~~~  497 (1113)
                      ...+|.|..|.-.-.-..-|+.|..+-
T Consensus       546 ~~F~I~HyAG~V~Y~~~gfleKN~D~l  572 (1080)
T 2dfs_A          546 KAFIIKHFADKVEYQCEGFLEKNKDTV  572 (1080)
T ss_dssp             SEEEEECSSCEEEEECTTHHHHHBCCC
T ss_pred             CceEEEecceEEEEehhhHHHhccccc
Confidence            356777777776666666777776643

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=95.84  E-value=2.4  Score=58.33  Aligned_cols=65  Identities=8%  Similarity=0.065  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          804 EKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQ  868 (1113)
Q Consensus       804 EQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKE  868 (1113)
                      +++....+++.+++.++..+++++..++.+|++...+-..|+.+.+....+.+.|-.=+..|-.|
T Consensus      2021 ~~l~~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~~~kl~rA~~Li~gL~~E 2085 (3245)
T 3vkg_A         2021 NAANELKLKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSKVKNKVDRSIALLDNLNSE 2085 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Confidence            34444444444445554455555555555555554444555555554444444444444444433

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=95.82  E-value=1.1  Score=55.66  Aligned_cols=39  Identities=10%  Similarity=0.251  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          800 DQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREES  838 (1113)
Q Consensus       800 EaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIk  838 (1113)
                      .....+++.|.++++.++.++.++..+.+++..+++.+.
T Consensus       980 ~~~~~~v~~L~~e~~~l~~~~~~~~ke~~~lee~~~~~~ 1018 (1080)
T 2dfs_A          980 KNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYK 1018 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555566666555555555555555544444443

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=94.86  E-value=0.25  Score=55.59  Aligned_cols=27  Identities=19%  Similarity=0.239  Sum_probs=11.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          805 KMKFLRKEADSLRENVIKAEAATQAVK  831 (1113)
Q Consensus       805 QIKaLKKELDELRkKLkkLEeklKALk  831 (1113)
                      ++..++++++.+++++..++..++..+
T Consensus       531 ~~~~~~~~~~~~~~~~~~le~~~~~~~  557 (597)
T 3oja_B          531 EADAKQKETEDLEQENIALEKQLDNKR  557 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhcchhhHHhhhHHHHHHHhhhh
Confidence            333444444444444333333333333

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=94.33  E-value=5.3  Score=40.77  Aligned_cols=45  Identities=16%  Similarity=0.327  Sum_probs=32.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLL  845 (1113)
Q Consensus       801 aIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQ  845 (1113)
                      .++.+|..|..+++.++..+..+....+.+..++..+..+...+.
T Consensus        94 elq~ri~~L~~El~~~k~~~~k~~~e~r~L~Ekl~~lEKe~a~~e  138 (168)
T 3o0z_A           94 DLQARITSLQEEVKHLKHNLEKVEGERKEAQDMLNHSEKEKNNLE  138 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            455677788888888888877777777777777776666655554

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=94.25  E-value=13  Score=51.55  Aligned_cols=18  Identities=44%  Similarity=0.735  Sum_probs=10.7

Q ss_pred             CCCCCccc--ccceEEEEec
Q 001257           21 LPNGNAIA--DSSCVFVEVS   38 (1113)
Q Consensus        21 ~~~~~~~~--~~~~~~~~~~   38 (1113)
                      ||||-.|.  +.-.+++||.
T Consensus      1016 L~nGErI~l~~~~~liFEv~ 1035 (3245)
T 3vkg_A         1016 LPNGERLALPNNVRVMFEVQ 1035 (3245)
T ss_dssp             CTTSCCEECCTTEEEEEEES
T ss_pred             cCCCCeeecCCCCEEEEEec
Confidence            67777664  3344556664

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=92.81  E-value=0.6  Score=42.74  Aligned_cols=63  Identities=13%  Similarity=0.258  Sum_probs=50.4

Q ss_pred             HHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          663 ENLREQIKAAQS-------KVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEI  725 (1113)
Q Consensus       663 EeLKAKIdeLqK-------EIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEI  725 (1113)
                      +.|.+||..|-.       +|++++.+...+..+...+++.|..|..+...|++++..|+..+...+..|
T Consensus         9 eqLE~KIq~avdtI~lLqmEieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~~~wq~Rl~~LLgk~   78 (81)
T 2jee_A            9 EKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQALLGRM   78 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            467777776655       888888888999999999999999999999999888888887666555444

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=92.63  E-value=1.6  Score=49.16  Aligned_cols=49  Identities=10%  Similarity=0.024  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          826 ATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQ  874 (1113)
Q Consensus       826 klKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNk  874 (1113)
                      .+++..+.++.++.++..+...++...++..+...+...++.+..+...
T Consensus       531 ~~~~~~~~~~~~~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~~l~~  579 (597)
T 3oja_B          531 EADAKQKETEDLEQENIALEKQLDNKRAKQAELRQETSLKRQKVKQLEA  579 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhcchhhHHhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444444444444445555554444444

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=92.46  E-value=0.92  Score=52.82  Aligned_cols=21  Identities=14%  Similarity=0.317  Sum_probs=11.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 001257          804 EKMKFLRKEADSLRENVIKAE  824 (1113)
Q Consensus       804 EQIKaLKKELDELRkKLkkLE  824 (1113)
                      .+|+.|+.-|+.++.+|..|+
T Consensus       131 snIrvLQsnLedq~~kIQRLE  151 (562)
T 3ghg_A          131 QHIQLLQKNVRAQLVDMKRLE  151 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555555

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=91.56  E-value=3.4  Score=38.15  Aligned_cols=93  Identities=9%  Similarity=0.231  Sum_probs=63.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCH
Q 001257          662 DENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISV  741 (1113)
Q Consensus       662 DEeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQsaL~KLRNAKSV  741 (1113)
                      -+.|+.||..++.+......+-..+..+++....++..+-..+.+|.-+.+.+...+..-...+...+..|....  +..
T Consensus         4 md~iKkKm~~lk~e~e~a~d~ae~~e~~~k~~e~~~~~~E~ei~sL~kKiq~lE~eld~~~e~l~~a~~kLe~~e--k~~   81 (101)
T 3u59_A            4 MEAIKKKMQMLKLDKENAIDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGTEDEVEKYSESVKEAQEKLEQAE--KKA   81 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHH
Confidence            357899999999888888888888888888888888888888888877777777766665555555554443221  122


Q ss_pred             HHHHHHHHHHHHHhh
Q 001257          742 DDIDGSIRNMEHRIA  756 (1113)
Q Consensus       742 EEIDarIkrLE~RIQ  756 (1113)
                      .+-+..+..|..+||
T Consensus        82 ~~AE~evasLnRriq   96 (101)
T 3u59_A           82 TDAEAEVASLNRRIQ   96 (101)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            333344455555444

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=91.56  E-value=3.3  Score=38.49  Aligned_cols=75  Identities=16%  Similarity=0.304  Sum_probs=59.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          800 DQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQ  874 (1113)
Q Consensus       800 EaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNk  874 (1113)
                      +.|..+|..|+.+.+....+...++..++....+......+|.+|+..++.+-...+.+-..+......+....+
T Consensus         5 daIKkKm~~lk~e~e~a~drae~~e~~~k~~e~~~~~~E~Ei~sL~kk~~~lE~eld~~ee~L~ea~~kLee~ek   79 (101)
T 3u1c_A            5 DAIKKKMQMLKLDKENALDRAEQAEADKKAAEERSKQLEDDIVQLEKQLRVTEDSRDQVLEELHKSEDSLLFAEE   79 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            466777888888888888888888888888888888888888888888888888888887777766665555444

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=91.52  E-value=14  Score=38.17  Aligned_cols=85  Identities=9%  Similarity=0.103  Sum_probs=45.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 001257          805 KMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTK  884 (1113)
Q Consensus       805 QIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqnRR~ir  884 (1113)
                      .|..|.+++..++.....+...+..|.-.-|++....-.+...+..+-.+-+.+++..--|-.+.+++-.--....|...
T Consensus        89 ~~~~Lq~el~~l~~~~~~l~~~ireLEq~NDdlEr~~R~~~~SleD~e~kln~aiEr~alLE~El~EKe~l~~~~QRLkd  168 (189)
T 2v71_A           89 QVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIMSLEDFEQRLNQAIERNAFLESELDEKESLLVSVQRLKD  168 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555555555555555555566666666666666677777777777777777777765554445556666


Q ss_pred             HHHHH
Q 001257          885 QANDL  889 (1113)
Q Consensus       885 KAREL  889 (1113)
                      .+|+|
T Consensus       169 E~rDL  173 (189)
T 2v71_A          169 EARDL  173 (189)
T ss_dssp             -----
T ss_pred             HHHHH
Confidence            66666

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=91.32  E-value=3.7  Score=37.94  Aligned_cols=75  Identities=13%  Similarity=0.234  Sum_probs=58.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          800 DQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQ  874 (1113)
Q Consensus       800 EaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNk  874 (1113)
                      +.|..+|..|+.+.+....+...++..++.+..+......+|..|+..++.+-...+.+-..+..+...+....+
T Consensus         5 d~iKkKm~~lk~e~e~a~d~ae~~e~~~k~~e~~~~~~E~ei~sL~kKiq~lE~eld~~~e~l~~a~~kLe~~ek   79 (101)
T 3u59_A            5 EAIKKKMQMLKLDKENAIDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGTEDEVEKYSESVKEAQEKLEQAEK   79 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356677778888888888888888888888888888888888888888888888888777777766665555433

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A

Probab=90.60  E-value=15  Score=36.87  Aligned_cols=66  Identities=20%  Similarity=0.193  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          800 DQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSL  865 (1113)
Q Consensus       800 EaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeL  865 (1113)
                      +.+.++|+.|...+.+.-......+-.+..+.+.++.+.+++..-...+..+.+..+..|..+..+
T Consensus        73 d~yEeqIk~L~~kLKEAE~RAE~AERsv~kLEk~id~lEd~L~~~Kek~~~i~~eLd~tl~el~~~  138 (155)
T 2efr_A           73 DKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEEMKQLEDKVEEL  138 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            466788888888888777777777777788888888888887777777777888888777777765

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A

Probab=90.17  E-value=17  Score=36.62  Aligned_cols=87  Identities=21%  Similarity=0.194  Sum_probs=61.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 001257          800 DQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKY  879 (1113)
Q Consensus       800 EaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYqn  879 (1113)
                      +....++..|-.++..+-..++.++..-.....+-+.+..+|..|..+++++...=..|=.....|-+..+..-..++..
T Consensus        38 e~aE~k~~eLEeeL~~v~~nlKsLE~seekasqrEd~yEeqIk~L~~kLKEAE~RAE~AERsv~kLEk~id~lEd~L~~~  117 (155)
T 2efr_A           38 ELSEGKSAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQ  117 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhhccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34456667777777777777777777777777777777777777777777777777777777777777777777766655


Q ss_pred             HHHHHHH
Q 001257          880 KDDTKQA  886 (1113)
Q Consensus       880 RR~irKA  886 (1113)
                      +......
T Consensus       118 Kek~~~i  124 (155)
T 2efr_A          118 KLKYKAI  124 (155)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5554433

>3q8t_A Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90A {Rattus norvegicus}

Probab=89.89  E-value=11  Score=34.99  Aligned_cols=78  Identities=21%  Similarity=0.316  Sum_probs=56.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          763 KEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLK  842 (1113)
Q Consensus       763 vEEKKLLKEIKQLKKqRKkViAnaa~rAkIQESidQKEaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEId  842 (1113)
                      .+|.++++++..|.+.+..+                    ...|..+..+...+..+       -...-..|+..+-++.
T Consensus        18 ~eE~~L~~eL~~lEke~~~l--------------------~~el~~le~E~~~L~~e-------E~~~w~eyn~~~~ql~   70 (96)
T 3q8t_A           18 LEEERLIQELEDVEKNRKVV--------------------AENLEKVQAEAERLDQE-------EAQYQREYSEFKRQQL   70 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhHHHH--------------------HHHHHHHHHHHHHHhhH-------HHHHHHHHHHHHHHHH
Confidence            57888888888888887542                    23444555555544443       3445566777888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          843 RLLGQFKAADEIRQEAYKHWQSLKK  867 (1113)
Q Consensus       843 ELQEELkALdEkRDEAYEeLkeLRK  867 (1113)
                      ..+++++.+..+.+=+-..+..||+
T Consensus        71 e~~dE~~Sl~~q~~~~~~qLdkL~K   95 (96)
T 3q8t_A           71 ELDDELKSVENQMRYAQMQLDKLKK   95 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            8889999999888888888888875

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=89.82  E-value=6  Score=36.76  Aligned_cols=69  Identities=7%  Similarity=0.146  Sum_probs=49.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          662 DENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQS  730 (1113)
Q Consensus       662 DEeLKAKIdeLqKEIeELKQkRdAInaELkakRAERdELiEQLKeLReE~KqlReel~EKIKEIdsLQs  730 (1113)
                      .+.|+.||..++.+......+-..+..+++....++..+-..+.+|.-+.+.+...+..-...+...+.
T Consensus         4 MdaIKkKm~~lk~e~e~a~drae~~e~~~k~~e~~~~~~E~Ei~sL~kk~~~lE~eld~~ee~L~ea~~   72 (101)
T 3u1c_A            4 MDAIKKKMQMLKLDKENALDRAEQAEADKKAAEERSKQLEDDIVQLEKQLRVTEDSRDQVLEELHKSED   72 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            357888888888888888888888888888888877777777777766666666655554444443333

>1ic2_A Tropomyosin alpha chain, skeletal muscle; alpha-helical coiled coil, alanine, symmetry, axial stagger, BEND, contractIle protein; 2.00A {Gallus gallus} SCOP: h.1.5.1

Probab=89.40  E-value=5.3  Score=35.57  Aligned_cols=71  Identities=15%  Similarity=0.238  Sum_probs=49.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYD  871 (1113)
Q Consensus       801 aIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDE  871 (1113)
                      .|..+|..|+.+.+....++..++..++...++......+|..|+..++.+-...+++-+.+...-..+..
T Consensus         3 ~ikkKm~~lk~e~d~a~~~~~~~e~~l~~~e~~~~~~E~ev~~L~kKiq~lE~eld~~ee~l~~a~~kLee   73 (81)
T 1ic2_A            3 AIKKKMQMLKLDKENALDRAEQAEADKKAAEERSKQLEDELVALQKKLKGTEDELDKYSESLKDAQEKLEL   73 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566667777777777777777777777777777777777777777777777777776666655554443

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=89.31  E-value=2.3  Score=41.68  Aligned_cols=47  Identities=15%  Similarity=0.205  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQ  847 (1113)
Q Consensus       801 aIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEE  847 (1113)
                      .+..++..+.+|+..|+.++..+..++..+.+++.+++.++++|+.+
T Consensus        79 ~L~~~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~~  125 (138)
T 3hnw_A           79 SLSLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKN  125 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444433444443333333333333333

>2xs1_A Programmed cell death 6-interacting protein; protein transport-viral protein complex, cell cycle; 2.30A {Homo sapiens} PDB: 2xs8_A 2oev_A 2r05_A 2r02_A 2r03_A 2oex_A 2ojq_A

Probab=89.20  E-value=42  Score=39.87  Aligned_cols=112  Identities=14%  Similarity=0.219  Sum_probs=54.9

Q ss_pred             HHHHHHHHHHHHHHHHhhhcccc-hhHHHHHhhhH-H---HH-HHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          766 KQIIREIKQLKQRREQISSSIGE-HDEVQLAFDQK-D---QI-EEKM--KFLRKEADSLRENVIKAEAATQAVKKLHREE  837 (1113)
Q Consensus       766 KKLLKEIKQLKKqRKkViAnaa~-rAkIQESidQK-E---aI-qEQI--KaLKKELDELRkKLkkLEeklKALkKK~DEI  837 (1113)
                      |.+|.++..|+..|..+..-+-. .+.|...+... .   .+ .+.|  +.|.+.++.+...+...-..-..|-+.+...
T Consensus       559 ~~~l~~l~~l~~~R~~~~~~lk~~~ddI~~~ll~~~~~~~~~~~e~lf~~eL~k~~~~~~~~i~~~~~~Q~~ll~~i~~~  638 (704)
T 2xs1_A          559 KSLLSNLDEVKKEREGLENDLKSVNFDMTSKFLTALAQDGVINEEALSVTELDRVYGGLTTKVQESLKKQEGLLKNIQVS  638 (704)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhccCccHHHHHHHhhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            78888999999998876442210 01111111100 0   00 0111  1222333444444333322233333333344


Q ss_pred             HHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          838 SEKLKR------LLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWK  878 (1113)
Q Consensus       838 kaEIdE------LQEELkALdEkRDEAYEeLkeLRKERDEkNkeFYq  878 (1113)
                      +.++..      -+.++..+-.....+|....+|+....++.+ ||+
T Consensus       639 ~~~f~~~~~~~~~~~~re~~~~~l~~ay~~y~el~~~l~eG~~-FY~  684 (704)
T 2xs1_A          639 HQEFSKMKQSNNEANLREEVLKNLATAYDNFVELVANLKEGTK-FYN  684 (704)
T ss_dssp             HHHHHHHSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHH
T ss_pred             HHHHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH-HHH
Confidence            444322      2355566666677788888888888888777 663

>2nrj_A HBL B protein; enterotoxin, hemolysis, transmembrane, structural genomics, PSI-2, protein structure initiative; 2.03A {Bacillus cereus} SCOP: h.4.4.2

Probab=86.50  E-value=43  Score=36.88  Aligned_cols=46  Identities=9%  Similarity=0.125  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          804 EKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFK  849 (1113)
Q Consensus       804 EQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELk  849 (1113)
                      ..+..+...++.+...+..+..-+..+......+..+|..|..-++
T Consensus       250 ~~l~~~~~~~~~l~~~I~~Ai~al~~l~~~W~~m~~~~~~l~~~I~  295 (346)
T 2nrj_A          250 RVVGVAYSNINEMHKALDDAINALTYMSTQWHDLDSQYSGVLGHIE  295 (346)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455555555555555555555665555555555555444443

>1l8d_A DNA double-strand break repair RAD50 ATPase; zinc finger, DNA repair, recombination, HOOK motif, replication; HET: DNA CIT; 2.20A {Pyrococcus furiosus} SCOP: h.4.12.1

Probab=86.09  E-value=9.4  Score=34.93  Aligned_cols=34  Identities=6%  Similarity=0.031  Sum_probs=14.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          836 EESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQA  869 (1113)
Q Consensus       836 EIkaEIdELQEELkALdEkRDEAYEeLkeLRKER  869 (1113)
                      .+..++..+..++..+.......-..+..|+.++
T Consensus        68 ~~~~~l~~l~~~i~~l~~~i~~l~~~~~~l~~~~  101 (112)
T 1l8d_A           68 KYHLDLNNSKNTLAKLIDRKSELERELRRIDMEI  101 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444444444433

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=85.92  E-value=8.1  Score=45.27  Aligned_cols=21  Identities=14%  Similarity=0.139  Sum_probs=14.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHh
Q 001257          762 LKEEKQIIREIKQLKQRREQI  782 (1113)
Q Consensus       762 LvEEKKLLKEIKQLKKqRKkV  782 (1113)
                      +.-|+-+.+-|..|+.+.+.+
T Consensus        56 dkqErDltkrINELKnqLEdl   76 (562)
T 3ghg_A           56 DEVNQDFTNRINKLKNSLFEY   76 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHTHH
T ss_pred             HhhcCcHHHHHHHHHHHHHHH
Confidence            556777777777777776654

>3bas_A Myosin heavy chain, striated muscle/general control protein GCN4 chimera; alpha-helical coiled coil, disorder, salt links; 2.30A {Argopecten irradians} SCOP: h.1.26.1 PDB: 1nkn_A 3bat_A

Probab=85.22  E-value=17  Score=33.09  Aligned_cols=70  Identities=20%  Similarity=0.262  Sum_probs=49.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          804 EKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKN  873 (1113)
Q Consensus       804 EQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDEkN  873 (1113)
                      +.++.+..++..++..+...+..++++..++..+..+.+.|+.++..+.+.+.........|-.+..+++
T Consensus        14 eEm~~~eeel~~lke~l~k~e~~rkele~~~~~l~~ek~~L~~ql~eaEe~~~~L~~~K~eLE~~l~el~   83 (89)
T 3bas_A           14 EEMKEQLKQMDKMKEDLAKTERIKKELEEQNVTLLEQKNDLFGSMKQLEDKVEELLSKNYHLENEVARLK   83 (89)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566777888888888877777788888788888888888887766666666555555555555554443

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=84.53  E-value=34  Score=34.98  Aligned_cols=76  Identities=14%  Similarity=0.126  Sum_probs=49.5

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          796 FDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYD  871 (1113)
Q Consensus       796 idQKEaIqEQIKaLKKELDELRkKLkkLEeklKALkKK~DEIkaEIdELQEELkALdEkRDEAYEeLkeLRKERDE  871 (1113)
                      -..+..++.++..|...++.-|.......+.+..+.-++..+..++..+...+..+...+..+-+.+..|-++...
T Consensus        61 ~~~k~~Leke~~~LQa~L~qEr~~r~q~se~~~elq~ri~~L~~El~~~k~~~~k~~~e~r~L~Ekl~~lEKe~a~  136 (168)
T 3o0z_A           61 ENSKSQTDKDYYQLQAILEAERRDRGHDSEMIGDLQARITSLQEEVKHLKHNLEKVEGERKEAQDMLNHSEKEKNN  136 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3445566666777777777777666666666666666666666666666666666666666666666666665444

>3haj_A Human pacsin2 F-BAR; pacsin,syndapin,FAP52,F-BAR, alternative splicing, coiled coil, cytoplasmic vesicle, endocytosis, phosphoprotein, polymorphism; 2.78A {Homo sapiens}

Probab=82.01  E-value=62  Score=36.54  Aligned_cols=23  Identities=9%  Similarity=0.138  Sum_probs=8.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHh
Q 001257          857 EAYKHWQSLKKQAYDKNQHFWKY  879 (1113)
Q Consensus       857 EAYEeLkeLRKERDEkNkeFYqn  879 (1113)
                      ++..++.+.+.+..+....|..+
T Consensus       189 K~~~k~~k~~~~~~~a~~~Y~~~  211 (486)
T 3haj_A          189 KLQDKIEKCKQDVLKTKEKYEKS  211 (486)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333

---

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	1113
d1vp4a_	420	c.67.1.1 (A:) Putative aminotransferase TM1131 {Th	0.001

>d1vp4a_ c.67.1.1 (A:) Putative aminotransferase TM1131 {Thermotoga maritima [TaxId: 2336]} Length = 420

class: Alpha and beta proteins (a/b)
fold: PLP-dependent transferase-like
superfamily: PLP-dependent transferases
family: AAT-like
domain: Putative aminotransferase TM1131
species: Thermotoga maritima [TaxId: 2336]

 Score = 40.1 bits (92), Expect = 0.001
 Identities = 26/134 (19%), Positives = 50/134 (37%), Gaps = 11/134 (8%)

Query: 750 NMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFL 809
           N+E +I+     +K    IIREI +    ++ IS   G  D     F +K+  E   + +
Sbjct: 11  NLEGKISKIGQNMKSS--IIREILKFAADKDAISFGGGVPDPE--TFPRKELAEIAKEII 66

Query: 810 RKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLG-QFKAADEIRQEAYKHWQS-LKK 867
            KE            + T+    L ++  + L+R+ G      D +           L  
Sbjct: 67  EKEYHYTL-----QYSTTEGDPVLKQQILKLLERMYGITGLDEDNLIFTVGSQQALDLIG 121

Query: 868 QAYDKNQHFWKYKD 881
           + +  ++ +    D
Sbjct: 122 KLFLDDESYCVLDD 135

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	1113
d2efla1	288	Formin-binding protein 1, FNBP1 {Human (Homo sapie	89.58
d1seta1	110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	86.32
d1gqea_	362	Polypeptide chain release factor 2 (RF2) {Escheric	82.16

>d2efla1 a.238.1.4 (A:1-288) Formin-binding protein 1, FNBP1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: BAR/IMD domain-like
superfamily: BAR/IMD domain-like
family: FCH domain
domain: Formin-binding protein 1, FNBP1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.58  E-value=8.5  Score=36.13  Aligned_cols=18  Identities=11%  Similarity=0.110  Sum_probs=6.7

Q ss_pred             HHHHHHHHHHhHHHHHHH
Q 001257          869 AYDKNQHFWKYKDDTKQA  886 (1113)
Q Consensus       869 RDEkNkeFYqnRR~irKA  886 (1113)
                      .......|...-..++++
T Consensus       183 ~~~a~~~Y~~~v~~~n~~  200 (288)
T d2efla1         183 AEDSKADYSSILQKFNHE  200 (288)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            333333333333333333

>d1seta1 a.2.7.1 (A:1-110) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: tRNA-binding arm
family: Seryl-tRNA synthetase (SerRS)
domain: Seryl-tRNA synthetase (SerRS)
species: Thermus thermophilus, strain hb27 [TaxId: 274]

Probab=86.32  E-value=1.3  Score=38.63  Aligned_cols=63  Identities=11%  Similarity=0.250  Sum_probs=38.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001257          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQT-IRASYKEYAEKLEAAISDERSARESLKSKRQEID  726 (1113)
Q Consensus       664 eLKAKIdeLqKEIeELKQkRdAInaELka-kRAERdELiEQLKeLReE~KqlReel~EKIKEId  726 (1113)
                      .+..+...+..+++.++..|+.+..++.. ....+.++.++++.|.++.+.+...+.....++.
T Consensus        32 ~ld~~rr~l~~~~e~l~~~rN~~sk~i~k~~~~~~~~l~~~~k~lk~~i~~le~~~~~~~~~l~   95 (110)
T d1seta1          32 ALDREVQELKKRLQEVQTERNQVAKRVPKAPPEEKEALIARGKALGEEAKRLEEALREKEARLE   95 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHGGGCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35555666666777777777777766643 3455666666777766666666665555544443

>d1gqea_ e.38.1.1 (A:) Polypeptide chain release factor 2 (RF2) {Escherichia coli [TaxId: 562]}

class: Multi-domain proteins (alpha and beta)
fold: Release factor
superfamily: Release factor
family: Release factor
domain: Polypeptide chain release factor 2 (RF2)
species: Escherichia coli [TaxId: 562]

Probab=82.16  E-value=2.2  Score=44.86  Aligned_cols=57  Identities=9%  Similarity=0.233  Sum_probs=40.1

Q ss_pred             HHHHHHHHhhcccCCCHHHHHHHHHHHHHHhhcCCC--ChHHHHHHHHHHHHHHHHHHH
Q 001257          725 IDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETL--PLKEEKQIIREIKQLKQRREQ  781 (1113)
Q Consensus       725 IdsLQsaL~KLRNAKSVEEIDarIkrLE~RIQTgSL--SLvEEKKLLKEIKQLKKqRKk  781 (1113)
                      |..|++.+..++..-.++.+..+|..||.++....+  -...=+++++|++.|+.....
T Consensus         8 i~eL~~rl~~Lr~~fDld~kk~Rl~ELE~~lsdP~fW~D~~kAqkl~KE~s~L~~iVe~   66 (362)
T d1gqea_           8 IQDLTERSDVLRGYLDYDAKKERLEEVNAELEQPDVWNEPERAQALGKERSSLEAVVDT   66 (362)
T ss_dssp             HHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHSGGGGGSHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCHHHHHHHHHHHHHHhcCChhhhCHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444334678888889999999988887  556667889999999888654