Citrus Sinensis ID: 002520

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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---
Protein Sequence
MTMTAEVEVHGGGELSSQNDLPNGNAIADSSCVFVEVSGNDVGSGGTDLNSTNSVELNGKLVVEESNQSTINNEENEIESEKQESLVLVSESCADQENQLLNLSAKEAELGDQKFESGGAESGTVVVSDSVDGDGAVSCKNYSSENAASLHTDLPAETACENGAVDMIHEIQVADCPEELGVEIDQNTDEASRPVAVAVAGVDLQLGMQIVRGSVTVESERGLDAGHCQYGVSETVVDDLVDPSQETAELDKPSGVAESFPFQIDPENLPVESLKTDPDVALNVSDTTAKPDVDFRDSVVTESSPSGEVDDMERDNEVGKLNVGSGKSSDSHPVDDAHVNEVGNGPVRDDLVSVFHNSDAKSETETGFDSVDAEEKVSILASDDQRTEPEVLQGGIDGVDERSISVDNAAVESCTSESVYEESTADVKAECEIENAYVLSFRDVPGNEALVPESEVVSGSVSSIPEDVNVENVGIQHAGGEKDDHRSKELEENMETEFTGEESDDLVCKEVLENARIQFTGGGSDDQAHKEVKEKGGIQFTSGESDDKTFQEVEGIQSTDGGTDDKTCKKVVVNGGIKFTSEEQNDKTCPEVKENRGIQLTGGEDGDRTFQDVEGIERSDRCETQTSTPEGSTVDASESRNIGVEVVKQPFYFLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVRSRTLLL
Secondary Structure (PSIPRED)
ccccEEEEEEcccccccccccccccccccccEEEEEEcccccccccccccccccEEEccEEEEEccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHcccccccccccccccccEEEcccccccccccEEEccccccccccccccHHHHHHccccccccccccccccccccccccccccccccHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHccccccccHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHccccccccccccHHHHHHHcccccccccccccHHHHHHccccccccHHHHccccHHHHHHcccccccccccccccHHHHHHccccccccccccccccccccHHHHccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccEEEEEEccccccccccccccccEEEcccEEEEEEcccEEccccccccccccEEEEcEEEEcccccccccccHccccHHHcccEEEEEccHHHHHccccccccEEEEcccccccccccccccEEEEcccccccEEEEEEcccccEEEEEcccccccHcccccccHHHcccccccccccccccccccHHHccccccccccHHcccccEEEEccccccccccccccccccccccccccccccccccccEEEccccccccccEEccccccccccccccccccccccccccccEEEEcccEEEcccccccHHHEEEcccccccccccccccccccccccccccccccccHHHHHHHHccccccHHHccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccEEEEEEcccccccccccEEEccccEccccccccccccccccccccccccccccccccccHcccccccHHHHHHHHHcccHHEEcccccHHHHHHHHHHHcccccccccccHHHHHHccccccccccccccccHHHHHcccccccHHHHcccccHHHccccccEEEccccccccHHHHHHHHHHHHccccccccccccccccccccccEEEccccEEEEEEccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
MTMTAEVEvhgggelssqndlpngnaiadsSCVFVEVsgndvgsggtdlnstnsveLNGKLVVEESnqstinneeneiesekQESLVLVSESCADQENQLLNLSAKeaelgdqkfesggaesgtvvvsdsvdgdgavscknyssenaaslhtdlpaetacengavdmIHEIqvadcpeelgveidqntdeasrPVAVAVAGVDLQLGMQIVRGSVTvesergldaghcqygvsetvvddlvdpsqetaeldkpsgvaesfpfqidpenlpveslktdpdvalnvsdttakpdvdfrdsvvtesspsgevddmerdnevgklnvgsgkssdshpvddahvnevgngpvrddLVSVFhnsdaksetetgfdsvdaeEKVSIlasddqrtepevlqggidgvdersisVDNAAvesctsesvyeestadVKAECEIENAYVLsfrdvpgnealvpesevvsgsvssipedvnvenvgiqhaggekddhRSKELEEnmeteftgeesddLVCKEVLENARIqftgggsddqAHKEVKekggiqftsgesddktFQEVEgiqstdggtddktcKKVVVNGGikftseeqndktcpevkenrgiqltggedgdrtfqdvegiersdrcetqtstpegstvdasesrnigvevvkqpfyflvkvpryddenLREQIKAAQSKVdektrsrdaIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAisvddidgsirnmehriahetlplKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVRSRTLLL
Flexible Loop (DISEMBL)
mtmtaevevhgggelssqndlPNGNAIADSSCVFVEVSGNDVgsggtdlnstnsvELNGKLVVeesnqstinneeneieseKQESLVLVSESCADQENQLLNLSAKEAELGDQKFESGGAESGTVVVSDSVDGDGAVSCKNYSSENAASLHTDLPAETACENGAVDMIHEIQVADCPEELGVEIDQNTDEASRPVAVAVAGVDLQLGMQIVRGSVTVESERGLDAGHCQYGVSETVVDDLVDPSQETaeldkpsgvaESFPFQIDPENLPVESLKTDPDVALNVSdttakpdvdfrdsvvtesspsgevddmerdnEVGKLNVGsgkssdshpvDDAHVNEVGNGPVRDDLVSVFHNSDaksetetgfdsvdaEEKVSilasddqrtepevlqggidgvdersISVDNAAvesctsesvyeestadvKAECEIENAYVLSFRDVPGNEALVPESEVVsgsvssipedvnvenvgiqhaggekddhrsKELEENmeteftgeesdDLVCKEVLENARIQftgggsddqahKEVKEKGgiqftsgesddktfQEVEGiqstdggtddktckKVVVNGgikftseeqndktcpevkenrgiqltggedgdrtfQDVEGiersdrcetqtstpegstvdasesrnigvevvkqpfyfLVKVPRYDDENLREQIKAaqskvdektrsrdairddIQTIRASYKEYAEKLEAAISdersareslkskrqeIDSVQSRINMMKNAISVDDIDGSIRNMEHRIahetlplkeekQIIREIKQLKQRREQIsssigehdevqlAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDRealqhlcvnqvrsrtlll
Low Complexity Region (SEG)
MTMTAEVEVHGGGELSSQNDLPNGNAIADSSCVFVEVSGNDVGSGGTDLNSTNSVELNGKLVVeesnqstinneeneiesekqesLVLVSESCADQENQLLNLSAKEAELGDQKFESGGAEsgtvvvsdsvdgdgavsCKNYSSENAASLHTDLPAETACENGAVDMIHEIQVADCPEELGVEIDQNTDEASRPVAVAVAGVDLQLGMQIVRGSVTVESERGLDAGHCQYGVSETVVDDLVDPSQETAELDKPSGVAESFPFQIDPENLPVESLKTDPDVALNVSDTTAKPDVDFRDSVVTESSPSGEVDDMERDNEVGKLNVGSGKSSDSHPVDDAHVNEVGNGPVRDDLVSVFHNSDAKSETETGFDSVDAEEKVSILASDDQRTEPEVLQGGIDGVDERSISVDNAAVESCTSESVYEESTADVKAECEIENAYVLSFRDVPGNEALvpesevvsgsvssIPEDVNVENVGIQHAGGEKDDHRSKeleenmeteftgeeSDDLVCKEVLENARIQFTGGGSDDQAHKEVKEKGGIQFTSGESDDKTFQEVEGIQSTDGGTDDKTCKKVVVNGGIKFTSEEQNDKTCPEVKENRGIQLTGGEDGDRTFQDVEGIERSDRCETQTSTPEGSTVDASESRNIGVEVVKQPFYFLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVRSRTLLL
Disordered region (IsUnstruct)
******************************SCVFVEV***********************************************************************************************************************ETACENGAVDMIHEIQVADCPEELGVEIDQNT**ASRPVAVAVAGVDLQLGMQIVRGSVTVESERGLDAGHCQYGVSETVVDDL****************************************************************************************************************************************************************************************ADVKAECEIENAYVLSFRDVPG************************************************************VCKEVLENARI**************************************************CKKVVVNGGIK***************************************************************IGVEVVKQPFYFLVKVPRYD**************************************************************************************************************************************************************************************LLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYK*******************HLCV**********
Disordered Region (DISOPRED)
*****E***HGGG************AIADSSCVFVEVS******************LNG*******************************************************************************************************GA*********************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************VRSRTLLL
Disordered Region (DISEMBL)
*************ELSSQNDLPNGNAIADSSCVFVEVSGNDVGSGGTDLNSTNSVELNGKLVVEES********************VLVSESCADQENQLLNLSAKEAELGDQKFESGGAESGTVVVSDSVDGDGAVSCKNYSSENAASLHTDLPAETACENGAVDMIHEIQVADCPEELGVEIDQNTDEASRPVAVAVAGVDLQLGMQIVRGSVTVESERGLDAGHCQYGVSETVVDDLVDPSQETAELDKPSGVAESFPFQIDPENLPVESLKTDPDVALNVSDTTAKPDVDFRD**************MERDNEVGKLN***********VDDAHVNEVGNGPVRDDLVSVFHNS************VDAEEKVSILASDDQRTEPEVLQGGIDGVDERSISVDNAA****************VKAECEIENAYVLSFRDVPGNEALV**********SSIPEDVNVENVGIQ***************************DDLVCKEVLENARIQFTGGGSDDQAHKEVKEKGGIQFTSGESDDKTFQEVEGIQSTDGGTDDKTCKKVVVNGGIKFTSEEQNDKTCPEVKENRGIQLTGGEDGDRTFQDVEGI**********************SRNIGVEVVKQPFYFLVKVPRYDDENLREQIKA***********RDAIRDDIQTIRASYKEYAEKLEAAIS****************DSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVRSRTLLL
Disordered Region (DISPRO)
*TMTAEVEVHGGGELSSQNDLPNGNAIADSSCVFVEVSGNDVGSGGTDLNSTNSVELNGKLVVEE**********NEI*****ESLVLVSESCADQEN*****SA**AEL**************VVVSDSVDGDGAVSCKNYSSENAASLHTDLPAET*****AVDMIHEIQVADCPEELGVEIDQNTDEASRPVAVAVAGVDLQLGMQIVRGSV****************************************VAESFP*Q**************************KPDVDFRDSVVTESSPSGEVDDMERDN**************************************F*******************************************************************************NAYVLSFRDVPGN**********************************************************************QF*************************************************************************************************************************NIGVEVVKQPFYFLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVRSR****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTMTAEVEVHGGGELSSQNDLPNGNAIADSSCVFVEVSGNDVGSGGTDLNSTNSVELNGKLVVxxxxxxxxxxxxxxxxxxxxxxxxxxxxSCADQENQLLNLSAKEAELGDQKFESGGAESGTVVVSDSVDGDGAVSCKNYSSENAASLHTDLPAETACENGAVDMIHEIQVADCPEELGVEIDQNTDEASRPVAVAVAGVDLQLGMQIVRGSVTVESERGLDAGHCQYGVSETVVDDLVDPSQETAELDKPSGVAESFPFQIDPENLPVESLKTDPDVALNVSDTTAKPDVDFRDSVVTESSPSGEVDDMERDNEVGKLNVGSGKSSDSHPVDDAHVNEVGNGPVRDDLVSVFHNSDAKSETETGFDSVDAEEKVSILASDDQRTEPEVLQGGIDGVDERSISVDNAAVESCTSESVYEESTADVKAECEIENAYVLSFRDVPGNEALVPESEVVSGSVSSIPEDVNVENVGIQHAGGEKDDHRSKELEENMETEFTGEESDDLVCKEVLENARIQFTGGGSDDQAHKEVKEKGGIQFTSGESDDKTFQEVEGIQSTDGGTDDKTCKKVVVNGGIKFTSEEQNDKTCPEVKENRGIQLTGGEDGDRTFQDVEGIERSDRCETQTSTPEGSTVDASESRNIGVEVVKQPFYFLVKVPRYDxxxxxxxxxxxxxxxxxxxxxRDAIRDDIQTIRASYKEYxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxISVDDIDGSIRNMEHRIAHETLPLKExxxxxxxxxxxxxxxxxxxxxIGEHDExxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxTQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVRSRTLLL
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	913	2.2.26 [Sep-21-2011]
O23144	612	Proton pump-interactor 1	no	no	0.271	0.405	0.241	1e-14

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

 Score = 82.8 bits (203), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 66/273 (24%), Positives = 139/273 (50%), Gaps = 25/273 (9%)

Query: 652 YFLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDE 711
           ++LVK   Y D  ++ ++  A  ++++  ++R  + D ++  RA   E  + L+   S+ 
Sbjct: 79  FYLVKYRSYADPKIKAKLDLADKELEKLNKARTGVLDKLRAKRAERSELFDLLDPLKSER 138

Query: 712 RSARESLKSKRQEIDSVQSRINMMKN---------AI--SVDDIDGSIRNMEHRIAHETL 760
           +        KR+E++ +Q  +  +++         AI  S ++++  I + ++RI HE++
Sbjct: 139 KGFNTMFDEKRKEMEPLQQALGKLRSNDGGSARGPAICSSEEELNSMIYSYQYRIQHESI 198

Query: 761 PLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENV 820
           PL EEKQI++EI+ L+  R+++ ++     +++ +  QKD I+ ++K +    D +++  
Sbjct: 199 PLTEEKQILKEIRLLEGTRDKVIANAAMRAKIKESMGQKDDIQGQVKLMGAGLDGVKKE- 257

Query: 821 IKAEAATQAVKKLHREESEKLKR-------LLGQFKAADEIRQEAYKHWQSLKKQAYDKN 873
                  QA+     E SEKLK        L  + K   E R +AY +   L++Q  + N
Sbjct: 258 ------RQAISARINELSEKLKATKDEITVLENELKTVSEKRDKAYSNIHDLRRQRDETN 311

Query: 874 QHFWKYKDDTKQANDLASKGDREALQHLCVNQV 906
             +++ +    +A DLA++ +   L+ L   +V
Sbjct: 312 SEYYQNRTVLNKARDLAAQKNISELEALANAEV 344

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	913
359491929	1089	PREDICTED: uncharacterized protein LOC10	0.345	0.289	0.590	2e-97
449455738	1463	PREDICTED: uncharacterized protein LOC10	0.329	0.205	0.592	2e-95
449528207	909	PREDICTED: uncharacterized LOC101219495	0.329	0.331	0.592	5e-95
297745622	1477	unnamed protein product [Vitis vinifera]	0.339	0.209	0.587	4e-94
255539360	1553	conserved hypothetical protein [Ricinus	0.342	0.201	0.550	8e-91
186478714	1364	uncharacterized protein [Arabidopsis tha	0.306	0.205	0.546	8e-80
24430042	1498	Hypothetical protein [Arabidopsis thalia	0.306	0.186	0.546	2e-79
297845076	1186	hypothetical protein ARALYDRAFT_472337 [	0.306	0.236	0.546	2e-78
356577005	1501	PREDICTED: uncharacterized protein LOC10	0.297	0.181	0.541	8e-75
356523390	1296	PREDICTED: uncharacterized protein LOC10	0.297	0.209	0.523	3e-73

>gi|359491929|ref|XP_002273658.2| PREDICTED: uncharacterized protein LOC100261635 [Vitis vinifera]

 Score =  364 bits (934), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 189/320 (59%), Positives = 241/320 (75%), Gaps = 5/320 (1%)

Query: 595  NRGIQLTGGEDGDR-TFQDVEGIERSDRCETQTSTPEGSTVDASESRNIGVEVVKQPFYF 653
            N G Q+T  +  D+ T Q+     RS      +S+ E  + DA +S+N+ VEV K+PFYF
Sbjct: 757  NEGDQITSVDSDDKLTCQEA----RSVLGNGTSSSLEFLSTDALDSQNVPVEVGKRPFYF 812

Query: 654  LVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERS 713
            L++VPRYDDE +RE+IK AQ +VDEKT+SRDAIR +IQ  RA  KEY+EK EAA+S+ER+
Sbjct: 813  LIRVPRYDDEKVREEIKLAQLQVDEKTKSRDAIRSEIQIKRAVCKEYSEKFEAALSEERA 872

Query: 714  ARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIK 773
            AR+ LKSK QE+DSVQS IN +KNA+SV DIDG IR+MEH I HETLPLKEEKQ+IR+IK
Sbjct: 873  ARDLLKSKFQEMDSVQSVINRVKNAMSVKDIDGRIRHMEHAIEHETLPLKEEKQLIRDIK 932

Query: 774  QLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKL 833
            QL+  REQ+SS++G  +EVQ A DQK Q+EE+ K LR+E DSL+  V KAE  T+A KK 
Sbjct: 933  QLRNVREQLSSNMGRQEEVQQALDQKSQVEEQSKILREEVDSLKYKVQKAEVITKAAKKK 992

Query: 834  HREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKG 893
            + +E+EKL  L  +FKAAD+IRQEAY H QSL+K+  +KN++F  YKD+ K AND AS G
Sbjct: 993  YYDENEKLNELQARFKAADDIRQEAYTHLQSLRKKLSEKNKYFRMYKDNLKAANDYASAG 1052

Query: 894  DREALQHLCVNQVRSRTLLL 913
            D+EALQ LCVN+VRS   LL
Sbjct: 1053 DKEALQRLCVNEVRSEFFLL 1072

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  357 bits (915), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 179/302 (59%), Positives = 234/302 (77%), Gaps = 1/302 (0%)

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  QV 906
            QV
Sbjct: 1158 QV 1159

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 =  355 bits (912), Expect = 5e-95,   Method: Compositional matrix adjust.
 Identities = 179/302 (59%), Positives = 234/302 (77%), Gaps = 1/302 (0%)

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 QV 906
           QV
Sbjct: 634 QV 635

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  352 bits (904), Expect = 4e-94,   Method: Compositional matrix adjust.
 Identities = 185/315 (58%), Positives = 238/315 (75%), Gaps = 5/315 (1%)

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  DREALQHLCVNQVRS 908
            D+EALQ LCVN+V +
Sbjct: 1147 DKEALQRLCVNEVET 1161

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 =  341 bits (875), Expect = 8e-91,   Method: Compositional matrix adjust.
 Identities = 173/314 (55%), Positives = 236/314 (75%), Gaps = 1/314 (0%)

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  GDREALQHLCVNQV 906
            GD+  LQ+ CVNQV
Sbjct: 1238 GDQGELQYHCVNQV 1251

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  305 bits (781), Expect = 8e-80,   Method: Compositional matrix adjust.
 Identities = 153/280 (54%), Positives = 209/280 (74%)

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  KQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQV 906
            KQ  +KN++F+KY+D+++ A+++A K DR ALQ LC +QV
Sbjct: 1000 KQQREKNKYFFKYRDNSRAASEMALKKDRAALQSLCSDQV 1039

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  303 bits (777), Expect = 2e-79,   Method: Compositional matrix adjust.
 Identities = 153/280 (54%), Positives = 209/280 (74%)

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  KQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQV 906
            KQ  +KN++F+KY+D+++ A+++A K DR ALQ LC +QV
Sbjct: 1032 KQQREKNKYFFKYRDNSRAASEMALKKDRAALQSLCSDQV 1071

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 =  300 bits (768), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 153/280 (54%), Positives = 208/280 (74%)

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 KQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQV 906
           KQ  +KN++F+KY+D+++ A+++A K DR ALQ LC +QV
Sbjct: 819 KQQREKNKYFFKYRDNSRAASEMALKKDRAALQSLCSDQV 858

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  288 bits (738), Expect = 8e-75,   Method: Compositional matrix adjust.
 Identities = 150/277 (54%), Positives = 209/277 (75%), Gaps = 5/277 (1%)

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  RIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQK-DQIEEKMK---FL 809
             I HETLPL +EKQ+IREIKQLKQ RE++SS++ + D+ Q + D K D 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  YDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQV 906
            ++K+++FW+Y+D   +A +LA+ G +E LQ  CV+QV
Sbjct: 1151 HEKSKNFWEYRDAANKAQELAAGGKKEELQCFCVDQV 1187

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 =  283 bits (725), Expect = 3e-73,   Method: Compositional matrix adjust.
 Identities = 145/277 (52%), Positives = 210/277 (75%), Gaps = 5/277 (1%)

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 RIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQK-DQIEEKMK---FL 809
            I HETLPL +EKQ+IREIKQLKQ RE++SS++   D+ Q + + K D 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 YDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQV 906
           ++K+++FW+Y+D   +A +LA+ G +E LQ  CV++V
Sbjct: 945 HEKSKNFWEYRDAATKAQELAAGGKKEELQCFCVDEV 981

Source: Glycine max

Species: Glycine max

Genus: Glycine

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	913
TAIR|locus:2037365	1364	AT1G20970 "AT1G20970" [Arabido	0.350	0.234	0.495	7.9e-82
TAIR|locus:2124019	612	PPI1 "proton pump interactor 1	0.361	0.539	0.215	1.7e-18
TAIR|locus:504955937	734	AT2G22795 "AT2G22795" [Arabido	0.664	0.826	0.217	7.9e-12
UNIPROTKB|Q8IIG7	1070	PF11_0207 "Uncharacterized pro	0.233	0.199	0.206	8.5e-10
UNIPROTKB|H9KYY1	1184	Gga.30045 "Uncharacterized pro	0.210	0.162	0.261	8.5e-08
CGD|CAL0001468	895	SYS3 [Candida albicans (taxid:	0.315	0.321	0.238	1.7e-07
UNIPROTKB|Q59UF5	895	SYS3 "Potential GRIP domain Go	0.315	0.321	0.238	1.7e-07
DICTYBASE|DDB_G0271058	1528	vilC "villin-like protein C" [	0.332	0.198	0.216	3.3e-07
ZFIN|ZDB-GENE-060503-506	1041	si:ch211-250g4.3 "si:ch211-250	0.267	0.234	0.217	4.4e-07
UNIPROTKB|E3W9A2	1427	CLIP1 "Uncharacterized protein	0.242	0.154	0.216	5e-07

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

 Score = 777 (278.6 bits), Expect = 7.9e-82, Sum P(2) = 7.9e-82
 Identities = 164/331 (49%), Positives = 233/331 (70%)

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 KYKDDTKQANDLASKGDREALQHLCVNQVRS 908
             KY+D+++ A+++A K DR ALQ LC +QV +
Sbjct:  1011 KYRDNSRAASEMALKKDRAALQSLCSDQVEN 1041

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 = 257 (95.5 bits), Expect = 1.7e-18, P = 1.7e-18
 Identities = 75/348 (21%), Positives = 166/348 (47%)

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 YKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQV 906
             Y +   L++Q  + N  +++ +    +A DLA++ +   L+ L   +V
Sbjct:   297 YSNIHDLRRQRDETNSEYYQNRTVLNKARDLAAQKNISELEALANAEV 344

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

 Score = 197 (74.4 bits), Expect = 7.9e-12, P = 7.9e-12
 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

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

 Score = 174 (66.3 bits), Expect = 8.5e-10, Sum P(2) = 8.5e-10
 Identities = 47/228 (20%), Positives = 123/228 (53%)

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--FKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTK 884
              + K+ + +       E++++  ++ + L++Q  ++       +  T+
Sbjct:   691 TEKKKFIPKRVIMYQQELKEKEERNLKLLEQQRKEREMRLQLIRSKTQ 738

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0005737 "cytoplasm" evidence=NAS

GO:0016020 "membrane" evidence=NAS

UNIPROTKB|H9KYY1 Gga.30045 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 161 (61.7 bits), Expect = 8.5e-08, Sum P(2) = 8.5e-08
 Identities = 56/214 (26%), Positives = 107/214 (50%)

Query:   662 DENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEA-AISDERSARESLKS 720
             +E L E+   A+   +   RSRD I D ++      +   + LE   +S ER  +E LKS
Sbjct:   956 EEELEEERSTAELLTERVNRSRDQI-DQLRAELLQERSSRQDLECDKVSLERQNKE-LKS 1013

Query:   721 KRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREI-KQLKQRR 779
             +      + S   M K   SV  ++  +  ++ R+  E    + EK +++   ++L+++ 
Sbjct:  1014 R------LASSEGMQKVGSSVSQLEARLEELQDRLQAE----EREKSVLQSSNRKLERKV 1063

Query:   780 EQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESE 839
             ++++  I   DE Q   DQKDQ+  ++K L+++ D   E + + EAA +  ++   E+ E
Sbjct:  1064 KELTIQID--DERQHVNDQKDQLSLRVKALKRQVDEAEEEIERLEAARKKAQRELEEQHE 1121

Query:   840 KLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKN 873
               ++L G+ KA   + +EA   W+   + A D +
Sbjct:  1122 LNEQLQGRIKA---LEKEA---WRRAARAAADSS 1149

GO:0003774 "motor activity" evidence=IEA

GO:0016459 "myosin complex" evidence=IEA

GO:0043296 "apical junction complex" evidence=IEA

CGD|CAL0001468 SYS3 [Candida albicans (taxid:5476)]

 Score = 165 (63.1 bits), Expect = 1.7e-07, Sum P(2) = 1.7e-07
 Identities = 77/323 (23%), Positives = 161/323 (49%)

Query:   591 EVKENRGIQLTGG-EDGDRTFQDVEGIERSDRCETQTSTPEGSTVDASESRNIGVEVVKQ 649
             E+  N+  +LT   +D +   + ++ +E +DR + +    E +T  +S S+ +  E+ ++
Sbjct:   242 EIINNQNDKLTKDLKDKEEKIESLK-LEITDR-DNKIKDLESNT--SSNSKELNTEL-EE 296

Query:   650 PFYFLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAIS 709
             P     +    D  +  E+     S V + + + D +  +I  +++       ++E   +
Sbjct:   297 PKEVPTEKVNQDKSSSGEENTDKDSSVGDSSDNSDVLNTEISQLKSQLSTKETEVEELTN 356

Query:   710 DERSARESLKSKRQEIDSVQSRINMMKNAI--SVDDIDGSIRNMEHRIAHETLPLKEEK- 766
             + R+ +  L  K +EI+ ++  +  + N +  S D+I  S++N +    +E    KE+  
Sbjct:   357 EVRTLKSQLNDKNEEIEDLRDSVKEIGNELVTSKDEIK-SLKNSQKSTDNEDSTTKEDTN 415

Query:   767 -QI----IR---EIKQLKQRREQISSSIGEHDEVQLAFDQ-KDQIEEKMKFLRKEADSLR 817
              QI    ++   ++K+ K+ +E++  +  E  E +    + +DQ+ ++++ L+++ +S  
Sbjct:   416 TQINDWELKYNSQLKENKELKEELDVATKESKEKEKERKKSEDQLRKQIQTLKQKLEST- 474

Query:   818 ENVIKAEAATQAVKKLHREESEKL-KRL--LGQFKAADE-IRQEAYKHWQSLKKQAYDKN 873
             EN  K E+ T+ +K L  EE EKL KR+  L +FK+ D  ++ E      SLK    +K+
Sbjct:   475 EN--KFESKTKDLKNLS-EEKEKLEKRISELSKFKSNDSSLKLEI----SSLKSSLTNKD 527

Query:   874 QHFWKYK---DDTKQAN-DLASK 892
                 + K   D+ KQ+N  L SK
Sbjct:   528 NSINELKTQVDELKQSNKSLNSK 550

GO:0003674 "molecular_function" evidence=ND

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0043001 "Golgi to plasma membrane protein transport" evidence=IEA

UNIPROTKB|Q59UF5 SYS3 "Potential GRIP domain Golgi protein" [Candida albicans SC5314 (taxid:237561)]

 Score = 165 (63.1 bits), Expect = 1.7e-07, Sum P(2) = 1.7e-07
 Identities = 77/323 (23%), Positives = 161/323 (49%)

Query:   591 EVKENRGIQLTGG-EDGDRTFQDVEGIERSDRCETQTSTPEGSTVDASESRNIGVEVVKQ 649
             E+  N+  +LT   +D +   + ++ +E +DR + +    E +T  +S S+ +  E+ ++
Sbjct:   242 EIINNQNDKLTKDLKDKEEKIESLK-LEITDR-DNKIKDLESNT--SSNSKELNTEL-EE 296

Query:   650 PFYFLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAIS 709
             P     +    D  +  E+     S V + + + D +  +I  +++       ++E   +
Sbjct:   297 PKEVPTEKVNQDKSSSGEENTDKDSSVGDSSDNSDVLNTEISQLKSQLSTKETEVEELTN 356

Query:   710 DERSARESLKSKRQEIDSVQSRINMMKNAI--SVDDIDGSIRNMEHRIAHETLPLKEEK- 766
             + R+ +  L  K +EI+ ++  +  + N +  S D+I  S++N +    +E    KE+  
Sbjct:   357 EVRTLKSQLNDKNEEIEDLRDSVKEIGNELVTSKDEIK-SLKNSQKSTDNEDSTTKEDTN 415

Query:   767 -QI----IR---EIKQLKQRREQISSSIGEHDEVQLAFDQ-KDQIEEKMKFLRKEADSLR 817
              QI    ++   ++K+ K+ +E++  +  E  E +    + +DQ+ ++++ L+++ +S  
Sbjct:   416 TQINDWELKYNSQLKENKELKEELDVATKESKEKEKERKKSEDQLRKQIQTLKQKLEST- 474

Query:   818 ENVIKAEAATQAVKKLHREESEKL-KRL--LGQFKAADE-IRQEAYKHWQSLKKQAYDKN 873
             EN  K E+ T+ +K L  EE EKL KR+  L +FK+ D  ++ E      SLK    +K+
Sbjct:   475 EN--KFESKTKDLKNLS-EEKEKLEKRISELSKFKSNDSSLKLEI----SSLKSSLTNKD 527

Query:   874 QHFWKYK---DDTKQAN-DLASK 892
                 + K   D+ KQ+N  L SK
Sbjct:   528 NSINELKTQVDELKQSNKSLNSK 550

GO:0003674 "molecular_function" evidence=ND

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

 Score = 158 (60.7 bits), Expect = 3.3e-07, P = 3.3e-07
 Identities = 70/323 (21%), Positives = 149/323 (46%)

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 QHFWKYKDDTKQANDLASKGDRE 896
             +      +  KQ  +LA K ++E
Sbjct:   478 KELADKLEKEKQDKELADKLEKE 500

GO:0007010 "cytoskeleton organization" evidence=IEA

GO:0003779 "actin binding" evidence=IEA

ZFIN|ZDB-GENE-060503-506 si:ch211-250g4.3 "si:ch211-250g4.3" [Danio rerio (taxid:7955)]

 Score = 155 (59.6 bits), Expect = 4.4e-07, P = 4.4e-07
 Identities = 57/262 (21%), Positives = 131/262 (50%)

Query:   656 KVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSAR 715
             K  R + +N++++I+  Q ++   T  +  +   I  ++A      E+++    +    R
Sbjct:   156 KQERTEIDNMKQKIQRQQDEITRMTTEKGQLERTITHMKAEIDHIRERMDRNKEEVNRER 215

Query:   716 ESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIRE-IKQ 774
             E ++  R ++ + QS +   +     D+I    +N+E  I +ETL  +EE +  RE  K 
Sbjct:   216 ERVEQMRSDLQAEQSSLQQKR-----DEIMTERQNLE-MIRYETLRQQEELESNRESTKH 269

Query:   775 LKQRREQISSSIG-EHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKL 833
               +R EQ+ S+I  + +E+++   +  + ++ M+ ++ E +  +  + K +   + +K+ 
Sbjct:   270 EMERMEQMKSAIQVQINEIEMKIGETQKAKDLMEQMKAEIEDEKNELEKKK---EDIKR- 325

Query:   834 HREESEKLKRLLGQFKAADEIR-QEAYKHWQSLKKQAY-DKNQHFWKY-KDDTKQANDLA 890
              R++ E++K  L Q K   E R  E  K  + L+++A   + +   KY +D+ ++  +  
Sbjct:   326 QRDQFEQIKLDLQQVKMEMEQRWHETEK--EGLEQRAVIQREKEQLKYLQDEIQRVREEV 383

Query:   891 SKGDREALQ-HLCVNQVRSRTL 911
              +    + Q H  ++Q+R++ L
Sbjct:   384 ERNREFSKQEHARISQLRAQAL 405

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|E3W9A2 CLIP1 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 156 (60.0 bits), Expect = 5.0e-07, P = 5.0e-07
 Identities = 53/245 (21%), Positives = 125/245 (51%)

Query:   673 QSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARES---LKSKRQEIDSVQ 729
             Q  + E ++ ++A+  ++QT++   +++A+  E A+S +RS +E+   L  K ++ +++ 
Sbjct:   825 QENLSEVSQVKEALEKELQTLK---EKFADASEEAVSFQRSMQETVNKLHQKEEQFNALS 881

Query:   730 SRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGE- 788
             S +  ++  ++  D++   R  + R   E L +K ++++  +I  + +     SS + + 
Sbjct:   882 SELEKLRENLT--DMEAKFRERDER--EEQL-IKAKEKLENDIAAIMKMSGDNSSQLTKM 936

Query:   789 HDEVQLAFDQKDQIEEKMKFLRKEADSLRENV----IKAEAATQAVKKLHREESEKLKRL 844
             +DE++L     ++++ K+    + A  L++++    +KAE + +   K H EE ++L R 
Sbjct:   937 NDELRLKERNVEELQLKLTKANENASLLQKSIGEVTLKAEQSQKEAAKKHEEEKKELLRK 996

Query:   845 LGQFKAADEIR----QEAYKHWQSLKKQAYDKN----QHFWKYKDDTKQANDLASKGDRE 896
             L   +   E+     Q+    ++    ++  K+    Q+  K   DT++    A + +RE
Sbjct:   997 LSDLEKKMEMSWNECQDLKARYEEASSESRAKHEEVLQNLHKLLRDTEERLKAAQEENRE 1056

Query:   897 ALQHL 901
              LQ L
Sbjct:  1057 LLQKL 1061

GO:0051010 "microtubule plus-end binding" evidence=IEA

GO:0044354 "macropinosome" evidence=IEA

GO:0035371 "microtubule plus end" evidence=IEA

GO:0031116 "positive regulation of microtubule polymerization" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005881 "cytoplasmic microtubule" evidence=IEA

GO:0005813 "centrosome" evidence=IEA

GO:0001578 "microtubule bundle formation" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	913
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-09
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-08
COG1340	294	COG1340, COG1340, Uncharacterized archaeal coiled-	2e-08
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-07
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	1e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-06
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	1e-05
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	3e-05
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	3e-05
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	4e-05
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	4e-05
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	1e-04
pfam09726	680	pfam09726, Macoilin, Transmembrane protein	2e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	5e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.001
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	0.001
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	0.003
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.004

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

 Score = 62.0 bits (151), Expect = 1e-09
 Identities = 36/237 (15%), Positives = 108/237 (45%), Gaps = 13/237 (5%)

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

Query: 723 QEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIRE---IKQLKQRR 779
            EI  ++ R+  ++N +  ++++  +  ++ +I         ++++      +++L+Q  
Sbjct: 302 GEISLLRERLEELENEL--EELEERLEELKEKI------EALKEELEERETLLEELEQLL 353

Query: 780 EQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESE 839
            ++  +  E +  +      +++EE  + LR+E   L   + +     + +K+      E
Sbjct: 354 AELEEAKEELE--EKLSALLEELEELFEALREELAELEAELAEIRNELEELKREIESLEE 411

Query: 840 KLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDRE 896
           +L+RL  + +   E  +E     + L+ +  + N+   + ++  ++  D   + +RE
Sbjct: 412 RLERLSERLEDLKEELKELEAELEELQTELEELNEELEELEEQLEELRDRLKELERE 468

Length = 1163

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

 Score = 57.8 bits (140), Expect = 2e-08
 Identities = 39/249 (15%), Positives = 103/249 (41%), Gaps = 21/249 (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 KQANDLASK 892
           ++  +  ++
Sbjct: 918 EELREKLAQ 926

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

 Score = 56.2 bits (136), Expect = 2e-08
 Identities = 43/196 (21%), Positives = 93/196 (47%), Gaps = 20/196 (10%)

Query: 665 LREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERS-ARESLKSKRQ 723
           LR++      K DE       +R+  Q +R    E  E++   + ++R      L+  R+
Sbjct: 32  LRKEASELAEKRDELNAKVRELREKAQELREERDEINEEV-QELKEKRDEINAKLQELRK 90

Query: 724 EIDSVQSRIN-MMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQI 782
           E   ++ + N       S+  ++  I  +E +     L  +EE++++++IK+L++  E  
Sbjct: 91  EYRELKEKRNEFNLGGRSIKSLEREIERLEKKQQTSVLTPEEERELVQKIKELRKELE-- 148

Query: 783 SSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLK 842
                   + + A ++ ++++E    L+ E D L+    KA    + +++L  E  E  +
Sbjct: 149 --------DAKKALEENEKLKE----LKAEIDELK---KKAREIHEKIQELANEAQEYHE 193

Query: 843 RLLGQFKAADEIRQEA 858
            ++  F+ ADE+R+EA
Sbjct: 194 EMIKLFEEADELRKEA 209

Length = 294

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

 Score = 53.9 bits (130), Expect = 3e-07
 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|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 52.0 bits (125), Expect = 1e-06
 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|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 50.9 bits (122), Expect = 3e-06
 Identities = 27/226 (11%), Positives = 99/226 (43%), Gaps = 10/226 (4%)

Query: 659 RYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESL 718
               E L E++K+ ++++       + +R  ++ +    +E   +L A   +    +  L
Sbjct: 680 EAQLEKLEEELKSLKNELRSLEDLLEELRRQLEELERQLEELKRELAALEEELEQLQSRL 739

Query: 719 KSKRQEIDSVQSRINMMKNAIS-----VDDIDGSIRNMEHRIAHETLPLKEEKQIIREIK 773
           +   +E++ ++  +  ++  +      ++ ++ ++  ++  I       +  ++ + E++
Sbjct: 740 EELEEELEELEEELEELQERLEELEEELESLEEALAKLKEEIEELEEKRQALQEELEELE 799

Query: 774 QLKQRREQISSSIGEH-----DEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQ 828
           +  +  E+   ++           +    + +++EE+++ L ++ D L E + + E   +
Sbjct: 800 EELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELE 859

Query: 829 AVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQ 874
            +K+   E   + + L  + K  +E ++E  +  + L+ +  +  +
Sbjct: 860 ELKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAELKE 905

Length = 1163

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

 Score = 48.9 bits (117), Expect = 1e-05
 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|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 47.8 bits (114), Expect = 3e-05
 Identities = 42/182 (23%), Positives = 93/182 (51%), Gaps = 16/182 (8%)

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 RL 844
           RL
Sbjct: 353 RL 354

Length = 880

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

 Score = 47.4 bits (113), Expect = 3e-05
 Identities = 35/264 (13%), Positives = 105/264 (39%), Gaps = 31/264 (11%)

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 EQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEA-------------- 825
           E++     E +E++    + +++EE++K L ++ + L    +                  
Sbjct: 410 EELEELEKELEELE---RELEELEEEIKKLEEQINQLESKELMIAELAGAGEKCPVCGQE 466

Query: 826 ----ATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKH---WQSLKKQAYDKNQHFWK 878
                 + + +L+  E E+L+  L + K   E+R+E  +     + L+++  +  +    
Sbjct: 467 LPEEHEKELLELYELELEELEEELSREKEEAELREEIEELEKELRELEEELIELLELEEA 526

Query: 879 YKDDTKQANDLASKGDREALQHLC 902
            K++ ++  +       E L+ L 
Sbjct: 527 LKEELEEKLEKLEN-LLEELEELK 549

Length = 908

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

 Score = 47.0 bits (112), Expect = 4e-05
 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|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 47.0 bits (112), Expect = 4e-05
 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|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 45.4 bits (108), Expect = 1e-04
 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|220365 pfam09726, Macoilin, Transmembrane protein

 Score = 44.5 bits (105), Expect = 2e-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|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 43.5 bits (103), Expect = 5e-04
 Identities = 34/223 (15%), Positives = 101/223 (45%), Gaps = 27/223 (12%)

Query: 659 RYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEA----------AI 708
               E L+ ++ A + ++++     + + ++++ +    +E  E+LE           A+
Sbjct: 715 ERQLEELKRELAALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEELESLEEAL 774

Query: 709 SDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPL----KE 764
           +  +   E L+ KRQ +   Q  +  ++  +   + +  +  +E  +           +E
Sbjct: 775 AKLKEEIEELEEKRQAL---QEELEELEEELE--EAERRLDALERELESLEQRRERLEQE 829

Query: 765 EKQIIREIKQLKQRREQISSSIGE--------HDEVQLAFDQKDQIEEKMKFLRKEADSL 816
            +++  EI++L+++ +++   + E         +E++    +K+++E+++K L +E + L
Sbjct: 830 IEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKELEEEKEEL 889

Query: 817 RENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAY 859
            E + + E+    +K+   +  E+L+ L  + +  +    E  
Sbjct: 890 EEELRELESELAELKEEIEKLRERLEELEAKLERLEVELPELE 932

Length = 1163

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

 Score = 42.4 bits (100), Expect = 0.001
 Identities = 33/181 (18%), Positives = 81/181 (44%), Gaps = 15/181 (8%)

Query: 663  ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKR 722
            E L  +++A  ++      +   +R +++ +    +E   K      +    RE L    
Sbjct: 869  EELESELEALLNERASLEEALALLRSELEELSEELRELESKRSELRRELEELREKLAQLE 928

Query: 723  QEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQI 782
              ++ ++ RI+ ++  +S +        +E   A E     +E++  R +K+L+ + +++
Sbjct: 929  LRLEGLEVRIDNLQERLSEEYSL----TLEEAEALENKIEDDEEEARRRLKRLENKIKEL 984

Query: 783  SSSIGEHDEVQL-AFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKL 841
                     V L A ++ ++++E+  FL  + + L E     E   +A++++ RE  E+ 
Sbjct: 985  G-------PVNLAAIEEYEELKERYDFLTAQKEDLTEAKETLE---EAIEEIDREARERF 1034

Query: 842  K 842
            K
Sbjct: 1035 K 1035

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 = 42.4 bits (100), Expect = 0.001
 Identities = 37/204 (18%), Positives = 90/204 (44%), Gaps = 15/204 (7%)

Query: 663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAIS--DERSARESLKS 720
           E L  Q +A + ++       + + ++I  +    +E  + LE       +    E L+ 
Sbjct: 233 EALERQKEAIERQLASLEEELEKLTEEISELEKRLEEIEQLLEELNKKIKDLGEEEQLRV 292

Query: 721 KRQEIDSVQSRINMMKNAIS-----VDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQL 775
           K  +I  +++ I  ++ +I+     ++D +  +  +E  I  + L   EE  + REI++ 
Sbjct: 293 KE-KIGELEAEIASLERSIAEKERELEDAEERLAKLEAEI-DKLLAEIEE--LEREIEEE 348

Query: 776 KQRREQISSSIGE-HDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLH 834
           ++RR++++    E  +E++    + ++++++    R E    RE   K E   + + +L 
Sbjct: 349 RKRRDKLTEEYAELKEELEDLRAELEEVDKEFAETRDELKDYRE---KLEKLKREINELK 405

Query: 835 REESEKLKRLLGQFKAADEIRQEA 858
           RE     + L    +   ++    
Sbjct: 406 RELDRLQEELQRLSEELADLNAAI 429

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|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional

 Score = 40.8 bits (96), Expect = 0.003
 Identities = 43/197 (21%), Positives = 89/197 (45%), Gaps = 23/197 (11%)

Query: 663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKR 722
           E L E+ +  +  + E+  + +  R+  + +R    E   + E        A E  +  R
Sbjct: 512 ERLEERREDLEELIAERRETIEEKRERAEELRERAAELEAEAEEKREAAAEAEEEAEEAR 571

Query: 723 QEIDSVQSRINMMKNAI----SVDDIDGSIRNMEHRIAHETLPLKEEKQIIREI-----K 773
           +E+  + S++  +K  I     +  +  +I + E  I      L+E+++ + E+     +
Sbjct: 572 EEVAELNSKLAELKERIESLERIRTLLAAIADAEDEIER----LREKREALAELNDERRE 627

Query: 774 QLKQRREQISSSIGEHDEVQLAFDQKD---------QIEEKMKFLRKEADSLRENVIKAE 824
           +L ++RE+      E DE ++   ++D         Q+EEK+  LR+E D L+  +   E
Sbjct: 628 RLAEKRERKRELEAEFDEARIEEAREDKERAEEYLEQVEEKLDELREERDDLQAEIGAVE 687

Query: 825 AATQAVKKLHREESEKL 841
              + +++L RE  E L
Sbjct: 688 NELEELEEL-RERREAL 703

Length = 880

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

 Score = 40.8 bits (96), Expect = 0.004
 Identities = 27/191 (14%), Positives = 84/191 (43%), Gaps = 3/191 (1%)

Query: 668 QIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDS 727
           +++  + +++E         ++++ + A  +E  EKLE    +     E ++  ++E+ +
Sbjct: 233 RLEELREELEELQEELKEAEEELEELTAELQELEEKLEELRLEVSELEEEIEELQKELYA 292

Query: 728 VQSRINMMKNAISVDDIDGSIRNMEHRIAH-ETLPLKEEKQIIREIKQLKQRREQISSSI 786
           + + I+ ++    +  +   + N+E ++   E    + E ++    ++L +  E++    
Sbjct: 293 LANEISRLEQQKQI--LRERLANLERQLEELEAQLEELESKLDELAEELAELEEKLEELK 350

Query: 787 GEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLG 846
            E + ++   ++ +   E+++   +E +   E +    A  +        E E+L+  L 
Sbjct: 351 EELESLEAELEELEAELEELESRLEELEEQLETLRSKVAQLELQIASLNNEIERLEARLE 410

Query: 847 QFKAADEIRQE 857
           + +   E  Q+
Sbjct: 411 RLEDRRERLQQ 421

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	913
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	99.65
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	99.53
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	99.18
PHA02562	562	46 endonuclease subunit; Provisional	98.64
PRK02224	880	chromosome segregation protein; Provisional	98.63
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	98.58
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	98.49
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	98.45
PRK11637	428	AmiB activator; Provisional	98.31
PHA02562	562	46 endonuclease subunit; Provisional	98.31
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	98.3
PRK02224	880	chromosome segregation protein; Provisional	98.3
PRK11637	428	AmiB activator; Provisional	98.3
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	98.29
PRK03918	880	chromosome segregation protein; Provisional	98.28
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	98.18
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	98.09
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	98.09
KOG0996	1293	consensus Structural maintenance of chromosome pro	98.08
KOG0996	1293	consensus Structural maintenance of chromosome pro	98.04
PRK01156	895	chromosome segregation protein; Provisional	98.02
PRK03918	880	chromosome segregation protein; Provisional	98.01
COG4372	499	Uncharacterized protein conserved in bacteria with	97.98
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	97.98
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	97.95
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	97.92
KOG0964	1200	consensus Structural maintenance of chromosome pro	97.91
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	97.9
PF00038	312	Filament: Intermediate filament protein; InterPro:	97.87
KOG0971	1243	consensus Microtubule-associated protein dynactin	97.86
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	97.85
KOG0964	1200	consensus Structural maintenance of chromosome pro	97.85
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	97.84
PRK01156	895	chromosome segregation protein; Provisional	97.82
KOG0933	1174	consensus Structural maintenance of chromosome pro	97.82
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	97.78
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	97.76
PRK04778	569	septation ring formation regulator EzrA; Provision	97.76
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	97.75
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	97.74
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	97.7
COG4942	420	Membrane-bound metallopeptidase [Cell division and	97.69
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	97.67
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	97.67
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	97.63
PF00038	312	Filament: Intermediate filament protein; InterPro:	97.61
COG4942	420	Membrane-bound metallopeptidase [Cell division and	97.58
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	97.57
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	97.57
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	97.56
KOG4673	961	consensus Transcription factor TMF, TATA element m	97.55
PRK04863	1486	mukB cell division protein MukB; Provisional	97.54
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	97.5
KOG0933	1174	consensus Structural maintenance of chromosome pro	97.48
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	97.4
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	97.4
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	97.38
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	97.37
KOG0979	1072	consensus Structural maintenance of chromosome pro	97.36
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	97.33
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	97.32
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	97.31
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	97.3
KOG0018	1141	consensus Structural maintenance of chromosome pro	97.3
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	97.29
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	97.26
PRK04778	569	septation ring formation regulator EzrA; Provision	97.25
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	97.25
PRK04863	1486	mukB cell division protein MukB; Provisional	97.24
KOG0971	1243	consensus Microtubule-associated protein dynactin	97.21
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	97.21
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	97.21
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	97.2
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	97.16
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	97.15
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	97.13
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	97.11
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	97.1
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	97.1
COG5185	622	HEC1 Protein involved in chromosome segregation, i	97.1
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	97.07
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	97.04
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	97.04
PRK09039	343	hypothetical protein; Validated	97.03
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	97.03
COG5185	622	HEC1 Protein involved in chromosome segregation, i	96.96
KOG0979	1072	consensus Structural maintenance of chromosome pro	96.95
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	96.94
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	96.91
COG4372	499	Uncharacterized protein conserved in bacteria with	96.9
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	96.87
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	96.83
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	96.68
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	96.68
PRK09039	343	hypothetical protein; Validated	96.66
TIGR00634	563	recN DNA repair protein RecN. All proteins in this	96.64
PF13514	1111	AAA_27: AAA domain	96.58
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	96.57
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	96.55
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	96.53
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	96.51
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	96.44
KOG1937	521	consensus Uncharacterized conserved protein [Funct	96.43
KOG0018	1141	consensus Structural maintenance of chromosome pro	96.38
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	96.36
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	96.36
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	96.35
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	96.35
cd07627	216	BAR_Vps5p The Bin/Amphiphysin/Rvs (BAR) domain of	96.34
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	96.31
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	96.29
PF09728	309	Taxilin: Myosin-like coiled-coil protein; InterPro	96.29
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	96.29
PF09325	236	Vps5: Vps5 C terminal like; InterPro: IPR015404 Vp	96.27
cd07664	234	BAR_SNX2 The Bin/Amphiphysin/Rvs (BAR) domain of S	96.18
COG4477	570	EzrA Negative regulator of septation ring formatio	96.18
PF06705	247	SF-assemblin: SF-assemblin/beta giardin	96.16
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	96.16
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	96.13
PRK11281	1113	hypothetical protein; Provisional	96.12
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	96.11
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	96.1
KOG0963	629	consensus Transcription factor/CCAAT displacement	96.1
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	96.09
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	96.09
PRK10929	1109	putative mechanosensitive channel protein; Provisi	96.08
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	96.03
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	95.96
PF14662	193	CCDC155: Coiled-coil region of CCDC155	95.93
PF14662	193	CCDC155: Coiled-coil region of CCDC155	95.85
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	95.78
KOG1003	205	consensus Actin filament-coating protein tropomyos	95.69
PF09728	309	Taxilin: Myosin-like coiled-coil protein; InterPro	95.67
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	95.65
PRK10929	1109	putative mechanosensitive channel protein; Provisi	95.63
cd07623	224	BAR_SNX1_2 The Bin/Amphiphysin/Rvs (BAR) domain of	95.62
PRK10869	553	recombination and repair protein; Provisional	95.59
KOG4673	961	consensus Transcription factor TMF, TATA element m	95.59
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	95.53
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	95.53
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	95.45
PRK10698	222	phage shock protein PspA; Provisional	95.37
cd07596	218	BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of So	95.37
KOG4809	654	consensus Rab6 GTPase-interacting protein involved	95.36
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	95.3
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	95.25
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	95.23
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	95.19
COG4477	570	EzrA Negative regulator of septation ring formatio	95.17
PF10186	302	Atg14: UV radiation resistance protein and autopha	95.16
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	95.16
cd07665	234	BAR_SNX1 The Bin/Amphiphysin/Rvs (BAR) domain of S	95.15
PF13514	1111	AAA_27: AAA domain	95.12
TIGR00634	563	recN DNA repair protein RecN. All proteins in this	95.11
PF12252	1439	SidE: Dot/Icm substrate protein; InterPro: IPR0210	95.08
PF10186	302	Atg14: UV radiation resistance protein and autopha	95.08
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	95.03
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	95.01
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	94.99
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	94.8
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	94.68
KOG4809	654	consensus Rab6 GTPase-interacting protein involved	94.67
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	94.67
KOG4593	716	consensus Mitotic checkpoint protein MAD1 [Cell cy	94.65
TIGR02977	219	phageshock_pspA phage shock protein A. Members of	94.65
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	94.56
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	94.56
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	94.53
PF13166	712	AAA_13: AAA domain	94.47
KOG0963	629	consensus Transcription factor/CCAAT displacement	94.41
PF15066	527	CAGE1: Cancer-associated gene protein 1 family	94.36
PLN02939	977	transferase, transferring glycosyl groups	94.32
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	94.31
PF15450	531	DUF4631: Domain of unknown function (DUF4631)	94.25
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	94.25
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	94.17
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	94.08
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	93.91
PF15397	258	DUF4618: Domain of unknown function (DUF4618)	93.88
KOG4360	596	consensus Uncharacterized coiled coil protein [Fun	93.84
PF04912	388	Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamit	93.65
KOG4572	1424	consensus Predicted DNA-binding transcription fact	93.64
KOG2129	552	consensus Uncharacterized conserved protein H4 [Fu	93.62
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	93.57
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	93.46
KOG1850	391	consensus Myosin-like coiled-coil protein [Cytoske	93.44
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	93.42
KOG4302	660	consensus Microtubule-associated protein essential	93.33
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	93.23
PRK11281	1113	hypothetical protein; Provisional	93.16
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	93.14
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	93.09
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	93.09
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	92.73
PF09766	355	FimP: Fms-interacting protein; InterPro: IPR019163	92.71
PF13949	296	ALIX_LYPXL_bnd: ALIX V-shaped domain binding to HI	92.67
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	92.66
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	92.66
PF13949	296	ALIX_LYPXL_bnd: ALIX V-shaped domain binding to HI	92.66
PF15450	531	DUF4631: Domain of unknown function (DUF4631)	92.65
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	92.53
PF04949	159	Transcrip_act: Transcriptional activator; InterPro	92.5
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	92.5
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	92.45
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	92.45
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	92.43
PF06705	247	SF-assemblin: SF-assemblin/beta giardin	92.32
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	92.1
PF15066	527	CAGE1: Cancer-associated gene protein 1 family	92.01
cd09234	337	V_HD-PTP_like Protein-interacting V-domain of mamm	91.7
PF15290	305	Syntaphilin: Golgi-localised syntaxin-1-binding cl	91.67
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	91.65
PRK10869	553	recombination and repair protein; Provisional	91.49
KOG1937	521	consensus Uncharacterized conserved protein [Funct	91.49
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	91.49
PRK10246	1047	exonuclease subunit SbcC; Provisional	91.48
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	91.41
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	91.37
PF10234	267	Cluap1: Clusterin-associated protein-1; InterPro:	91.35
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	91.22
COG4026	290	Uncharacterized protein containing TOPRIM domain,	91.1
cd09235	339	V_Alix Middle V-domain of mammalian Alix and relat	91.05
KOG0239	670	consensus Kinesin (KAR3 subfamily) [Cytoskeleton]	91.04
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	90.94
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	90.86
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	90.84
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	90.81
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	90.58
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	90.4
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	90.36
KOG4438	446	consensus Centromere-associated protein NUF2 [Cell	90.16
KOG1899	861	consensus LAR transmembrane tyrosine phosphatase-i	90.14
PRK10361	475	DNA recombination protein RmuC; Provisional	89.91
PRK10884	206	SH3 domain-containing protein; Provisional	89.86
KOG4360	596	consensus Uncharacterized coiled coil protein [Fun	89.74
KOG1899	861	consensus LAR transmembrane tyrosine phosphatase-i	89.71
KOG2273	503	consensus Membrane coat complex Retromer, subunit	89.64
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	89.64
PLN03188	1320	kinesin-12 family protein; Provisional	89.6
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	89.58
smart00502	127	BBC B-Box C-terminal domain. Coiled coil region C-	89.57
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	89.54
COG0497	557	RecN ATPase involved in DNA repair [DNA replicatio	89.53
KOG3647	338	consensus Predicted coiled-coil protein [General f	89.39
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	89.36
KOG0982	502	consensus Centrosomal protein Nuf [Cell cycle cont	89.26
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	89.25
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	89.11
COG2433	652	Uncharacterized conserved protein [Function unknow	88.74
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	88.62
PF14988	206	DUF4515: Domain of unknown function (DUF4515)	88.58
KOG2129	552	consensus Uncharacterized conserved protein H4 [Fu	88.49
cd08915	342	V_Alix_like Protein-interacting V-domain of mammal	88.32
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	88.29
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	88.29
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	88.23
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	87.92
PF15254	861	CCDC14: Coiled-coil domain-containing protein 14	87.88
PF05278	269	PEARLI-4: Arabidopsis phospholipase-like protein (	87.69
cd07666	243	BAR_SNX7 The Bin/Amphiphysin/Rvs (BAR) domain of S	87.58
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	87.2
KOG4302	660	consensus Microtubule-associated protein essential	87.13
KOG0244	913	consensus Kinesin-like protein [Cytoskeleton]	87.12
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	87.05
COG4026	290	Uncharacterized protein containing TOPRIM domain,	86.98
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	86.7
PF15294	278	Leu_zip: Leucine zipper	86.61
KOG2991	330	consensus Splicing regulator [RNA processing and m	86.56
PTZ00440	2722	reticulocyte binding protein 2-like protein; Provi	86.29
TIGR03545	555	conserved hypothetical protein TIGR03545. This mod	86.22
PF04065	233	Not3: Not1 N-terminal domain, CCR4-Not complex com	86.15
PF03915	424	AIP3: Actin interacting protein 3; InterPro: IPR02	86.12
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	86.1
TIGR02894	161	DNA_bind_RsfA transcription factor, RsfA family. I	85.91
COG0497	557	RecN ATPase involved in DNA repair [DNA replicatio	85.82
PRK09841	726	cryptic autophosphorylating protein tyrosine kinas	85.76
PF12795	240	MscS_porin: Mechanosensitive ion channel porin dom	85.68
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	85.58
KOG0239	670	consensus Kinesin (KAR3 subfamily) [Cytoskeleton]	85.58
TIGR03545	555	conserved hypothetical protein TIGR03545. This mod	85.44
cd07596	218	BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of So	85.44
PRK10361	475	DNA recombination protein RmuC; Provisional	85.4
PF09738	302	DUF2051: Double stranded RNA binding protein (DUF2	85.4
PF05384	159	DegS: Sensor protein DegS; InterPro: IPR008595 Thi	85.38
PRK10884	206	SH3 domain-containing protein; Provisional	85.21
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	85.21
cd07667	240	BAR_SNX30 The Bin/Amphiphysin/Rvs (BAR) domain of	85.04
PF06009	138	Laminin_II: Laminin Domain II; InterPro: IPR010307	84.99
smart00283	262	MA Methyl-accepting chemotaxis-like domains (chemo	84.89
PF12252	1439	SidE: Dot/Icm substrate protein; InterPro: IPR0210	84.77
PRK03947	140	prefoldin subunit alpha; Reviewed	84.68
PF15254	861	CCDC14: Coiled-coil domain-containing protein 14	84.6
COG2433	652	Uncharacterized conserved protein [Function unknow	84.53
smart00806	426	AIP3 Actin interacting protein 3. Aip3p/Bud6p is a	84.47
TIGR01612	2757	235kDa-fam reticulocyte binding/rhoptry protein. T	84.47
PF12795	240	MscS_porin: Mechanosensitive ion channel porin dom	84.45
PF14197	69	Cep57_CLD_2: Centrosome localisation domain of PPC	84.27
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	84.11
KOG1103	561	consensus Predicted coiled-coil protein [Function	84.1
smart00503	117	SynN Syntaxin N-terminal domain. Three-helix domai	84.09
COG5293	591	Predicted ATPase [General function prediction only	83.96
PF06120	301	Phage_HK97_TLTM: Tail length tape measure protein;	83.66
cd00179	151	SynN Syntaxin N-terminus domain; syntaxins are ner	83.6
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	83.16
PF14992	280	TMCO5: TMCO5 family	82.87
PF15035	182	Rootletin: Ciliary rootlet component, centrosome c	82.78
PF10234	267	Cluap1: Clusterin-associated protein-1; InterPro:	82.67
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	82.49
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	82.16
PRK11519	719	tyrosine kinase; Provisional	82.14
KOG4603	201	consensus TBP-1 interacting protein [Signal transd	82.11
cd09236	353	V_AnPalA_UmRIM20_like Protein-interacting V-domain	82.11
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	82.09
KOG4603	201	consensus TBP-1 interacting protein [Signal transd	82.08
cd09234	337	V_HD-PTP_like Protein-interacting V-domain of mamm	82.06
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	82.04
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	81.95
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	81.76
PF08647	96	BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR01395	81.54
cd09237	356	V_ScBro1_like Protein-interacting V-domain of Sacc	81.46
PF06548	488	Kinesin-related: Kinesin-related; InterPro: IPR010	81.28
KOG0240	607	consensus Kinesin (SMY1 subfamily) [Cytoskeleton]	81.24
cd07624	200	BAR_SNX7_30 The Bin/Amphiphysin/Rvs (BAR) domain o	81.21
cd09237	356	V_ScBro1_like Protein-interacting V-domain of Sacc	81.03
KOG4572	1424	consensus Predicted DNA-binding transcription fact	80.81
KOG0288	459	consensus WD40 repeat protein TipD [General functi	80.8
KOG1103	561	consensus Predicted coiled-coil protein [Function	80.75
cd09238	339	V_Alix_like_1 Protein-interacting V-domain of an u	80.56
PRK05431	425	seryl-tRNA synthetase; Provisional	80.38
KOG3647	338	consensus Predicted coiled-coil protein [General f	80.24
PF03148	384	Tektin: Tektin family; InterPro: IPR000435 Tektin	80.16
KOG0249	916	consensus LAR-interacting protein and related prot	80.09
COG5283	1213	Phage-related tail protein [Function unknown]	80.03
TIGR02338	110	gimC_beta prefoldin, beta subunit, archaeal. Chape	80.02

>TIGR00606 rad50 rad50

Probab=99.65  E-value=1.4e-14  Score=180.15  Aligned_cols=271  Identities=11%  Similarity=0.117  Sum_probs=243.0

Q ss_pred             CCCCCCCChhhhhhhhcc--ccCCCC--cCCCchhhhhhhcccccccc--CcceeeccCCCCC---chHHHHHHHHHHHH
Q 002520          605 DGDRTFQDVEGIERSDRC--ETQTST--PEGSTVDASESRNIGVEVVK--QPFYFLVKVPRYD---DENLREQIKAAQSK  675 (913)
Q Consensus       605 ~~~RsFedeeefkkFLkk--eklDk~--~eesLKDaVEe~kE~Ld~LR--r~fYf~Vr~rRLd---DPeLKaKIdeLekE  675 (913)
                      -|.|+|.+++++..|+++  .+++..  +...+...+..+++.++.++  .+.|  .+|+++.   -|.|+.++..+..+
T Consensus       682 LC~R~f~~eee~~~f~~~L~~~~~~~p~~~~~~~~~~~~~~~~~e~l~~l~~~~--~~~~~l~~~eip~l~~~l~~le~~  759 (1311)
T TIGR00606       682 VCQRVFQTEAELQEFISDLQSKLRLAPDKLKSTESELKKKEKRRDEMLGLAPGR--QSIIDLKEKEIPELRNKLQKVNRD  759 (1311)
T ss_pred             CCCCCCCChhHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHHHHHHHHHhhhhH--HHHHHHHHhhchhHHHHHHHHHHH
Confidence            499999999776799988  777776  66899999999999999998  8888  8888873   39999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHH
Q 002520          676 VDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRI  755 (913)
Q Consensus       676 IEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLsKLrS~KSVEELQeEIkeLE~QI  755 (913)
                      +..+..++..+...+..++.+++.+.+ |...+..+.++..++.++.++|+.|..++.......|+++|+.+|..++.++
T Consensus       760 l~~~~~~le~~~~~l~~~~~~~~~~es-L~~~v~~i~r~~~ei~~l~~qie~l~~~l~~~~~~~s~~ele~ei~~~~~el  838 (1311)
T TIGR00606       760 IQRLKNDIEEQETLLGTIMPEEESAKV-CLTDVTIMERFQMELKDVERKIAQQAAKLQGSDLDRTVQQVNQEKQEKQHEL  838 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccCCHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999 9999999999999999999999999998876665679999999999999999


Q ss_pred             hhcC--C-CcHHHHH-HHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          756 AHET--L-PLKEEKQ-IIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVK  831 (913)
Q Consensus       756 QheS--L-sLqEEKQ-lIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEIDELReKIkkLekELEeLk  831 (913)
                      ...+  + .++.++. +.++|++|+..+..+...-.   ++..++.++..++.+|.++..++.+++..+..++.++..+.
T Consensus       839 ~~l~~~~e~l~~e~e~~~~eI~~Lq~ki~el~~~kl---kl~~~l~~r~~le~~L~el~~el~~l~~~~~~~~~~~~~~~  915 (1311)
T TIGR00606       839 DTVVSKIELNRKLIQDQQEQIQHLKSKTNELKSEKL---QIGTNLQRRQQFEEQLVELSTEVQSLIREIKDAKEQDSPLE  915 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence            9987  5 7888888 99999999666655443333   56668889999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          832 KLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKD  881 (913)
Q Consensus       832 kKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr  881 (913)
                      +++..+..++..++.+.+....+.+..+..+....+++..++.....|-.
T Consensus       916 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~y~~  965 (1311)
T TIGR00606       916 TFLEKDQQEKEELISSKETSNKKAQDKVNDIKEKVKNIHGYMKDIENKIQ  965 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999998887665543

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

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

Probab=99.53  E-value=5e-11  Score=128.11  Aligned_cols=212  Identities=18%  Similarity=0.322  Sum_probs=153.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQS------------  730 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQS------------  730 (913)
                      ..+..++..+...+..++..|++++..+.+++++|++++.+.+.+++.+..++...+.+..++..++.            
T Consensus         9 ~E~e~K~~~lk~~~~e~~ekR~El~~~~~~~~ekRdeln~kvrE~~e~~~elr~~rdeineev~elK~kR~ein~kl~eL   88 (294)
T COG1340           9 DELELKRKQLKEEIEELKEKRDELRKEASELAEKRDELNAKVRELREKAQELREERDEINEEVQELKEKRDEINAKLQEL   88 (294)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44566666777777777777788888888888888888887777777665555555444444443322            


Q ss_pred             ---------HHHhc-cCCCCHHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHhHH
Q 002520          731 ---------RINMM-KNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKD  800 (913)
Q Consensus       731 ---------eLsKL-rS~KSVEELQeEIkeLE~QIQheSLsLqEEKQlIrEISQLEkeRKdV~snIs~kakIEqSLeEKe  800 (913)
                               ..+.. .+.+++..|...|++|++.++|..|++.+|++++..|+.|++.+..+..          .+    
T Consensus        89 ~~~~~~l~e~~~~~~~~~~~~~~ler~i~~Le~~~~T~~L~~e~E~~lvq~I~~L~k~le~~~k----------~~----  154 (294)
T COG1340          89 RKEYRELKEKRNEFNLGGRSIKSLEREIERLEKKQQTSVLTPEEERELVQKIKELRKELEDAKK----------AL----  154 (294)
T ss_pred             HHHHHHHHHHhhhhhccCCCHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHH----------HH----
Confidence                     12211 2358999999999999999999999999999999999999999876321          12    


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYK  880 (913)
Q Consensus       801 nIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~R  880 (913)
                      .....++++.+++++++.+...++.++..|..+.++...++..+..+.+.+..+.+..+..+.++....+++|.+|.+.+
T Consensus       155 e~~~~~~el~aei~~lk~~~~e~~eki~~la~eaqe~he~m~k~~~~~De~Rkeade~he~~ve~~~~~~e~~ee~~~~~  234 (294)
T COG1340         155 EENEKLKELKAEIDELKKKAREIHEKIQELANEAQEYHEEMIKLFEEADELRKEADELHEEFVELSKKIDELHEEFRNLQ  234 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            23355666777777777777777777777777777777777777777777777777777777777777777777777666


Q ss_pred             HHHHHHHH
Q 002520          881 DDTKQAND  888 (913)
Q Consensus       881 r~l~kARd  888 (913)
                      ..++....
T Consensus       235 ~elre~~k  242 (294)
T COG1340         235 NELRELEK  242 (294)
T ss_pred             HHHHHHHH
Confidence            66555443

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

Probab=99.18  E-value=3.8e-08  Score=106.32  Aligned_cols=201  Identities=17%  Similarity=0.277  Sum_probs=118.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-------cC-----CCCHHHHH
Q 002520          678 EKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMM-------KN-----AISVDDID  745 (913)
Q Consensus       678 eL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLsKL-------rS-----~KSVEELQ  745 (913)
                      .+..++..+...+..+..+|++++.+++.++++...++..+.+++.+++.++++...+       +.     +..+.+|-
T Consensus        10 E~e~K~~~lk~~~~e~~ekR~El~~~~~~~~ekRdeln~kvrE~~e~~~elr~~rdeineev~elK~kR~ein~kl~eL~   89 (294)
T COG1340          10 ELELKRKQLKEEIEELKEKRDELRKEASELAEKRDELNAKVRELREKAQELREERDEINEEVQELKEKRDEINAKLQELR   89 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444555566666677777777777777777777777777777776666554332       21     11222222


Q ss_pred             HHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHH------HHHHHHH
Q 002520          746 GSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKE------ADSLREN  819 (913)
Q Consensus       746 eEIkeLE~QIQheSLsLqEEKQlIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKE------IDELReK  819 (913)
                      ..+..+-......++..-.=+.+.++|.+|+.............          ..+-.+|..++++      +.....+
T Consensus        90 ~~~~~l~e~~~~~~~~~~~~~~ler~i~~Le~~~~T~~L~~e~E----------~~lvq~I~~L~k~le~~~k~~e~~~~  159 (294)
T COG1340          90 KEYRELKEKRNEFNLGGRSIKSLEREIERLEKKQQTSVLTPEEE----------RELVQKIKELRKELEDAKKALEENEK  159 (294)
T ss_pred             HHHHHHHHHhhhhhccCCCHHHHHHHHHHHHHHHHhcCCChHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            22222222222111111111225556666665554433333211          1222333333333      3334455


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          820 VIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQAND  888 (913)
Q Consensus       820 IkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARd  888 (913)
                      +..+.+++..+..+..+++.++.++.++.+..+.++.+.|..+.++|+..+.+|..|.+++..+...++
T Consensus       160 ~~el~aei~~lk~~~~e~~eki~~la~eaqe~he~m~k~~~~~De~Rkeade~he~~ve~~~~~~e~~e  228 (294)
T COG1340         160 LKELKAEIDELKKKAREIHEKIQELANEAQEYHEEMIKLFEEADELRKEADELHEEFVELSKKIDELHE  228 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence            666667777777888888888888888888888888888999999999999999988888776655443

>PHA02562 46 endonuclease subunit; Provisional

Probab=98.64  E-value=3.5e-05  Score=88.04  Aligned_cols=101  Identities=13%  Similarity=0.207  Sum_probs=51.0

Q ss_pred             HHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          768 IIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQ  847 (913)
Q Consensus       768 lIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeE  847 (913)
                      +..+|..|+.+++.+..          .+.+.+....+++.+...+.+++..+...+..+..+..++..++.++.++..+
T Consensus       304 l~d~i~~l~~~l~~l~~----------~i~~~~~~~~~~~~~~~~i~el~~~i~~~~~~i~~~~~~~~~l~~ei~~l~~~  373 (562)
T PHA02562        304 IKDKLKELQHSLEKLDT----------AIDELEEIMDEFNEQSKKLLELKNKISTNKQSLITLVDKAKKVKAAIEELQAE  373 (562)
T ss_pred             HHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            44455555555544333          33333333334444444444455555554444555555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          848 FKAADEIRQEAYKHWQSLKKQAYDKNQHFWK  878 (913)
Q Consensus       848 lrAaeEeRQEAyekIkELRkQ~DeLNsEFyq  878 (913)
                      ......++.+...+|.++..+...+..+...
T Consensus       374 ~~~~~~~l~~l~~~l~~~~~~~~~~~ke~~~  404 (562)
T PHA02562        374 FVDNAEELAKLQDELDKIVKTKSELVKEKYH  404 (562)
T ss_pred             hhchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555666666655555555443

>PRK02224 chromosome segregation protein; Provisional

Probab=98.63  E-value=1.4e-05  Score=96.45  Aligned_cols=43  Identities=7%  Similarity=-0.056  Sum_probs=26.4

Q ss_pred             CCCCCCCChhhhhhhhcc--ccCCCC--cCCCchhhhhhhcccccccc
Q 002520          605 DGDRTFQDVEGIERSDRC--ETQTST--PEGSTVDASESRNIGVEVVK  648 (913)
Q Consensus       605 ~~~RsFedeeefkkFLkk--eklDk~--~eesLKDaVEe~kE~Ld~LR  648 (913)
                      -|.|+|... ....|+.+  ..++..  ....+...++.++..++.++
T Consensus       456 ~C~r~~~~~-~~~~~~~~~~~~~~~~~~~~~~le~~l~~~~~~~e~l~  502 (880)
T PRK02224        456 ECGQPVEGS-PHVETIEEDRERVEELEAELEDLEEEVEEVEERLERAE  502 (880)
T ss_pred             CCCCcCCCc-chhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            388999888 33456655  444443  34666666777766666543

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

Probab=98.58  E-value=4.6e-06  Score=103.44  Aligned_cols=269  Identities=17%  Similarity=0.206  Sum_probs=183.2

Q ss_pred             CCCCCCCChhhhhhhhcc--ccCCCCcCCCchhhhhhhccccc--cc-cCcceeeccCCCC-C--chHHHHHHHHHHHHH
Q 002520          605 DGDRTFQDVEGIERSDRC--ETQTSTPEGSTVDASESRNIGVE--VV-KQPFYFLVKVPRY-D--DENLREQIKAAQSKV  676 (913)
Q Consensus       605 ~~~RsFedeeefkkFLkk--eklDk~~eesLKDaVEe~kE~Ld--~L-Rr~fYf~Vr~rRL-d--DPeLKaKIdeLekEI  676 (913)
                      -|.|+|.++++ ..|.++  ..+++++.........--+.+..  .+ ...-. +....++ +  -|.++.++.....++
T Consensus       679 lC~r~f~~eee-~ef~~~l~~~i~s~p~~~~~~~~~l~k~~k~~e~l~~~~~~-~~~~~~l~~~~i~e~~~~l~~~~~el  756 (1294)
T KOG0962|consen  679 LCQRSFTTEEE-VEFIKKLESKIDSAPDKLEEAEVELSKEEKIFEILLKLKPT-FGSIIKLIDKEIPELEKELQEVYEEL  756 (1294)
T ss_pred             ccCCccchHHH-HHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHHHhhhhH-HHHHHHHHhhhhhHHHHHHHHHHHHH
Confidence            49999999955 788888  88888887665544443333332  10 11111 0111222 1  155666666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHH
Q 002520          677 DEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINM-MKNAISVDDIDGSIRNMEHRI  755 (913)
Q Consensus       677 EeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLsK-LrS~KSVEELQeEIkeLE~QI  755 (913)
                      ..+..+.+.....+..+...+..+.. +--.+..+.++..++....++|..+.+.+.. .....|++||+.+...+....
T Consensus       757 ~~~~~~~e~~~~~l~~~~~~~~~~~~-l~~~~~~~e~~~~d~~~~~k~ie~~~s~l~~~~d~i~t~~E~~~Ek~~~~~~~  835 (1294)
T KOG0962|consen  757 GDLSEEEEDDEKLLDTIDAAEESAET-LQTDVTVLERFLKDLKLREKEIEELVSELDSSVDGIRTVDELRKEKSKKQESL  835 (1294)
T ss_pred             HhhhhhhhHHHHHhcccchhHHhHHH-HhhhhHHHHHHHHHHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHH
Confidence            66666666666666666666665555 5555566777777788888888888887754 334799999999999999999


Q ss_pred             hhcC--C-CcHHHHH-HHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          756 AHET--L-PLKEEKQ-IIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVK  831 (913)
Q Consensus       756 QheS--L-sLqEEKQ-lIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEIDELReKIkkLekELEeLk  831 (913)
                      ...+  + .+..++. ..++|+.|...+..+.....   ++.+++.+..++.+++..+.+++..+..+++.+.+.+--+.
T Consensus       836 ~~~rke~E~~~k~~~~~~~~i~~l~~~~~e~k~~~~---~~~~~l~~~~qle~~~~~l~e~~~~~~s~~~e~~~~~~~~~  912 (1294)
T KOG0962|consen  836 DKLRKEIECLQKEVIEQEREISRLINLRNELKEEKQ---KIERSLARLQQLEEDIEELSEEITRLDSKVKELLERIQPLK  912 (1294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHhhhcchh
Confidence            9998  4 7788877 88899999888887766655   88899999999999999999999888888888888777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
Q 002520          832 KLHREESEKLKRLLGQFKAADEIRQEAYKHW---QSLKKQAYDKNQHFWKY  879 (913)
Q Consensus       832 kKIeEAqaELdELqeElrAaeEeRQEAyekI---kELRkQ~DeLNsEFyq~  879 (913)
                      ....++.....++..+........++....|   ..+.++....+..|.++
T Consensus       913 ~~l~e~~s~~e~~k~~~~~~~~~aqk~~~~ine~~s~l~~~~~~~~~~~~~  963 (1294)
T KOG0962|consen  913 VELEEAQSEKEELKNERNTSEKLAQKKRNDINEKVSLLHQIYKLNECFEQY  963 (1294)
T ss_pred             hhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence            7777777777777766544333333333333   33444444444444433

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=98.49  E-value=0.0001  Score=90.04  Aligned_cols=7  Identities=29%  Similarity=0.899  Sum_probs=2.8

Q ss_pred             CCCCccc
Q 002520          446 GNEALVP  452 (913)
Q Consensus       446 ~~~~~~~  452 (913)
                      |.-.++|
T Consensus       573 gr~tflp  579 (1164)
T TIGR02169       573 GRATFLP  579 (1164)
T ss_pred             CCeeecc
Confidence            3333444

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.

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

Probab=98.45  E-value=0.00018  Score=90.39  Aligned_cols=78  Identities=17%  Similarity=0.226  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          804 EKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKD  881 (913)
Q Consensus       804 EQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr  881 (913)
                      .+|..+..++..+..++..+...+..+..++..+..++..++.+...+...+.........+..+++.+.....+.+.
T Consensus       828 ~ei~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~~l~~~~~~~~~l~~~l~~~~~~~~~~~~  905 (1163)
T COG1196         828 QEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAELKE  905 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333333333333333333333333333333333333333333333333

>PRK11637 AmiB activator; Provisional

Probab=98.31  E-value=0.0014  Score=74.16  Aligned_cols=69  Identities=22%  Similarity=0.338  Sum_probs=36.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRI  732 (913)
Q Consensus       664 eLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeL  732 (913)
                      .++.+++.++.+++.+.+++..+...+..+..+...+..+|..+..++..+..+|.....+|..++.++
T Consensus        44 ~~~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI  112 (428)
T PRK11637         44 DNRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASI  112 (428)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455555555555555555555555555555555555555555555444444444444444444444433

>PHA02562 46 endonuclease subunit; Provisional

Probab=98.31  E-value=0.00082  Score=77.04  Aligned_cols=21  Identities=10%  Similarity=0.401  Sum_probs=10.6

Q ss_pred             cHHHHH-HHHHHHHHHHHHHHh
Q 002520          762 LKEEKQ-IIREIKQLKQRREQI  782 (913)
Q Consensus       762 LqEEKQ-lIrEISQLEkeRKdV  782 (913)
                      |.+.+. +..+++.|+..+.++
T Consensus       304 l~d~i~~l~~~l~~l~~~i~~~  325 (562)
T PHA02562        304 IKDKLKELQHSLEKLDTAIDEL  325 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            344444 555555555555543

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

Probab=98.30  E-value=0.00027  Score=74.29  Aligned_cols=219  Identities=16%  Similarity=0.250  Sum_probs=129.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHH
Q 002520          668 QIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGS  747 (913)
Q Consensus       668 KIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLsKLrS~KSVEELQeE  747 (913)
                      +|..++.+++.+..++..+..++......+..+..++..+...+..+...+......+......|....  +..++....
T Consensus         2 K~~~l~~eld~~~~~~~~~~~~l~~~~~~~~~aE~e~~~l~rri~~lE~~le~~eerL~~~~~kL~~~e--~~~de~er~   79 (237)
T PF00261_consen    2 KIQQLKDELDEAEERLEEAEEKLKEAEKRAEKAEAEVASLQRRIQLLEEELERAEERLEEATEKLEEAE--KRADESERA   79 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHCCCCHHHHHHHHHH--HHHHHHCHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH--HHHHHHHHH
Confidence            555666666666666666666666655555555555555554444444444433333333333333222  334444444


Q ss_pred             HHHHHHHHhhcC--C-CcHHHHH-HHHHHHHHHHHHHHhhhccc-chhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          748 IRNMEHRIAHET--L-PLKEEKQ-IIREIKQLKQRREQISSSIG-EHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIK  822 (913)
Q Consensus       748 IkeLE~QIQheS--L-sLqEEKQ-lIrEISQLEkeRKdV~snIs-~kakIEqSLeEKenIqEQIKELKKEIDELReKIkk  822 (913)
                      .+.|+.+....-  | .|...-+ +.............+...+. ....+...-.+-..+..+|..+..++..+...++.
T Consensus        80 ~k~lE~r~~~~eeri~~lE~~l~ea~~~~ee~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~el~~~~~~lk~  159 (237)
T PF00261_consen   80 RKVLENREQSDEERIEELEQQLKEAKRRAEEAERKYEEVERKLKVLEQELERAEERAEAAESKIKELEEELKSVGNNLKS  159 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHH
Confidence            444444333221  2 2222211 22222222222222222221 11122333344456677888888888888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          823 AEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQAND  888 (913)
Q Consensus       823 LekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARd  888 (913)
                      +...-.....+.+....+|..|..++..+..+...+-..+..|-.+++.+...++.++.....++.
T Consensus       160 lE~~~~~~~~re~~~e~~i~~L~~~lkeaE~Rae~aE~~v~~Le~~id~le~eL~~~k~~~~~~~~  225 (237)
T PF00261_consen  160 LEASEEKASEREDEYEEKIRDLEEKLKEAENRAEFAERRVKKLEKEIDRLEDELEKEKEKYKKVQE  225 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888888899999999999999999999999999999999999999888877766543

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 ....

>PRK02224 chromosome segregation protein; Provisional

Probab=98.30  E-value=0.00049  Score=83.30  Aligned_cols=39  Identities=13%  Similarity=0.271  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 002520          851 ADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDL  889 (913)
Q Consensus       851 aeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARdL  889 (913)
                      +...++..-..+..++.....+....-.++..+..++++
T Consensus       410 ~e~~l~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~  448 (880)
T PRK02224        410 AEDFLEELREERDELREREAELEATLRTARERVEEAEAL  448 (880)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344444445555555555555555566666666643

>PRK11637 AmiB activator; Provisional

Probab=98.30  E-value=0.00039  Score=78.47  Aligned_cols=65  Identities=11%  Similarity=0.240  Sum_probs=28.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDS  727 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIes  727 (913)
                      ..++.+|+++++++..+..++..+..++..+..+...+..+|+.+..++..+..+|..+..+|..
T Consensus        50 ~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~  114 (428)
T PRK11637         50 KSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAK  114 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555554444444444444444444444444444444444444444444444333333333

>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=98.29  E-value=0.00084  Score=78.50  Aligned_cols=94  Identities=15%  Similarity=0.292  Sum_probs=66.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHH
Q 002520          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDD  743 (913)
Q Consensus       664 eLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLsKLrS~KSVEE  743 (913)
                      -|+.+++...++...|.+....+..++..++.+...+..+|.....+...+.....++....+.+..+...+.  ...++
T Consensus       140 ~lQ~qlE~~qkE~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~kel~~~~e~l~~E~~~L~--~q~~e  217 (546)
T PF07888_consen  140 LLQNQLEECQKEKEELLKENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQKELTESSEELKEERESLK--EQLAE  217 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHH
Confidence            4777888888888888888888888888888888888888887777777777776666666665555554443  33455


Q ss_pred             HHHHHHHHHHHHhhcC
Q 002520          744 IDGSIRNMEHRIAHET  759 (913)
Q Consensus       744 LQeEIkeLE~QIQheS  759 (913)
                      ...+|..|+..|.+.+
T Consensus       218 ~~~ri~~LEedi~~l~  233 (546)
T PF07888_consen  218 ARQRIRELEEDIKTLT  233 (546)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            6666666666666554

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=98.28  E-value=0.00087  Score=80.88  Aligned_cols=30  Identities=10%  Similarity=0.353  Sum_probs=15.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTI  693 (913)
Q Consensus       664 eLKaKIdeLekEIEeL~kqRdEInaELqeL  693 (913)
                      .+..+|..++.++..++.++..+..++..+
T Consensus       456 ~~~~ei~~l~~~~~~l~~~~~~l~~~~~~~  485 (880)
T PRK03918        456 EYTAELKRIEKELKEIEEKERKLRKELREL  485 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555555555555555555555444433

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

Probab=98.18  E-value=0.0024  Score=75.81  Aligned_cols=90  Identities=19%  Similarity=0.190  Sum_probs=61.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          802 IEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKA-------ADEIRQEAYKHWQSLKKQAYDKNQ  874 (913)
Q Consensus       802 IqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrA-------aeEeRQEAyekIkELRkQ~DeLNs  874 (913)
                      .-.+|-++-+.+...+..|.++-.+.+.|+++++.+..+|..-..-.+.       ...-.+++|..|..+...+..+-.
T Consensus       489 Yt~RIlEIv~NI~KQk~eI~KIl~DTr~lQkeiN~l~gkL~RtF~v~dElifrdAKkDe~~rkaYK~La~lh~~c~~Li~  568 (594)
T PF05667_consen  489 YTRRILEIVKNIRKQKEEIEKILSDTRELQKEINSLTGKLDRTFTVTDELIFRDAKKDEAARKAYKLLASLHENCSQLIE  568 (594)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHH
Confidence            3346666666667777777777777777777777777666643322222       223445678888888888888888


Q ss_pred             HHHHHHHHHHHHHHhhh
Q 002520          875 HFWKYKDDTKQANDLAS  891 (913)
Q Consensus       875 EFyq~Rr~l~kARdLAa  891 (913)
                      ..-..=+..+..|||-.
T Consensus       569 ~v~~tG~~~rEirdLe~  585 (594)
T PF05667_consen  569 TVEETGTISREIRDLEE  585 (594)
T ss_pred             HHHHhhHHHHHHHHHHH
Confidence            88888888888888764

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=98.09  E-value=0.0026  Score=82.98  Aligned_cols=19  Identities=42%  Similarity=0.557  Sum_probs=15.8

Q ss_pred             CchhHHHHhhhhhhhccCC
Q 002520          504 DDLVCKEVLENARIQFTGG  522 (913)
Q Consensus       504 ~~~~~~~~~~~~~~~~~~~  522 (913)
                      .-|-|.-|||-.||.-.|=
T Consensus       683 ~QLrcngVLEgIRicR~Gf  701 (1930)
T KOG0161|consen  683 NQLRCNGVLEGIRICRQGF  701 (1930)
T ss_pred             HHhhccCcHHHHHHHHhhC
Confidence            4688999999999987764

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

Probab=98.09  E-value=0.00083  Score=71.73  Aligned_cols=172  Identities=16%  Similarity=0.255  Sum_probs=92.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhcCCCcH
Q 002520          684 DAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLK  763 (913)
Q Consensus       684 dEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLsKLrS~KSVEELQeEIkeLE~QIQheSLsLq  763 (913)
                      ..++.++..++.+++.....|+++.+++.++++.+..++.+++.|..+...+.  ..+.++.+++...++++  ..++-.
T Consensus        13 q~lD~e~~rl~~~~~~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e--~ei~~~r~r~~~~e~kl--~~v~~~   88 (239)
T COG1579          13 QKLDLEKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLE--SEIQEIRERIKRAEEKL--SAVKDE   88 (239)
T ss_pred             HHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHH--hccccH
Confidence            35555556666666666666777777777777777777777776665554333  46667777777777776  223322


Q ss_pred             HHHH-HHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          764 EEKQ-IIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLK  842 (913)
Q Consensus       764 EEKQ-lIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELd  842 (913)
                      .|-. +..+|..++..+..+...+             ..+.+.+..+.+++..++.+       +..+.+.+.++++.+ 
T Consensus        89 ~e~~aL~~E~~~ak~r~~~le~el-------------~~l~~~~~~l~~~i~~l~~~-------~~~~e~~~~e~~~~~-  147 (239)
T COG1579          89 RELRALNIEIQIAKERINSLEDEL-------------AELMEEIEKLEKEIEDLKER-------LERLEKNLAEAEARL-  147 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHH-
Confidence            2222 5555555555544321111             12222333333333333333       333333333333222 


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          843 RLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDD  882 (913)
Q Consensus       843 ELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~  882 (913)
                        ..+...+.+++...+.+...|...++.---.||...+.
T Consensus       148 --e~e~~~i~e~~~~~~~~~~~L~~~l~~ell~~yeri~~  185 (239)
T COG1579         148 --EEEVAEIREEGQELSSKREELKEKLDPELLSEYERIRK  185 (239)
T ss_pred             --HHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHh
Confidence              24555555566666777777777777665556554443

>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=98.08  E-value=0.0022  Score=79.45  Aligned_cols=205  Identities=16%  Similarity=0.229  Sum_probs=118.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC-----CCCHHHHHHHHHHHHHHHhhcCCCcHHHH
Q 002520          692 TIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKN-----AISVDDIDGSIRNMEHRIAHETLPLKEEK  766 (913)
Q Consensus       692 eLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLsKLrS-----~KSVEELQeEIkeLE~QIQheSLsLqEEK  766 (913)
                      .++.++..+..+-.+..+.++++...+..+.++|+..+.+...+.+     ...+.+.+.+|..|+.........|.+.+
T Consensus       388 ~~k~~~~~~e~~~vk~~E~lK~~~~k~kKleke~ek~~~~~~e~e~~pe~~~~~i~~~~~ei~~L~~~~~~~~~~l~e~~  467 (1293)
T KOG0996|consen  388 SLKKKFQDLEREDVKREEKLKRLTSKIKKLEKEIEKARRKKSELEKAPEKARIEIQKCQTEIEQLEELLEKEERELDEIL  467 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhCchhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555544455556666666666666666655554433331     24566666677777766666553343333


Q ss_pred             H--------HHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          767 Q--------IIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREES  838 (913)
Q Consensus       767 Q--------lIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAq  838 (913)
                      .        +..+|..+++.+-.....+.      ..-.+.+-.+.+++.+...-+....+...+...+..+...+.+.+
T Consensus       468 ~~l~~~t~~~~~e~~~~ekel~~~~~~~n------~~~~e~~vaesel~~L~~~~~~~~~~~e~lk~~L~~~~~~~~e~~  541 (1293)
T KOG0996|consen  468 DSLKQETEGIREEIEKLEKELMPLLKQVN------EARSELDVAESELDILLSRHETGLKKVEELKGKLLASSESLKEKK  541 (1293)
T ss_pred             HHHhhhhhhhHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3        33333333333322211111      111222223345555555555566666666666666666666677


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhhc-CCHHHHHHHH
Q 002520          839 EKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQAND-LASK-GDREALQHLC  902 (913)
Q Consensus       839 aELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARd-LAa~-~dv~eLqelc  902 (913)
                      ..+..+...+.....++.++-..+..++.....++...+..|..+..++. |++. ..=+.|++|.
T Consensus       542 ~~l~~~k~~l~~~k~e~~~~~k~l~~~~~e~~~~~~~~~~~rqrveE~ks~~~~~~s~~kVl~al~  607 (1293)
T KOG0996|consen  542 TELDDLKEELPSLKQELKEKEKELPKLRKEERNLKSQLNKLRQRVEEAKSSLSSSRSRNKVLDALM  607 (1293)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHH
Confidence            77777777777777777778888888888888888888888888888777 5544 2233444444

>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=98.04  E-value=0.0023  Score=79.41  Aligned_cols=69  Identities=13%  Similarity=0.275  Sum_probs=44.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSR  731 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSe  731 (913)
                      ..++.++.........+..++..+...+.++|....++..+|..+.+..+++-..+..+..+|..+...
T Consensus       781 ~~le~~l~~~~~~~~~~~~~~~~~ee~~~~lr~~~~~l~~~l~~~~~~~k~~~~~~~~l~~~i~~~E~~  849 (1293)
T KOG0996|consen  781 EKLERALSKMSDKARQHQEQLHELEERVRKLRERIPELENRLEKLTASVKRLAELIEYLESQIAELEAA  849 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456666666666666666666666666677777777777777777666666666666666666555444

>PRK01156 chromosome segregation protein; Provisional

Probab=98.02  E-value=0.0098  Score=72.71  Aligned_cols=22  Identities=18%  Similarity=0.199  Sum_probs=8.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 002520          667 EQIKAAQSKVDEKTRSRDAIRD  688 (913)
Q Consensus       667 aKIdeLekEIEeL~kqRdEIna  688 (913)
                      .+|..+..++..+..++..+..
T Consensus       476 ~~i~~l~~~i~~l~~~~~~l~~  497 (895)
T PRK01156        476 EKKSRLEEKIREIEIEVKDIDE  497 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333444444333333333

>PRK03918 chromosome segregation protein; Provisional

Probab=98.01  E-value=0.0059  Score=73.90  Aligned_cols=35  Identities=20%  Similarity=0.250  Sum_probs=14.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          690 IQTIRASYKEYAEKLEAAISDERSARESLKSKRQE  724 (913)
Q Consensus       690 LqeLReERdELeSeLKkLVeEIkrLReEInEKrKE  724 (913)
                      +..++.+...+..++..+..++..+...+..+.++
T Consensus       195 l~~l~~~~~~l~~ei~~l~~e~~~l~~~~~~~~~~  229 (880)
T PRK03918        195 IKEKEKELEEVLREINEISSELPELREELEKLEKE  229 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333334444444444444444444444333333

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

Probab=97.98  E-value=0.028  Score=63.71  Aligned_cols=226  Identities=16%  Similarity=0.172  Sum_probs=114.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHH
Q 002520          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDD  743 (913)
Q Consensus       664 eLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLsKLrS~KSVEE  743 (913)
                      .++.++..++.+.....-+|+..+.++.+.+.++..++.++..+...+.....++....++...|+..|..+        
T Consensus        85 ~~rtel~~a~~~k~~~e~er~~~~~El~~~r~e~~~v~~~~~~a~~n~~kAqQ~lar~t~Q~q~lqtrl~~l--------  156 (499)
T COG4372          85 ALRTELGTAQGEKRAAETEREAARSELQKARQEREAVRQELAAARQNLAKAQQELARLTKQAQDLQTRLKTL--------  156 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------
Confidence            344455555555555556666666666666666666666666665555555555555555555555554422        


Q ss_pred             HHHHHHHHHHHHhhcCCCcHHH-HHHHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          744 IDGSIRNMEHRIAHETLPLKEE-KQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIK  822 (913)
Q Consensus       744 LQeEIkeLE~QIQheSLsLqEE-KQlIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEIDELReKIkk  822 (913)
                       -.+-+.|+.+.+.    |..+ |++.--.++|+..+.++..-..   .+++.-....+-.+.+....+++.......+.
T Consensus       157 -~~qr~ql~aq~qs----l~a~~k~LQ~s~~Qlk~~~~~L~~r~~---~ieQ~~~~la~r~~a~q~r~~ela~r~aa~Qq  228 (499)
T COG4372         157 -AEQRRQLEAQAQS----LQASQKQLQASATQLKSQVLDLKLRSA---QIEQEAQNLATRANAAQARTEELARRAAAAQQ  228 (499)
T ss_pred             -HHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             1223333333332    3333 3355556666666666544433   23222222223334455555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCHHHHHHHH
Q 002520          823 AEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLC  902 (913)
Q Consensus       823 LekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARdLAa~~dv~eLqelc  902 (913)
                      ...++.-..++++.....+..-.+...+.+.+.+..-....-|-.+...+..+|-.|++....+-.+.- |.+-+--.+-
T Consensus       229 ~~q~i~qrd~~i~q~~q~iaar~e~I~~re~~lq~lEt~q~~leqeva~le~yyQ~y~~lr~q~~a~~r-GQvla~a~~r  307 (499)
T COG4372         229 TAQAIQQRDAQISQKAQQIAARAEQIRERERQLQRLETAQARLEQEVAQLEAYYQAYVRLRQQAAATQR-GQVLAGAAQR  307 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH-HHHHHHHHHH
Confidence            555555555555555555554444444555555554444444555555566666666665544433322 5554443333


Q ss_pred             HHHH
Q 002520          903 VNQV  906 (913)
Q Consensus       903 ~~QV  906 (913)
                      ++|+
T Consensus       308 v~q~  311 (499)
T COG4372         308 VAQA  311 (499)
T ss_pred             HHHH
Confidence            4433

>TIGR00606 rad50 rad50

Probab=97.98  E-value=0.0021  Score=81.97  Aligned_cols=90  Identities=9%  Similarity=0.052  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          809 LRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQAND  888 (913)
Q Consensus       809 LKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARd  888 (913)
                      +..+++++...+..+..++..+..++..+...+..++.++..+....+.   ....+..+++.+...+.+........++
T Consensus       886 le~~L~el~~el~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~i~~  962 (1311)
T TIGR00606       886 FEEQLVELSTEVQSLIREIKDAKEQDSPLETFLEKDQQEKEELISSKET---SNKKAQDKVNDIKEKVKNIHGYMKDIEN  962 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555555555555555555555555555555555544444333   3456666677777788888888888888


Q ss_pred             hhhcCCHHHHHHH
Q 002520          889 LASKGDREALQHL  901 (913)
Q Consensus       889 LAa~~dv~eLqel  901 (913)
                      +...|-...|+.+
T Consensus       963 y~~~~~~~qL~~~  975 (1311)
T TIGR00606       963 KIQDGKDDYLKQK  975 (1311)
T ss_pred             HHHcCCHHHHHHH
Confidence            8888766656543

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

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=97.95  E-value=0.0045  Score=80.94  Aligned_cols=59  Identities=19%  Similarity=0.315  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          800 DQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEA  858 (913)
Q Consensus       800 enIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEA  858 (913)
                      ..+..+++....++..+..+++.....+..+.+.+.++...+.++.+++.+....+.++
T Consensus      1065 ~el~~~l~kke~El~~l~~k~e~e~~~~~~l~k~i~eL~~~i~el~e~le~er~~r~K~ 1123 (1930)
T KOG0161|consen 1065 EELDNQLKKKESELSQLQSKLEDEQAEVAQLQKQIKELEARIKELEEELEAERASRAKA 1123 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444445545444444444444444444444444444444444444433

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

Probab=97.92  E-value=0.011  Score=73.20  Aligned_cols=75  Identities=21%  Similarity=0.330  Sum_probs=41.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          800 DQIEEKMKFLRKEADSLRENVIKAEAAT-QAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQ  874 (913)
Q Consensus       800 enIqEQIKELKKEIDELReKIkkLekEL-EeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNs  874 (913)
                      ..++.+|..++...+.+++.|..++++. +.+.+++.+...+++.|..+...++........+++.+...+.....
T Consensus       361 ~~~~n~i~~~k~~~d~l~k~I~~~~~~~~~~~~~~~~e~e~k~~~L~~evek~e~~~~~L~~e~~~~~~~~~~~~e  436 (1074)
T KOG0250|consen  361 REIENSIRKLKKEVDRLEKQIADLEKQTNNELGSELEERENKLEQLKKEVEKLEEQINSLREELNEVKEKAKEEEE  436 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence            3455566666666666666666666655 55666666666666655555555555444444444444444433333

>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=0.0052  Score=75.27  Aligned_cols=207  Identities=14%  Similarity=0.248  Sum_probs=94.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HH----HHHHHHHHHHHHHHhcc---C--CCCHHHHHHH
Q 002520          680 TRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARES---LK----SKRQEIDSVQSRINMMK---N--AISVDDIDGS  747 (913)
Q Consensus       680 ~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReE---In----EKrKEIesLQSeLsKLr---S--~KSVEELQeE  747 (913)
                      ..+++....++..+..+..+|...|+.++.+..++..+   +.    .+.-++++|++++....   +  ..+..++...
T Consensus       257 ~~~~~~~~d~~~~~~~~i~ele~~l~~l~~ekeq~~a~~t~~~k~kt~lel~~kdlq~~i~~n~q~r~~~l~~l~~~~~k  336 (1200)
T KOG0964|consen  257 IDALDKVEDESEDLKCEIKELENKLTNLREEKEQLKARETKISKKKTKLELKIKDLQDQITGNEQQRNLALHVLQKVKDK  336 (1200)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHhhhhhhhhhhHHHHHHHHHHH
Confidence            34445555555555666666666665555543333332   11    11223444554442111   0  1233333334


Q ss_pred             HHHHHHHHhhcC--C-CcH-HHHHHHHHHHHHHHHHHHhhhcccchhHH---------------------HHHHHhHHHH
Q 002520          748 IRNMEHRIAHET--L-PLK-EEKQIIREIKQLKQRREQISSSIGEHDEV---------------------QLAFDQKDQI  802 (913)
Q Consensus       748 IkeLE~QIQheS--L-sLq-EEKQlIrEISQLEkeRKdV~snIs~kakI---------------------EqSLeEKenI  802 (913)
                      |......+...-  . +|+ +|++....|..|+..++++-++-+.....                     .....+...|
T Consensus       337 i~e~~~EL~~I~Pky~~l~~ee~~~~~rl~~l~~~~~~l~~Kqgr~sqFssk~eRDkwir~ei~~l~~~i~~~ke~e~~l  416 (1200)
T KOG0964|consen  337 IEEKKDELSKIEPKYNSLVDEEKRLKKRLAKLEQKQRDLLAKQGRYSQFSSKEERDKWIRSEIEKLKRGINDTKEQENIL  416 (1200)
T ss_pred             HHHHHHHHHHhhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhccccccCcHHHHHHHHHHHHHHHHHHHhhhhhHHHHH
Confidence            444333333322  1 333 33346666666666555543322211111                     1111222334


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          803 EEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDD  882 (913)
Q Consensus       803 qEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~  882 (913)
                      +..|..++.++.+.-++++++...+.+...++.++.+++.+++++++++..+|+..+..=+.|+..+..+....-+..+.
T Consensus       417 q~e~~~~e~~l~~~~e~i~~l~~si~e~~~r~~~~~~~~~~~k~~~del~~~Rk~lWREE~~l~~~i~~~~~dl~~~~~~  496 (1200)
T KOG0964|consen  417 QKEIEDLESELKEKLEEIKELESSINETKGRMEEFDAENTELKRELDELQDKRKELWREEKKLRSLIANLEEDLSRAEKN  496 (1200)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444445555555555555555555555555555555555555555555555555555555555555555555555554


Q ss_pred             HHHH
Q 002520          883 TKQA  886 (913)
Q Consensus       883 l~kA  886 (913)
                      ++++
T Consensus       497 L~~~  500 (1200)
T KOG0964|consen  497 LRAT  500 (1200)
T ss_pred             HHHh
Confidence            4443

>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=97.90  E-value=0.019  Score=67.55  Aligned_cols=18  Identities=11%  Similarity=0.174  Sum_probs=9.4

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 002520          860 KHWQSLKKQAYDKNQHFW  877 (913)
Q Consensus       860 ekIkELRkQ~DeLNsEFy  877 (913)
                      +.+.+|..++..+...|-
T Consensus       371 ~~ie~L~~el~~~e~~lq  388 (546)
T PF07888_consen  371 DEIEKLSRELQMLEEHLQ  388 (546)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            345555555555555443

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 [].

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

Probab=97.87  E-value=0.031  Score=60.20  Aligned_cols=64  Identities=17%  Similarity=0.455  Sum_probs=34.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEID  726 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIe  726 (913)
                      ..+..+|..+...++.+...+..+...+..++....++..++.........+..++..++++++
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            3455566666666666655555555555555555555555555555444444444444444443

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 ....

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

Probab=97.86  E-value=0.004  Score=75.62  Aligned_cols=76  Identities=17%  Similarity=0.180  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 002520          816 LRENVIKAEAATQAVKKLHREESEKLKRLLGQFK-AADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASK  892 (913)
Q Consensus       816 LReKIkkLekELEeLkkKIeEAqaELdELqeElr-AaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARdLAa~  892 (913)
                      +.+++..|+.++..|. ..++.+++|.+...+.. .+.++++.+--++.++..+.+......|.+--.+.|.|+|+++
T Consensus       460 lEekVklLeetv~dlE-alee~~EQL~Esn~ele~DLreEld~~~g~~kel~~r~~aaqet~yDrdqTI~KfRelva~  536 (1243)
T KOG0971|consen  460 LEEKVKLLEETVGDLE-ALEEMNEQLQESNRELELDLREELDMAKGARKELQKRVEAAQETVYDRDQTIKKFRELVAH  536 (1243)
T ss_pred             HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            4555555555555543 33344455554444433 4566777777778899999999999999999999999999984

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=97.85  E-value=0.02  Score=68.23  Aligned_cols=47  Identities=17%  Similarity=0.345  Sum_probs=28.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAIS  709 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVe  709 (913)
                      ..+..+++.+++++..+..+...+...+..++..++.+..++..+..
T Consensus       205 ~~~~~~~~~le~el~~l~~~~e~l~~~i~~l~~ele~a~~~l~~l~~  251 (650)
T TIGR03185       205 SSILSEIEALEAELKEQSEKYEDLAQEIAHLRNELEEAQRSLESLEK  251 (650)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566666666666666666666666666666555555555554443

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.

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

Probab=97.85  E-value=0.011  Score=72.69  Aligned_cols=60  Identities=8%  Similarity=0.275  Sum_probs=25.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQ  723 (913)
Q Consensus       664 eLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrK  723 (913)
                      +|.+.++.++.+|+...++.+++...++.....+..+..+..++..++...+.+......
T Consensus       682 ~l~~~L~~~r~~i~~~~~~i~q~~~~~qk~e~~~~~~~~~~~~l~~e~~~~k~e~~~v~~  741 (1200)
T KOG0964|consen  682 ELQESLDEVRNEIEDIDQKIDQLNNNMQKVENDRNAFKREHEKLKRELNTIKGEKSRVQE  741 (1200)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            344444444444444444444444444444444444444444444333333333333333

>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=97.84  E-value=0.012  Score=71.98  Aligned_cols=250  Identities=11%  Similarity=0.194  Sum_probs=137.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC-----
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKN-----  737 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLsKLrS-----  737 (913)
                      ..+|.+++.+.-++.....++..+.+++..+...-.++...|..+...+.+......-+..+++.|+..|.....     
T Consensus       283 ~~mK~k~d~~~~eL~rk~~E~~~~qt~l~~~~~~~~d~r~hi~~lkesl~~ke~~~~~Lqsdve~Lr~rle~k~~~l~kk  362 (775)
T PF10174_consen  283 LAMKSKMDRLKLELSRKKSELEALQTRLETLEEQDSDMRQHIEVLKESLRAKEQEAEMLQSDVEALRFRLEEKNSQLEKK  362 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            457777888877777777777777777776666666666666666666666665555555555555555532210     


Q ss_pred             CCCHHHHHHHHHHHHHHHhhcC--CCcHHHHH--HHHHHHHHHHHHHHhhh-----------------cccchhHHHHHH
Q 002520          738 AISVDDIDGSIRNMEHRIAHET--LPLKEEKQ--IIREIKQLKQRREQISS-----------------SIGEHDEVQLAF  796 (913)
Q Consensus       738 ~KSVEELQeEIkeLE~QIQheS--LsLqEEKQ--lIrEISQLEkeRKdV~s-----------------nIs~kakIEqSL  796 (913)
                      ..+++.++.+...+.-.|...+  +...+-|=  +.+.|..|+..+++...                 .-.....+...+
T Consensus       363 ~~~~~~~qeE~~~~~~Ei~~l~d~~d~~e~ki~~Lq~kie~Lee~l~ekd~ql~~~k~Rl~~~~d~~~~~~~~~~lEea~  442 (775)
T PF10174_consen  363 QAQIEKLQEEKSRLQGEIEDLRDMLDKKERKINVLQKKIENLEEQLREKDRQLDEEKERLSSQADSSNEDEALETLEEAL  442 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccchHHHHHHHHHHH
Confidence            1233444444443333333333  12222111  44444444433322111                 011223555666


Q ss_pred             HhHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          797 DQKDQIEEKMKFL--------RKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQ  868 (913)
Q Consensus       797 eEKenIqEQIKEL--------KKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ  868 (913)
                      ..++.+...|...        ..+++.++..+..+...+..|++++.+....|..++.+...+.....+....|..+.-.
T Consensus       443 ~eker~~e~l~e~r~~~e~e~~Eele~~~~e~~~lk~~~~~LQ~eLsEk~~~l~~~kee~s~l~s~~~K~~s~i~~l~I~  522 (775)
T PF10174_consen  443 REKERLQERLEEQRERAEKERQEELETYQKELKELKAKLESLQKELSEKELQLEDAKEEASKLASSQEKKDSEIERLEIE  522 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhHHHHHhhccchhhhHHHHHHHH
Confidence            6666666665544        34455666666666666666666666666666666666666666666666677777666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhcCC-HHHH----------HHHHHHHHHhhhhc
Q 002520          869 AYDKNQHFWKYKDDTKQANDLASKGD-REAL----------QHLCVNQVRSRTLL  912 (913)
Q Consensus       869 ~DeLNsEFyq~Rr~l~kARdLAa~~d-v~eL----------qelc~~QVEkfm~l  912 (913)
                      +...+..+-+..+.+.+++..+-..+ +..|          -.-|.+||||.|.+
T Consensus       523 lEk~rek~~kl~~ql~k~~~~~e~~~r~~~Le~ev~~~~ee~~kaq~EVERLl~~  577 (775)
T PF10174_consen  523 LEKKREKHEKLEKQLEKLRANAELRDRIQQLEQEVTRYREESEKAQAEVERLLDI  577 (775)
T ss_pred             HHHhhhHHHHHHHHHHHHHhCHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666666443322211 1111          23467888887753

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 [].

>PRK01156 chromosome segregation protein; Provisional

Probab=97.82  E-value=0.0072  Score=73.83  Aligned_cols=35  Identities=9%  Similarity=0.303  Sum_probs=13.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          665 LREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKE  699 (913)
Q Consensus       665 LKaKIdeLekEIEeL~kqRdEInaELqeLReERdE  699 (913)
                      ++.++..+.+++..+...+..+...+..++.+...
T Consensus       195 ~e~eL~~~~~~i~el~~~~~~l~~~i~~~~~el~~  229 (895)
T PRK01156        195 SNLELENIKKQIADDEKSHSITLKEIERLSIEYNN  229 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444333333333333333

>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=97.82  E-value=0.0049  Score=75.64  Aligned_cols=132  Identities=13%  Similarity=0.208  Sum_probs=75.9

Q ss_pred             CCHHHHHHHHHHHHHHHhhcC--C-CcHHHHH-HHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHH
Q 002520          739 ISVDDIDGSIRNMEHRIAHET--L-PLKEEKQ-IIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEAD  814 (913)
Q Consensus       739 KSVEELQeEIkeLE~QIQheS--L-sLqEEKQ-lIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEID  814 (913)
                      +-+.++.++|+.+..+++..+  + +-..|.+ +.-|+.+|++.+.-          .++++.   .+..+|..++.++.
T Consensus       787 ~rlkdl~keik~~k~~~e~~~~~~ek~~~e~e~l~lE~e~l~~e~~~----------~k~~l~---~~~~~~~~l~~e~~  853 (1174)
T KOG0933|consen  787 RRLKDLEKEIKTAKQRAEESSKELEKRENEYERLQLEHEELEKEISS----------LKQQLE---QLEKQISSLKSELG  853 (1174)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHH---HHHHHHHHHHHHHH
Confidence            567777778877777777666  3 4444444 55566666665542          222222   34455666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          815 SLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDT  883 (913)
Q Consensus       815 ELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l  883 (913)
                      .++.++......++.+..++....+.+..+-.+........+.-..+.....-.+..+..++-++.+.-
T Consensus       854 ~l~~kv~~~~~~~~~~~~el~~~k~k~~~~dt~i~~~~~~~e~~~~e~~~~~l~~kkle~e~~~~~~e~  922 (1174)
T KOG0933|consen  854 NLEAKVDKVEKDVKKAQAELKDQKAKQRDIDTEISGLLTSQEKCLSEKSDGELERKKLEHEVTKLESEK  922 (1174)
T ss_pred             HHHHHHHhHHhHHHHHHHHHHHHHHHHHhhhHHHhhhhhHHHHHHHHhhcccchHHHHHhHHHHhhhhH
Confidence            666666666666666666666666655555555554444444445555555555555555555554443

>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells

Probab=97.78  E-value=0.059  Score=57.56  Aligned_cols=207  Identities=12%  Similarity=0.210  Sum_probs=90.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC---CCCHHHHH
Q 002520          669 IKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKN---AISVDDID  745 (913)
Q Consensus       669 IdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLsKLrS---~KSVEELQ  745 (913)
                      +..++.++..+....+.+..++......-..+......+......+...|......|..+-+++..++.   ..+..+|+
T Consensus        47 ~~~~e~~l~~L~~d~~~L~~k~~~~~~~~~~l~~~t~~t~~~a~~L~~~i~~l~~~i~~l~~~~~~l~~~~~~~~~~~l~  126 (264)
T PF06008_consen   47 LDPLEKELESLEQDVENLQEKATKVSRKAQQLNNNTERTLQRAQDLEQFIQNLQDNIQELIEQVESLNENGDQLPSEDLQ  126 (264)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccCCCCHHHHH
Confidence            333333333333333333333333333333333333444444444444444444444444444433332   45666666


Q ss_pred             HHHHHHHHHHhhcCC-CcHHHHH-HHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          746 GSIRNMEHRIAHETL-PLKEEKQ-IIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKA  823 (913)
Q Consensus       746 eEIkeLE~QIQheSL-sLqEEKQ-lIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEIDELReKIkkL  823 (913)
                      ..++..+..++..+- .+...++ +-.|...-+..+..+...+.   ..+             .+.+.-...++..+.+.
T Consensus       127 ~~l~ea~~mL~emr~r~f~~~~~~Ae~El~~A~~LL~~v~~~~~---~~~-------------~~~~~l~~~i~~~L~~~  190 (264)
T PF06008_consen  127 RALAEAQRMLEEMRKRDFTPQRQNAEDELKEAEDLLSRVQKWFQ---KPQ-------------QENESLAEAIRDDLNDY  190 (264)
T ss_pred             HHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHHh---hHH-------------HhhHHHHHHHHHHHHHH
Confidence            666666665555552 4555555 55555555555444333332   111             11122223333333333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 002520          824 EAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLAS  891 (913)
Q Consensus       824 ekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARdLAa  891 (913)
                      ..++..+..-++++.....+...-...-.......-.+...+..+.......+-..+..+..|.+|..
T Consensus       191 ~~kL~Dl~~~l~eA~~~~~ea~~ln~~n~~~l~~~~~k~~~l~~~~~~~~~~L~~a~~~L~~a~~ll~  258 (264)
T PF06008_consen  191 NAKLQDLRDLLNEAQNKTREAEDLNRANQKNLEDLEKKKQELSEQQNEVSETLKEAEDLLDQANDLLQ  258 (264)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444333333333333333333333333333344444445555555555555566666655543

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

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

Probab=97.76  E-value=0.0047  Score=72.46  Aligned_cols=24  Identities=13%  Similarity=0.220  Sum_probs=10.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          664 NLREQIKAAQSKVDEKTRSRDAIR  687 (913)
Q Consensus       664 eLKaKIdeLekEIEeL~kqRdEIn  687 (913)
                      +++.+|..+..+++.++..+.+..
T Consensus       110 ~~e~ei~kl~~e~~elr~~~~~~~  133 (546)
T KOG0977|consen  110 KLEIEITKLREELKELRKKLEKAE  133 (546)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHH
Confidence            344444444444444444444433

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=97.76  E-value=0.042  Score=64.85  Aligned_cols=86  Identities=16%  Similarity=0.270  Sum_probs=47.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          809 LRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQAND  888 (913)
Q Consensus       809 LKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARd  888 (913)
                      +.+++..+.+.+..+...+......+..++..+.++.+++..+...+.+..+.+..+++.-..+...+-+++..+...+.
T Consensus       353 lekeL~~Le~~~~~~~~~i~~~~~~ysel~e~leel~e~leeie~eq~ei~e~l~~Lrk~E~eAr~kL~~~~~~L~~ikr  432 (569)
T PRK04778        353 LEKQLESLEKQYDEITERIAEQEIAYSELQEELEEILKQLEEIEKEQEKLSEMLQGLRKDELEAREKLERYRNKLHEIKR  432 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444444455566666666666666666666666666666666666666666666665555


Q ss_pred             hhhcCC
Q 002520          889 LASKGD  894 (913)
Q Consensus       889 LAa~~d  894 (913)
                      +.-+.+
T Consensus       433 ~l~k~~  438 (569)
T PRK04778        433 YLEKSN  438 (569)
T ss_pred             HHHHcC
Confidence            444443

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

Probab=97.75  E-value=0.032  Score=71.04  Aligned_cols=90  Identities=16%  Similarity=0.357  Sum_probs=51.6

Q ss_pred             hhhhhhccccccccCcceeeccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          635 DASESRNIGVEVVKQPFYFLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSA  714 (913)
Q Consensus       635 DaVEe~kE~Ld~LRr~fYf~Vr~rRLdDPeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrL  714 (913)
                      +++=++.=.|+.+..|.|      ..+.+.|+.++..+...+..+..+..++.+.+......+..+...+.....++...
T Consensus       581 dslyGl~LdL~~I~~pd~------~~~ee~L~~~l~~~~~~l~~~~~~~~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~~  654 (1201)
T PF12128_consen  581 DSLYGLSLDLSAIDVPDY------AASEEELRERLEQAEDQLQSAEERQEELEKQLKQINKKIEELKREITQAEQELKQA  654 (1201)
T ss_pred             cccceeEeehhhcCCchh------hcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            344455555555333333      11346788888888888777777777666666666665555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHH
Q 002520          715 RESLKSKRQEIDSVQS  730 (913)
Q Consensus       715 ReEInEKrKEIesLQS  730 (913)
                      +..+..+..+...++.
T Consensus       655 ~~~~~~l~~~~~~~~~  670 (1201)
T PF12128_consen  655 EQDLQRLKNEREQLKQ  670 (1201)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            5444444444444433

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

Probab=97.74  E-value=0.0081  Score=72.57  Aligned_cols=50  Identities=26%  Similarity=0.458  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 002520          686 IRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMM  735 (913)
Q Consensus       686 InaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLsKL  735 (913)
                      ++++++..|..=.+|+.+|..+.+.-+.++.++..++.+.+.|+.++..+
T Consensus       430 LraeLq~~Rq~E~ELRsqis~l~~~Er~lk~eL~qlr~ene~Lq~Kl~~L  479 (697)
T PF09726_consen  430 LRAELQSSRQSEQELRSQISSLTNNERSLKSELSQLRQENEQLQNKLQNL  479 (697)
T ss_pred             HHHHHHhhhhhHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444555555555555555556666666666666665555433

; GO: 0016021 integral to membrane

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

Probab=97.70  E-value=0.064  Score=64.32  Aligned_cols=100  Identities=12%  Similarity=0.119  Sum_probs=44.5

Q ss_pred             hhHHHHHHHhHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          789 HDEVQLAFDQKDQIEEKMKFLRKEA---------------------DSLRENVIKAEAATQAVKKLHREESEKLKRLLGQ  847 (913)
Q Consensus       789 kakIEqSLeEKenIqEQIKELKKEI---------------------DELReKIkkLekELEeLkkKIeEAqaELdELqeE  847 (913)
                      +..+.+.+.+...+++++.++....                     .+|.+++..+...+..++.++.....++..++.+
T Consensus       152 k~t~SRAlsQN~eLK~QL~Elq~~Fv~ltne~~elt~~lq~Eq~~~keL~~kl~~l~~~l~~~~e~le~K~qE~~~Lq~q  231 (617)
T PF15070_consen  152 KATASRALSQNRELKEQLAELQDAFVKLTNENMELTSALQSEQHVKKELQKKLGELQEKLHNLKEKLELKSQEAQSLQEQ  231 (617)
T ss_pred             chHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            3445555555555555555553322                     1333333333333333333333333334444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          848 FKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQAND  888 (913)
Q Consensus       848 lrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARd  888 (913)
                      .+.....++........+..+...++..|..-...+...+.
T Consensus       232 ~dq~~~~Lqqy~a~~q~l~~e~e~L~~q~l~Qtql~d~lq~  272 (617)
T PF15070_consen  232 RDQYLGHLQQYVAAYQQLASEKEELHKQLLQQTQLMDRLQH  272 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44433344443334444555555666665544444444433

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

Probab=97.69  E-value=0.05  Score=62.46  Aligned_cols=67  Identities=16%  Similarity=0.281  Sum_probs=36.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          667 EQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRIN  733 (913)
Q Consensus       667 aKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLs  733 (913)
                      .+++..+++|..+.+.+.....+.+++...+..++.++..+..++.+....+..+.+.|..+...+.
T Consensus        38 ~~l~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~  104 (420)
T COG4942          38 KQLKQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLN  104 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHH
Confidence            4555555555555555555555555555555555555555555555555555555555554444443

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

Probab=97.67  E-value=0.042  Score=69.96  Aligned_cols=63  Identities=11%  Similarity=0.260  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          670 KAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRI  732 (913)
Q Consensus       670 deLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeL  732 (913)
                      +.|+.+++.+..++........++......+..++..+..++...+.++...+.++..++..+
T Consensus       603 e~L~~~l~~~~~~l~~~~~~~~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  665 (1201)
T PF12128_consen  603 EELRERLEQAEDQLQSAEERQEELEKQLKQINKKIEELKREITQAEQELKQAEQDLQRLKNER  665 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            344444444444444444444444444444444444444444444444444444444444444

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

Probab=97.67  E-value=0.028  Score=67.82  Aligned_cols=42  Identities=17%  Similarity=0.421  Sum_probs=22.0

Q ss_pred             CHHHHHHHHHHHHHHHhhcCCCcHHHH----------H-HHHHHHHHHHHHHH
Q 002520          740 SVDDIDGSIRNMEHRIAHETLPLKEEK----------Q-IIREIKQLKQRREQ  781 (913)
Q Consensus       740 SVEELQeEIkeLE~QIQheSLsLqEEK----------Q-lIrEISQLEkeRKd  781 (913)
                      -.+-|+.+++.|..+++..++.++..|          + .+.+|++|...+++
T Consensus       445 eletLn~k~qqls~kl~Dvr~~~tt~kt~ie~~~~q~e~~isei~qlqarikE  497 (1118)
T KOG1029|consen  445 ELETLNFKLQQLSGKLQDVRVDITTQKTEIEEVTKQRELMISEIDQLQARIKE  497 (1118)
T ss_pred             HHHHHHHHHHHHhhhhhhheeccchHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence            445556666666666666654333332          2 34455555555554

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

Probab=97.63  E-value=0.041  Score=68.57  Aligned_cols=96  Identities=11%  Similarity=0.241  Sum_probs=71.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHhccCCCC
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSR--INMMKNAIS  740 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSe--LsKLrS~KS  740 (913)
                      -.+...|+.|+.++..+..++..+......++..++++...++.+...+.+.+..+..++.+|..|+..  ...+. ..+
T Consensus       657 ~s~d~~ie~le~e~~~l~~~~~~l~~~~~~~e~~l~e~~~~~~~l~~~~~q~~~~~~~~~~em~el~n~~e~~~~~-~~~  735 (1074)
T KOG0250|consen  657 FSFDDEIEDLEREASRLQKEILELENQRREAEKNLEELEKKLRELSEHIEQIKRRIRKKRAEMTELKNTAEEKQVD-ISK  735 (1074)
T ss_pred             hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhcc-hhh
Confidence            567778888888888888877777777788888888888888888888888888888888888877762  22221 456


Q ss_pred             HHHHHHHHHHHHHHHhhcC
Q 002520          741 VDDIDGSIRNMEHRIAHET  759 (913)
Q Consensus       741 VEELQeEIkeLE~QIQheS  759 (913)
                      ++++..+|......|....
T Consensus       736 ~~~l~~ei~~~~~eIe~~~  754 (1074)
T KOG0250|consen  736 LEDLAREIKKKEKEIEEKE  754 (1074)
T ss_pred             hHHHHHHHHHHHHHHHHHH
Confidence            7777777777666666554

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

Probab=97.61  E-value=0.15  Score=54.90  Aligned_cols=65  Identities=15%  Similarity=0.192  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          668 QIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRI  732 (913)
Q Consensus       668 KIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeL  732 (913)
                      +...+..+++.+...++.++.++......+..+..++..++..+........++..+|..|+.++
T Consensus        69 eka~l~~e~~~l~~e~~~~r~k~e~e~~~~~~le~el~~lrk~ld~~~~~r~~le~~i~~L~eEl  133 (312)
T PF00038_consen   69 EKARLELEIDNLKEELEDLRRKYEEELAERKDLEEELESLRKDLDEETLARVDLENQIQSLKEEL  133 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHHHHHHHHH
Confidence            33334444444444444444444444444445554444444444444444444555555555444

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 ....

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

Probab=97.58  E-value=0.16  Score=58.55  Aligned_cols=70  Identities=11%  Similarity=0.314  Sum_probs=52.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRI  732 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeL  732 (913)
                      ..+..+|..+++.|....+++..+.+.++.++.+...+..+|.....++..++..|.+....+..|+.+.
T Consensus        41 ~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l~~q~  110 (420)
T COG4942          41 KQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALEVQE  110 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHH
Confidence            3577777777777777777777777777777777777777777777777777777777777777665544

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

Probab=97.57  E-value=0.0074  Score=64.67  Aligned_cols=65  Identities=18%  Similarity=0.256  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          668 QIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRI  732 (913)
Q Consensus       668 KIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeL  732 (913)
                      .|..++.++..+.-.+..+...+.++++++..++..+-.+..++..++.++..+..+|+.++.++
T Consensus        11 ~iq~lD~e~~rl~~~~~~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~   75 (239)
T COG1579          11 AIQKLDLEKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERI   75 (239)
T ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566666666666666666666666666666666555555555555555554444444444433

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

Probab=97.57  E-value=0.02  Score=60.51  Aligned_cols=59  Identities=17%  Similarity=0.205  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAY  859 (913)
Q Consensus       801 nIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAy  859 (913)
                      .+.++|+.+...+.+...+...+...+..|...++.+...|...+..+..+...++..+
T Consensus       173 ~~e~~i~~L~~~lkeaE~Rae~aE~~v~~Le~~id~le~eL~~~k~~~~~~~~eld~~l  231 (237)
T PF00261_consen  173 EYEEKIRDLEEKLKEAENRAEFAERRVKKLEKEIDRLEDELEKEKEKYKKVQEELDQTL  231 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444444444444444444444444444444444333

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 ....

>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells

Probab=97.56  E-value=0.16  Score=54.34  Aligned_cols=151  Identities=9%  Similarity=0.193  Sum_probs=85.1

Q ss_pred             HHHHHHHHHHHHHHHhhcC-----CCcHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHH-HHHHH
Q 002520          741 VDDIDGSIRNMEHRIAHET-----LPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFL-RKEAD  814 (913)
Q Consensus       741 VEELQeEIkeLE~QIQheS-----LsLqEEKQlIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKEL-KKEID  814 (913)
                      +..+...|..+-.++....     ++-..=.+.+.++..+-..++... +...+..+...+..-..+-.+|+.. .+-..
T Consensus        96 i~~l~~~i~~l~~~~~~l~~~~~~~~~~~l~~~l~ea~~mL~emr~r~-f~~~~~~Ae~El~~A~~LL~~v~~~~~~~~~  174 (264)
T PF06008_consen   96 IQNLQDNIQELIEQVESLNENGDQLPSEDLQRALAEAQRMLEEMRKRD-FTPQRQNAEDELKEAEDLLSRVQKWFQKPQQ  174 (264)
T ss_pred             HHHHHHHHHHHHHHHHHhCcccCCCCHHHHHHHHHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence            3344444444444444333     222222338888888888887753 4443344444444434444444442 44444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 002520          815 SLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASK  892 (913)
Q Consensus       815 ELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARdLAa~  892 (913)
                      +.+.....+...+.....++..+++-+.+.....+.+...-...-..+.++..++..+..........+..|+++-.+
T Consensus       175 ~~~~l~~~i~~~L~~~~~kL~Dl~~~l~eA~~~~~ea~~ln~~n~~~l~~~~~k~~~l~~~~~~~~~~L~~a~~~L~~  252 (264)
T PF06008_consen  175 ENESLAEAIRDDLNDYNAKLQDLRDLLNEAQNKTREAEDLNRANQKNLEDLEKKKQELSEQQNEVSETLKEAEDLLDQ  252 (264)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444555555555555555555555555555555544444445666677777777888888888888888887654

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

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

Probab=97.55  E-value=0.062  Score=64.38  Aligned_cols=37  Identities=22%  Similarity=0.458  Sum_probs=27.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKE  699 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdE  699 (913)
                      .+.-.+|..|+++++.+.++|++++.+++.+|.+...
T Consensus       405 ~e~~QRva~lEkKvqa~~kERDalr~e~kslk~ela~  441 (961)
T KOG4673|consen  405 EEYHQRVATLEKKVQALTKERDALRREQKSLKKELAA  441 (961)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            5677778888888888888888888877766655444

>PRK04863 mukB cell division protein MukB; Provisional

Probab=97.54  E-value=0.13  Score=66.99  Aligned_cols=121  Identities=16%  Similarity=0.248  Sum_probs=66.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHhcc---
Q 002520          667 EQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQ-------SRINMMK---  736 (913)
Q Consensus       667 aKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQ-------SeLsKLr---  736 (913)
                      .++..+...++.+..++......+..++..+..+..++..+..++..++..+.++..++..++       ..+..+.   
T Consensus       348 ~ei~~l~~~LeELee~Lee~eeeLeeleeeleeleeEleelEeeLeeLqeqLaelqqel~elQ~el~q~qq~i~~Le~~~  427 (1486)
T PRK04863        348 EKIERYQADLEELEERLEEQNEVVEEADEQQEENEARAEAAEEEVDELKSQLADYQQALDVQQTRAIQYQQAVQALERAK  427 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444455555555555555555444444444444444444444444443333333332       2221111   


Q ss_pred             -----CCCCHHHHHHHHHHHHHHHhhcC--C-CcHHHHH-HHHHHHHHHHHHHHhhhccc
Q 002520          737 -----NAISVDDIDGSIRNMEHRIAHET--L-PLKEEKQ-IIREIKQLKQRREQISSSIG  787 (913)
Q Consensus       737 -----S~KSVEELQeEIkeLE~QIQheS--L-sLqEEKQ-lIrEISQLEkeRKdV~snIs  787 (913)
                           ..-|.++|+..+.....++...+  + .+..+.. +...+++++.....+....+
T Consensus       428 ~~~~~~~~SdEeLe~~LenF~aklee~e~qL~elE~kL~~lea~leql~~~~~~l~~~~G  487 (1486)
T PRK04863        428 QLCGLPDLTADNAEDWLEEFQAKEQEATEELLSLEQKLSVAQAAHSQFEQAYQLVRKIAG  487 (1486)
T ss_pred             HHhCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence                 14799999999999999988877  3 4555544 66677777777666554444

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

Probab=97.50  E-value=0.14  Score=60.18  Aligned_cols=47  Identities=11%  Similarity=0.185  Sum_probs=19.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          806 MKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAAD  852 (913)
Q Consensus       806 IKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAae  852 (913)
                      +...+.++++.+..+..+..++..|+..+..++.+|...+..+..+.
T Consensus       283 l~s~~~ELe~ak~~L~~~k~E~~~L~~~vesL~~ELe~~K~el~~lk  329 (522)
T PF05701_consen  283 LASAKKELEEAKKELEKAKEEASSLRASVESLRSELEKEKEELERLK  329 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444444333333333333333333333

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

>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=97.48  E-value=0.07  Score=66.12  Aligned_cols=82  Identities=13%  Similarity=0.129  Sum_probs=41.7

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          797 DQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHF  876 (913)
Q Consensus       797 eEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEF  876 (913)
                      ...+.|+-.+.++..++...+..+..+...+..|..++..+.+++..+......+.+++....+.+...-.++..+...+
T Consensus       815 ~e~e~l~lE~e~l~~e~~~~k~~l~~~~~~~~~l~~e~~~l~~kv~~~~~~~~~~~~el~~~k~k~~~~dt~i~~~~~~~  894 (1174)
T KOG0933|consen  815 NEYERLQLEHEELEKEISSLKQQLEQLEKQISSLKSELGNLEAKVDKVEKDVKKAQAELKDQKAKQRDIDTEISGLLTSQ  894 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHHHHhhhHHHhhhhhHH
Confidence            33445555555555566555555555555555555555555555555555444444444444444444444444433333


Q ss_pred             HH
Q 002520          877 WK  878 (913)
Q Consensus       877 yq  878 (913)
                      -.
T Consensus       895 e~  896 (1174)
T KOG0933|consen  895 EK  896 (1174)
T ss_pred             HH
Confidence            33

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

Probab=97.40  E-value=0.034  Score=69.28  Aligned_cols=59  Identities=12%  Similarity=0.237  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          670 KAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSV  728 (913)
Q Consensus       670 deLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesL  728 (913)
                      .+++.++..++++.+++...+.+.+..-.++...-.++..+..+++..+++.+++++.|
T Consensus      1418 ~~~~~~l~~~~ae~eq~~~~v~ea~~~aseA~~~Aq~~~~~a~as~~q~~~s~~el~~L 1476 (1758)
T KOG0994|consen 1418 GDADTQLRSKLAEAEQTLSMVREAKLSASEAQQSAQRALEQANASRSQMEESNRELRNL 1476 (1758)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555666666666666666665555555554444444444444444444444444433

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

Probab=97.40  E-value=0.097  Score=61.91  Aligned_cols=25  Identities=32%  Similarity=0.562  Sum_probs=10.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          801 QIEEKMKFLRKEADSLRENVIKAEA  825 (913)
Q Consensus       801 nIqEQIKELKKEIDELReKIkkLek  825 (913)
                      .+.+.++.+++++..|+..+..++.
T Consensus       166 ~le~e~~~Lk~en~rl~~~l~~~r~  190 (546)
T KOG0977|consen  166 ALEDELKRLKAENSRLREELARARK  190 (546)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            3344444444444444444444443

>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]

Probab=97.38  E-value=0.26  Score=58.40  Aligned_cols=57  Identities=11%  Similarity=0.180  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          810 RKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLK  866 (913)
Q Consensus       810 KKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELR  866 (913)
                      +..++++...+.+...+...|+.-+......+.+.++.+.....+..++-......+
T Consensus       424 ~el~~ei~~~~~~~~~~~~tLq~~~~~~~~~i~E~~~~l~~~~~el~~~~~~~~~~k  480 (581)
T KOG0995|consen  424 KELLDEISEELHEAENELETLQEHFSNKASTIEEKIQILGEIELELKKAESKYELKK  480 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555556666655555556555555555555555555555555554443333333

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

Probab=97.37  E-value=0.24  Score=65.05  Aligned_cols=142  Identities=15%  Similarity=0.263  Sum_probs=83.9

Q ss_pred             cHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHh-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          762 LKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQ-KDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEK  840 (913)
Q Consensus       762 LqEEKQlIrEISQLEkeRKdV~snIs~kakIEqSLeE-KenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaE  840 (913)
                      +.+=+++..+|.+|+..+......+.   .+...+.+ +..++.+++.+..++..+.++++.++.....|...+.+.++.
T Consensus      1306 ~~~~~kL~~ei~~Lk~el~~ke~~~~---el~~~~~~~q~~~k~qld~l~~e~~~lt~~~~ql~~~~~rL~~~~~e~~~q 1382 (1822)
T KOG4674|consen 1306 KNDYEKLKSEISRLKEELEEKENLIA---ELKKELNRLQEKIKKQLDELNNEKANLTKELEQLEDLKTRLAAALSEKNAQ 1382 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444466677777777664444333   55555554 346667777888888888888888877777777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc--CCHHHHHHHHHHHHH
Q 002520          841 LKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASK--GDREALQHLCVNQVR  907 (913)
Q Consensus       841 LdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARdLAa~--~dv~eLqelc~~QVE  907 (913)
                      .-++.....+.+..+.....++.++...+. ++.+....+..|.+++.+.+.  -.-.+++..|....+
T Consensus      1383 ~~el~~~~~~~~~~~e~t~rk~e~~~~k~~-~~~e~~sl~eeL~e~~q~~~~~~s~~e~i~~e~~~~~k 1450 (1822)
T KOG4674|consen 1383 ELELSDKKKAHELMQEDTSRKLEKLKEKLE-LSEELESLKEELEELQQLQATLQSETEAITKELFEAKK 1450 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-HHHHHHHHHHHHHHHHhHHHHhhhhHHHHHHHHHHHHH
Confidence            666666666655555555555555555554 444555555555544444332  333444555544443

>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=97.36  E-value=0.034  Score=68.80  Aligned_cols=65  Identities=18%  Similarity=0.184  Sum_probs=39.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          824 EAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQAND  888 (913)
Q Consensus       824 ekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARd  888 (913)
                      +.++......+.++..++.++.+.++..+++..+.+..+..++.+.........+.+..+..+++
T Consensus       289 ~~~~s~~~~~~~e~~~k~~~~~ek~~~~~~~v~~~~~~le~lk~~~~~rq~~i~~~~k~i~~~q~  353 (1072)
T KOG0979|consen  289 RSKISQKQRELNEALAKVQEKFEKLKEIEDEVEEKKNKLESLKKAAEKRQKRIEKAKKMILDAQA  353 (1072)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33344444444444566666666666666677777777777777777777777666666555543

>KOG0976 consensus Rho/Rac1-interacting serine/threonine kinase Citron [Signal transduction mechanisms]

Probab=97.33  E-value=0.18  Score=61.43  Aligned_cols=77  Identities=9%  Similarity=0.057  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          803 EEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKY  879 (913)
Q Consensus       803 qEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~  879 (913)
                      ..++..++-.+-+.|-+.+.++..+.+|.++.+.+-.....|++..+..+..+|.......++..|.+++.+..+.+
T Consensus       329 trqkadirc~LlEarrk~egfddk~~eLEKkrd~al~dvr~i~e~k~nve~elqsL~~l~aerqeQidelKn~if~~  405 (1265)
T KOG0976|consen  329 TRQKADIRCALLEARRKAEGFDDKLNELEKKRDMALMDVRSIQEKKENVEEELQSLLELQAERQEQIDELKNHIFRL  405 (1265)
T ss_pred             HHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence            34555666666666777777777788888888888888888888888888888777777777777777777665543

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=97.32  E-value=0.25  Score=64.02  Aligned_cols=34  Identities=15%  Similarity=0.252  Sum_probs=16.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRAS  696 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReE  696 (913)
                      .+|+.+|..+..++..+..++..+...+..+..+
T Consensus       745 ~el~~~IaeL~~~i~~l~~~l~~l~~r~~~L~~e  778 (1353)
T TIGR02680       745 AELDARLAAVDDELAELARELRALGARQRALADE  778 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455555555555555544444444444444443

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.

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

Probab=97.31  E-value=0.14  Score=60.11  Aligned_cols=89  Identities=21%  Similarity=0.247  Sum_probs=55.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------H
Q 002520          805 KMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQA--------------Y  870 (913)
Q Consensus       805 QIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~--------------D  870 (913)
                      .....+.+....+.++..++.+++..+..+..+..+|.....+..++...-..+...|+.|...-              .
T Consensus       380 Eae~Ak~ea~~~~~E~~~~k~E~e~~ka~i~t~E~rL~aa~ke~eaaKasEa~Ala~ik~l~e~~~~~~~~~~~~~~~Vt  459 (522)
T PF05701_consen  380 EAEEAKKEAEEAKEEVEKAKEEAEQTKAAIKTAEERLEAALKEAEAAKASEALALAEIKALSESESSSRASDSESSSKVT  459 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccccCCCCCee
Confidence            34444555666666666666666666666666666666666666666666666777777665432              1


Q ss_pred             HHHHHHHHHHHHHHHHHHhhhcC
Q 002520          871 DKNQHFWKYKDDTKQANDLASKG  893 (913)
Q Consensus       871 eLNsEFyq~Rr~l~kARdLAa~~  893 (913)
                      .-..+|+...+-...+.++|-++
T Consensus       460 ls~eEy~~L~~ka~e~ee~a~kk  482 (522)
T PF05701_consen  460 LSLEEYESLSKKAEEAEELAEKK  482 (522)
T ss_pred             ecHHHHHHHHHHHHHHHHHHHHH
Confidence            23356776666666677766643

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

>KOG0976 consensus Rho/Rac1-interacting serine/threonine kinase Citron [Signal transduction mechanisms]

Probab=97.30  E-value=0.27  Score=60.00  Aligned_cols=36  Identities=11%  Similarity=0.153  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          665 LREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEY  700 (913)
Q Consensus       665 LKaKIdeLekEIEeL~kqRdEInaELqeLReERdEL  700 (913)
                      |+..+..++.+|..|......+..+.+++.+-+..+
T Consensus        97 lEddlk~~~sQiriLQn~c~~lE~ekq~lQ~ti~~~  132 (1265)
T KOG0976|consen   97 LEDDLKHHESQIRILQNKCLRLEMEKQKLQDTIQGA  132 (1265)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333444444433333333333333333333333

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

Probab=97.30  E-value=0.057  Score=67.20  Aligned_cols=116  Identities=15%  Similarity=0.235  Sum_probs=86.8

Q ss_pred             HHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          768 IIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQ  847 (913)
Q Consensus       768 lIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeE  847 (913)
                      .+.++.-|+..++-      .++.+...+..+..++++++.++..+..+..++..+...+..+...+.++...++.++..
T Consensus       379 ~~~el~~ln~~~r~------~~~~ld~~~~~~~elE~r~k~l~~sver~~~~~~~L~~~i~s~~~~~~e~~~d~~~l~~~  452 (1141)
T KOG0018|consen  379 ALEELEVLNRNMRS------DQDTLDHELERRAELEARIKQLKESVERLDKRRNKLAAKITSLSRSYEELKHDLDSLESL  452 (1141)
T ss_pred             hHHHHHHHHHHHHH------HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcHHHHHHH
Confidence            34445555555443      233455556667788888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 002520          848 FKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDL  889 (913)
Q Consensus       848 lrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARdL  889 (913)
                      ...+..+-.+.-..|...+.++..+...++..-|..+.+.-+
T Consensus       453 ~~~~~~~~~e~n~eL~~~~~ql~das~dr~e~sR~~~~~eav  494 (1141)
T KOG0018|consen  453 VSSAEEEPYELNEELVEVLDQLLDASADRHEGSRRSRKQEAV  494 (1141)
T ss_pred             HhhhhhhHHHHHHHHHHHHHHHHhhhhhhcccHHHHHHHHHH
Confidence            888888888888888888888888888888766666555443

>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]

Probab=97.29  E-value=0.62  Score=55.40  Aligned_cols=24  Identities=17%  Similarity=0.292  Sum_probs=10.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          709 SDERSARESLKSKRQEIDSVQSRI  732 (913)
Q Consensus       709 eEIkrLReEInEKrKEIesLQSeL  732 (913)
                      +++.+.+.+.+++..++..++.++
T Consensus       332 ~dve~mn~Er~~l~r~l~~i~~~~  355 (581)
T KOG0995|consen  332 EDVERMNLERNKLKRELNKIQSEL  355 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444333

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

Probab=97.26  E-value=0.36  Score=58.87  Aligned_cols=17  Identities=0%  Similarity=0.321  Sum_probs=7.5

Q ss_pred             HHHHHHHHHHHHHhhcC
Q 002520          743 DIDGSIRNMEHRIAHET  759 (913)
Q Consensus       743 ELQeEIkeLE~QIQheS  759 (913)
                      .|+.+...|+++++.++
T Consensus       441 ql~~eletLn~k~qqls  457 (1118)
T KOG1029|consen  441 QLQQELETLNFKLQQLS  457 (1118)
T ss_pred             HHHHHHHHHHHHHHHHh
Confidence            34444444444444444

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=97.25  E-value=0.17  Score=59.92  Aligned_cols=22  Identities=0%  Similarity=-0.129  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 002520          862 WQSLKKQAYDKNQHFWKYKDDT  883 (913)
Q Consensus       862 IkELRkQ~DeLNsEFyq~Rr~l  883 (913)
                      -+..|..+..++.+|-++.+.-
T Consensus       509 ~nRfr~~~~~V~~~f~~Ae~lF  530 (569)
T PRK04778        509 ANRYRSDNEEVAEALNEAERLF  530 (569)
T ss_pred             HhccCCCCHHHHHHHHHHHHHH
Confidence            3344444455555554444433

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

Probab=97.25  E-value=0.12  Score=67.56  Aligned_cols=172  Identities=14%  Similarity=0.196  Sum_probs=104.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhcC-
Q 002520          681 RSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHET-  759 (913)
Q Consensus       681 kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLsKLrS~KSVEELQeEIkeLE~QIQheS-  759 (913)
                      ...+.....+..++....++..+-+-+...+.+.+.+|..++.++..|.+++.+++  .+.-+++.+++.+...--..+ 
T Consensus       101 ~~~~~~~~~~~~l~~~~se~~~qkr~l~~~le~~~~ele~l~~~n~~l~~ql~ss~--~~~~e~e~r~~e~~s~~vs~q~  178 (1822)
T KOG4674|consen  101 WEIDALKLENSQLRRAKSELQEQKRQLMELLERQKAELEALESENKDLNDQLKSST--KTLSELEARLQETQSEDVSSQL  178 (1822)
T ss_pred             HHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444444445444455555555666666666666666666666555  566677776666554433333 


Q ss_pred             -C-CcHHHHH-HHHHHHHHHHHHHHhhhcccchhHHHHHH-HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          760 -L-PLKEEKQ-IIREIKQLKQRREQISSSIGEHDEVQLAF-DQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHR  835 (913)
Q Consensus       760 -L-sLqEEKQ-lIrEISQLEkeRKdV~snIs~kakIEqSL-eEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIe  835 (913)
                       + .|+-||. +..++.-|...+..+.....   .+.+.- .....|+..+..++..+..++.+++.+......|.+++.
T Consensus       179 k~~rl~QEksll~s~~~wL~~eL~~~~ekll---~~~re~s~~~~~L~~~L~~~~~~~~~~q~~~~~l~q~~~eLs~~ie  255 (1822)
T KOG4674|consen  179 KEERLEQEKSLLESENKWLSRELSKVNEKLL---SLRREHSIEVEQLEEKLSDLKESLAELQEKNKSLKQQNEELSKKIE  255 (1822)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH---HHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             2 6777888 77788888777766554433   111110 113466677777788888888888888888888887777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 002520          836 EESEKLKRLLGQFKAADEIRQE  857 (913)
Q Consensus       836 EAqaELdELqeElrAaeEeRQE  857 (913)
                      .....+..+++.......+-.+
T Consensus       256 ~~~~~ls~~k~t~~s~~~kf~~  277 (1822)
T KOG4674|consen  256 SLNLELSKLKDTAESSEEKFEK  277 (1822)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHH
Confidence            7777777766655555444333

>PRK04863 mukB cell division protein MukB; Provisional

Probab=97.24  E-value=0.18  Score=65.75  Aligned_cols=30  Identities=10%  Similarity=0.206  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 002520          860 KHWQSLKKQAYDKNQHFWKYKDDTKQANDL  889 (913)
Q Consensus       860 ekIkELRkQ~DeLNsEFyq~Rr~l~kARdL  889 (913)
                      ..+..++.++.++...+.+-++.-+-.+++
T Consensus       513 ~~~~~~~~~~~~l~~~~~~q~~~~~~~~~~  542 (1486)
T PRK04863        513 EQLQQLRMRLSELEQRLRQQQRAERLLAEF  542 (1486)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444455555666666555444444444443

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

Probab=97.21  E-value=0.41  Score=59.16  Aligned_cols=22  Identities=14%  Similarity=0.092  Sum_probs=15.2

Q ss_pred             CCcCCCchhhhhhhcccccccc
Q 002520          627 STPEGSTVDASESRNIGVEVVK  648 (913)
Q Consensus       627 k~~eesLKDaVEe~kE~Ld~LR  648 (913)
                      ++.+..|...+.++.+.|+.+|
T Consensus       223 skte~eLr~QvrdLtEkLetlR  244 (1243)
T KOG0971|consen  223 SKTEEELRAQVRDLTEKLETLR  244 (1243)
T ss_pred             ccchHHHHHHHHHHHHHHHHHH
Confidence            3444557777888888888755

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

Probab=97.21  E-value=0.37  Score=60.77  Aligned_cols=212  Identities=13%  Similarity=0.160  Sum_probs=103.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------------
Q 002520          665 LREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSR-------------  731 (913)
Q Consensus       665 LKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSe-------------  731 (913)
                      +..+|....++.+...+.+.+......+.+.+-+.+..+-++.+++....+.++..++++|.....+             
T Consensus      1420 ~~~~l~~~~ae~eq~~~~v~ea~~~aseA~~~Aq~~~~~a~as~~q~~~s~~el~~Li~~v~~Flt~~~adp~si~~vA~ 1499 (1758)
T KOG0994|consen 1420 ADTQLRSKLAEAEQTLSMVREAKLSASEAQQSAQRALEQANASRSQMEESNRELRNLIQQVRDFLTQPDADPDSIEEVAE 1499 (1758)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Confidence            4445555555555555555554444444554444454445555555555555566665555433211             


Q ss_pred             -HHhccCCCCHHHHHHHHHHHHHHHhhcC-C--CcHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHH
Q 002520          732 -INMMKNAISVDDIDGSIRNMEHRIAHET-L--PLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMK  807 (913)
Q Consensus       732 -LsKLrS~KSVEELQeEIkeLE~QIQheS-L--sLqEEKQlIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIK  807 (913)
                       .-.+-=-.+.++|+..-..+..++..+. +  -|.+=|.-+....+|...-+..+..             -+.++.+.+
T Consensus      1500 ~vL~l~lp~tpeqi~~L~~~I~e~v~sL~nVd~IL~~T~~di~ra~~L~s~A~~a~~~-------------A~~v~~~ae 1566 (1758)
T KOG0994|consen 1500 EVLALELPLTPEQIQQLTGEIQERVASLPNVDAILSRTKGDIARAENLQSEAERARSR-------------AEDVKGQAE 1566 (1758)
T ss_pred             HHHhccCCCCHHHHHHHHHHHHHHHHhcccHHHHHHhhhhhHHHHHHHHHHHHHHHhH-------------HHHHHHHHH
Confidence             1111112455555555444444444443 1  2333233222233333222221111             112222233


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          808 FLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQAN  887 (913)
Q Consensus       808 ELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kAR  887 (913)
                      ..+..+.+-......+...|+.....+.-++..|.+++++..+++.....+-..+.+|-..+.++...+.++-.....|.
T Consensus      1567 ~V~eaL~~Ad~Aq~~a~~ai~~a~~~~~~a~~~l~kv~~~t~~aE~~~~~a~q~~~eL~~~~e~lk~~~~qns~~A~~a~ 1646 (1758)
T KOG0994|consen 1567 DVVEALEEADVAQGEAQDAIQGADRDIRLAQQLLAKVQEETAAAEKLATSATQQLGELETRMEELKHKAAQNSAEAKQAE 1646 (1758)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHH
Confidence            33333333333333344445555555666667777777777777777777777777777777766666666555544444


Q ss_pred             Hh
Q 002520          888 DL  889 (913)
Q Consensus       888 dL  889 (913)
                      ..
T Consensus      1647 ~~ 1648 (1758)
T KOG0994|consen 1647 KT 1648 (1758)
T ss_pred             HH
Confidence            33

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=97.21  E-value=0.4  Score=57.51  Aligned_cols=70  Identities=13%  Similarity=0.272  Sum_probs=45.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAI----SDERSARESLKSKRQEIDSVQSRI  732 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLV----eEIkrLReEInEKrKEIesLQSeL  732 (913)
                      ..|+.++..+..+++.+.+++..+...+..+..++..+..+++..-    .+..+++.++..++.++...+.++
T Consensus       212 ~~le~el~~l~~~~e~l~~~i~~l~~ele~a~~~l~~l~~~~~~~GG~~~~~r~~Le~ei~~le~e~~e~~~~l  285 (650)
T TIGR03185       212 EALEAELKEQSEKYEDLAQEIAHLRNELEEAQRSLESLEKKFRSEGGDLFEEREQLERQLKEIEAARKANRAQL  285 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6788888888888888888888888887777777777777665442    223344444444444444444444

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.

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

Probab=97.20  E-value=0.46  Score=60.31  Aligned_cols=39  Identities=31%  Similarity=0.298  Sum_probs=31.9

Q ss_pred             cchhhhccccCCCCcccccccccccccccccccccccch
Q 002520          387 TEPEVLQGGIDGVDERSISVDNAAVESCTSESVYEESTA  425 (913)
Q Consensus       387 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  425 (913)
                      .-|||||+..+|-++--...|--.+--|.-|-.|.+.|.
T Consensus       243 ISPEvLqs~~~~~g~yG~ecDwWSlGV~~YEMlyG~TPF  281 (1317)
T KOG0612|consen  243 ISPEVLQSQGDGKGEYGRECDWWSLGVFMYEMLYGETPF  281 (1317)
T ss_pred             cCHHHHHhhcCCccccCCccchhhhHHHHHHHHcCCCcc
Confidence            469999999998788777888887778888888877775

>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=97.16  E-value=0.24  Score=60.93  Aligned_cols=41  Identities=15%  Similarity=0.226  Sum_probs=18.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          804 EKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRL  844 (913)
Q Consensus       804 EQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdEL  844 (913)
                      ++++.+++++..++.++..+..++.+..-.+..++.+...+
T Consensus       465 Eele~~~~e~~~lk~~~~~LQ~eLsEk~~~l~~~kee~s~l  505 (775)
T PF10174_consen  465 EELETYQKELKELKAKLESLQKELSEKELQLEDAKEEASKL  505 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhHHHHH
Confidence            34444444444444444444444444444444444444433

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 [].

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

Probab=97.15  E-value=0.054  Score=59.79  Aligned_cols=22  Identities=9%  Similarity=0.022  Sum_probs=13.6

Q ss_pred             CCCHHHHHHHHHHHHHHHhhcC
Q 002520          738 AISVDDIDGSIRNMEHRIAHET  759 (913)
Q Consensus       738 ~KSVEELQeEIkeLE~QIQheS  759 (913)
                      .++..-++++-...+|++++..
T Consensus       127 vK~~aRl~aK~~WYeWR~~ll~  148 (325)
T PF08317_consen  127 VKTYARLEAKKMWYEWRMQLLE  148 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3455566666666666666655

>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=97.13  E-value=0.38  Score=57.05  Aligned_cols=97  Identities=14%  Similarity=0.338  Sum_probs=53.8

Q ss_pred             hHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-
Q 002520          663 ENLREQIKAAQSKVDE-----KTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMK-  736 (913)
Q Consensus       663 PeLKaKIdeLekEIEe-----L~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLsKLr-  736 (913)
                      |++...+..++..+..     .+..+..+...+.........+...|..+...-..-+.++..+....+.++..+...+ 
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            5566666555554333     3444555555555555666666666666655555555555555555555555552222 


Q ss_pred             C-CCCHHHHHHHHHHHHHHHhhcC
Q 002520          737 N-AISVDDIDGSIRNMEHRIAHET  759 (913)
Q Consensus       737 S-~KSVEELQeEIkeLE~QIQheS  759 (913)
                      + ..+.+.|..++..++.....-.
T Consensus       158 ~~G~a~~~Le~~L~~ie~~F~~f~  181 (560)
T PF06160_consen  158 SYGPAIEELEKQLENIEEEFSEFE  181 (560)
T ss_pred             hhchhHHHHHHHHHHHHHHHHHHH
Confidence            1 2577777777777766655443

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

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

Probab=97.11  E-value=0.094  Score=63.72  Aligned_cols=82  Identities=17%  Similarity=0.217  Sum_probs=53.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          804 EKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDT  883 (913)
Q Consensus       804 EQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l  883 (913)
                      +++..++.++.++|.--++-..+++.|..-+...+++-..|...+.+..+.+...|..|.+.|.|+..+....++--+.+
T Consensus       566 e~~~~~e~~~~~lr~~~~e~~~~~e~L~~aL~amqdk~~~LE~sLsaEtriKldLfsaLg~akrq~ei~~~~~~~~d~ei  645 (697)
T PF09726_consen  566 EQIRELESELQELRKYEKESEKDTEVLMSALSAMQDKNQHLENSLSAETRIKLDLFSALGDAKRQLEIAQGQLRKKDKEI  645 (697)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444445555555432223345566666666666666667777777777888888888888888888888777666655


Q ss_pred             HH
Q 002520          884 KQ  885 (913)
Q Consensus       884 ~k  885 (913)
                      ..
T Consensus       646 ~~  647 (697)
T PF09726_consen  646 EE  647 (697)
T ss_pred             HH
Confidence            43

; GO: 0016021 integral to membrane

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.10  E-value=0.27  Score=53.75  Aligned_cols=62  Identities=8%  Similarity=0.255  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          666 REQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDS  727 (913)
Q Consensus       666 KaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIes  727 (913)
                      ..+|..+.++...+..+++.+...+.++..+++++..++..+-++++.++.+|..+.+.|..
T Consensus        37 ds~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~   98 (265)
T COG3883          37 DSKLSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVE   98 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444444455555554444545555555555555554443

>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=97.10  E-value=0.16  Score=60.16  Aligned_cols=90  Identities=19%  Similarity=0.229  Sum_probs=55.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          806 MKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQ  885 (913)
Q Consensus       806 IKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~k  885 (913)
                      .+.+.+++..+......+...+..=...+..+...+.++..++....+...+..+.+..|++.-..+.....+++..++.
T Consensus       346 ~~~l~~~l~~l~~~~~~~~~~i~~~~~~yS~i~~~l~~~~~~l~~ie~~q~~~~~~l~~L~~dE~~Ar~~l~~~~~~l~~  425 (560)
T PF06160_consen  346 VRELEKQLKELEKRYEDLEERIEEQQVPYSEIQEELEEIEEQLEEIEEEQEEINESLQSLRKDEKEAREKLQKLKQKLRE  425 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555555555555555555666666666666666666666666777777777766666666666666666


Q ss_pred             HHHhhhcCCH
Q 002520          886 ANDLASKGDR  895 (913)
Q Consensus       886 ARdLAa~~dv  895 (913)
                      .+-...+-+.
T Consensus       426 ikR~lek~nL  435 (560)
T PF06160_consen  426 IKRRLEKSNL  435 (560)
T ss_pred             HHHHHHHcCC
Confidence            6666555444

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

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

Probab=97.10  E-value=0.45  Score=55.46  Aligned_cols=125  Identities=16%  Similarity=0.290  Sum_probs=75.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQ----------TIRASYKEYAEKLEAAISDERSARESLKSKRQEID------  726 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELq----------eLReERdELeSeLKkLVeEIkrLReEInEKrKEIe------  726 (913)
                      ..|+.+|..-+.+|+.|+.+++.+.+.+.          .+.++|..|..+|..+-.++..+++.+.+..-+++      
T Consensus       333 ~kl~~eie~kEeei~~L~~~~d~L~~q~~kq~Is~e~fe~mn~Ere~L~reL~~i~~~~~~L~k~V~~~~leaq~~~~sl  412 (622)
T COG5185         333 EKLKSEIELKEEEIKALQSNIDELHKQLRKQGISTEQFELMNQEREKLTRELDKINIQSDKLTKSVKSRKLEAQGIFKSL  412 (622)
T ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHhHHHHHHHHHHHH
Confidence            45666666666666666666665555443          34566777776676666666666666554443332      


Q ss_pred             --------HHHHHHH-------hccC----------------------CCCHHHHHHHHHHHHHHHhhcCCCcHHHHH-H
Q 002520          727 --------SVQSRIN-------MMKN----------------------AISVDDIDGSIRNMEHRIAHETLPLKEEKQ-I  768 (913)
Q Consensus       727 --------sLQSeLs-------KLrS----------------------~KSVEELQeEIkeLE~QIQheSLsLqEEKQ-l  768 (913)
                              .|...++       +..+                      .+++.||+..|+..=...+..+|+|++... +
T Consensus       413 ek~~~~~~sl~~~i~~~~~~i~~~~nd~~l~iN~E~~~~~~sg~~~~I~~~i~eln~~i~~~~~~e~nksi~Lee~i~~~  492 (622)
T COG5185         413 EKTLRQYDSLIQNITRSRSQIGHNVNDSSLKINIEQLFPKGSGINESIKKSILELNDEIQERIKTEENKSITLEEDIKNL  492 (622)
T ss_pred             HHHHHHHHHHHHHhcccHHHHhhcCCCCceeeccccCCccccCchHhHHHHHHHHhHHHHHHHHHHhccceeHHHHhhhH
Confidence                    2222221       1110                      157777777777776666666788888877 7


Q ss_pred             HHHHHHHHHHHHHhhhccc
Q 002520          769 IREIKQLKQRREQISSSIG  787 (913)
Q Consensus       769 IrEISQLEkeRKdV~snIs  787 (913)
                      -..|+.|...+..+...+.
T Consensus       493 ~~~i~El~~~l~~~e~~L~  511 (622)
T COG5185         493 KHDINELTQILEKLELELS  511 (622)
T ss_pred             HhHHHHHHHHHHHHHHHHH
Confidence            7778888777766555444

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.07  E-value=0.3  Score=53.38  Aligned_cols=61  Identities=10%  Similarity=0.249  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQE  724 (913)
Q Consensus       664 eLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKE  724 (913)
                      .+.+....++.+|+.|..+++++..++..++.+.+.+...|+.+-.+|..++..|.+...-
T Consensus        42 ~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~  102 (265)
T COG3883          42 ELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQEL  102 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444445555555555555555555555555555555555555555555555554444433

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

Probab=97.04  E-value=0.34  Score=53.68  Aligned_cols=126  Identities=17%  Similarity=0.333  Sum_probs=64.2

Q ss_pred             CHHHHHHHHHHHHHHHhhcC--C-CcHHHHH-HHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHHH
Q 002520          740 SVDDIDGSIRNMEHRIAHET--L-PLKEEKQ-IIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADS  815 (913)
Q Consensus       740 SVEELQeEIkeLE~QIQheS--L-sLqEEKQ-lIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEIDE  815 (913)
                      ..+.|+...+.|...+....  + .|.+.+. +..+|.+|+.........  .+.       +...++.++.....++..
T Consensus       157 ~~~~L~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~Lk~~~~e~~~~--D~~-------eL~~lr~eL~~~~~~i~~  227 (325)
T PF08317_consen  157 NLELLQEDYAKLDKQLEQLDELLPKLRERKAELEEELENLKQLVEEIESC--DQE-------ELEALRQELAEQKEEIEA  227 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc--CHH-------HHHHHHHHHHHHHHHHHH
Confidence            34444444444444444433  2 4555555 677777777665542211  112       223444444455555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH
Q 002520          816 LRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQE----AYKHWQSLKKQAYDKNQ  874 (913)
Q Consensus       816 LReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQE----AyekIkELRkQ~DeLNs  874 (913)
                      .+.++..++.++..+..++++..++..++..+...++..+.+    ....+..|+.+++.+..
T Consensus       228 ~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~~~~~r~~t~~Ev~~Lk~~~~~Le~  290 (325)
T PF08317_consen  228 KKKELAELQEELEELEEKIEELEEQKQELLAEIAEAEKIREECRGWTRSEVKRLKAKVDALEK  290 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHH
Confidence            555555555555555555555555555555555555544433    25566666666666544

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=97.04  E-value=0.36  Score=50.48  Aligned_cols=26  Identities=27%  Similarity=0.446  Sum_probs=11.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          669 IKAAQSKVDEKTRSRDAIRDDIQTIR  694 (913)
Q Consensus       669 IdeLekEIEeL~kqRdEInaELqeLR  694 (913)
                      |..|..++..+...+.++..+...++
T Consensus        14 i~~L~n~l~elq~~l~~l~~ENk~Lk   39 (194)
T PF15619_consen   14 IKELQNELAELQRKLQELRKENKTLK   39 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444444443

>PRK09039 hypothetical protein; Validated

Probab=97.03  E-value=0.069  Score=59.70  Aligned_cols=48  Identities=27%  Similarity=0.351  Sum_probs=23.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          805 KMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAAD  852 (913)
Q Consensus       805 QIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAae  852 (913)
                      +|..++.+|..||.++..++..|..++.+..+++.++.++..+++.+.
T Consensus       138 ~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a~  185 (343)
T PRK09039        138 QVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVAL  185 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444445555555555555555555555444444455555444444433

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

Probab=97.03  E-value=0.42  Score=57.57  Aligned_cols=40  Identities=3%  Similarity=0.204  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          693 IRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRI  732 (913)
Q Consensus       693 LReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeL  732 (913)
                      |+.+...+..++..+..+.......+.++...|..|+.++
T Consensus        27 ~qqr~~qmseev~~L~eEk~~~~~~V~eLE~sL~eLk~q~   66 (617)
T PF15070_consen   27 WQQRMQQMSEEVRTLKEEKEHDISRVQELERSLSELKNQM   66 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3444444444444444444444444444444444444433

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

Probab=96.96  E-value=0.53  Score=54.93  Aligned_cols=26  Identities=8%  Similarity=-0.040  Sum_probs=14.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          861 HWQSLKKQAYDKNQHFWKYKDDTKQA  886 (913)
Q Consensus       861 kIkELRkQ~DeLNsEFyq~Rr~l~kA  886 (913)
                      .++..+-.++++..+...+|-.+.+.
T Consensus       559 ~vqs~~i~ld~~~~~~n~~r~~i~k~  584 (622)
T COG5185         559 LVQSTEIKLDELKVDLNRKRYKIHKQ  584 (622)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence            34444555666666665666555543

>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=96.95  E-value=0.49  Score=59.13  Aligned_cols=173  Identities=12%  Similarity=0.172  Sum_probs=82.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhcCCCcHH
Q 002520          685 AIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKE  764 (913)
Q Consensus       685 EInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLsKLrS~KSVEELQeEIkeLE~QIQheSLsLqE  764 (913)
                      ..-.++..++.+.+.|...+..--+.+.+++.++..+.+.++.+++......   -++-+......++|+      ...+
T Consensus       178 ~~h~eL~~lr~~e~~Le~~~~~~~~~l~~L~~~~~~l~kdVE~~rer~~~~~---~Ie~l~~k~~~v~y~------~~~~  248 (1072)
T KOG0979|consen  178 QYHIELMDLREDEKSLEDKLTTKTEKLNRLEDEIDKLEKDVERVRERERKKS---KIELLEKKKKWVEYK------KHDR  248 (1072)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHhccccchH------hhhH
Confidence            3344455566667777776777777778888888888888877766544221   122222222222222      2222


Q ss_pred             HHH-HHHHHHHHHHHHHHhhhccc----chhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          765 EKQ-IIREIKQLKQRREQISSSIG----EHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESE  839 (913)
Q Consensus       765 EKQ-lIrEISQLEkeRKdV~snIs----~kakIEqSLeEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqa  839 (913)
                      |.. .......++..++.+..-+.    ++.+++.   ++.....+++.+..++++...++.+.-..++.+.+++.++..
T Consensus       249 ey~~~k~~~~r~k~~~r~l~k~~~pi~~~~eeLe~---~~~et~~~~s~~~~~~~e~~~k~~~~~ek~~~~~~~v~~~~~  325 (1072)
T KOG0979|consen  249 EYNAYKQAKDRAKKELRKLEKEIKPIEDKKEELES---EKKETRSKISQKQRELNEALAKVQEKFEKLKEIEDEVEEKKN  325 (1072)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhHHh---HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            222 22222233333322211111    1112221   233344444444444444444444444455555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          840 KLKRLLGQFKAADEIRQEAYKHWQSLKKQA  869 (913)
Q Consensus       840 ELdELqeElrAaeEeRQEAyekIkELRkQ~  869 (913)
                      ++..++.+.........++...|..++..+
T Consensus       326 ~le~lk~~~~~rq~~i~~~~k~i~~~q~el  355 (1072)
T KOG0979|consen  326 KLESLKKAAEKRQKRIEKAKKMILDAQAEL  355 (1072)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            555555555555555555555555555443

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

Probab=96.94  E-value=1.6  Score=54.55  Aligned_cols=40  Identities=10%  Similarity=0.223  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHH
Q 002520          741 VDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQ  781 (913)
Q Consensus       741 VEELQeEIkeLE~QIQheSLsLqEEKQlIrEISQLEkeRKd  781 (913)
                      ..+|+.....++..++.. .......++...+..|...+..
T Consensus       602 ~~~l~~~~~~l~~~~~~~-~~~~~~~e~~~~~~~l~~~~~~  641 (908)
T COG0419         602 LKELEERLSQLEELLQSL-ELSEAENELEEAEEELESELEK  641 (908)
T ss_pred             HHHHHHHHHHHHHHHHhh-hhHHHHHHHHHHHHHHHHHHHH
Confidence            445555555555554444 2222222344444444444443

>smart00787 Spc7 Spc7 kinetochore protein

Probab=96.91  E-value=0.099  Score=58.04  Aligned_cols=22  Identities=9%  Similarity=0.037  Sum_probs=13.8

Q ss_pred             CCCHHHHHHHHHHHHHHHhhcC
Q 002520          738 AISVDDIDGSIRNMEHRIAHET  759 (913)
Q Consensus       738 ~KSVEELQeEIkeLE~QIQheS  759 (913)
                      .++-.-++++=...+|++++..
T Consensus       122 vK~~aRl~ak~~WYeWR~klle  143 (312)
T smart00787      122 VKTFARLEAKKMWYEWRMKLLE  143 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3455566666666777766655

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

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

Probab=96.90  E-value=1.2  Score=51.01  Aligned_cols=58  Identities=12%  Similarity=0.232  Sum_probs=31.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          668 QIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEI  725 (913)
Q Consensus       668 KIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEI  725 (913)
                      +++++..++..++.++.....+....+.+|...+++|.+.+.+....+.++...++++
T Consensus        75 qlddi~~qlr~~rtel~~a~~~k~~~e~er~~~~~El~~~r~e~~~v~~~~~~a~~n~  132 (499)
T COG4372          75 QLDDIRPQLRALRTELGTAQGEKRAAETEREAARSELQKARQEREAVRQELAAARQNL  132 (499)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455555555555555555555566666666666666555555555555444444

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

Probab=96.87  E-value=0.24  Score=59.36  Aligned_cols=95  Identities=9%  Similarity=0.219  Sum_probs=49.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC-CCCHHH
Q 002520          665 LREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKN-AISVDD  743 (913)
Q Consensus       665 LKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLsKLrS-~KSVEE  743 (913)
                      .+.+....+.+++.+..+++.+...+..+....+.+...++.+..++.+.+.+...+.+++.-......-+.. -..++.
T Consensus       319 ~~~~~~~~~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~~~~l~~k~~~lL~d~e~ni~k  398 (594)
T PF05667_consen  319 EEDEQEEQEQELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEEELKLKKKTVELLPDAEENIAK  398 (594)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHH
Confidence            3344444455555555555555555555566666666656666555555555555555555422222222222 145566


Q ss_pred             HHHHHHHHHHHHhhcC
Q 002520          744 IDGSIRNMEHRIAHET  759 (913)
Q Consensus       744 LQeEIkeLE~QIQheS  759 (913)
                      |+..+..-..++.++.
T Consensus       399 L~~~v~~s~~rl~~L~  414 (594)
T PF05667_consen  399 LQALVEASEQRLVELA  414 (594)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            6665555555544443

>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily

Probab=96.83  E-value=0.31  Score=55.95  Aligned_cols=80  Identities=20%  Similarity=0.351  Sum_probs=41.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc------CCCCHHHHHHHHHHHHHHHhhcCCCcHH----HHHHHHH
Q 002520          702 EKLEAAISDERSARESLKSKRQEIDSVQSRINMMK------NAISVDDIDGSIRNMEHRIAHETLPLKE----EKQIIRE  771 (913)
Q Consensus       702 SeLKkLVeEIkrLReEInEKrKEIesLQSeLsKLr------S~KSVEELQeEIkeLE~QIQheSLsLqE----EKQlIrE  771 (913)
                      .+|..+..++..++.++...+..++.|+..+....      +......+..++..++.++......+.+    =+.+.++
T Consensus       204 ~~l~~l~~~l~~~~~~l~~~~a~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~l~~~y~~~hP~v~~l~~q  283 (498)
T TIGR03007       204 SEISEAQEELEAARLELNEAIAQRDALKRQLGGEEPVLLAGSSVANSELDGRIEALEKQLDALRLRYTDKHPDVIATKRE  283 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcCcccccCCCchHHHHHHHHHHHHHHHHHhcccChHHHHHHHH
Confidence            33444444555555555555555555555443211      1123456666777777666665521111    1335666


Q ss_pred             HHHHHHHHHH
Q 002520          772 IKQLKQRREQ  781 (913)
Q Consensus       772 ISQLEkeRKd  781 (913)
                      |..|+..+..
T Consensus       284 i~~l~~~l~~  293 (498)
T TIGR03007       284 IAQLEEQKEE  293 (498)
T ss_pred             HHHHHHHHHh
Confidence            6666666544

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.

>KOG4643 consensus Uncharacterized coiled-coil protein [Function unknown]

Probab=96.68  E-value=0.89  Score=56.96  Aligned_cols=36  Identities=8%  Similarity=0.135  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          682 SRDAIRDDIQTIRASYKEYAEKLEAAISDERSARES  717 (913)
Q Consensus       682 qRdEInaELqeLReERdELeSeLKkLVeEIkrLReE  717 (913)
                      ++-+++.++..++..|+-.+.++..+..++..+...
T Consensus       302 eiiqlkqkl~dm~~erdtdr~kteeL~eEnstLq~q  337 (1195)
T KOG4643|consen  302 EIIQLKQKLDDMRSERDTDRHKTEELHEENSTLQVQ  337 (1195)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHH
Confidence            344555566666666666666666666555554444

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

Probab=96.68  E-value=0.62  Score=51.38  Aligned_cols=22  Identities=9%  Similarity=0.049  Sum_probs=11.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRD  684 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRd  684 (913)
                      +.+..++..++.++..+..++.
T Consensus        77 ~~~~~~l~~l~~~~~~l~a~~~   98 (423)
T TIGR01843        77 TDVEADAAELESQVLRLEAEVA   98 (423)
T ss_pred             chhhhHHHHHHHHHHHHHHHHH
Confidence            4455555555555555544443

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.

>PRK09039 hypothetical protein; Validated

Probab=96.66  E-value=0.42  Score=53.62  Aligned_cols=48  Identities=13%  Similarity=0.169  Sum_probs=23.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          665 LREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDER  712 (913)
Q Consensus       665 LKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIk  712 (913)
                      |..+|...++++..+..++.++-..+.--+.....+..+|..+..++.
T Consensus        44 Ls~~i~~~~~eL~~L~~qIa~L~e~L~le~~~~~~l~~~l~~l~~~l~   91 (343)
T PRK09039         44 LSREISGKDSALDRLNSQIAELADLLSLERQGNQDLQDSVANLRASLS   91 (343)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            455555555555555555555444444444444444444444443333

>TIGR00634 recN DNA repair protein RecN

Probab=96.64  E-value=0.93  Score=53.62  Aligned_cols=44  Identities=7%  Similarity=-0.030  Sum_probs=31.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCHHHHHHHH
Q 002520          859 YKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQHLC  902 (913)
Q Consensus       859 yekIkELRkQ~DeLNsEFyq~Rr~l~kARdLAa~~dv~eLqelc  902 (913)
                      -..+..+..++..+...|.++-..+.++|.-++..-.+.+...+
T Consensus       345 ~~~le~L~~el~~l~~~l~~~a~~Ls~~R~~~a~~l~~~v~~~l  388 (563)
T TIGR00634       345 DESLEALEEEVDKLEEELDKAAVALSLIRRKAAERLAKRVEQEL  388 (563)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34677888888888888888888888888877754444444433

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

>PF13514 AAA_27: AAA domain

Probab=96.58  E-value=1.1  Score=57.00  Aligned_cols=12  Identities=17%  Similarity=0.426  Sum_probs=5.6

Q ss_pred             HHHHHHHHHHHH
Q 002520          768 IIREIKQLKQRR  779 (913)
Q Consensus       768 lIrEISQLEkeR  779 (913)
                      +..++..++..+
T Consensus       859 l~~~~~~~~~~l  870 (1111)
T PF13514_consen  859 LREELEDLERQL  870 (1111)
T ss_pred             HHHHHHHHHHHH
Confidence            444444444444

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=96.57  E-value=1.5  Score=57.13  Aligned_cols=41  Identities=10%  Similarity=0.218  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          665 LREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLE  705 (913)
Q Consensus       665 LKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLK  705 (913)
                      =..+|..|+.+|..+..++..+...+..+...+..+..+.+
T Consensus       740 R~~ri~el~~~IaeL~~~i~~l~~~l~~l~~r~~~L~~e~~  780 (1353)
T TIGR02680       740 RLRRIAELDARLAAVDDELAELARELRALGARQRALADELA  780 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34578888888888888888888888888888887777643

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.

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

Probab=96.55  E-value=1.1  Score=57.70  Aligned_cols=69  Identities=19%  Similarity=0.233  Sum_probs=38.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          800 DQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAY  870 (913)
Q Consensus       800 enIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~D  870 (913)
                      -.+..+++++..++..+..++..++  +...+.++..+...+..+..+...+.-...+.-..+..++.++.
T Consensus      1011 ~~l~~q~~e~~re~~~ld~Qi~~~~--~~~~~ee~~~L~~~~~~l~se~~~~lg~~ke~e~~i~~~k~eL~ 1079 (1294)
T KOG0962|consen 1011 RNLERKLKELERELSELDKQILEAD--IKSVKEERVKLEEEREKLSSEKNLLLGEMKQYESQIKKLKQELR 1079 (1294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhH--HHHHHHHHHHHHHHHHHhhhHhhHHHHHHHHHHHHHHHHHHHhh
Confidence            3455666666666666666665555  44444444455555555555555555555555555555555554

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=96.53  E-value=2.4  Score=51.87  Aligned_cols=62  Identities=10%  Similarity=0.111  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          811 KEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDK  872 (913)
Q Consensus       811 KEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeL  872 (913)
                      ..+..++.++.++...++.|+-+.++..++|..++.+..+...++.....++..+-.+...+
T Consensus       552 ~~le~~kk~~~e~~~~~~~Lq~~~ek~~~~le~i~~~~~e~~~ele~~~~k~~rleEE~e~L  613 (698)
T KOG0978|consen  552 QSLEMLKKKAQEAKQSLEDLQIELEKSEAKLEQIQEQYAELELELEIEKFKRKRLEEELERL  613 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444555555555555555555555555555544444444444333333333333333

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=96.51  E-value=0.72  Score=52.97  Aligned_cols=31  Identities=16%  Similarity=0.219  Sum_probs=19.7

Q ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          661 DDENLREQIKAAQSKVDEKTRSRDAIRDDIQ  691 (913)
Q Consensus       661 dDPeLKaKIdeLekEIEeL~kqRdEInaELq  691 (913)
                      ++..+.+++..++.++..+..++..+.+.+.
T Consensus        91 d~~~~~~~~~~~~~~~~~~~~~~~rL~a~~~  121 (457)
T TIGR01000        91 DNGNEENQKQLLEQQLDNLKDQKKSLDTLKQ  121 (457)
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4466777777777776666666665555544

This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.

>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=96.44  E-value=0.41  Score=47.73  Aligned_cols=40  Identities=20%  Similarity=0.263  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          691 QTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQS  730 (913)
Q Consensus       691 qeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQS  730 (913)
                      ..+|.+.+.+..+...+.++++.+......+..+|.+|+.
T Consensus         3 ~~lk~E~d~a~~r~e~~e~~~K~le~~~~~~E~EI~sL~~   42 (143)
T PF12718_consen    3 QALKLEADNAQDRAEELEAKVKQLEQENEQKEQEITSLQK   42 (143)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444444444444444443

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 [].

>KOG1937 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.43  E-value=2.8  Score=48.99  Aligned_cols=101  Identities=16%  Similarity=0.167  Sum_probs=61.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHH----HHHHHHHHHHHHHHHHHHH
Q 002520          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAA---DEI----RQEAYKHWQSLKKQAYDKN  873 (913)
Q Consensus       801 nIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAa---eEe----RQEAyekIkELRkQ~DeLN  873 (913)
                      ....+|+++-..+..++..|.++-.+..+|+++.+...+.|+.-.+=-+..   ..+    ...+|.-+..+-..+.++-
T Consensus       386 ~ytqrikEi~gniRKq~~DI~Kil~etreLqkq~ns~se~L~Rsfavtdellf~sakhddhvR~aykllt~iH~nc~ei~  465 (521)
T KOG1937|consen  386 VYTQRIKEIDGNIRKQEQDIVKILEETRELQKQENSESEALNRSFAVTDELLFMSAKHDDHVRLAYKLLTRIHLNCMEIL  465 (521)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHHHH
Confidence            444566666666666666666666666666666666666655322111111   111    1245666666666666666


Q ss_pred             HHHHHHHHHHHHHHHhhhcCCHHHHHHH
Q 002520          874 QHFWKYKDDTKQANDLASKGDREALQHL  901 (913)
Q Consensus       874 sEFyq~Rr~l~kARdLAa~~dv~eLqel  901 (913)
                      .-....=+..++.|+|-.+=..+.++.+
T Consensus       466 E~i~~tg~~~revrdlE~qI~~E~~k~~  493 (521)
T KOG1937|consen  466 EMIRETGALKREVRDLESQIYVEEQKQY  493 (521)
T ss_pred             HHHHHcchHHHHHHHHHHHHhHHHHHHH
Confidence            6666777788899999887666665544

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

Probab=96.38  E-value=1  Score=56.79  Aligned_cols=80  Identities=11%  Similarity=0.135  Sum_probs=49.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          807 KFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQA  886 (913)
Q Consensus       807 KELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kA  886 (913)
                      +-......++.++++.++..++.+...+..+...++++.+....+....+..-..+..+..+-.++|.+|...+.-+.-|
T Consensus       398 d~~~~~~~elE~r~k~l~~sver~~~~~~~L~~~i~s~~~~~~e~~~d~~~l~~~~~~~~~~~~e~n~eL~~~~~ql~da  477 (1141)
T KOG0018|consen  398 DHELERRAELEARIKQLKESVERLDKRRNKLAAKITSLSRSYEELKHDLDSLESLVSSAEEEPYELNEELVEVLDQLLDA  477 (1141)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHhh
Confidence            33344455666666666666666666666666666666666666666666555555666666666666666666555444

>smart00787 Spc7 Spc7 kinetochore protein

Probab=96.36  E-value=1.8  Score=48.28  Aligned_cols=126  Identities=17%  Similarity=0.223  Sum_probs=61.2

Q ss_pred             CHHHHHHHHHHHHHHHhhcC--C-CcHHHHH-HHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHHH
Q 002520          740 SVDDIDGSIRNMEHRIAHET--L-PLKEEKQ-IIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADS  815 (913)
Q Consensus       740 SVEELQeEIkeLE~QIQheS--L-sLqEEKQ-lIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEIDE  815 (913)
                      ..+.++..-..|..++.-..  + .|.+... +..++.+|+.....+...-.         +....++++|+....++..
T Consensus       152 ~~~~l~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~L~~~~~e~~~~d~---------~eL~~lk~~l~~~~~ei~~  222 (312)
T smart00787      152 NLEGLKEDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQLEDELEDCDP---------TELDRAKEKLKKLLQEIMI  222 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhCCH---------HHHHHHHHHHHHHHHHHHH
Confidence            34444444444444433333  2 3444444 66666666655554332221         1122333444444444445


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHH
Q 002520          816 LRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEA----YKHWQSLKKQAYDKNQ  874 (913)
Q Consensus       816 LReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEA----yekIkELRkQ~DeLNs  874 (913)
                      .+.++..+..++..+...+++..++..++..+..+++..+.+-    ...+..|+.+++.+..
T Consensus       223 ~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~~ae~~~~~~r~~t~~Ei~~Lk~~~~~Le~  285 (312)
T smart00787      223 KVKKLEELEEELQELESKIEDLTNKKSELNTEIAEAEKKLEQCRGFTFKEIEKLKEQLKLLQS  285 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHH
Confidence            5555555555555555555555555555555555555544432    5566666666665543

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

>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=96.36  E-value=0.49  Score=47.24  Aligned_cols=63  Identities=6%  Similarity=0.254  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          670 KAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRI  732 (913)
Q Consensus       670 deLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeL  732 (913)
                      ..++.+.+.+..+.+.+.+.+..+..+...+..+|..+...+..+..++.....++..+...+
T Consensus         3 ~~lk~E~d~a~~r~e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~l   65 (143)
T PF12718_consen    3 QALKLEADNAQDRAEELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKL   65 (143)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444444444444444444444444444444444444333

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 [].

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

Probab=96.35  E-value=4.5  Score=50.58  Aligned_cols=18  Identities=17%  Similarity=0.486  Sum_probs=7.8

Q ss_pred             HHHHHHHHHHHHHHHhhc
Q 002520          741 VDDIDGSIRNMEHRIAHE  758 (913)
Q Consensus       741 VEELQeEIkeLE~QIQhe  758 (913)
                      ...++.+++.|+..++..
T Consensus       554 ~~~l~~e~~~le~~~~~l  571 (908)
T COG0419         554 LQQLKEELRQLEDRLQEL  571 (908)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            444444444444444333

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

Probab=96.35  E-value=2.3  Score=54.51  Aligned_cols=181  Identities=15%  Similarity=0.213  Sum_probs=90.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHH
Q 002520          665 LREQIKAAQSKVDEKTRSRDAIR-DDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDD  743 (913)
Q Consensus       665 LKaKIdeLekEIEeL~kqRdEIn-aELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLsKLrS~KSVEE  743 (913)
                      ++....+|+..+..++.++.++. ....-+..+..++..++....++++.+...+..++.+++.++.......  .+.+.
T Consensus       463 ~~~~~keL~e~i~~lk~~~~el~~~q~~l~q~~~ke~~ek~~~~~~~~~~l~~~~~~~~eele~~q~~~~~~~--~~~~k  540 (1317)
T KOG0612|consen  463 LEEMDKELEETIEKLKSEESELQREQKALLQHEQKEVEEKLSEEEAKKRKLEALVRQLEEELEDAQKKNDNAA--DSLEK  540 (1317)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHhh
Confidence            44444555555555555555544 2333345566666666777777777777777777777777765554443  45555


Q ss_pred             HHHHHHHHHHHHhhcCCCcHHHHH-------HHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 002520          744 IDGSIRNMEHRIAHETLPLKEEKQ-------IIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSL  816 (913)
Q Consensus       744 LQeEIkeLE~QIQheSLsLqEEKQ-------lIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEIDEL  816 (913)
                      +....++|+.+....+....+.++       ..+.|++++...+.+...+.      .....+..+...-+.++......
T Consensus       541 v~~~rk~le~~~~d~~~e~~~~~kl~~~~~e~~~~iq~~~e~~~~~~d~l~------~le~~k~~ls~~~~~~~~~~e~~  614 (1317)
T KOG0612|consen  541 VNSLRKQLEEAELDMRAESEDAGKLRKHSKELSKQIQQELEENRDLEDKLS------LLEESKSKLSKENKKLRSELEKE  614 (1317)
T ss_pred             HHHHHHHHHHhhhhhhhhHHHHhhHhhhhhhhhHHHHHHhhccccHHHHHH------HHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555554444433333333       34444444442222221111      11111122222233334444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          817 RENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADE  853 (913)
Q Consensus       817 ReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeE  853 (913)
                      +.....+...+.+++.++..++..+.....+...+..
T Consensus       615 ~~~~~~~~e~~~~l~~~i~sL~~~~~~~~~~l~k~~e  651 (1317)
T KOG0612|consen  615 RRQRTEISEIIAELKEEISSLEETLKAGKKELLKVEE  651 (1317)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHhhhhHHHHHHH
Confidence            4444445555555665555555555555555554444

>cd07627 BAR_Vps5p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Vps5p

Probab=96.34  E-value=1.7  Score=45.50  Aligned_cols=33  Identities=18%  Similarity=0.217  Sum_probs=16.2

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          791 EVQLAFDQKDQIEEKMKFLRKEADSLRENVIKA  823 (913)
Q Consensus       791 kIEqSLeEKenIqEQIKELKKEIDELReKIkkL  823 (913)
                      -++..|.+|..+......+.+.+...+.++.++
T Consensus       102 Svk~~~~~R~~~~~~~~~~~~~L~k~~~~~~Kl  134 (216)
T cd07627         102 SVRAAFAQRQKLWQYWQSAESELSKKKAQLEKL  134 (216)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444445555544444455555555555444444

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. Vsp5p is the yeast counterpart of human SNX1 and is part of the retromer complex, which functions in the endosome-to-Golgi retrieval of vacuolar protein sorting receptor Vps10p, the Golgi-resident membrane protein A-ALP, and endopeptidase Kex2. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in

>KOG0980 consensus Actin-binding protein SLA2/Huntingtin-interacting protein Hip1 [Cytoskeleton]

Probab=96.31  E-value=3.5  Score=51.49  Aligned_cols=19  Identities=16%  Similarity=0.246  Sum_probs=11.1

Q ss_pred             HHHHHHHHHHHHHHHhhcC
Q 002520          741 VDDIDGSIRNMEHRIAHET  759 (913)
Q Consensus       741 VEELQeEIkeLE~QIQheS  759 (913)
                      ++++...+-..+.+.....
T Consensus       412 ~ee~e~~~l~~e~ry~klk  430 (980)
T KOG0980|consen  412 VEEAENKALAAENRYEKLK  430 (980)
T ss_pred             HHhHHHHHHHHHHHHHHHH
Confidence            5666666665555555544

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=96.29  E-value=1.2  Score=54.03  Aligned_cols=33  Identities=12%  Similarity=0.153  Sum_probs=13.4

Q ss_pred             hhhhhcccccccc--CcceeeccCCCCCchHHHHHH
Q 002520          636 ASESRNIGVEVVK--QPFYFLVKVPRYDDENLREQI  669 (913)
Q Consensus       636 aVEe~kE~Ld~LR--r~fYf~Vr~rRLdDPeLKaKI  669 (913)
                      .+......|.+-+  .+.++-++|.. .||.+-+.|
T Consensus       138 ~~~~l~~~L~V~~~~~s~ii~Is~~~-~dP~~Aa~i  172 (754)
T TIGR01005       138 VLKKMREKLNVFGVEKTRIIAIEFRS-EDPKLAAAI  172 (754)
T ss_pred             HHHHHHhcceEEecCccEEEEEEEec-CCHHHHHHH
Confidence            3333444444433  33332344444 445444444

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.

>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=96.29  E-value=2.3  Score=47.36  Aligned_cols=117  Identities=11%  Similarity=0.253  Sum_probs=62.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHH----HHHHHHhc
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDE---RSARESLKSKRQEIDS----VQSRINMM  735 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEI---krLReEInEKrKEIes----LQSeLsKL  735 (913)
                      ..|-.++.++..+...+..+..........+..+++.+.+++.+++...   ..+-.++....+.+..    +...-...
T Consensus        25 ~~L~kk~~ell~e~k~~~k~~~~~~Kk~~~l~kek~~l~~E~~k~~~~k~KLE~LCRELQk~Nk~lkeE~~~~~~eee~k  104 (309)
T PF09728_consen   25 EALCKKYAELLEEMKRLQKQLKKLQKKQEQLQKEKDQLQSELSKAILAKSKLESLCRELQKQNKKLKEESKRRAREEEEK  104 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5567777777777777777777777777777777888877777765443   3333333333333321    11111111


Q ss_pred             cCCCCHHHHHHHHHHHHHHHhhcC---CCcHHHHH-HHHHHHHHHHHHH
Q 002520          736 KNAISVDDIDGSIRNMEHRIAHET---LPLKEEKQ-IIREIKQLKQRRE  780 (913)
Q Consensus       736 rS~KSVEELQeEIkeLE~QIQheS---LsLqEEKQ-lIrEISQLEkeRK  780 (913)
                      + ..-.+-++..|..+..+|....   ..+.+|-. +...++.|-.+..
T Consensus       105 R-~el~~kFq~~L~dIq~~~ee~~~~~~k~~~eN~~L~eKlK~l~eQye  152 (309)
T PF09728_consen  105 R-KELSEKFQATLKDIQAQMEEQSERNIKLREENEELREKLKSLIEQYE  152 (309)
T ss_pred             H-HHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence            1 1223344444555555554444   35555555 5444444444443

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 [].

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=96.29  E-value=0.94  Score=47.45  Aligned_cols=14  Identities=14%  Similarity=0.316  Sum_probs=5.3

Q ss_pred             HHHHHHHHHHHHhh
Q 002520          744 IDGSIRNMEHRIAH  757 (913)
Q Consensus       744 LQeEIkeLE~QIQh  757 (913)
                      .+.++..+...+++
T Consensus        94 ~~~el~k~~~~l~~  107 (194)
T PF15619_consen   94 KDEELLKTKDELKH  107 (194)
T ss_pred             HHHHHHHHHHHHHH
Confidence            33333333333333

>PF09325 Vps5: Vps5 C terminal like; InterPro: IPR015404 Vps5 is a sorting nexin that functions in membrane trafficking

Probab=96.27  E-value=1.7  Score=44.84  Aligned_cols=8  Identities=0%  Similarity=0.156  Sum_probs=2.9

Q ss_pred             HHHHHHHH
Q 002520          668 QIKAAQSK  675 (913)
Q Consensus       668 KIdeLekE  675 (913)
                      .++.++.+
T Consensus        32 ~~~~le~~   39 (236)
T PF09325_consen   32 YVDKLEEQ   39 (236)
T ss_pred             HHHHHHHH
Confidence            33333333

This is the C-terminal dimerisation domain [].

>cd07664 BAR_SNX2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 2

Probab=96.18  E-value=2.4  Score=45.63  Aligned_cols=51  Identities=10%  Similarity=0.053  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHH
Q 002520          829 AVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQ-SLKKQAYDKNQHFWKY  879 (913)
Q Consensus       829 eLkkKIeEAqaELdELqeElrAaeEeRQEAyekIk-ELRkQ~DeLNsEFyq~  879 (913)
                      .++.++.+++.+....+.+++.+.+.+...+..+. +....|......|.+.
T Consensus       163 ~~~~ev~~~e~~~~~a~~~fe~Is~~~k~El~rFe~er~~dfk~~l~~fles  214 (234)
T cd07664         163 QAKDEIKEWEAKVQQGERDFEQISKTIRKEVGRFEKERVKDFKTVIIKYLES  214 (234)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333334444444444444444444444442 2233344444444433

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. SNX2 is a component 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), which ensures effcient cargo sorting by facilitating proper membrane localization

>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]

Probab=96.18  E-value=2.5  Score=50.32  Aligned_cols=140  Identities=14%  Similarity=0.207  Sum_probs=85.5

Q ss_pred             CcHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          761 PLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEK  840 (913)
Q Consensus       761 sLqEEKQlIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaE  840 (913)
                      .+.--+++.++|+.|+.....+..++..+.      .....++..++.+.+.+..+.++..++...+..|.+.=-+|+..
T Consensus       345 e~~~vr~~e~eL~el~~~~~~i~~~~~~~~------~~yS~lq~~l~~~~~~l~~i~~~q~~~~e~L~~LrkdEl~Are~  418 (570)
T COG4477         345 ELGSVRKFEKELKELESVLDEILENIEAQE------VAYSELQDNLEEIEKALTDIEDEQEKVQEHLTSLRKDELEAREN  418 (570)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhccc------ccHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            455567788888888888888766665332      12334556666666666666666666666677777777777778


Q ss_pred             HHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc--CCHHHHHHHHHHHH
Q 002520          841 LKRLLGQFKAADEIRQEA---------YKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASK--GDREALQHLCVNQV  906 (913)
Q Consensus       841 LdELqeElrAaeEeRQEA---------yekIkELRkQ~DeLNsEFyq~Rr~l~kARdLAa~--~dv~eLqelc~~QV  906 (913)
                      +..++.++....+.+.+.         ...+...-++...++..|-+-+-.+.++..+...  ++...|......=|
T Consensus       419 l~~~~~~l~eikR~mek~nLPGlPe~~l~l~~~~~~~i~~l~~eLse~pinm~~v~~~v~~a~~~m~~l~~~t~e~v  495 (570)
T COG4477         419 LERLKSKLHEIKRYMEKSNLPGLPETFLSLFFTAGHEIQDLMKELSEVPINMEAVSALVDIATEDMNTLEDETEEVV  495 (570)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHhhhhHHHHHHHHHhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            887777777777777663         2333333444555555555555555555554432  44444544444333

>PF06705 SF-assemblin: SF-assemblin/beta giardin

Probab=96.16  E-value=2.3  Score=45.34  Aligned_cols=17  Identities=24%  Similarity=0.538  Sum_probs=6.5

Q ss_pred             HHHHHHHHHHHHHHHhh
Q 002520          741 VDDIDGSIRNMEHRIAH  757 (913)
Q Consensus       741 VEELQeEIkeLE~QIQh  757 (913)
                      ++.|..++..|+..++.
T Consensus        94 l~~L~~ri~~L~~~i~e  110 (247)
T PF06705_consen   94 LDSLNDRIEALEEEIQE  110 (247)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33333344444333333

>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=96.16  E-value=3.1  Score=46.85  Aligned_cols=16  Identities=13%  Similarity=0.152  Sum_probs=11.8

Q ss_pred             CHHHHHHHHHHHHHhh
Q 002520          894 DREALQHLCVNQVRSR  909 (913)
Q Consensus       894 dv~eLqelc~~QVEkf  909 (913)
                      .+.+|+.||.+=.|.+
T Consensus       273 s~sdLksl~~aLle~i  288 (319)
T PF09789_consen  273 SISDLKSLATALLETI  288 (319)
T ss_pred             hHHHHHHHHHHHHHHh
Confidence            5888888888766543

>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=96.13  E-value=0.54  Score=57.49  Aligned_cols=57  Identities=12%  Similarity=0.246  Sum_probs=34.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          674 SKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQS  730 (913)
Q Consensus       674 kEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQS  730 (913)
                      .+|+++++++..+..+-..+...+.+.+.+|......+......+..+..+++.|+.
T Consensus       265 ~EiqKL~qQL~qve~EK~~L~~~L~e~Q~qLe~a~~als~q~eki~~L~e~l~aL~~  321 (717)
T PF09730_consen  265 SEIQKLKQQLLQVEREKSSLLSNLQESQKQLEHAQGALSEQQEKINRLTEQLDALRK  321 (717)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            345555666666666656666666666666666666666656666666666655544

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

>PRK11281 hypothetical protein; Provisional

Probab=96.12  E-value=1.8  Score=55.52  Aligned_cols=38  Identities=8%  Similarity=0.177  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHHHHHhhcCC---CcHHHHH--HHHHHHHHHHH
Q 002520          741 VDDIDGSIRNMEHRIAHETL---PLKEEKQ--IIREIKQLKQR  778 (913)
Q Consensus       741 VEELQeEIkeLE~QIQheSL---sLqEEKQ--lIrEISQLEke  778 (913)
                      ..+.+.++++++.++.....   +|.+.++  +..|...|+.+
T Consensus       165 lsea~~RlqeI~~~L~~~~~~~~~l~~~~~~~l~ae~~~l~~~  207 (1113)
T PRK11281        165 LYANSQRLQQIRNLLKGGKVGGKALRPSQRVLLQAEQALLNAQ  207 (1113)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCCCcCCHHHHHHHHHHHHHHHHH
Confidence            36666677777777766541   3444433  44444444433

>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=96.11  E-value=3.2  Score=46.53  Aligned_cols=177  Identities=12%  Similarity=0.195  Sum_probs=95.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-h---------c---------cCCCCHHHHHHHHHHHHHHH
Q 002520          695 ASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRIN-M---------M---------KNAISVDDIDGSIRNMEHRI  755 (913)
Q Consensus       695 eERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLs-K---------L---------rS~KSVEELQeEIkeLE~QI  755 (913)
                      .+...+..+|......+.+++.++.-+..-++-+...-. .         +         .++-..+-||.+++.|+..-
T Consensus        97 ~~~~~le~~L~~~~e~v~qLrHeL~~kdeLL~~ys~~~ee~~~~~~~~~~~~~~~~~~~~~~~~~le~Lq~Klk~LEeEN  176 (306)
T PF04849_consen   97 ERNEALEEQLGAALEQVEQLRHELSMKDELLQIYSNDDEESEPESSESTPLRRNESSLSSQKCIQLEALQEKLKSLEEEN  176 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcHhhhcccccCCCccccccccccccccchhHHHHHHHHHHHHHHH
Confidence            444555555666666666666666665554432221110 0         0         01234688888888887755


Q ss_pred             hhcCC---CcHHH------HH--HHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          756 AHETL---PLKEE------KQ--IIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAE  824 (913)
Q Consensus       756 QheSL---sLqEE------KQ--lIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEIDELReKIkkLe  824 (913)
                      .+++.   .|..|      |+  ++.++   =+++..++..             ...|.+.+.....+....+++|..+-
T Consensus       177 ~~LR~Ea~~L~~et~~~EekEqqLv~dc---v~QL~~An~q-------------ia~LseELa~k~Ee~~rQQEEIt~Ll  240 (306)
T PF04849_consen  177 EQLRSEASQLKTETDTYEEKEQQLVLDC---VKQLSEANQQ-------------IASLSEELARKTEENRRQQEEITSLL  240 (306)
T ss_pred             HHHHHHHHHhhHHHhhccHHHHHHHHHH---HHHhhhcchh-------------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            54441   22211      11  22111   1222222222             22344444445555555666666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          825 AATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQAN  887 (913)
Q Consensus       825 kELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kAR  887 (913)
                      .++-.++.++...-.+-.+++..+.+.....+..-..+.++++++.+...-|...+..+++.|
T Consensus       241 sqivdlQ~r~k~~~~EnEeL~q~L~~ske~Q~~L~aEL~elqdkY~E~~~mL~EaQEElk~lR  303 (306)
T PF04849_consen  241 SQIVDLQQRCKQLAAENEELQQHLQASKESQRQLQAELQELQDKYAECMAMLHEAQEELKTLR  303 (306)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            666666666666666666666666666666666666677777777777777777776666654

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 [].

>KOG0999 consensus Microtubule-associated protein Bicaudal-D [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.10  E-value=3.3  Score=49.53  Aligned_cols=42  Identities=17%  Similarity=0.235  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          839 EKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYK  880 (913)
Q Consensus       839 aELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~R  880 (913)
                      ..+.+...-..-++.++.++...++.-|.+...+..++-+|+
T Consensus       215 ~q~ee~~~Lk~IAekQlEEALeTlq~EReqk~alkkEL~q~~  256 (772)
T KOG0999|consen  215 SQLEEAIRLKEIAEKQLEEALETLQQEREQKNALKKELSQYR  256 (772)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhc
Confidence            333333333344455666666777766777666666665554

>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]

Probab=96.10  E-value=0.63  Score=55.75  Aligned_cols=22  Identities=9%  Similarity=0.289  Sum_probs=8.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 002520          711 ERSARESLKSKRQEIDSVQSRI  732 (913)
Q Consensus       711 IkrLReEInEKrKEIesLQSeL  732 (913)
                      +...+..|-.++.++..|+.++
T Consensus       244 Le~aq~ri~~lE~e~e~L~~ql  265 (629)
T KOG0963|consen  244 LEDAQQRIVFLEREVEQLREQL  265 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333334444444444433

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=96.09  E-value=4.4  Score=49.74  Aligned_cols=29  Identities=7%  Similarity=0.236  Sum_probs=15.8

Q ss_pred             HHHHHHHhccCCCCHHHHHHHHHHHHHHHhh
Q 002520          727 SVQSRINMMKNAISVDDIDGSIRNMEHRIAH  757 (913)
Q Consensus       727 sLQSeLsKLrS~KSVEELQeEIkeLE~QIQh  757 (913)
                      .|.+++...+  ...+++|.+|.+|=.+++.
T Consensus       451 ~ll~e~~t~g--sA~ed~Qeqn~kL~~el~e  479 (698)
T KOG0978|consen  451 CLLSEMETIG--SAFEDMQEQNQKLLQELRE  479 (698)
T ss_pred             HHHHHHHHHH--HHHHHHHHHHHHHHHHHHH
Confidence            3444444443  5667777776666554443

>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily

Probab=96.09  E-value=0.74  Score=52.91  Aligned_cols=43  Identities=14%  Similarity=0.203  Sum_probs=23.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhc
Q 002520          714 ARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHE  758 (913)
Q Consensus       714 LReEInEKrKEIesLQSeLsKLrS~KSVEELQeEIkeLE~QIQhe  758 (913)
                      ++..+.+++.++..+......  +...+-+++++|..+..+++..
T Consensus       252 l~~~l~~l~~~l~~l~~~y~~--~hP~v~~l~~qi~~l~~~l~~~  294 (498)
T TIGR03007       252 LDGRIEALEKQLDALRLRYTD--KHPDVIATKREIAQLEEQKEEE  294 (498)
T ss_pred             hHHHHHHHHHHHHHHHHHhcc--cChHHHHHHHHHHHHHHHHHhh
Confidence            344444455554444432221  2356677778888877776554

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.

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=96.08  E-value=7.3  Score=50.31  Aligned_cols=60  Identities=5%  Similarity=0.132  Sum_probs=34.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhcC
Q 002520          698 KEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHET  759 (913)
Q Consensus       698 dELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLsKLrS~KSVEELQeEIkeLE~QIQheS  759 (913)
                      .+++.++....+++..++..+.....++..+...++..+  ++..+.+.++++++.+++...
T Consensus       105 ~~Leq~l~~~~~~L~~~q~~l~~~~~~~~~~~~~l~~~p--q~~~~~~~~l~~i~~~L~~~~  164 (1109)
T PRK10929        105 DALEQEILQVSSQLLEKSRQAQQEQDRAREISDSLSQLP--QQQTEARRQLNEIERRLQTLG  164 (1109)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhch--hhHHHHHHHHHHHHHHHhCCC
Confidence            444444444444444444444444444444444444444  455788888888888877754

>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=96.03  E-value=0.49  Score=57.93  Aligned_cols=30  Identities=20%  Similarity=0.153  Sum_probs=17.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          846 GQFKAADEIRQEAYKHWQSLKKQAYDKNQH  875 (913)
Q Consensus       846 eElrAaeEeRQEAyekIkELRkQ~DeLNsE  875 (913)
                      .+.+.+.+.+.+...+|.+++++.+.+++.
T Consensus       685 ~Q~~~I~~iL~~~~~~I~~~v~~ik~i~~~  714 (717)
T PF10168_consen  685 SQKRTIKEILKQQGEEIDELVKQIKNIKKI  714 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            344445555555666666666666665553

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=95.96  E-value=1.5  Score=54.00  Aligned_cols=25  Identities=28%  Similarity=0.288  Sum_probs=17.1

Q ss_pred             CCccchhHHhhhccccccCCCCCch
Q 002520          482 KDDHRSKELEENMETEFTGEESDDL  506 (913)
Q Consensus       482 ~~~~~~~~~~~~~~~~~~~~~~~~~  506 (913)
                      .++|++.+|-+---+--||...++|
T Consensus       455 dn~~~kEeLlrV~l~~~~gn~p~tl  479 (970)
T KOG0946|consen  455 DNDQLKEELLRVPLAVDTGNDPDTL  479 (970)
T ss_pred             HhHHHHHHHHhhhhcccCCCCchHH
Confidence            3567787887776666677665555

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=95.93  E-value=2.5  Score=44.68  Aligned_cols=18  Identities=22%  Similarity=0.386  Sum_probs=7.5

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 002520          712 RSARESLKSKRQEIDSVQ  729 (913)
Q Consensus       712 krLReEInEKrKEIesLQ  729 (913)
                      .++-.++-+++++++.++
T Consensus        39 a~L~~e~~~L~~q~~s~Q   56 (193)
T PF14662_consen   39 AQLAEEITDLRKQLKSLQ   56 (193)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            333344444444444443

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=95.85  E-value=1.4  Score=46.37  Aligned_cols=30  Identities=3%  Similarity=0.111  Sum_probs=18.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          699 EYAEKLEAAISDERSARESLKSKRQEIDSV  728 (913)
Q Consensus       699 ELeSeLKkLVeEIkrLReEInEKrKEIesL  728 (913)
                      ++.+.+..+-.-.+++..+...+...|..+
T Consensus         5 dL~~~v~dL~~~n~~L~~en~kL~~~ve~~   34 (193)
T PF14662_consen    5 DLLSCVEDLQLNNQKLADENAKLQRSVETA   34 (193)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            455556666666666666666666655543

>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=95.78  E-value=7.1  Score=47.82  Aligned_cols=40  Identities=25%  Similarity=0.478  Sum_probs=23.7

Q ss_pred             CHHHHHHHHHHHHHHHhhcC--C-CcHHHHH-HHHHHHHHHHHH
Q 002520          740 SVDDIDGSIRNMEHRIAHET--L-PLKEEKQ-IIREIKQLKQRR  779 (913)
Q Consensus       740 SVEELQeEIkeLE~QIQheS--L-sLqEEKQ-lIrEISQLEkeR  779 (913)
                      +...-..-+..|+..++...  + .|.+||. .+.++++.+...
T Consensus       304 slq~~~~tq~~le~~lq~~~k~~~qlt~eKe~~~Ee~nk~k~~~  347 (786)
T PF05483_consen  304 SLQESESTQKALEEDLQQATKTLIQLTEEKEAQMEELNKAKAQH  347 (786)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            33333445566666666555  3 7888887 666666655554

Synaptonemal complexes are structures that are formed between homologous chromosomes during meiotic prophase [].; GO: 0007130 synaptonemal complex assembly, 0000795 synaptonemal complex

>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]

Probab=95.69  E-value=3.6  Score=43.70  Aligned_cols=96  Identities=15%  Similarity=0.200  Sum_probs=47.8

Q ss_pred             HHHHHHHHHHHHHHhhhcccchhHHHHHHH-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          768 IIREIKQLKQRREQISSSIGEHDEVQLAFD-QKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLG  846 (913)
Q Consensus       768 lIrEISQLEkeRKdV~snIs~kakIEqSLe-EKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqe  846 (913)
                      ....|.+|.-..+.+..++.......+.+. +.+....+|+.+-..+.+-..+...+...+..|.+.++.+..++...+.
T Consensus       107 ~Es~~~eLeEe~~~~~~nlk~l~~~ee~~~q~~d~~e~~ik~ltdKLkEaE~rAE~aERsVakLeke~DdlE~kl~~~k~  186 (205)
T KOG1003|consen  107 AESQSEELEEDLRILDSNLKSLSAKEEKLEQKEEKYEEELKELTDKLKEAETRAEFAERRVAKLEKERDDLEEKLEEAKE  186 (205)
T ss_pred             HHHHHHHHHHHHHHhHhHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHcccHHHHHHhhHHHHH
Confidence            444455555555544444331111111111 2234444555554444444444445555566666666666666666666


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 002520          847 QFKAADEIRQEAYKHWQ  863 (913)
Q Consensus       847 ElrAaeEeRQEAyekIk  863 (913)
                      ++..+...++..+..+.
T Consensus       187 ky~~~~~eLD~~~~~L~  203 (205)
T KOG1003|consen  187 KYEEAKKELDETLQELE  203 (205)
T ss_pred             HHHHHHHHHHHHHHHhh
Confidence            66666666666555443

>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=95.67  E-value=4.7  Score=44.96  Aligned_cols=62  Identities=11%  Similarity=0.145  Sum_probs=34.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEI  725 (913)
Q Consensus       664 eLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEI  725 (913)
                      .++.+...+.++.+.+..++........++..-++++..+-+.+.++..+...+-..++.++
T Consensus        47 ~~~Kk~~~l~kek~~l~~E~~k~~~~k~KLE~LCRELQk~Nk~lkeE~~~~~~eee~kR~el  108 (309)
T PF09728_consen   47 KLQKKQEQLQKEKDQLQSELSKAILAKSKLESLCRELQKQNKKLKEESKRRAREEEEKRKEL  108 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555555555555555555666666666666666666555555544555444

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 [].

>KOG4643 consensus Uncharacterized coiled-coil protein [Function unknown]

Probab=95.65  E-value=4.1  Score=51.46  Aligned_cols=77  Identities=9%  Similarity=0.176  Sum_probs=39.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHH
Q 002520          677 DEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDE--RSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHR  754 (913)
Q Consensus       677 EeL~kqRdEInaELqeLReERdELeSeLKkLVeEI--krLReEInEKrKEIesLQSeLsKLrS~KSVEELQeEIkeLE~Q  754 (913)
                      +.++.+++++...-+.+-+.+.-+..+|..+++.-  ..+..+|-.+.+++..|+.++...+  .-.++|..++..|+-+
T Consensus       260 ~fykdRveelkedN~vLleekeMLeeQLq~lrarse~~tleseiiqlkqkl~dm~~erdtdr--~kteeL~eEnstLq~q  337 (1195)
T KOG4643|consen  260 DFYKDRVEELKEDNRVLLEEKEMLEEQLQKLRARSEGATLESEIIQLKQKLDDMRSERDTDR--HKTEELHEENSTLQVQ  337 (1195)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHhhhhHH--HHHHHHHHHHHHHHHH
Confidence            33445555555555555555555666666665433  4445555555555555555544333  2345555555554444


Q ss_pred             H
Q 002520          755 I  755 (913)
Q Consensus       755 I  755 (913)
                      -
T Consensus       338 ~  338 (1195)
T KOG4643|consen  338 K  338 (1195)
T ss_pred             H
Confidence            3

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=95.63  E-value=8.1  Score=49.92  Aligned_cols=45  Identities=9%  Similarity=0.101  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          813 ADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQE  857 (913)
Q Consensus       813 IDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQE  857 (913)
                      ..++-..+.++...+..+..+...++..+..+.+..+.+.++.+-
T Consensus       267 N~~Ls~~L~~~t~~~n~l~~~~~~~~~~l~~~~q~~~~i~eQi~~  311 (1109)
T PRK10929        267 NRELSQALNQQAQRMDLIASQQRQAASQTLQVRQALNTLREQSQW  311 (1109)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555555666666666666666666666666666655555543

>cd07623 BAR_SNX1_2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 1 and 2

Probab=95.62  E-value=3.7  Score=43.39  Aligned_cols=89  Identities=12%  Similarity=0.142  Sum_probs=42.0

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-H
Q 002520          791 EVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAE-----AATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQ-S  864 (913)
Q Consensus       791 kIEqSLeEKenIqEQIKELKKEIDELReKIkkLe-----kELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIk-E  864 (913)
                      .+...|.+|..+-.........+...|.++.++.     ..+..+..++.+++......+.+++.+.......+..+. +
T Consensus       110 svk~~f~~R~~a~~~~q~a~~~l~kkr~~~~Kl~~~~~~~K~~~~~~ev~~~e~~~~~a~~~fe~is~~~k~El~rF~~e  189 (224)
T cd07623         110 AIKDVFHERVKVWQNWQNAQQTLTKKREAKAKLELSGRTDKLDQAQQEIKEWEAKVDRGQKEFEEISKTIKKEIERFEKN  189 (224)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444444444442     134455555555555555555555555555555555553 2


Q ss_pred             HHHHHHHHHHHHHHH
Q 002520          865 LKKQAYDKNQHFWKY  879 (913)
Q Consensus       865 LRkQ~DeLNsEFyq~  879 (913)
                      ....|......|.+.
T Consensus       190 rv~dfk~~l~~~le~  204 (224)
T cd07623         190 RVKDFKDIIIKYLES  204 (224)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            233344444444433

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

>PRK10869 recombination and repair protein; Provisional

Probab=95.59  E-value=5.1  Score=47.82  Aligned_cols=42  Identities=10%  Similarity=0.041  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCHHHHH
Q 002520          858 AYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQ  899 (913)
Q Consensus       858 AyekIkELRkQ~DeLNsEFyq~Rr~l~kARdLAa~~dv~eLq  899 (913)
                      .-..+..|..++..+.+.|.+....+.++|.-+|..=.+++.
T Consensus       339 ~e~~l~~Le~e~~~l~~~l~~~A~~LS~~R~~aA~~l~~~v~  380 (553)
T PRK10869        339 QEDDLETLALAVEKHHQQALETAQKLHQSRQRYAKELAQLIT  380 (553)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345678888888888888888888888888877754444443

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

Probab=95.59  E-value=8.4  Score=47.28  Aligned_cols=85  Identities=19%  Similarity=0.169  Sum_probs=43.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          816 LRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHW--------QSLKKQAYDKNQHFWKYKDDTKQAN  887 (913)
Q Consensus       816 LReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekI--------kELRkQ~DeLNsEFyq~Rr~l~kAR  887 (913)
                      +++.|.++.++++...+.+...+..+..+..+..+.....+.+|..+        .++|.+..++-...-..|..+.++.
T Consensus       521 ~~E~I~k~~ae~~rq~~~~~~sr~~~~~le~~~~a~qat~d~a~~Dlqk~nrlkQdear~~~~~lvqqv~dLR~~L~~~E  600 (961)
T KOG4673|consen  521 LQETIEKHQAELTRQKDYYSNSRALAAALEAQALAEQATNDEARSDLQKENRLKQDEARERESMLVQQVEDLRQTLSKKE  600 (961)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhhhhHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555555555555555555555555555555555555555554422        1334444444444445555555544


Q ss_pred             Hhhh------cCCHHHHHH
Q 002520          888 DLAS------KGDREALQH  900 (913)
Q Consensus       888 dLAa------~~dv~eLqe  900 (913)
                      +-|+      +++++.|+.
T Consensus       601 q~aarrEd~~R~Ei~~Lqr  619 (961)
T KOG4673|consen  601 QQAARREDMFRGEIEDLQR  619 (961)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4333      345555544

>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules

Probab=95.53  E-value=4.1  Score=43.35  Aligned_cols=21  Identities=14%  Similarity=0.295  Sum_probs=11.1

Q ss_pred             CcHHHHH-HHHHHHHHHHHHHH
Q 002520          761 PLKEEKQ-IIREIKQLKQRREQ  781 (913)
Q Consensus       761 sLqEEKQ-lIrEISQLEkeRKd  781 (913)
                      .+..||. +...++.|++...+
T Consensus        73 ~~~~erdq~~~dL~s~E~sfsd   94 (207)
T PF05010_consen   73 KLLKERDQAYADLNSLEKSFSD   94 (207)
T ss_pred             HHHhhHHHHHHHHHHHHhhHHH
Confidence            3444555 55555555555544

The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=95.53  E-value=8.6  Score=46.97  Aligned_cols=31  Identities=19%  Similarity=0.237  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          703 KLEAAISDERSARESLKSKRQEIDSVQSRIN  733 (913)
Q Consensus       703 eLKkLVeEIkrLReEInEKrKEIesLQSeLs  733 (913)
                      +|..+..++...+.++...+...+.++..+.
T Consensus       238 ~L~~l~~ql~~a~~~~~~a~a~~~~l~~~l~  268 (754)
T TIGR01005       238 QLAELNTELSRARANRAAAEGTADSVKKALQ  268 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3444445555555555555555555555553

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.

>PF13851 GAS: Growth-arrest specific micro-tubule binding

Probab=95.45  E-value=4.1  Score=42.79  Aligned_cols=22  Identities=23%  Similarity=0.435  Sum_probs=11.6

Q ss_pred             HHHHH-HHHHHHHHHHHHHHhhh
Q 002520          763 KEEKQ-IIREIKQLKQRREQISS  784 (913)
Q Consensus       763 qEEKQ-lIrEISQLEkeRKdV~s  784 (913)
                      .+|-+ +...+.+|+..|.++..
T Consensus       106 k~e~evL~qr~~kle~ErdeL~~  128 (201)
T PF13851_consen  106 KWEHEVLEQRFEKLEQERDELYR  128 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444 55555666666655433

>PRK10698 phage shock protein PspA; Provisional

Probab=95.37  E-value=1.3  Score=47.00  Aligned_cols=93  Identities=18%  Similarity=0.250  Sum_probs=69.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHhh------hcccchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          763 KEEKQIIREIKQLKQRREQIS------SSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHRE  836 (913)
Q Consensus       763 qEEKQlIrEISQLEkeRKdV~------snIs~kakIEqSLeEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeE  836 (913)
                      ..+|.+.+++.+++....+..      ...+..+-+...|.+|.....++..++.+++.++..+.++...+..|+.++.+
T Consensus        52 A~~k~~er~~~~~~~~~~~~e~kA~~Al~~G~EdLAr~AL~~K~~~~~~~~~l~~~~~~~~~~~~~L~~~l~~L~~ki~e  131 (222)
T PRK10698         52 AEKKQLTRRIEQAEAQQVEWQEKAELALRKEKEDLARAALIEKQKLTDLIATLEHEVTLVDETLARMKKEIGELENKLSE  131 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333445555555544443322      22333445677888899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 002520          837 ESEKLKRLLGQFKAADEIR  855 (913)
Q Consensus       837 AqaELdELqeElrAaeEeR  855 (913)
                      ++.+...|..+.+.+....
T Consensus       132 ak~k~~~L~aR~~~A~a~~  150 (222)
T PRK10698        132 TRARQQALMLRHQAASSSR  150 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            9999999999888777543

>cd07596 BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins

Probab=95.37  E-value=3.4  Score=41.41  Aligned_cols=53  Identities=11%  Similarity=0.179  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHH
Q 002520          827 TQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSL-KKQAYDKNQHFWKY  879 (913)
Q Consensus       827 LEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkEL-RkQ~DeLNsEFyq~  879 (913)
                      +..+..++.++...+..+..++......+...+..+... ...+..+...|.+.
T Consensus       147 i~~l~~~i~~~e~~~~~~~~~~~~i~~~~~~El~~f~~~~~~dlk~~l~~~~~~  200 (218)
T cd07596         147 VEELEEELEEAESALEEARKRYEEISERLKEELKRFHEERARDLKAALKEFARL  200 (218)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444444444444444444444432 22344444444433

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. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.

>KOG4809 consensus Rab6 GTPase-interacting protein involved in endosome-to-TGN transport [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.36  E-value=5.7  Score=47.52  Aligned_cols=92  Identities=17%  Similarity=0.339  Sum_probs=71.8

Q ss_pred             CcHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          761 PLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEK  840 (913)
Q Consensus       761 sLqEEKQlIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaE  840 (913)
                      .-.+||+...+|.+-++.++++...++   .++..+.+   -.+++..++.+...|...+.+.+.+++.+.=-++..+++
T Consensus       322 r~rderE~~EeIe~~~ke~kdLkEkv~---~lq~~l~e---ke~sl~dlkehassLas~glk~ds~Lk~leIalEqkkEe  395 (654)
T KOG4809|consen  322 RERDERERLEEIESFRKENKDLKEKVN---ALQAELTE---KESSLIDLKEHASSLASAGLKRDSKLKSLEIALEQKKEE  395 (654)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHH---HHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHH
Confidence            466788899999999999999877776   45543332   345777888899999999998888888887777777788


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 002520          841 LKRLLGQFKAADEIRQEA  858 (913)
Q Consensus       841 LdELqeElrAaeEeRQEA  858 (913)
                      +..+..++..+.+..+.+
T Consensus       396 c~kme~qLkkAh~~~dda  413 (654)
T KOG4809|consen  396 CSKMEAQLKKAHNIEDDA  413 (654)
T ss_pred             HHHHHHHHHHHHHhhHhh
Confidence            888888888777777665

>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=95.30  E-value=2.7  Score=51.75  Aligned_cols=18  Identities=17%  Similarity=0.510  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 002520          764 EEKQIIREIKQLKQRREQ  781 (913)
Q Consensus       764 EEKQlIrEISQLEkeRKd  781 (913)
                      .||+..+|+.+++..++.
T Consensus       633 AEr~~~~EL~~~~~~l~~  650 (717)
T PF10168_consen  633 AEREFKKELERMKDQLQD  650 (717)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            355566666655555544

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 [].

>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=95.25  E-value=0.61  Score=50.06  Aligned_cols=82  Identities=13%  Similarity=0.203  Sum_probs=60.9

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          795 AFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQ  874 (913)
Q Consensus       795 SLeEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNs  874 (913)
                      .+...++...-|.+++++++.|..+....-.+|..|...|+.+...+.+...+++...+..+..|+.+..|+.+.+++..
T Consensus        23 e~~~~e~ee~~L~e~~kE~~~L~~Er~~h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~R~  102 (230)
T PF10146_consen   23 EVESLENEEKCLEEYRKEMEELLQERMAHVEELRQINQDINTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINELRK  102 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444455566777888888888887777777888887777777777777777777777777777777777777777766


Q ss_pred             HH
Q 002520          875 HF  876 (913)
Q Consensus       875 EF  876 (913)
                      +|
T Consensus       103 e~  104 (230)
T PF10146_consen  103 EY  104 (230)
T ss_pred             HH
Confidence            64

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.

>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=95.23  E-value=6  Score=44.48  Aligned_cols=126  Identities=13%  Similarity=0.149  Sum_probs=84.4

Q ss_pred             CcHHHHH-HHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          761 PLKEEKQ-IIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESE  839 (913)
Q Consensus       761 sLqEEKQ-lIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqa  839 (913)
                      .|.+|-+ ++.|.++|...-..+..+-  +.-+..-..+...-..+|..+..++..-.+.......+|..|..++-.++.
T Consensus       171 ~LEeEN~~LR~Ea~~L~~et~~~EekE--qqLv~dcv~QL~~An~qia~LseELa~k~Ee~~rQQEEIt~LlsqivdlQ~  248 (306)
T PF04849_consen  171 SLEEENEQLRSEASQLKTETDTYEEKE--QQLVLDCVKQLSEANQQIASLSEELARKTEENRRQQEEITSLLSQIVDLQQ  248 (306)
T ss_pred             HHHHHHHHHHHHHHHhhHHHhhccHHH--HHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4677766 7777777765543321110  001111111222333466666666666666666777788888888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          840 KLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQAND  888 (913)
Q Consensus       840 ELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARd  888 (913)
                      ++..+..+...+...+....+.-..|..++..+...|..+...+..|++
T Consensus       249 r~k~~~~EnEeL~q~L~~ske~Q~~L~aEL~elqdkY~E~~~mL~EaQE  297 (306)
T PF04849_consen  249 RCKQLAAENEELQQHLQASKESQRQLQAELQELQDKYAECMAMLHEAQE  297 (306)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888888888888777888888888888888888888888887765

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 [].

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

Probab=95.19  E-value=3.3  Score=45.82  Aligned_cols=17  Identities=6%  Similarity=0.020  Sum_probs=7.0

Q ss_pred             HHHHHHHHHHHHHHHHH
Q 002520          672 AQSKVDEKTRSRDAIRD  688 (913)
Q Consensus       672 LekEIEeL~kqRdEIna  688 (913)
                      ++.++..+..++..+.+
T Consensus        79 ~~~~l~~l~~~~~~l~a   95 (423)
T TIGR01843        79 VEADAAELESQVLRLEA   95 (423)
T ss_pred             hhhHHHHHHHHHHHHHH
Confidence            34444444444433333

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.

>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]

Probab=95.17  E-value=5.5  Score=47.58  Aligned_cols=86  Identities=14%  Similarity=0.200  Sum_probs=56.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 002520          810 RKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDL  889 (913)
Q Consensus       810 KKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARdL  889 (913)
                      .++++++++.+..+...+.+-...+..++..+..+...+.....+..+..+++..||+.=-+.....-++++.+..-+-+
T Consensus       353 e~eL~el~~~~~~i~~~~~~~~~~yS~lq~~l~~~~~~l~~i~~~q~~~~e~L~~LrkdEl~Are~l~~~~~~l~eikR~  432 (570)
T COG4477         353 EKELKELESVLDEILENIEAQEVAYSELQDNLEEIEKALTDIEDEQEKVQEHLTSLRKDELEARENLERLKSKLHEIKRY  432 (570)
T ss_pred             HHHHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555555555555555555666777777777777777777777777777777777777777777777666666666


Q ss_pred             hhcCCH
Q 002520          890 ASKGDR  895 (913)
Q Consensus       890 Aa~~dv  895 (913)
                      .-+.+.
T Consensus       433 mek~nL  438 (570)
T COG4477         433 MEKSNL  438 (570)
T ss_pred             HHHcCC
Confidence            555443

>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking

Probab=95.16  E-value=2  Score=45.53  Aligned_cols=22  Identities=18%  Similarity=0.356  Sum_probs=8.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 002520          810 RKEADSLRENVIKAEAATQAVK  831 (913)
Q Consensus       810 KKEIDELReKIkkLekELEeLk  831 (913)
                      +..+..++..+..++.+++..+
T Consensus        69 ~~r~~~l~~~i~~~~~~i~~~r   90 (302)
T PF10186_consen   69 RERLERLRERIERLRKRIEQKR   90 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333

In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy

>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=95.16  E-value=0.67  Score=45.40  Aligned_cols=99  Identities=16%  Similarity=0.247  Sum_probs=56.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYK  880 (913)
Q Consensus       801 nIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~R  880 (913)
                      .++.+|+.+..++..++.++..+..       ..+.+.++|-.+..+.+.+.    .....+..|+.++..++..|--..
T Consensus        20 ~L~s~lr~~E~E~~~l~~el~~l~~-------~r~~l~~Eiv~l~~~~e~~~----~~~~~~~~L~~el~~l~~ry~t~L   88 (120)
T PF12325_consen   20 RLQSQLRRLEGELASLQEELARLEA-------ERDELREEIVKLMEENEELR----ALKKEVEELEQELEELQQRYQTLL   88 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555555555555555444433       33333455554444444332    234456666666666666666666


Q ss_pred             HHHHHHHHhhh--cCCHHHHHHHHHHHHHhhh
Q 002520          881 DDTKQANDLAS--KGDREALQHLCVNQVRSRT  910 (913)
Q Consensus       881 r~l~kARdLAa--~~dv~eLqelc~~QVEkfm  910 (913)
                      -.+..-.+.+-  +.|+..|+++|..||+..|
T Consensus        89 ellGEK~E~veEL~~Dv~DlK~myr~Qi~~lv  120 (120)
T PF12325_consen   89 ELLGEKSEEVEELRADVQDLKEMYREQIDQLV  120 (120)
T ss_pred             HHhcchHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            66655444433  3689999999999998764

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 [].

>cd07665 BAR_SNX1 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 1

Probab=95.15  E-value=5.9  Score=42.84  Aligned_cols=27  Identities=7%  Similarity=0.142  Sum_probs=10.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          836 EESEKLKRLLGQFKAADEIRQEAYKHW  862 (913)
Q Consensus       836 EAqaELdELqeElrAaeEeRQEAyekI  862 (913)
                      +++.+....+.+++...+.+.+.+..+
T Consensus       170 e~e~k~~~a~~~fe~is~~ik~El~rF  196 (234)
T cd07665         170 EWESRVTQYERDFERISATVRKEVIRF  196 (234)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333334444444444444443333

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. SNX1 is a component 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), which ensures effcient cargo sorting by facilitating proper membrane localization

>PF13514 AAA_27: AAA domain

Probab=95.12  E-value=10  Score=48.58  Aligned_cols=13  Identities=23%  Similarity=0.511  Sum_probs=5.9

Q ss_pred             HHHHHHHHHHHHh
Q 002520          770 REIKQLKQRREQI  782 (913)
Q Consensus       770 rEISQLEkeRKdV  782 (913)
                      .+...|...+..+
T Consensus       854 ~~~~~l~~~~~~~  866 (1111)
T PF13514_consen  854 EERRELREELEDL  866 (1111)
T ss_pred             HHHHHHHHHHHHH
Confidence            3444444444443

>TIGR00634 recN DNA repair protein RecN

Probab=95.11  E-value=9.1  Score=45.55  Aligned_cols=43  Identities=7%  Similarity=-0.059  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          665 LREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAA  707 (913)
Q Consensus       665 LKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkL  707 (913)
                      +..++..+-.+...+.+++.++......+..+++.+..+|..+
T Consensus       159 ~~~~~~~~~~~~~~~~~~L~~l~~~~~~~~~eld~L~~ql~EL  201 (563)
T TIGR00634       159 KVKAYRELYQAWLKARQQLKDRQQKEQELAQRLDFLQFQLEEL  201 (563)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence            4455555555555555555555444444444444444444444

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

>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=95.08  E-value=11  Score=48.09  Aligned_cols=39  Identities=18%  Similarity=0.142  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhcC--CHHHHHHHHHH
Q 002520          866 KKQAYDKNQHFWKYKDDTKQANDLASKG--DREALQHLCVN  904 (913)
Q Consensus       866 RkQ~DeLNsEFyq~Rr~l~kARdLAa~~--dv~eLqelc~~  904 (913)
                      +..+-.+++-|..-+..+-+--+|.++-  -+-.|.+||.+
T Consensus      1304 k~di~kl~~~lv~kQKAYP~M~QlQ~ksealI~qLRelC~~ 1344 (1439)
T PF12252_consen 1304 KEDIVKLNDFLVEKQKAYPAMVQLQFKSEALIIQLRELCEA 1344 (1439)
T ss_pred             HHHHHHHHHHHHHHhhhchHHHHHhhhhHHHHHHHHHHHHH
Confidence            3334444444444444444444444442  25667777776

There is little literature describing the family.

>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking

Probab=95.08  E-value=1.5  Score=46.31  Aligned_cols=42  Identities=14%  Similarity=0.374  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLK  842 (913)
Q Consensus       801 nIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELd  842 (913)
                      ..+.++..++..+..+++++...+..+.+++..+...+..+.
T Consensus        67 ~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~l~  108 (302)
T PF10186_consen   67 ELRERLERLRERIERLRKRIEQKRERLEELRESLEQRRSRLS  108 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444444444444444444444443

In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy

>KOG0946 consensus ER-Golgi vesicle-tethering protein p115 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.03  E-value=8.1  Score=48.13  Aligned_cols=14  Identities=14%  Similarity=0.228  Sum_probs=7.0

Q ss_pred             HHHHHHHHHHHHHH
Q 002520          768 IIREIKQLKQRREQ  781 (913)
Q Consensus       768 lIrEISQLEkeRKd  781 (913)
                      ....|.++++....
T Consensus       763 ~~~~~es~k~~~~~  776 (970)
T KOG0946|consen  763 KNADIESFKATQRS  776 (970)
T ss_pred             hhHHHHHHHHHHhh
Confidence            44445555555443

>PF05622 HOOK: HOOK protein; InterPro: IPR008636 This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms

Probab=95.01  E-value=0.0065  Score=73.14  Aligned_cols=56  Identities=13%  Similarity=0.175  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          812 EADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKK  867 (913)
Q Consensus       812 EIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRk  867 (913)
                      ++..++.++..++.++.....+++.+.-++..++++..++...+......+..|+.
T Consensus       364 qle~~k~qi~eLe~~l~~~~~~~~~l~~e~~~L~ek~~~l~~eke~l~~e~~~L~e  419 (713)
T PF05622_consen  364 QLEEYKKQIQELEQKLSEESRRADKLEFENKQLEEKLEALEEEKERLQEERDSLRE  419 (713)
T ss_dssp             --------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333334444443344444444444444444444444444444333333333333

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.

>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=94.99  E-value=13  Score=45.83  Aligned_cols=63  Identities=11%  Similarity=0.176  Sum_probs=39.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEID  726 (913)
Q Consensus       664 eLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIe  726 (913)
                      .|-.+-..+.+-.+.+...-.++...++....+..++..+|..+......|-..+.++..++.
T Consensus       419 kll~ekk~~eki~E~lq~~eqel~~llq~~ekev~dLe~~l~~~~~~eq~yskQVeeLKtELE  481 (786)
T PF05483_consen  419 KLLDEKKQFEKIAEELQGTEQELTGLLQIREKEVHDLEIQLTTIKESEQHYSKQVEELKTELE  481 (786)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            344444555555555555555666667777777777777777777666666666666666554

Synaptonemal complexes are structures that are formed between homologous chromosomes during meiotic prophase [].; GO: 0007130 synaptonemal complex assembly, 0000795 synaptonemal complex

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=94.80  E-value=7.3  Score=44.95  Aligned_cols=7  Identities=57%  Similarity=0.605  Sum_probs=2.7

Q ss_pred             eeccCCC
Q 002520          556 IQSTDGG  562 (913)
Q Consensus       556 ~~~~~~~  562 (913)
                      +|+..||
T Consensus        62 vq~~~~G   68 (457)
T TIGR01000        62 IQSTSNN   68 (457)
T ss_pred             EEcCCCc
Confidence            3333333

This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.

>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=94.68  E-value=1.4  Score=43.00  Aligned_cols=31  Identities=19%  Similarity=0.297  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          799 KDQIEEKMKFLRKEADSLRENVIKAEAATQA  829 (913)
Q Consensus       799 KenIqEQIKELKKEIDELReKIkkLekELEe  829 (913)
                      +..+...|..++..+++|...-.-|+..|+.
T Consensus       100 k~~le~e~~~~~~r~~dL~~QN~lLh~QlE~  130 (132)
T PF07926_consen  100 KEQLEKELSELEQRIEDLNEQNKLLHDQLES  130 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            4455555555555555555555555555544

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

>KOG4809 consensus Rab6 GTPase-interacting protein involved in endosome-to-TGN transport [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.67  E-value=9.3  Score=45.86  Aligned_cols=60  Identities=15%  Similarity=0.173  Sum_probs=41.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKR  722 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKr  722 (913)
                      .+...+|+..+++...|...++.+...+..+.+.+..|......+.+.+-.+..+++++.
T Consensus       327 rE~~EeIe~~~ke~kdLkEkv~~lq~~l~eke~sl~dlkehassLas~glk~ds~Lk~le  386 (654)
T KOG4809|consen  327 RERLEEIESFRKENKDLKEKVNALQAELTEKESSLIDLKEHASSLASAGLKRDSKLKSLE  386 (654)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhHHH
Confidence            566677888888888888888877777777777777777666666555544444444433

>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional

Probab=94.67  E-value=2.5  Score=51.97  Aligned_cols=46  Identities=13%  Similarity=0.293  Sum_probs=24.2

Q ss_pred             HHHHHHHHHHHHHH----------HHHHHHHHHhcc---CCCCHHHHHHHHHHHHHHHh
Q 002520          711 ERSARESLKSKRQE----------IDSVQSRINMMK---NAISVDDIDGSIRNMEHRIA  756 (913)
Q Consensus       711 IkrLReEInEKrKE----------IesLQSeLsKLr---S~KSVEELQeEIkeLE~QIQ  756 (913)
                      ...|..+|+++..+          ++.+.....+++   ....-++|..+|.+++..|.
T Consensus       556 a~~Lk~ei~kki~e~~~~~~~kek~ea~~aev~~~g~s~~~~~~~~lkeki~~~~~Ei~  614 (762)
T PLN03229        556 AEKLKAEINKKFKEVMDRPEIKEKMEALKAEVASSGASSGDELDDDLKEKVEKMKKEIE  614 (762)
T ss_pred             hhhhhHHHHHHHHHhcccHHHHHHHHHHHHHHHhcCccccCCCCHHHHHHHHHHHHHHH
Confidence            45556666655555          333444333333   12455666666666666554

>KOG4593 consensus Mitotic checkpoint protein MAD1 [Cell cycle control, cell division, chromosome partitioning]

Probab=94.65  E-value=15  Score=45.16  Aligned_cols=15  Identities=33%  Similarity=0.539  Sum_probs=7.9

Q ss_pred             HHHHHHHHHHHHHHh
Q 002520          768 IIREIKQLKQRREQI  782 (913)
Q Consensus       768 lIrEISQLEkeRKdV  782 (913)
                      +-+.+.+|...-+.+
T Consensus       195 ~~~~~~ql~~~~q~~  209 (716)
T KOG4593|consen  195 LDRQHKQLQEENQKI  209 (716)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            555555555554443

>TIGR02977 phageshock_pspA phage shock protein A

Probab=94.65  E-value=6.8  Score=41.33  Aligned_cols=66  Identities=20%  Similarity=0.207  Sum_probs=55.6

Q ss_pred             hhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          789 HDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEI  854 (913)
Q Consensus       789 kakIEqSLeEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEe  854 (913)
                      .+-+...|.++...+.++..++.++..++..+.++...+..|+.++.+++.+-..+..+.+.+...
T Consensus        84 EdLAr~Al~~k~~~~~~~~~l~~~~~~~~~~v~~l~~~l~~L~~ki~~~k~k~~~l~ar~~~A~a~  149 (219)
T TIGR02977        84 EDLARAALIEKQKAQELAEALERELAAVEETLAKLQEDIAKLQAKLAEARARQKALAIRHQAASSR  149 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344566778888888999999999999999999999999999999999999888888888776654

Members of this family are the phage shock protein PspA, from the phage shock operon. This is a narrower family than the set of PspA and its homologs, sometimes several in a genome, as described by PFAM model pfam04012. PspA appears to maintain the protonmotive force under stress conditions that include overexpression of certain phage secretins, heat shock, ethanol, and protein export defects.

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=94.56  E-value=10  Score=42.65  Aligned_cols=38  Identities=26%  Similarity=0.408  Sum_probs=21.8

Q ss_pred             chhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          788 EHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEA  825 (913)
Q Consensus       788 ~kakIEqSLeEKenIqEQIKELKKEIDELReKIkkLek  825 (913)
                      .++++...+++.+.+++++..+..+.-=||..+..+..
T Consensus       205 e~~kv~k~~~Kqes~eERL~QlqsEN~LLrQQLddA~~  242 (305)
T PF14915_consen  205 EQDKVNKYIGKQESLEERLSQLQSENMLLRQQLDDAHN  242 (305)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34556666666666666666665555555555444443

>KOG0999 consensus Microtubule-associated protein Bicaudal-D [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.56  E-value=13  Score=44.86  Aligned_cols=30  Identities=17%  Similarity=0.363  Sum_probs=14.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQT  692 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqe  692 (913)
                      ..|+.++++++.+.+.++.+++..+..+..
T Consensus        46 ~~Lkqq~eEleaeyd~~R~Eldqtkeal~q   75 (772)
T KOG0999|consen   46 EDLKQQLEELEAEYDLARTELDQTKEALGQ   75 (772)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555555555544444444444444433

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=94.53  E-value=20  Score=46.00  Aligned_cols=60  Identities=12%  Similarity=0.248  Sum_probs=34.4

Q ss_pred             CCCchhhhhhhcccccccc--CcceeeccCCCC--C---chHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          630 EGSTVDASESRNIGVEVVK--QPFYFLVKVPRY--D---DENLREQIKAAQSKVDEKTRSRDAIRDDIQ  691 (913)
Q Consensus       630 eesLKDaVEe~kE~Ld~LR--r~fYf~Vr~rRL--d---DPeLKaKIdeLekEIEeL~kqRdEInaELq  691 (913)
                      .+.+-..++.++.+|...|  .-.|  +.=.+|  +   ..+...+|+++..+++.+..++..+.....
T Consensus       406 lKd~~~EIerLK~dl~AaReKnGvy--isee~y~~~e~e~~~~~~~ieele~el~~~~~~l~~~~e~~~  472 (1041)
T KOG0243|consen  406 LKDLYEEIERLKRDLAAAREKNGVY--ISEERYTQEEKEKKEMAEQIEELEEELENLEKQLKDLTELYM  472 (1041)
T ss_pred             HHHHHHHHHHHHHHHHHhHhhCceE--echHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3566677888888888887  4445  555555  2   133444555555555555555544444443

>PF13166 AAA_13: AAA domain

Probab=94.47  E-value=12  Score=45.18  Aligned_cols=22  Identities=9%  Similarity=0.228  Sum_probs=10.2

Q ss_pred             hHHHHHHHH-HHHHHHHHHHHHH
Q 002520          663 ENLREQIKA-AQSKVDEKTRSRD  684 (913)
Q Consensus       663 PeLKaKIde-LekEIEeL~kqRd  684 (913)
                      +++..+|.. .....+....++.
T Consensus       268 ~~~~~~l~~~f~~~~~~~~~~l~  290 (712)
T PF13166_consen  268 EERKERLEKYFDEEYEKLIEELE  290 (712)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            556666655 2444433333333

>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]

Probab=94.41  E-value=16  Score=44.43  Aligned_cols=25  Identities=20%  Similarity=0.453  Sum_probs=13.7

Q ss_pred             CCCCCchHHHHHHHHHHHHHHHHHH
Q 002520          657 VPRYDDENLREQIKAAQSKVDEKTR  681 (913)
Q Consensus       657 ~rRLdDPeLKaKIdeLekEIEeL~k  681 (913)
                      |.+.+-..|+.+++..-.+|.....
T Consensus        12 Wk~~dle~LQreLd~~~~~l~~~Q~   36 (629)
T KOG0963|consen   12 WKRFDLERLQRELDAEATEIAQRQD   36 (629)
T ss_pred             HHhccHHHHHHHHHHHHHHHHhhhh
Confidence            4555556666666655555544433

>PF15066 CAGE1: Cancer-associated gene protein 1 family

Probab=94.36  E-value=10  Score=44.77  Aligned_cols=74  Identities=15%  Similarity=0.247  Sum_probs=41.1

Q ss_pred             hHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSK----------VDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRI  732 (913)
Q Consensus       663 PeLKaKIdeLekE----------IEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeL  732 (913)
                      --|++++++|+-+          |.+|+...++++..--.+.-++.++...|+.+..-+...++.+.+.+++-+.|+-++
T Consensus       341 ~yLe~kvkeLQ~k~~kQqvfvDiinkLk~niEeLIedKY~viLEKnd~~k~lqnLqe~la~tqk~LqEsr~eKetLqlel  420 (527)
T PF15066_consen  341 LYLEKKVKELQMKITKQQVFVDIINKLKENIEELIEDKYRVILEKNDIEKTLQNLQEALANTQKHLQESRNEKETLQLEL  420 (527)
T ss_pred             HHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhHhHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            4466666666543          333444444444444444455556666666666666666666666666666666555


Q ss_pred             Hhcc
Q 002520          733 NMMK  736 (913)
Q Consensus       733 sKLr  736 (913)
                      .+++
T Consensus       421 kK~k  424 (527)
T PF15066_consen  421 KKIK  424 (527)
T ss_pred             HHHh
Confidence            5443

>PLN02939 transferase, transferring glycosyl groups

Probab=94.32  E-value=22  Score=45.58  Aligned_cols=49  Identities=16%  Similarity=0.148  Sum_probs=35.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDE  711 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEI  711 (913)
                      +.|---|..+++-|--+++.|-..-..++++..++..++.++.-+...+
T Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (977)
T PLN02939        131 EDLVGMIQNAEKNILLLNQARLQALEDLEKILTEKEALQGKINILEMRL  179 (977)
T ss_pred             HHHHHHHHHHHhhhHhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHh
Confidence            6677777777777777888877777777777777777777666554433

>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules

Probab=94.31  E-value=8.8  Score=40.96  Aligned_cols=17  Identities=29%  Similarity=0.395  Sum_probs=7.3

Q ss_pred             HHHHHHHHHHHHHhhhc
Q 002520          769 IREIKQLKQRREQISSS  785 (913)
Q Consensus       769 IrEISQLEkeRKdV~sn  785 (913)
                      ..+|.++...+.++...
T Consensus        68 ~~~i~~~~~erdq~~~d   84 (207)
T PF05010_consen   68 EAEIQKLLKERDQAYAD   84 (207)
T ss_pred             HHHHHHHHhhHHHHHHH
Confidence            33444444444443333

The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].

>PF15450 DUF4631: Domain of unknown function (DUF4631)

Probab=94.25  E-value=16  Score=43.72  Aligned_cols=35  Identities=11%  Similarity=0.059  Sum_probs=21.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          808 FLRKEADSLRENVIKAEAATQAVKKLHREESEKLK  842 (913)
Q Consensus       808 ELKKEIDELReKIkkLekELEeLkkKIeEAqaELd  842 (913)
                      ++.+.+..++++++.+-.+|+.+..++.-.+..++
T Consensus       409 e~~~~l~~v~eKVd~LpqqI~~vs~Kc~~~Ksd~d  443 (531)
T PF15450_consen  409 EMEKHLKEVQEKVDSLPQQIEEVSDKCDLHKSDSD  443 (531)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhhhh
Confidence            34455666666666666666666666665555554

>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure

Probab=94.25  E-value=7.3  Score=46.03  Aligned_cols=23  Identities=9%  Similarity=0.241  Sum_probs=10.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 002520          664 NLREQIKAAQSKVDEKTRSRDAI  686 (913)
Q Consensus       664 eLKaKIdeLekEIEeL~kqRdEI  686 (913)
                      .|+.++..++.++..++.++..+
T Consensus       113 ~lk~~l~e~~~El~~l~~~l~~l  135 (511)
T PF09787_consen  113 VLKIRLQELDQELRRLRRQLEEL  135 (511)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444555544444444443

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 [].

>PF01576 Myosin_tail_1: Myosin tail; InterPro: IPR002928 Muscle contraction is caused by sliding between the thick and thin filaments of the myofibril

Probab=94.17  E-value=0.013  Score=72.17  Aligned_cols=110  Identities=17%  Similarity=0.251  Sum_probs=0.0

Q ss_pred             cHHHHH-HHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          762 LKEEKQ-IIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEK  840 (913)
Q Consensus       762 LqEEKQ-lIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaE  840 (913)
                      |.+-|+ +.+.|..|...+.......+   .+..   .+..++..+..+.-+++..+.....+.+....+...+.+.+..
T Consensus       319 lEeaKKkL~~~L~el~e~le~~~~~~~---~LeK---~k~rL~~EleDl~~eLe~~~~~~~~LeKKqr~fDk~l~e~k~~  392 (859)
T PF01576_consen  319 LEEAKKKLERKLQELQEQLEEANAKVS---SLEK---TKKRLQGELEDLTSELEKAQAAAAELEKKQRKFDKQLAEWKAK  392 (859)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            344444 66666677666666555544   2221   1334555666666666666655555555555555555555566


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          841 LKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFW  877 (913)
Q Consensus       841 LdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFy  877 (913)
                      +..+...++.+..........+..|+.+++.+...+-
T Consensus       393 ~~~~~~e~d~~q~e~r~~~te~~~Lk~~lee~~e~~e  429 (859)
T PF01576_consen  393 VEELQAERDAAQREARELETELFKLKNELEELQEQLE  429 (859)
T ss_dssp             -------------------------------------
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHhhhHHHHHHHH
Confidence            6666666666555555555555555555555554443

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.

>PF05622 HOOK: HOOK protein; InterPro: IPR008636 This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms

Probab=94.08  E-value=0.014  Score=70.25  Aligned_cols=16  Identities=13%  Similarity=0.474  Sum_probs=0.0

Q ss_pred             CCHHHHHHHHHHHHHH
Q 002520          739 ISVDDIDGSIRNMEHR  754 (913)
Q Consensus       739 KSVEELQeEIkeLE~Q  754 (913)
                      ...+.++.+++.|+.+
T Consensus       325 ed~~~lk~qvk~Lee~  340 (713)
T PF05622_consen  325 EDLEDLKRQVKELEED  340 (713)
T ss_dssp             ----------------
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3444555555555444

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.

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=93.91  E-value=14  Score=41.91  Aligned_cols=20  Identities=5%  Similarity=0.119  Sum_probs=9.8

Q ss_pred             CcceeeccCCCCCchHHHHHH
Q 002520          649 QPFYFLVKVPRYDDENLREQI  669 (913)
Q Consensus       649 r~fYf~Vr~rRLdDPeLKaKI  669 (913)
                      .+.++-++|.. .||.+-..+
T Consensus       130 ~s~ii~is~~~-~dp~~A~~i  149 (444)
T TIGR03017       130 ESSVISIEFSG-VDPRFAATV  149 (444)
T ss_pred             CceEEEEEEeC-CCHHHHHHH
Confidence            34443455544 456555555

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.

>PF15397 DUF4618: Domain of unknown function (DUF4618)

Probab=93.88  E-value=9.3  Score=42.11  Aligned_cols=28  Identities=21%  Similarity=0.400  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          804 EKMKFLRKEADSLRENVIKAEAATQAVK  831 (913)
Q Consensus       804 EQIKELKKEIDELReKIkkLekELEeLk  831 (913)
                      ..|...|..++++...|..|+++++.|.
T Consensus       193 kei~~~re~i~el~e~I~~L~~eV~~L~  220 (258)
T PF15397_consen  193 KEIVQFREEIDELEEEIPQLRAEVEQLQ  220 (258)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444

>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]

Probab=93.84  E-value=6.1  Score=46.98  Aligned_cols=31  Identities=13%  Similarity=0.203  Sum_probs=18.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          693 IRASYKEYAEKLEAAISDERSARESLKSKRQ  723 (913)
Q Consensus       693 LReERdELeSeLKkLVeEIkrLReEInEKrK  723 (913)
                      +..+-..+..++.+...++.+++.+++.+..
T Consensus        95 Lq~~nesLeEqv~~~~d~vvql~hels~k~e  125 (596)
T KOG4360|consen   95 LQEDNESLEEQVDAPWDRVVQLGHELSRKDE  125 (596)
T ss_pred             hhhhhhhhHhhhcchHHHHHHhhhhhhhhhh
Confidence            3344445555666666677777777665554

>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=93.65  E-value=7.8  Score=44.08  Aligned_cols=139  Identities=16%  Similarity=0.285  Sum_probs=82.7

Q ss_pred             CCHHHHHHHHHHHHHHHhhcC--C-CcHH---HHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHH
Q 002520          739 ISVDDIDGSIRNMEHRIAHET--L-PLKE---EKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKE  812 (913)
Q Consensus       739 KSVEELQeEIkeLE~QIQheS--L-sLqE---EKQlIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKE  812 (913)
                      ..+.+|+.+|..||..+....  + .|..   -+-++.-|..|...+..+..            ...+.|..+++.+..+
T Consensus       209 a~~a~LE~RL~~LE~~lG~~~~~~~~l~~~~~~~~l~~~l~~L~~~lslL~~------------~~Ld~i~~rl~~L~~~  276 (388)
T PF04912_consen  209 ARAADLEKRLARLESALGIDSDKMSSLDSDTSSSPLLPALNELERQLSLLDP------------AKLDSIERRLKSLLSE  276 (388)
T ss_pred             HHHHHHHHHHHHHHHHhCCCccccccccccCCcchHHHHHHHHHHHHHhcCH------------HHHHHHHHHHHHHHHH
Confidence            578899999999999999943  3 3322   23377788888887765421            1223455555555555


Q ss_pred             HHHHHHHHHHH------HHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Q 002520          813 ADSLRENVIKA------EAATQ---AVKKLHREESEKLKRLLGQFKAADEIRQE---AYKHWQSLKKQAYDKNQHFWKYK  880 (913)
Q Consensus       813 IDELReKIkkL------ekELE---eLkkKIeEAqaELdELqeElrAaeEeRQE---AyekIkELRkQ~DeLNsEFyq~R  880 (913)
                      ++.+.++....      ...|.   .+-++++....-|..+..+++.+..-...   ....+..+-.....+...+-+++
T Consensus       277 ~~~l~~~~~~~~~~~~~e~KI~eLy~~l~~~~~~~~~lP~lv~RL~tL~~lH~~a~~~~~~l~~le~~q~~l~~~l~~~~  356 (388)
T PF04912_consen  277 LEELAEKRKEAKEDAEQESKIDELYEILPRWDPYAPSLPSLVERLKTLKSLHEEAAEFSQTLSELESQQSDLQSQLKKWE  356 (388)
T ss_pred             HHHHHhccccccccccchhHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44443332222      11222   22344455555666677777666544444   46677777777777777777777


Q ss_pred             HHHHHHHHh
Q 002520          881 DDTKQANDL  889 (913)
Q Consensus       881 r~l~kARdL  889 (913)
                      ..+.....=
T Consensus       357 ~~L~~ve~~  365 (388)
T PF04912_consen  357 ELLNKVEEK  365 (388)
T ss_pred             HHHHHHHHH
Confidence            777766543

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

>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]

Probab=93.64  E-value=26  Score=44.07  Aligned_cols=111  Identities=14%  Similarity=0.130  Sum_probs=56.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhccCCCCH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQS-RINMMKNAISV  741 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQS-eLsKLrS~KSV  741 (913)
                      ......|..-+.++.++...+...+-+..+++..+.....-++++..++.   .++....+++..|.. .+.    . -.
T Consensus       918 easicl~eeKDqei~EleailekQNca~eeakqn~eis~Ed~kkLhaE~d---aeLe~~~ael~eleqk~le----~-~e  989 (1424)
T KOG4572|consen  918 EASICLIEEKDQEIEELEAILEKQNCAHEEAKQNDEISEEDKKKLHAEID---AELEKEFAELIELEQKALE----C-KE  989 (1424)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHhhhhhHHHHhhcCcccHHHHHHhhHHHH---HHHHHHHHHHHHHHHHHHH----H-hh
Confidence            44555556666666666666666666666665555555554555544432   222222333322211 111    1 12


Q ss_pred             HHHHH-HHHHHHHHHhhcCC---CcHHHHH-HHHHHHHHHHHHHH
Q 002520          742 DDIDG-SIRNMEHRIAHETL---PLKEEKQ-IIREIKQLKQRREQ  781 (913)
Q Consensus       742 EELQe-EIkeLE~QIQheSL---sLqEEKQ-lIrEISQLEkeRKd  781 (913)
                      ++++. .++.++..++..+.   .+..|-+ ++++|.+|+..+.+
T Consensus       990 Dea~aRh~kefE~~mrdhrselEe~kKe~eaiineiee~eaeIiQ 1034 (1424)
T KOG4572|consen  990 DEAFARHEKEFEIEMRDHRSELEEKKKELEAIINEIEELEAEIIQ 1034 (1424)
T ss_pred             hHHHHHHHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            23332 35666666666663   3444444 77777777776654

>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]

Probab=93.62  E-value=17  Score=42.60  Aligned_cols=25  Identities=20%  Similarity=0.136  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          811 KEADSLRENVIKAEAATQAVKKLHR  835 (913)
Q Consensus       811 KEIDELReKIkkLekELEeLkkKIe  835 (913)
                      .-.+.|.++|++|+.+..-|++|++
T Consensus       201 alvN~LwKrmdkLe~ekr~Lq~KlD  225 (552)
T KOG2129|consen  201 ALVNSLWKRMDKLEQEKRYLQKKLD  225 (552)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3356677777777776666665553

>KOG0980 consensus Actin-binding protein SLA2/Huntingtin-interacting protein Hip1 [Cytoskeleton]

Probab=93.57  E-value=27  Score=44.10  Aligned_cols=42  Identities=14%  Similarity=0.328  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 002520          694 RASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMM  735 (913)
Q Consensus       694 ReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLsKL  735 (913)
                      |.....+..++.++.-++...+.+..+.+.+-+.|+.++..+
T Consensus       357 r~~~~q~~~ql~~le~~~~e~q~~~qe~~~e~eqLr~elaql  398 (980)
T KOG0980|consen  357 RRRIEQYENQLLALEGELQEQQREAQENREEQEQLRNELAQL  398 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444455554455444545555555545555554433

>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=93.46  E-value=17  Score=41.28  Aligned_cols=34  Identities=12%  Similarity=0.257  Sum_probs=17.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          674 SKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAA  707 (913)
Q Consensus       674 kEIEeL~kqRdEInaELqeLReERdELeSeLKkL  707 (913)
                      .+++.-..+|+.+...+..++.+...+..+.+.+
T Consensus        16 ~eLe~cq~ErDqyKlMAEqLqer~q~LKkk~~el   49 (319)
T PF09789_consen   16 QELEKCQSERDQYKLMAEQLQERYQALKKKYREL   49 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3444445555555555555555544444444333

>KOG1850 consensus Myosin-like coiled-coil protein [Cytoskeleton]

Probab=93.44  E-value=17  Score=41.34  Aligned_cols=123  Identities=15%  Similarity=0.261  Sum_probs=73.6

Q ss_pred             HHHHHHHHHHHHHHHH-hhhcccchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          766 KQIIREIKQLKQRREQ-ISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRL  844 (913)
Q Consensus       766 KQlIrEISQLEkeRKd-V~snIs~kakIEqSLeEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdEL  844 (913)
                      |..+.++.+-+..+++ +..|+++...++..|..-.   +-...++.++..+.+++.+++++.---..+++.++..+-.+
T Consensus       207 k~~~e~~~~~e~qlK~ql~lY~aKyeefq~tl~KSN---E~F~~fK~E~ekmtKk~kklEKE~l~wr~K~e~aNk~vL~l  283 (391)
T KOG1850|consen  207 KIMLEEMKQVEGQLKEQLALYMAKYEEFQTTLAKSN---ELFTKFKQEMEKMTKKIKKLEKETLIWRTKWENANKAVLQL  283 (391)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHH
Confidence            3355555555555432 3345554455555554321   23445677888888888888888777788888888777655


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhhhcCCH
Q 002520          845 LGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDT-KQANDLASKGDR  895 (913)
Q Consensus       845 qeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l-~kARdLAa~~dv  895 (913)
                      ..+    ...+++.|..+..-..++..+-.++..-|..+ ..++++-+++..
T Consensus       284 a~e----kt~~~k~~~~lq~kiq~LekLcRALq~ernel~~~~~~~e~~v~~  331 (391)
T KOG1850|consen  284 AEE----KTVRDKEYETLQKKIQRLEKLCRALQTERNELNKKLEDLEAQVSA  331 (391)
T ss_pred             HHH----hHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcccch
Confidence            443    33455566666666666666666665555444 456777666544

>PF01576 Myosin_tail_1: Myosin tail; InterPro: IPR002928 Muscle contraction is caused by sliding between the thick and thin filaments of the myofibril

Probab=93.42  E-value=0.022  Score=70.32  Aligned_cols=21  Identities=19%  Similarity=0.295  Sum_probs=0.0

Q ss_pred             CCHHHHHHHHHHHHHHHhhcC
Q 002520          739 ISVDDIDGSIRNMEHRIAHET  759 (913)
Q Consensus       739 KSVEELQeEIkeLE~QIQheS  759 (913)
                      +++.+|+...+.|+.......
T Consensus       454 k~v~eLek~kr~LE~e~~El~  474 (859)
T PF01576_consen  454 KSVHELEKAKRRLEQEKEELQ  474 (859)
T ss_dssp             ---------------------
T ss_pred             cchHHHHHHHHHHHHHHHHHH
Confidence            566666666666666655544

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.

>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=93.33  E-value=7.2  Score=47.80  Aligned_cols=71  Identities=11%  Similarity=0.162  Sum_probs=32.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQ-------TIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRIN  733 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELq-------eLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLs  733 (913)
                      ..|..+|..+++++..+...+........       .++.....+.-.|..++.+...-+.++.+...||+.|...|+
T Consensus        64 ~~L~~~ia~~eael~~l~s~l~~~~~~~~~~~k~e~tLke~l~~l~~~le~lr~qk~eR~~ef~el~~qie~l~~~l~  141 (660)
T KOG4302|consen   64 ARLLQEIAVIEAELNDLCSALGEPSIIGEISDKIEGTLKEQLESLKPYLEGLRKQKDERRAEFKELYHQIEKLCEELG  141 (660)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCCcccccccccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            34555555555555555444433221111       233333333333444444444444555555555555555553

>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=93.23  E-value=10  Score=46.96  Aligned_cols=36  Identities=8%  Similarity=0.114  Sum_probs=16.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          698 KEYAEKLEAAISDERSARESLKSKRQEIDSVQSRIN  733 (913)
Q Consensus       698 dELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLs  733 (913)
                      ..+..+|..+-.+++.++.++.....+.+.|.....
T Consensus        30 ~~~~~~i~~l~~elk~~~~~~~~~~~e~~rl~~~~~   65 (717)
T PF09730_consen   30 AYLQQRILELENELKQLRQELSNVQAENERLSQLNQ   65 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444333

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

>PRK11281 hypothetical protein; Provisional

Probab=93.16  E-value=37  Score=44.32  Aligned_cols=45  Identities=16%  Similarity=0.114  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          813 ADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQE  857 (913)
Q Consensus       813 IDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQE  857 (913)
                      ..++-..+.++...+..+..+...++..++.+.+..+.+.++.+.
T Consensus       287 N~~Ls~~L~~~t~~~~~l~~~~~~~~~~l~~~~q~~~~i~eqi~~  331 (1113)
T PRK11281        287 NLQLSQRLLKATEKLNTLTQQNLRVKNWLDRLTQSERNIKEQISV  331 (1113)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445556666666666666666666666666666666655555443

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=93.14  E-value=19  Score=40.94  Aligned_cols=26  Identities=0%  Similarity=-0.051  Sum_probs=10.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          669 IKAAQSKVDEKTRSRDAIRDDIQTIR  694 (913)
Q Consensus       669 IdeLekEIEeL~kqRdEInaELqeLR  694 (913)
                      +.-++.++..+++++.+...++...|
T Consensus       173 ~~fl~~ql~~~~~~l~~ae~~l~~fr  198 (444)
T TIGR03017       173 ALWFVQQIAALREDLARAQSKLSAYQ  198 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444444444444333

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.

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=93.09  E-value=6.2  Score=43.48  Aligned_cols=120  Identities=14%  Similarity=0.231  Sum_probs=60.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhcCCCc
Q 002520          694 RASYKEYAEKLEAAISDERSARESLKSKRQ-----------EIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPL  762 (913)
Q Consensus       694 ReERdELeSeLKkLVeEIkrLReEInEKrK-----------EIesLQSeLsKLrS~KSVEELQeEIkeLE~QIQheSLsL  762 (913)
                      .+.++.+..+++.+.....+++.+......           ++..|.+.+...+  -=.+.+++.|++|+..-    =.|
T Consensus        51 esqL~q~etrnrdl~t~nqrl~~E~e~~Kek~e~q~~q~y~q~s~Leddlsqt~--aikeql~kyiReLEQaN----DdL  124 (333)
T KOG1853|consen   51 ESQLDQLETRNRDLETRNQRLTTEQERNKEKQEDQRVQFYQQESQLEDDLSQTH--AIKEQLRKYIRELEQAN----DDL  124 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHhc----cHH
Confidence            355555555555555555555544332221           2223333333332  12345555566655431    133


Q ss_pred             HHHHH-HHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          763 KEEKQ-IIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIK  822 (913)
Q Consensus       763 qEEKQ-lIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEIDELReKIkk  822 (913)
                      ..-|+ .+--+..++..+.++....+   -++..|.+|+.+.+.+..+|.+...||.++.-
T Consensus       125 ErakRati~sleDfeqrLnqAIErnA---fLESELdEke~llesvqRLkdEardlrqelav  182 (333)
T KOG1853|consen  125 ERAKRATIYSLEDFEQRLNQAIERNA---FLESELDEKEVLLESVQRLKDEARDLRQELAV  182 (333)
T ss_pred             HHhhhhhhhhHHHHHHHHHHHHHHHH---HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333 33333444444444333333   56677778888877777777777777766543

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=93.09  E-value=1.1  Score=40.07  Aligned_cols=66  Identities=17%  Similarity=0.301  Sum_probs=60.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQ  729 (913)
Q Consensus       664 eLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQ  729 (913)
                      .|+..+..|+..++.+..+.......+..++.+|+....+|..+..++..++.++..++++++..+
T Consensus         2 ~Lea~~~~Lr~rLd~~~rk~~~~~~~~k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~~el~~~r   67 (69)
T PF14197_consen    2 KLEAEIATLRNRLDSLTRKNSVHEIENKRLRRERDSAERQLGDAYEENNKLKEENEALRKELEELR   67 (69)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            588999999999999999999999999999999999999999999999999999999999877654

>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=92.73  E-value=4  Score=40.08  Aligned_cols=22  Identities=18%  Similarity=0.329  Sum_probs=14.3

Q ss_pred             CCCHHHHHHHHHHHHHHHhhcC
Q 002520          738 AISVDDIDGSIRNMEHRIAHET  759 (913)
Q Consensus       738 ~KSVEELQeEIkeLE~QIQheS  759 (913)
                      ...++-|+..|+.++-.+.+.+
T Consensus        15 ~~~ve~L~s~lr~~E~E~~~l~   36 (120)
T PF12325_consen   15 VQLVERLQSQLRRLEGELASLQ   36 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            4567777777777776655544

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 [].

>PF09766 FimP: Fms-interacting protein; InterPro: IPR019163 This entry represents Thoc5 which is one of the subunits of the THO complex, which additionally contains: HPR1, Thoc2, Thoc6 and Thoc7

Probab=92.71  E-value=2.8  Score=47.48  Aligned_cols=115  Identities=15%  Similarity=0.205  Sum_probs=54.7

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          791 EVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAY  870 (913)
Q Consensus       791 kIEqSLeEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~D  870 (913)
                      .++..|.+|+.+.++.+++++....+.+.++.-++.+..|.+.+..+.....-++..+..-.....+......-|-.=+.
T Consensus        95 RL~~EL~~Rk~L~~~~~el~~~k~~l~~~~~~k~~~L~~l~~~L~~l~~a~~plq~~l~~~~~~~~~~~~~a~~LP~PLy  174 (355)
T PF09766_consen   95 RLEFELEQRKRLEEQLKELEQRKKKLQQENKKKKKFLDSLPPQLKSLKKAAKPLQEYLGLPHTKKRKQHELAELLPPPLY  174 (355)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhCCCccchhhhHHHHHhCCccHH
Confidence            44445555555555555555555555555555555555555444444444444444443222222222222233333333


Q ss_pred             HHHHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHH
Q 002520          871 DKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQ  905 (913)
Q Consensus       871 eLNsEFyq~Rr~l~kARdLAa~~dv~eLqelc~~Q  905 (913)
                      -+...+--|+......=++.-.|+.++.+.+...+
T Consensus       175 vLY~ql~ay~ea~~~~~~v~I~G~~~~A~~~~~~~  209 (355)
T PF09766_consen  175 VLYSQLQAYQEAFDDSIDVEIVGDEEEAKAFERQQ  209 (355)
T ss_pred             HHHHHHHHHHHHhcCCceEEEEecHHHHHHHHhcc
Confidence            44333333433333322344458888877776543

The evolutionarily conserved multisubunit THO complex, which is recruited to actively transcribed genes is required for the efficient expression of genes that have internal tandem repeats. It is suggested that the THO complex functions to rectify aberrant structures that arise during transcription [, ] and is required for cell proliferation and for proper export of heat-shock mRNAs under heat stress []. This entry also identifies the crucial 144 N-terminal residues of the FmiP protein, which is essential for the binding of the protein to the cytoplasmic domain of activated Fms-molecules in M-CSF induced haematopoietic differentiation of macrophages. The C terminus contains a putative nuclear localisation sequence and a leucine zipper which suggest further, as yet unknown, nuclear functions. The level of FMIP expression might form a threshold that determines whether cells differentiate into macrophages or into granulocytes [].

>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=92.67  E-value=17  Score=39.10  Aligned_cols=35  Identities=11%  Similarity=0.135  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          845 LGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKY  879 (913)
Q Consensus       845 qeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~  879 (913)
                      ..+++.+-+....+|..+.++...+.+...-|-+.
T Consensus       240 ~~~r~~~~~~l~~a~~~y~el~~~l~eG~~FY~~L  274 (296)
T PF13949_consen  240 QKERESALQRLEAAYDAYKELSSNLEEGLKFYNDL  274 (296)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            34555566666667777777777777766644433

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=92.66  E-value=2.7  Score=46.89  Aligned_cols=37  Identities=16%  Similarity=0.207  Sum_probs=13.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          816 LRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAAD  852 (913)
Q Consensus       816 LReKIkkLekELEeLkkKIeEAqaELdELqeElrAae  852 (913)
                      ++.+...+.++++.|..+..++.+++.+++.+...+.
T Consensus        55 le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~   91 (314)
T PF04111_consen   55 LEQEEEELLQELEELEKEREELDQELEELEEELEELD   91 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333344444333333333

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.

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=92.66  E-value=20  Score=45.93  Aligned_cols=64  Identities=9%  Similarity=0.117  Sum_probs=32.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          669 IKAAQSKVDEKTRSRDAIRDDIQTIRASYKE--YAEKLEAAISDERSARESLKSKRQEIDSVQSRI  732 (913)
Q Consensus       669 IdeLekEIEeL~kqRdEInaELqeLReERdE--LeSeLKkLVeEIkrLReEInEKrKEIesLQSeL  732 (913)
                      |+.+-.+|+.|+..+.+.+.+.--.-++-..  ...+++.....|.++..++..+++++..+++.+
T Consensus       406 lKd~~~EIerLK~dl~AaReKnGvyisee~y~~~e~e~~~~~~~ieele~el~~~~~~l~~~~e~~  471 (1041)
T KOG0243|consen  406 LKDLYEEIERLKRDLAAAREKNGVYISEERYTQEEKEKKEMAEQIEELEEELENLEKQLKDLTELY  471 (1041)
T ss_pred             HHHHHHHHHHHHHHHHHhHhhCceEechHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444445555555554444433332222222  333444555566666666666666666665544

>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=92.66  E-value=17  Score=39.09  Aligned_cols=34  Identities=6%  Similarity=-0.049  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          853 EIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQA  886 (913)
Q Consensus       853 EeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kA  886 (913)
                      ..|+..+..|......+.++...+-+-..+++..
T Consensus       241 ~~r~~~~~~l~~a~~~y~el~~~l~eG~~FY~~L  274 (296)
T PF13949_consen  241 KERESALQRLEAAYDAYKELSSNLEEGLKFYNDL  274 (296)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            4444445555555555555555444444444333

>PF15450 DUF4631: Domain of unknown function (DUF4631)

Probab=92.65  E-value=28  Score=41.73  Aligned_cols=51  Identities=8%  Similarity=0.014  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          826 ATQAVKKLHREESEKLKRLLGQFKAA-DEIRQEAYKHWQSLKKQAYDKNQHF  876 (913)
Q Consensus       826 ELEeLkkKIeEAqaELdELqeElrAa-eEeRQEAyekIkELRkQ~DeLNsEF  876 (913)
                      .++.|-..|..+.++..-++.+.+.. ..+-...+..+..+|.++..+.+..
T Consensus       420 KVd~LpqqI~~vs~Kc~~~Ksd~d~kIdtE~k~R~~eV~~vRqELa~lLssv  471 (531)
T PF15450_consen  420 KVDSLPQQIEEVSDKCDLHKSDSDTKIDTEGKAREREVGAVRQELATLLSSV  471 (531)
T ss_pred             HHHhhhHHHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444433322 2333334566666666666655543

>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=92.53  E-value=5.3  Score=43.12  Aligned_cols=68  Identities=9%  Similarity=0.139  Sum_probs=31.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          820 VIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQAN  887 (913)
Q Consensus       820 IkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kAR  887 (913)
                      |.++.++++.|..++...-++|..+.+....++.....+-....+.+.....++.+|...+..++..|
T Consensus        34 L~e~~kE~~~L~~Er~~h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~R  101 (230)
T PF10146_consen   34 LEEYRKEMEELLQERMAHVEELRQINQDINTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINELR  101 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444444444444444444444444444444444444544444444443

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.

>PF04949 Transcrip_act: Transcriptional activator; InterPro: IPR007033 Golgins are a family of coiled-coil proteins associated with the Golgi apparatus necessary for tethering events in membrane fusion and as structural supports for Golgi cisternae []

Probab=92.50  E-value=5.3  Score=40.91  Aligned_cols=63  Identities=13%  Similarity=0.230  Sum_probs=50.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          808 FLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAY  870 (913)
Q Consensus       808 ELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~D  870 (913)
                      ..++++..+|++|+.+..+|+.|..-+.....++.+..+.++....++......|.+|..+..
T Consensus        81 P~RkEv~~vRkkID~vNreLkpl~~~cqKKEkEykealea~nEknkeK~~Lv~~L~eLv~eSE  143 (159)
T PF04949_consen   81 PMRKEVEMVRKKIDSVNRELKPLGQSCQKKEKEYKEALEAFNEKNKEKAQLVTRLMELVSESE  143 (159)
T ss_pred             chHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            458888899999999999999998888888888888888888877777777777777665543

This entry represents proteins annotated as RAB6-interacting golgins.

>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional

Probab=92.50  E-value=18  Score=45.06  Aligned_cols=22  Identities=18%  Similarity=0.299  Sum_probs=16.0

Q ss_pred             CCCCchHHHHHHHHHHHHHHHH
Q 002520          658 PRYDDENLREQIKAAQSKVDEK  679 (913)
Q Consensus       658 rRLdDPeLKaKIdeLekEIEeL  679 (913)
                      ..+..|.|..+|++|..+++.-
T Consensus       453 ~~~~~~~L~e~IeKLk~E~d~e  474 (762)
T PLN03229        453 SKPSELALNEMIEKLKKEIDLE  474 (762)
T ss_pred             CCCCChHHHHHHHHHHHHHHHH
Confidence            3456688888888888877653

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=92.45  E-value=2.8  Score=46.76  Aligned_cols=84  Identities=13%  Similarity=0.129  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          802 IEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKD  881 (913)
Q Consensus       802 IqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr  881 (913)
                      +.++++.++++...+.+++..++.+...+..++..++.+...+..+-...-.......-.+....++++.+...|...+.
T Consensus        48 ~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~~eE~~~~~~~n~~~~~l~~~~~e~~sl~~q~~~~~~  127 (314)
T PF04111_consen   48 LEEELEKLEQEEEELLQELEELEKEREELDQELEELEEELEELDEEEEEYWREYNELQLELIEFQEERDSLKNQYEYASN  127 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444444444444444444444444433333333344444444444444444444444


Q ss_pred             HHHH
Q 002520          882 DTKQ  885 (913)
Q Consensus       882 ~l~k  885 (913)
                      .+.+
T Consensus       128 ~L~~  131 (314)
T PF04111_consen  128 QLDR  131 (314)
T ss_dssp             HHHC
T ss_pred             HHHH
Confidence            4433

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.

>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=92.45  E-value=23  Score=40.13  Aligned_cols=200  Identities=12%  Similarity=0.200  Sum_probs=89.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRD--------AIRDDIQTIRASYKEYAEKLEAAIS-DERSARESLKSKRQEIDSVQSRIN  733 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRd--------EInaELqeLReERdELeSeLKkLVe-EIkrLReEInEKrKEIesLQSeLs  733 (913)
                      ..|-++|..+.++.+.+...+.        .+..++..++.++.++...|..-.. .+.++...|..+.++...++..|.
T Consensus        80 N~LlKkl~~l~keKe~L~~~~e~EEE~ltn~L~rkl~qLr~EK~~lE~~Le~EqE~~V~kL~k~i~~Le~e~~~~q~~le  159 (310)
T PF09755_consen   80 NTLLKKLQQLKKEKETLALKYEQEEEFLTNDLSRKLNQLRQEKVELENQLEQEQEYLVNKLQKKIERLEKEKSAKQEELE  159 (310)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence            4577777777777777743332        3555666667777777766654332 245555555555555555555444


Q ss_pred             hccC--CCCHHHHHHHHHHHHHHHhhcCCCcHHHHH-HHHHHHHHHHHHHHhhhcccchhHHHHHH--HhHHHHHHHHHH
Q 002520          734 MMKN--AISVDDIDGSIRNMEHRIAHETLPLKEEKQ-IIREIKQLKQRREQISSSIGEHDEVQLAF--DQKDQIEEKMKF  808 (913)
Q Consensus       734 KLrS--~KSVEELQeEIkeLE~QIQheSLsLqEEKQ-lIrEISQLEkeRKdV~snIs~kakIEqSL--eEKenIqEQIKE  808 (913)
                      .++.  ..=.-.|..++..|-.+++.--..|..||+ +...+   ..-.   ..-.+-++.+...+  +--..+...|..
T Consensus       160 ~Lr~EKVdlEn~LE~EQE~lvN~L~Kqm~~l~~eKr~Lq~~l---~~~~---s~~~s~~d~~~~~~~~Dt~e~~~shI~~  233 (310)
T PF09755_consen  160 RLRREKVDLENTLEQEQEALVNRLWKQMDKLEAEKRRLQEKL---EQPV---SAPPSPRDTVNVSEENDTAERLSSHIRS  233 (310)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---cccc---CCCCCcchHHhhcccCCchhHHHHHHHH
Confidence            4431  001111222222222222211114444444 22221   1110   00011011110000  011335566777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          809 LRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYD  871 (913)
Q Consensus       809 LKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~De  871 (913)
                      ++.+...||..+.....+...-   ......+...++.+...+..+++...+..-.|-.++.+
T Consensus       234 Lr~EV~RLR~qL~~sq~e~~~k---~~~~~~eek~ireEN~rLqr~L~~E~erreal~R~lse  293 (310)
T PF09755_consen  234 LRQEVSRLRQQLAASQQEHSEK---MAQYLQEEKEIREENRRLQRKLQREVERREALCRHLSE  293 (310)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777776666655433222   22222333445555555555555555544444444443

>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion

Probab=92.43  E-value=5.5  Score=40.39  Aligned_cols=26  Identities=15%  Similarity=0.374  Sum_probs=10.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          668 QIKAAQSKVDEKTRSRDAIRDDIQTI  693 (913)
Q Consensus       668 KIdeLekEIEeL~kqRdEInaELqeL  693 (913)
                      ++..++..+..+.++++++...+...
T Consensus        82 e~~~~~~~l~~l~~el~~l~~~~~~~  107 (191)
T PF04156_consen   82 ELSELQQQLQQLQEELDQLQERIQEL  107 (191)
T ss_pred             hHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444443333333333333

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 [].

>PF06705 SF-assemblin: SF-assemblin/beta giardin

Probab=92.32  E-value=18  Score=38.70  Aligned_cols=27  Identities=19%  Similarity=0.391  Sum_probs=13.5

Q ss_pred             HHHHHHHHHHHHHHHhhcCCCcHHHHH
Q 002520          741 VDDIDGSIRNMEHRIAHETLPLKEEKQ  767 (913)
Q Consensus       741 VEELQeEIkeLE~QIQheSLsLqEEKQ  767 (913)
                      .+.++..+..|..++.+..-.+.+|+.
T Consensus        87 ~~~~~~~l~~L~~ri~~L~~~i~ee~~  113 (247)
T PF06705_consen   87 QEQLQSRLDSLNDRIEALEEEIQEEKE  113 (247)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555544444444444

>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]

Probab=92.10  E-value=20  Score=38.69  Aligned_cols=61  Identities=25%  Similarity=0.230  Sum_probs=43.7

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          792 VQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAAD  852 (913)
Q Consensus       792 IEqSLeEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAae  852 (913)
                      +.+.+.+++.+++.++.++..+..++....+++..+..|..+|.+++.+...+..+...+.
T Consensus        87 Ar~al~~~~~le~~~~~~~~~~~~~~~~~~~l~~~~~~Le~Ki~e~~~~~~~l~ar~~~ak  147 (225)
T COG1842          87 AREALEEKQSLEDLAKALEAELQQAEEQVEKLKKQLAALEQKIAELRAKKEALKARKAAAK  147 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455666777777777777777777777777777777777777777777777766665443

>PF15066 CAGE1: Cancer-associated gene protein 1 family

Probab=92.01  E-value=12  Score=44.16  Aligned_cols=15  Identities=13%  Similarity=0.341  Sum_probs=6.2

Q ss_pred             HHHHHHHHHHHHHHH
Q 002520          799 KDQIEEKMKFLRKEA  813 (913)
Q Consensus       799 KenIqEQIKELKKEI  813 (913)
                      |+.++=+++.++...
T Consensus       413 KetLqlelkK~k~ny  427 (527)
T PF15066_consen  413 KETLQLELKKIKANY  427 (527)
T ss_pred             HHHHHHHHHHHhhhH
Confidence            344444444444333

>cd09234 V_HD-PTP_like Protein-interacting V-domain of mammalian His-Domain type N23 protein tyrosine phosphatase and related domains

Probab=91.70  E-value=26  Score=39.26  Aligned_cols=52  Identities=10%  Similarity=0.070  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          829 AVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYK  880 (913)
Q Consensus       829 eLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~R  880 (913)
                      .+..++...+........++....+....+|..+.+++..+.+..+-|..-.
T Consensus       269 ~an~~f~~~r~~~~~~~~~Re~~l~~L~~ay~~y~el~~~l~eG~~FY~dL~  320 (337)
T cd09234         269 EANAKYAPVRKALSETKQKRESTISSLIASYEAYEDLLKKSQKGIDFYKKLE  320 (337)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            3333333333333445666666666666677777777777777666555444

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

>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp

Probab=91.67  E-value=4.7  Score=44.83  Aligned_cols=72  Identities=29%  Similarity=0.405  Sum_probs=50.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHhh
Q 002520          704 LEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQIS  783 (913)
Q Consensus       704 LKkLVeEIkrLReEInEKrKEIesLQSeLsKLrS~KSVEELQeEIkeLE~QIQheSLsLqEEKQlIrEISQLEkeRKdV~  783 (913)
                      +|-++++++.....+.+...||..|+.+|..++    .+=|.++=.+.|.|+.        =|++++||+||+.-+..++
T Consensus        70 iRHLkakLkes~~~l~dRetEI~eLksQL~RMr----EDWIEEECHRVEAQLA--------LKEARkEIkQLkQvieTmr  137 (305)
T PF15290_consen   70 IRHLKAKLKESENRLHDRETEIDELKSQLARMR----EDWIEEECHRVEAQLA--------LKEARKEIKQLKQVIETMR  137 (305)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHH
Confidence            444444555555566777788888888888776    4556666666666642        2668899999999998766


Q ss_pred             hccc
Q 002520          784 SSIG  787 (913)
Q Consensus       784 snIs  787 (913)
                      ++++
T Consensus       138 ssL~  141 (305)
T PF15290_consen  138 SSLA  141 (305)
T ss_pred             hhhc
Confidence            6665

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=91.65  E-value=17  Score=36.95  Aligned_cols=18  Identities=11%  Similarity=0.324  Sum_probs=9.2

Q ss_pred             CCHHHHHHHHHHHHHHHh
Q 002520          739 ISVDDIDGSIRNMEHRIA  756 (913)
Q Consensus       739 KSVEELQeEIkeLE~QIQ  756 (913)
                      ...+.|+-+...|..+|.
T Consensus        42 iDFeqLkien~~l~~kIe   59 (177)
T PF13870_consen   42 IDFEQLKIENQQLNEKIE   59 (177)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            344555555555555543

>PRK10869 recombination and repair protein; Provisional

Probab=91.49  E-value=38  Score=40.68  Aligned_cols=45  Identities=16%  Similarity=0.108  Sum_probs=26.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAA  707 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkL  707 (913)
                      ..+..++..+=.+...+.+++.++.........+++.++-+++++
T Consensus       153 ~~~~~~~~~~y~~~~~~~~~l~~l~~~~~~~~~~~d~l~fql~Ei  197 (553)
T PRK10869        153 TSLLQEMRAAYQLWHQSCRDLAQHQQQSQERAARKQLLQYQLKEL  197 (553)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            345555555555556666666666665555566666666655555

>KOG1937 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.49  E-value=36  Score=40.40  Aligned_cols=19  Identities=5%  Similarity=0.010  Sum_probs=13.4

Q ss_pred             CcCCCchhhhhhhcccccc
Q 002520          628 TPEGSTVDASESRNIGVEV  646 (913)
Q Consensus       628 ~~eesLKDaVEe~kE~Ld~  646 (913)
                      .+-..+...++.|.....+
T Consensus       184 i~~sd~~~~ld~wg~~~~t  202 (521)
T KOG1937|consen  184 IPNSDPRKWLDQWGNSSHT  202 (521)
T ss_pred             ccccchhhHHHHHhccCCc
Confidence            4456677778888777666

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=91.49  E-value=0.055  Score=65.40  Aligned_cols=15  Identities=13%  Similarity=0.448  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHhh
Q 002520          743 DIDGSIRNMEHRIAH  757 (913)
Q Consensus       743 ELQeEIkeLE~QIQh  757 (913)
                      +.+..|..|+.++..
T Consensus       227 e~e~~i~~Le~el~~  241 (722)
T PF05557_consen  227 EAEQKIKELEAELKD  241 (722)
T ss_dssp             ---------------
T ss_pred             hHHHHHHHHHHHHHh
Confidence            334445555544433

The mitotic spindle checkpoint monitors proper attachment of the bipolar spindle to the kinetochores of aligned sister chromatids and causes a cell cycle arrest in prometaphase when failures occur. Multiple components of the mitotic spindle checkpoint have been identified in Saccharomyces cerevisiae and higher eukaryotes. In Saccharomyces cerevisiae, the existence of a Mad1-dependent complex containing Mad2, Mad3, Bub3 and Cdc20 has been demonstrated [].; PDB: 1GO4_F 4DZO_A.

>PRK10246 exonuclease subunit SbcC; Provisional

Probab=91.48  E-value=53  Score=42.34  Aligned_cols=23  Identities=4%  Similarity=-0.049  Sum_probs=11.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 002520          862 WQSLKKQAYDKNQHFWKYKDDTK  884 (913)
Q Consensus       862 IkELRkQ~DeLNsEFyq~Rr~l~  884 (913)
                      +..++.++..+...+-..+..+.
T Consensus       779 ~~~l~~~i~~~~~~~~~~~~~~~  801 (1047)
T PRK10246        779 LTQLEQLKQNLENQRQQAQTLVT  801 (1047)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555555555555554333

>PF13851 GAS: Growth-arrest specific micro-tubule binding

Probab=91.41  E-value=21  Score=37.62  Aligned_cols=28  Identities=21%  Similarity=0.254  Sum_probs=11.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          804 EKMKFLRKEADSLRENVIKAEAATQAVK  831 (913)
Q Consensus       804 EQIKELKKEIDELReKIkkLekELEeLk  831 (913)
                      .+++.++-+.+.|..+..++..+.++|.
T Consensus       100 k~l~~Lk~e~evL~qr~~kle~ErdeL~  127 (201)
T PF13851_consen  100 KELKDLKWEHEVLEQRFEKLEQERDELY  127 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333334444444444444433333333

>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold)

Probab=91.37  E-value=6.2  Score=38.40  Aligned_cols=70  Identities=13%  Similarity=0.130  Sum_probs=36.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          810 RKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKY  879 (913)
Q Consensus       810 KKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~  879 (913)
                      ...+..|...+..++.....|.++.+.++..+..|+.+......+..+.-.+|.+++..++...-++.+.
T Consensus        15 ~n~La~Le~slE~~K~S~~eL~kqkd~L~~~l~~L~~q~~s~~qr~~eLqaki~ea~~~le~eK~ak~~l   84 (107)
T PF09304_consen   15 QNRLASLERSLEDEKTSQGELAKQKDQLRNALQSLQAQNASRNQRIAELQAKIDEARRNLEDEKQAKLEL   84 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333344444444444444445555555566666666666666666665566666666665544444333

The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.

>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=91.35  E-value=6.1  Score=43.65  Aligned_cols=73  Identities=7%  Similarity=0.190  Sum_probs=33.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          805 KMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFW  877 (913)
Q Consensus       805 QIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFy  877 (913)
                      .|+....++..++..+..+..+-..|..+|++.+.+|...+.++..+...|=.-.+.+.++-.++..+...|.
T Consensus       170 ai~~~~~~~~~~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~sLq~vRPAfmdEyEklE~EL~~lY~~Y~  242 (267)
T PF10234_consen  170 AIKAVQQQLQQTQQQLNNLASDEANLEAKIEKKKQELERNQKRLQSLQSVRPAFMDEYEKLEEELQKLYEIYV  242 (267)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444444444444444444444444444444444444444444444444443

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 [].

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=91.22  E-value=16  Score=37.16  Aligned_cols=41  Identities=17%  Similarity=0.268  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          826 ATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLK  866 (913)
Q Consensus       826 ELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELR  866 (913)
                      +...+..++......+..++.++..+...+.+......+++
T Consensus        92 ~~~~l~~~l~~~~~~~~~~r~~l~~~k~~r~k~~~~~~~l~  132 (177)
T PF13870_consen   92 ELERLKQELKDREEELAKLREELYRVKKERDKLRKQNKKLR  132 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333333333333

>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

Probab=91.10  E-value=3.8  Score=44.37  Aligned_cols=75  Identities=17%  Similarity=0.162  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQH  875 (913)
Q Consensus       801 nIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsE  875 (913)
                      .+++...++|..++++.+.-..+.++++.+..++++.+..|..+.-+...+++.+++.-....+|++.++++...
T Consensus       132 d~ke~~ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~~~l~~ev~~L~~r~~ELe~~  206 (290)
T COG4026         132 DLKEDYEELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEMLKKLPGEVYDLKKRWDELEPG  206 (290)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHHHHHhccc
Confidence            344555566666666666666777777777777777778888888888888888887777777888888776653

>cd09235 V_Alix Middle V-domain of mammalian Alix and related domains are dimerization and protein interaction modules

Probab=91.05  E-value=31  Score=38.82  Aligned_cols=37  Identities=8%  Similarity=0.088  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          846 GQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDD  882 (913)
Q Consensus       846 eElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~  882 (913)
                      .+++...+.+..+|..+.++...+.+..+-|......
T Consensus       288 ~~re~~lq~L~~Ay~~y~el~~nl~eG~kFY~dL~~~  324 (339)
T cd09235         288 NEREEVLKDLAAAYDAFMELTANLKEGTKFYNDLTEI  324 (339)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            3455556666666777777777766666555544333

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

>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]

Probab=91.04  E-value=13  Score=45.89  Aligned_cols=56  Identities=14%  Similarity=0.219  Sum_probs=26.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          804 EKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAY  859 (913)
Q Consensus       804 EQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAy  859 (913)
                      ++|..++.++..++.+...+......+..++++....+..++.++..+.....+.+
T Consensus       241 ~~i~~l~~~l~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~~  296 (670)
T KOG0239|consen  241 KKIQALQQELEELKAELKELNDQVSLLTREVQEALKESNTLQSDLESLEENLVEKK  296 (670)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444455555555555555555555555555554444444444444444443333

>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=90.94  E-value=4.8  Score=41.64  Aligned_cols=54  Identities=19%  Similarity=0.207  Sum_probs=30.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          804 EKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQE  857 (913)
Q Consensus       804 EQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQE  857 (913)
                      .+|..++.++..++.++..+..++++..+-++.+++++..++-++..+++++++
T Consensus       116 ~~l~~l~~~~~~L~~~~~~l~~~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~  169 (194)
T PF08614_consen  116 RRLAELEAELAQLEEKIKDLEEELKEKNKANEILQDELQALQLQLNMLEEKLRK  169 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555666666666666666666666655555555555555555555544443

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.

>PF05911 DUF869: Plant protein of unknown function (DUF869); InterPro: IPR008587 This family consists of a number of sequences found in plants

Probab=90.86  E-value=54  Score=41.29  Aligned_cols=56  Identities=14%  Similarity=0.194  Sum_probs=36.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          670 KAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEI  725 (913)
Q Consensus       670 deLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEI  725 (913)
                      ++++.++-.++++++.....--.+..+...+..-|+.-+.+++..|.+-..++.+.
T Consensus        20 ekae~e~~~lk~~l~~~~~~~~~~e~r~~hld~aLkec~~qlr~~ree~eq~i~~~   75 (769)
T PF05911_consen   20 EKAEAEAASLKQQLEAATQQKLALEDRVSHLDGALKECMRQLRQVREEQEQKIHEA   75 (769)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            45566666677777766666666666777777777777777777666655555443

The function of this family is unknown.

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=90.84  E-value=3.4  Score=50.50  Aligned_cols=27  Identities=19%  Similarity=0.434  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          802 IEEKMKFLRKEADSLRENVIKAEAATQ  828 (913)
Q Consensus       802 IqEQIKELKKEIDELReKIkkLekELE  828 (913)
                      ++.+|..+..++..|+.++..++.+|+
T Consensus       508 L~~~~~~Le~e~~~L~~~~~~Le~~l~  534 (722)
T PF05557_consen  508 LQKEIEELERENERLRQELEELESELE  534 (722)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555555544444443

The mitotic spindle checkpoint monitors proper attachment of the bipolar spindle to the kinetochores of aligned sister chromatids and causes a cell cycle arrest in prometaphase when failures occur. Multiple components of the mitotic spindle checkpoint have been identified in Saccharomyces cerevisiae and higher eukaryotes. In Saccharomyces cerevisiae, the existence of a Mad1-dependent complex containing Mad2, Mad3, Bub3 and Cdc20 has been demonstrated [].; PDB: 1GO4_F 4DZO_A.

>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure

Probab=90.81  E-value=42  Score=39.90  Aligned_cols=26  Identities=8%  Similarity=0.204  Sum_probs=16.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhh
Q 002520          866 KKQAYDKNQHFWKYKDDTKQANDLAS  891 (913)
Q Consensus       866 RkQ~DeLNsEFyq~Rr~l~kARdLAa  891 (913)
                      ..++..+..+||-++..+...+....
T Consensus       336 e~e~~l~~~el~~~~ee~~~~~s~~~  361 (511)
T PF09787_consen  336 EAELRLYYQELYHYREELSRQKSPLQ  361 (511)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcChHH
Confidence            45556677777777776655554433

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 [].

>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]

Probab=90.58  E-value=10  Score=38.34  Aligned_cols=68  Identities=15%  Similarity=0.303  Sum_probs=37.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQS  730 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQS  730 (913)
                      ..|+..|..++.+++.....+..+.......++....+..+|..+...++++..++...+.+-..|..
T Consensus        20 dsle~~v~~LEreLe~~q~~~e~~~~daEn~k~eie~L~~el~~lt~el~~L~~EL~~l~sEk~~L~k   87 (140)
T PF10473_consen   20 DSLEDHVESLERELEMSQENKECLILDAENSKAEIETLEEELEELTSELNQLELELDTLRSEKENLDK   87 (140)
T ss_pred             hhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555566555555555555555555555555555555555555555555555555554444433

There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=90.40  E-value=36  Score=38.48  Aligned_cols=28  Identities=14%  Similarity=0.079  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          835 REESEKLKRLLGQFKAADEIRQEAYKHW  862 (913)
Q Consensus       835 eEAqaELdELqeElrAaeEeRQEAyekI  862 (913)
                      +.+...|..++.+.--+.+.++.++.+-
T Consensus       217 es~eERL~QlqsEN~LLrQQLddA~~K~  244 (305)
T PF14915_consen  217 ESLEERLSQLQSENMLLRQQLDDAHNKA  244 (305)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444444444444433

>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=90.36  E-value=4.3  Score=40.87  Aligned_cols=21  Identities=19%  Similarity=0.131  Sum_probs=9.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 002520          861 HWQSLKKQAYDKNQHFWKYKD  881 (913)
Q Consensus       861 kIkELRkQ~DeLNsEFyq~Rr  881 (913)
                      .+..+.+.+......|.+.++
T Consensus       146 e~~~~~~~~~~~~k~w~kRKr  166 (169)
T PF07106_consen  146 EKEKLEKEYKKWRKEWKKRKR  166 (169)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444443

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 [].

>KOG4438 consensus Centromere-associated protein NUF2 [Cell cycle control, cell division, chromosome partitioning]

Probab=90.16  E-value=45  Score=39.29  Aligned_cols=45  Identities=13%  Similarity=0.361  Sum_probs=22.8

Q ss_pred             CCCHHHHHHHHHHHHHHHhhcC--C-CcHHHHH-HHHHHHHHHHHHHHh
Q 002520          738 AISVDDIDGSIRNMEHRIAHET--L-PLKEEKQ-IIREIKQLKQRREQI  782 (913)
Q Consensus       738 ~KSVEELQeEIkeLE~QIQheS--L-sLqEEKQ-lIrEISQLEkeRKdV  782 (913)
                      ..|++.|...|..+...++..+  + .|++-.. +-..+..|+.-.+++
T Consensus       240 V~sPeKL~~~leemk~~l~k~k~~~~~l~~K~~iL~ekv~~~qti~~e~  288 (446)
T KOG4438|consen  240 VQSPEKLKEALEEMKDLLQKEKSAMVELQEKAKILEEKVTNLQTIEKEL  288 (446)
T ss_pred             cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHH
Confidence            3566666666666666666555  3 3433333 334444444443333

>KOG1899 consensus LAR transmembrane tyrosine phosphatase-interacting protein liprin [General function prediction only]

Probab=90.14  E-value=23  Score=43.33  Aligned_cols=173  Identities=15%  Similarity=0.152  Sum_probs=98.4

Q ss_pred             CCCCHHHHHHHHHHHHHHHhhcCC---CcHHHHH-HHHHHHHHHHHHHHhhhcccc-hhHHHHHHHhHHHHHHHHHHHHH
Q 002520          737 NAISVDDIDGSIRNMEHRIAHETL---PLKEEKQ-IIREIKQLKQRREQISSSIGE-HDEVQLAFDQKDQIEEKMKFLRK  811 (913)
Q Consensus       737 S~KSVEELQeEIkeLE~QIQheSL---sLqEEKQ-lIrEISQLEkeRKdV~snIs~-kakIEqSLeEKenIqEQIKELKK  811 (913)
                      ++.+-++.|+++.+|+.--..+.|   -|++.=. --..|..|+.-+...+.++.. ...+|+.+-.+..++.|-=.+-+
T Consensus       102 s~~~~~~yQerLaRLe~dkesL~LQvsvLteqVeaQgEKIrDLE~cie~kr~kLnatEEmLQqellsrtsLETqKlDLma  181 (861)
T KOG1899|consen  102 SCPEYPEYQERLARLEMDKESLQLQVSVLTEQVEAQGEKIRDLETCIEEKRNKLNATEEMLQQELLSRTSLETQKLDLMA  181 (861)
T ss_pred             cCCcchHHHHHHHHHhcchhhheehHHHHHHHHHHhhhhHHHHHHHHHHHHhhhchHHHHHHHHHHhhhhHHHHHhHHHH
Confidence            457778888888888876555553   2444433 233455555555444444332 22445555556666665556666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          812 EADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQ-FKAADEIRQ-------EAYKHWQSLKKQAYDKNQHFWKYKDDT  883 (913)
Q Consensus       812 EIDELReKIkkLekELEeLkkKIeEAqaELdELqeE-lrAaeEeRQ-------EAyekIkELRkQ~DeLNsEFyq~Rr~l  883 (913)
                      ++.+|+-++-.++++..+-.+++...+..+.++.+- .....++|-       ..-..+.-|+.++.+++++.-...  .
T Consensus       182 evSeLKLkltalEkeq~e~E~K~R~se~l~qevn~~kv~e~~~erlqye~klkstk~e~a~L~Eq~~eK~~e~~rl~--~  259 (861)
T KOG1899|consen  182 EVSELKLKLTALEKEQNETEKKLRLSENLMQEVNQSKVGEVVQERLQYETKLKSTKGEMAPLREQRSEKNDEEMRLL--R  259 (861)
T ss_pred             HHHHhHHHHHHHHHHhhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchhhhHHHHHhhhhhHHHHHH--H
Confidence            777777666666666666666666666666555422 112222222       223556778888888888765433  3


Q ss_pred             HHHHHhhhcCC---------HHHHHHHH--HHHHHhhhh
Q 002520          884 KQANDLASKGD---------REALQHLC--VNQVRSRTL  911 (913)
Q Consensus       884 ~kARdLAa~~d---------v~eLqelc--~~QVEkfm~  911 (913)
                      ..++-|++-|.         +.+|+.++  +.|-++|++
T Consensus       260 ~lv~~~~~d~e~~~~rd~~lk~a~eslm~ane~kdr~ie  298 (861)
T KOG1899|consen  260 TLVQRLMADGEHKSLRDNTLKNALESLMRANEQKDRFIE  298 (861)
T ss_pred             HHHHHHhhcccchhhHHHHHHHHHHHHHhhchhhhhHHH
Confidence            34555666555         45566554  445666654

>PRK10361 DNA recombination protein RmuC; Provisional

Probab=89.91  E-value=50  Score=39.43  Aligned_cols=37  Identities=11%  Similarity=0.035  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          839 EKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQH  875 (913)
Q Consensus       839 aELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsE  875 (913)
                      +.|...+.+....+..+.+.+..|..-.+++.+++..
T Consensus       147 e~l~~f~~~v~~~~~~~~~~~~~L~~qi~~L~~~n~~  183 (475)
T PRK10361        147 EQLDGFRRQVQDSFGKEAQERHTLAHEIRNLQQLNAQ  183 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444444444444444444444433

>PRK10884 SH3 domain-containing protein; Provisional

Probab=89.86  E-value=2.4  Score=44.87  Aligned_cols=11  Identities=9%  Similarity=0.317  Sum_probs=4.3

Q ss_pred             HHHHHHHHHHH
Q 002520          771 EIKQLKQRREQ  781 (913)
Q Consensus       771 EISQLEkeRKd  781 (913)
                      .+.+|++++.+
T Consensus        94 rlp~le~el~~  104 (206)
T PRK10884         94 RVPDLENQVKT  104 (206)
T ss_pred             HHHHHHHHHHH
Confidence            33344444433

>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]

Probab=89.74  E-value=20  Score=42.91  Aligned_cols=19  Identities=11%  Similarity=0.099  Sum_probs=9.4

Q ss_pred             CHHHHHHHHHHHHHHHhhc
Q 002520          740 SVDDIDGSIRNMEHRIAHE  758 (913)
Q Consensus       740 SVEELQeEIkeLE~QIQhe  758 (913)
                      ++..+-++.+.+|.+++.+
T Consensus       199 ~y~~~~KelrdtN~q~~s~  217 (596)
T KOG4360|consen  199 LYGDCVKELRDTNTQARSG  217 (596)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4444555555555554443

>KOG1899 consensus LAR transmembrane tyrosine phosphatase-interacting protein liprin [General function prediction only]

Probab=89.71  E-value=24  Score=43.16  Aligned_cols=51  Identities=4%  Similarity=0.122  Sum_probs=35.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERS  713 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkr  713 (913)
                      |.++.++..|+-..+.|.-+..-+...+.+..++..+|+.-|...+.++..
T Consensus       107 ~~yQerLaRLe~dkesL~LQvsvLteqVeaQgEKIrDLE~cie~kr~kLna  157 (861)
T KOG1899|consen  107 PEYQERLARLEMDKESLQLQVSVLTEQVEAQGEKIRDLETCIEEKRNKLNA  157 (861)
T ss_pred             hHHHHHHHHHhcchhhheehHHHHHHHHHHhhhhHHHHHHHHHHHHhhhch
Confidence            778888888888777777777777777777777777776655554444333

>KOG2273 consensus Membrane coat complex Retromer, subunit VPS5/SNX1, Sorting nexins, and related PX domain-containing proteins [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.64  E-value=48  Score=38.86  Aligned_cols=49  Identities=10%  Similarity=0.173  Sum_probs=20.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARE  716 (913)
Q Consensus       664 eLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLRe  716 (913)
                      +++.++..+...+..+.+....    +...+.......+++.+....+..+..
T Consensus       278 e~~~~i~~l~~~l~~l~~~~~~----~~~~~~~l~~~~~~~g~~~~~l~~~~~  326 (503)
T KOG2273|consen  278 EKKEKIDKLEQQLKKLSKQVQR----LVKRRRELASNLAELGKALAQLSALEG  326 (503)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            4444555555444443333322    333333333333444444444444444

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=89.64  E-value=29  Score=36.23  Aligned_cols=62  Identities=21%  Similarity=0.214  Sum_probs=41.8

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          791 EVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAAD  852 (913)
Q Consensus       791 kIEqSLeEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAae  852 (913)
                      -+...+.++..++.++..++..++.+...+..++..+..+..++.+++.+...+..+...+.
T Consensus        85 LAr~al~~k~~~e~~~~~l~~~~~~~~~~~~~l~~~l~~l~~kl~e~k~k~~~l~ar~~~a~  146 (221)
T PF04012_consen   85 LAREALQRKADLEEQAERLEQQLDQAEAQVEKLKEQLEELEAKLEELKSKREELKARENAAK  146 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455666666667777777777777777777777777777777777777777666655443

The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].

>PLN03188 kinesin-12 family protein; Provisional

Probab=89.60  E-value=39  Score=44.41  Aligned_cols=35  Identities=17%  Similarity=0.237  Sum_probs=22.5

Q ss_pred             HHHHHHHHHhhcCCCcHHHHH-HHHHHHHHHHHHHH
Q 002520          747 SIRNMEHRIAHETLPLKEEKQ-IIREIKQLKQRREQ  781 (913)
Q Consensus       747 EIkeLE~QIQheSLsLqEEKQ-lIrEISQLEkeRKd  781 (913)
                      =|..|...|-.+++.-..||+ +.+|-+.|+.++++
T Consensus      1156 f~~alaae~s~l~~ereker~~~~~enk~l~~qlrd 1191 (1320)
T PLN03188       1156 FINALAAEISALKVEREKERRYLRDENKSLQAQLRD 1191 (1320)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhh
Confidence            355566655555554455555 77778888887776

>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast)

Probab=89.58  E-value=6.4  Score=41.05  Aligned_cols=27  Identities=22%  Similarity=0.288  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHHhhhc--CCHHHHHHHHHH
Q 002520          878 KYKDDTKQANDLASK--GDREALQHLCVN  904 (913)
Q Consensus       878 q~Rr~l~kARdLAa~--~dv~eLqelc~~  904 (913)
                      +.+..+..+++-|.+  -++-.|+.+|..
T Consensus       139 ~~~~~~~~~~~~anrwTDNI~~l~~~~~~  167 (188)
T PF03962_consen  139 KLKEEIKIAKEAANRWTDNIFSLKSYLKK  167 (188)
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            445555556665555  667777777765

The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].

>smart00502 BBC B-Box C-terminal domain

Probab=89.57  E-value=17  Score=33.41  Aligned_cols=32  Identities=19%  Similarity=0.173  Sum_probs=17.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCC
Q 002520          863 QSLKKQAYDKNQHFWKYKDDTKQANDLASKGD  894 (913)
Q Consensus       863 kELRkQ~DeLNsEFyq~Rr~l~kARdLAa~~d  894 (913)
                      ..+..+...+....-+.+..+.-++.+...|+
T Consensus        75 ~~l~~q~~~l~~~l~~l~~~~~~~e~~l~~~~  106 (127)
T smart00502       75 KVLEQQLESLTQKQEKLSHAINFTEEALNSGD  106 (127)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence            34444555555555555556666666555544

Coiled coil region C-terminal to (some) B-Box domains

>PF10481 CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR018463 Mitosin or centromere-associated protein-F (Cenp-F) is found bound across the centromere as one of the proteins of the outer layer of the kinetochore []

Probab=89.54  E-value=29  Score=38.83  Aligned_cols=14  Identities=29%  Similarity=0.254  Sum_probs=10.0

Q ss_pred             HHHHHHHHHHHHHh
Q 002520          895 REALQHLCVNQVRS  908 (913)
Q Consensus       895 v~eLqelc~~QVEk  908 (913)
                      .++|++-.+-+||.
T Consensus       164 ~e~L~ekynkevee  177 (307)
T PF10481_consen  164 YEELQEKYNKEVEE  177 (307)
T ss_pred             HHHHHHHHHHHHHH
Confidence            46777777777764

Most of the kinetochore/centromere functions appear to depend upon binding of the C-terminal part of the molecule, whereas the N-terminal part, here, may be a cytoplasmic player in controlling the function of microtubules and dynein [].

>COG0497 RecN ATPase involved in DNA repair [DNA replication, recombination, and repair]

Probab=89.53  E-value=58  Score=39.63  Aligned_cols=41  Identities=10%  Similarity=0.063  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCC
Q 002520          854 IRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGD  894 (913)
Q Consensus       854 eRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARdLAa~~d  894 (913)
                      .++....++..|.+++..+..+|.+.-..+.+.|.-+|++=
T Consensus       336 ~L~~~~~~~~~Le~~~~~l~~~~~~~A~~Ls~~R~~~A~~L  376 (557)
T COG0497         336 QLDNSEESLEALEKEVKKLKAELLEAAEALSAIRKKAAKEL  376 (557)
T ss_pred             HhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33445677888888888888888888888888888777543

>KOG3647 consensus Predicted coiled-coil protein [General function prediction only]

Probab=89.39  E-value=37  Score=38.06  Aligned_cols=38  Identities=11%  Similarity=0.086  Sum_probs=18.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREES  838 (913)
Q Consensus       801 nIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAq  838 (913)
                      +|...|...|.++...|+++..|....-....+++...
T Consensus       137 ~L~~Kierrk~ElEr~rkRle~LqsiRP~~MdEyE~~E  174 (338)
T KOG3647|consen  137 ALGSKIERRKAELERTRKRLEALQSIRPAHMDEYEDCE  174 (338)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHH
Confidence            44455555555666666655555443333333333333

>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=89.36  E-value=23  Score=34.74  Aligned_cols=60  Identities=17%  Similarity=0.239  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          828 QAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQAN  887 (913)
Q Consensus       828 EeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kAR  887 (913)
                      ..++.++..++..+..++.+.+.+...+...-.+|..-+..+..-....-..+.++..+.
T Consensus        62 ~~lr~e~~~~~~~~~~l~~~~~~a~~~l~~~e~sw~~qk~~le~e~~~~~~r~~dL~~QN  121 (132)
T PF07926_consen   62 QQLREELQELQQEINELKAEAESAKAELEESEASWEEQKEQLEKELSELEQRIEDLNEQN  121 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444444444444444444444444444444444444444443

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

>KOG0982 consensus Centrosomal protein Nuf [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=89.26  E-value=53  Score=38.84  Aligned_cols=28  Identities=29%  Similarity=0.440  Sum_probs=19.2

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          797 DQKDQIEEKMKFLRKEADSLRENVIKAE  824 (913)
Q Consensus       797 eEKenIqEQIKELKKEIDELReKIkkLe  824 (913)
                      .+|+++++-|.++++++.-+|..+-.+.
T Consensus       367 ~ekeatqELieelrkelehlr~~kl~~a  394 (502)
T KOG0982|consen  367 EEKEATQELIEELRKELEHLRRRKLVLA  394 (502)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3466777778888888777776655443

>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=89.25  E-value=6.5  Score=39.65  Aligned_cols=88  Identities=16%  Similarity=0.235  Sum_probs=40.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
Q 002520          802 IEEKMKFLRKEADSLRENVIKAEAATQAVKKLH--REESEKLKRLLGQFKAADEIRQEAYKHWQ-SLKKQAYDKNQHFWK  878 (913)
Q Consensus       802 IqEQIKELKKEIDELReKIkkLekELEeLkkKI--eEAqaELdELqeElrAaeEeRQEAyekIk-ELRkQ~DeLNsEFyq  878 (913)
                      +..+|..++.++.+++..+..++.++..|....  .++...+.++..+...+..++........ -.-.++..+...|..
T Consensus        77 ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~  156 (169)
T PF07106_consen   77 LDAEIKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKLRSGSKPVSPEEKEKLEKEYKK  156 (169)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Confidence            333444444444444444444444444443222  23333333333333333333322111111 123467777788888


Q ss_pred             HHHHHHHHHHh
Q 002520          879 YKDDTKQANDL  889 (913)
Q Consensus       879 ~Rr~l~kARdL  889 (913)
                      ++..|++=|-+
T Consensus       157 ~~k~w~kRKri  167 (169)
T PF07106_consen  157 WRKEWKKRKRI  167 (169)
T ss_pred             HHHHHHHHHHH
Confidence            88887765443

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 [].

>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=89.11  E-value=32  Score=36.84  Aligned_cols=32  Identities=13%  Similarity=0.180  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          800 DQIEEKMKFLRKEADSLRENVIKAEAATQAVK  831 (913)
Q Consensus       800 enIqEQIKELKKEIDELReKIkkLekELEeLk  831 (913)
                      ..+..+++.++++++.++...+.+...+....
T Consensus        52 ~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~   83 (251)
T PF11932_consen   52 QELLAEYRQLEREIENLEVYNEQLERQVASQE   83 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444433333333

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.

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=88.74  E-value=6.9  Score=47.42  Aligned_cols=112  Identities=11%  Similarity=0.351  Sum_probs=59.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMKNAISVD  742 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLsKLrS~KSVE  742 (913)
                      .++...++.++.++..|...++++..++.++++++..+..+++    .-.+.+.++..+...|..|+.+|....  +.++
T Consensus       425 ~~~~~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~r~~~----~~~~~~rei~~~~~~I~~L~~~L~e~~--~~ve  498 (652)
T COG2433         425 KKLEETVERLEEENSELKRELEELKREIEKLESELERFRREVR----DKVRKDREIRARDRRIERLEKELEEKK--KRVE  498 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHhhhHHHHHHHHHHHHHHHHHHHHH--HHHH
Confidence            3455555555555555555555555555555555555544433    223445556666666666666664333  5667


Q ss_pred             HHHHHHHHHH--HHHhhcC--CCcHHHHH-HHHHHHHHHHHHH
Q 002520          743 DIDGSIRNME--HRIAHET--LPLKEEKQ-IIREIKQLKQRRE  780 (913)
Q Consensus       743 ELQeEIkeLE--~QIQheS--LsLqEEKQ-lIrEISQLEkeRK  780 (913)
                      +|..++.++.  +.|.+.-  +++..=++ -...|..++....
T Consensus       499 ~L~~~l~~l~k~~~lE~sG~g~pvk~ve~~t~~~Ie~~e~~~g  541 (652)
T COG2433         499 ELERKLAELRKMRKLELSGKGTPVKVVEKLTLEAIEEAEEEYG  541 (652)
T ss_pred             HHHHHHHHHHHHHhhhhcCCCcceehhhhhhHHHHHhHHHhhc
Confidence            7777666665  3333332  33333333 4555666655543

>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch

Probab=88.62  E-value=27  Score=34.59  Aligned_cols=80  Identities=19%  Similarity=0.348  Sum_probs=51.1

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          795 AFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQ  874 (913)
Q Consensus       795 SLeEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNs  874 (913)
                      .+..++.+..++..+..++..+...+..+...+..+..++..+..+...+..+++.+.......-+.+.++...+.....
T Consensus        50 ~~~~~e~l~~~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k~~kee~~klk~~~~~~~t  129 (151)
T PF11559_consen   50 DMEQREDLSDKLRRLRSDIERLQNDVERLKEQLEELERELASAEEKERQLQKQLKSLEAKLKQEKEELQKLKNQLQQRKT  129 (151)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455666677777777777777777777777777776666666666666666666666665555555555544444333

pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.

>PF14988 DUF4515: Domain of unknown function (DUF4515)

Probab=88.58  E-value=37  Score=36.14  Aligned_cols=69  Identities=17%  Similarity=0.294  Sum_probs=33.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccCC-CCHHHHHHHHHHHHHHHhhcCC----CcHHH-HHHHHHHHHHHHHH
Q 002520          711 ERSARESLKSKRQEIDSVQSRINMMKNA-ISVDDIDGSIRNMEHRIAHETL----PLKEE-KQIIREIKQLKQRR  779 (913)
Q Consensus       711 IkrLReEInEKrKEIesLQSeLsKLrS~-KSVEELQeEIkeLE~QIQheSL----sLqEE-KQlIrEISQLEkeR  779 (913)
                      +..++..+....+.+..|+.+|..+..| .--+..+.+|..|+..+.....    .+.+- -+++.+=..|+++.
T Consensus        49 ~~~Lq~qLlq~~k~~~~l~~eLq~l~~~~~~k~~qe~eI~~Le~e~~~~~~e~~~~l~~~~~qfl~EK~~LEke~  123 (206)
T PF14988_consen   49 TSELQDQLLQKEKEQAKLQQELQALKEFRRLKEQQEREIQTLEEELEKMRAEHAEKLQEAESQFLQEKARLEKEA  123 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444555555555555555555444332 2233444556666665555441    22222 22555555555554

>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]

Probab=88.49  E-value=59  Score=38.39  Aligned_cols=17  Identities=0%  Similarity=-0.017  Sum_probs=7.2

Q ss_pred             HHHHHHHHHHHHHHHHH
Q 002520          861 HWQSLKKQAYDKNQHFW  877 (913)
Q Consensus       861 kIkELRkQ~DeLNsEFy  877 (913)
                      .+.+.+.-+.+....||
T Consensus       314 ~lsEsesslemdeery~  330 (552)
T KOG2129|consen  314 MLSESESSLEMDEERYL  330 (552)
T ss_pred             HhhhhhHHHHHHHHHHH
Confidence            33344444444444444

>cd08915 V_Alix_like Protein-interacting V-domain of mammalian Alix and related domains

Probab=88.32  E-value=47  Score=37.04  Aligned_cols=36  Identities=17%  Similarity=0.219  Sum_probs=22.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          844 LLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKY  879 (913)
Q Consensus       844 LqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~  879 (913)
                      ...++....+....+|..+.+++..+.+..+-|...
T Consensus       289 ~~~~r~~~l~~L~~ay~~y~el~~~l~eG~~FY~dL  324 (342)
T cd08915         289 SLDPREEALQDLEASYKKYLELKENLNEGSKFYNDL  324 (342)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            344555666666667777777777766665554433

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

>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=88.29  E-value=8.4  Score=39.85  Aligned_cols=59  Identities=15%  Similarity=0.268  Sum_probs=24.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          806 MKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQS  864 (913)
Q Consensus       806 IKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkE  864 (913)
                      +..++.++..+...+......++.|+.++..++-.++.+..+++.+..+-++.++.|-.
T Consensus       125 ~~~L~~~~~~l~~~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~l~~En~~Lv~Rwm~  183 (194)
T PF08614_consen  125 LAQLEEKIKDLEEELKEKNKANEILQDELQALQLQLNMLEEKLRKLEEENRELVERWMQ  183 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333344444444444444444444444444444444444433

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.

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=88.29  E-value=13  Score=43.78  Aligned_cols=27  Identities=26%  Similarity=0.256  Sum_probs=11.7

Q ss_pred             CCCccccccccccccCC--CCCCCCCCCh
Q 002520          587 KTCPEVKENRGIQLTGG--EDGDRTFQDV  613 (913)
Q Consensus       587 ~~~~~~~~~~~~~~~~~--~~~~RsFede  613 (913)
                      .|||---|.----.+|=  --|.-+|...
T Consensus       176 PTCpVCLERMD~s~~gi~t~~c~Hsfh~~  204 (493)
T KOG0804|consen  176 PTCPVCLERMDSSTTGILTILCNHSFHCS  204 (493)
T ss_pred             CCcchhHhhcCccccceeeeecccccchH
Confidence            46775544322222110  2355556555

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=88.23  E-value=25  Score=36.69  Aligned_cols=15  Identities=13%  Similarity=0.350  Sum_probs=6.5

Q ss_pred             CHHHHHHHHHHHHHH
Q 002520          740 SVDDIDGSIRNMEHR  754 (913)
Q Consensus       740 SVEELQeEIkeLE~Q  754 (913)
                      -.+++...+..++.+
T Consensus        59 ~~~~~~~~~~~~~~~   73 (221)
T PF04012_consen   59 KLDEAEEEAEKWEKQ   73 (221)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            344444444444443

The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].

>PF06818 Fez1: Fez1; InterPro: IPR009638 This family represents the eukaryotic Fez1 protein

Probab=87.92  E-value=42  Score=36.02  Aligned_cols=33  Identities=15%  Similarity=0.136  Sum_probs=15.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          839 EKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYD  871 (913)
Q Consensus       839 aELdELqeElrAaeEeRQEAyekIkELRkQ~De  871 (913)
                      .........|......=++.-+++-.+.+++..
T Consensus       152 ~~~e~q~~~Fe~ER~~W~eEKekVi~YQkQLQ~  184 (202)
T PF06818_consen  152 QRREEQRSSFEQERRTWQEEKEKVIRYQKQLQQ  184 (202)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444433344443333334444555555555554

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

>PF15254 CCDC14: Coiled-coil domain-containing protein 14

Probab=87.88  E-value=49  Score=41.56  Aligned_cols=27  Identities=22%  Similarity=0.144  Sum_probs=11.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          825 AATQAVKKLHREESEKLKRLLGQFKAA  851 (913)
Q Consensus       825 kELEeLkkKIeEAqaELdELqeElrAa  851 (913)
                      -++..|+-+++++-..++.++-.+.++
T Consensus       494 ~e~~rik~ev~eal~~~k~~q~kLe~s  520 (861)
T PF15254_consen  494 IETTRIKIEVEEALVNVKSLQFKLEAS  520 (861)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhHHHH
Confidence            344444444444444444444444433

>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4

Probab=87.69  E-value=35  Score=38.01  Aligned_cols=102  Identities=17%  Similarity=0.240  Sum_probs=57.9

Q ss_pred             CHHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 002520          740 SVDDIDGSIRNMEHRIAHETLPLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLREN  819 (913)
Q Consensus       740 SVEELQeEIkeLE~QIQheSLsLqEEKQlIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEIDELReK  819 (913)
                      |..+|...+.-+.+ +....+.+.|=|..+.+|......+..          -+....+++.....++..+.+++.+.++
T Consensus       147 S~~dl~e~~~~l~D-Lesa~vkV~WLR~~L~Ei~Ea~e~~~~----------~~~~e~eke~~~r~l~~~~~ELe~~~Ee  215 (269)
T PF05278_consen  147 SESDLKEMIATLKD-LESAKVKVDWLRSKLEEILEAKEIYDQ----------HETREEEKEEKDRKLELKKEELEELEEE  215 (269)
T ss_pred             hHHHHHHHHHHHHH-HHHcCcchHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444433 222346777777777776655444332          1112234555556677777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          820 VIKAEAATQAVKKLHREESEKLKRLLGQFKAAD  852 (913)
Q Consensus       820 IkkLekELEeLkkKIeEAqaELdELqeElrAae  852 (913)
                      +.+.++++.+++.++.+.+.+|..+..+...+.
T Consensus       216 L~~~Eke~~e~~~~i~e~~~rl~~l~~~~~~l~  248 (269)
T PF05278_consen  216 LKQKEKEVKEIKERITEMKGRLGELEMESTRLS  248 (269)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777777777777666666666665555444433

>cd07666 BAR_SNX7 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 7

Probab=87.58  E-value=48  Score=36.30  Aligned_cols=46  Identities=11%  Similarity=0.125  Sum_probs=21.8

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          797 DQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLK  842 (913)
Q Consensus       797 eEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELd  842 (913)
                      .+|..++..++.++.-+...+.....+..+++.+..+++.+.+.++
T Consensus       156 k~R~~~Q~~le~k~e~l~k~~~dr~~~~~ev~~~e~kve~a~~~~k  201 (243)
T cd07666         156 KRRDQIQAELDSKVEALANKKADRDLLKEEIEKLEDKVECANNALK  201 (243)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444433333333344334555566666666666654433

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. The specific function of SNX7 is still unknown. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=87.20  E-value=20  Score=42.33  Aligned_cols=53  Identities=6%  Similarity=0.190  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          675 KVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDS  727 (913)
Q Consensus       675 EIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIes  727 (913)
                      +++..++.......++..++.+...+++.-+.....+.+++..+++..++++.
T Consensus       348 qlen~k~~~e~~~~e~~~l~~~~~~~e~~kk~~e~k~~q~q~k~~k~~kel~~  400 (493)
T KOG0804|consen  348 QLENQKQYYELLITEADSLKQESSDLEAEKKIVERKLQQLQTKLKKCQKELKE  400 (493)
T ss_pred             HHHhHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444444444442222233344444444444444433

>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=87.13  E-value=88  Score=38.87  Aligned_cols=33  Identities=18%  Similarity=0.213  Sum_probs=18.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          842 KRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQ  874 (913)
Q Consensus       842 dELqeElrAaeEeRQEAyekIkELRkQ~DeLNs  874 (913)
                      ..|..-...+...+.+..++++.++.+...+++
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            333444444445555556666666666666555

>KOG0244 consensus Kinesin-like protein [Cytoskeleton]

Probab=87.12  E-value=33  Score=43.58  Aligned_cols=46  Identities=9%  Similarity=0.135  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          665 LREQIKAAQSKVDEKTRSRDA-----IRDDIQTIRASYKEYAEKLEAAISD  710 (913)
Q Consensus       665 LKaKIdeLekEIEeL~kqRdE-----InaELqeLReERdELeSeLKkLVeE  710 (913)
                      ....+..++.+++.+...+-.     +.++++.++.+-..+..+++++..+
T Consensus       328 ~~~~~~~lK~ql~~l~~ell~~~~~~~~~ei~sl~~e~~~l~~~~d~~~~e  378 (913)
T KOG0244|consen  328 KSFEMLKLKAQLEPLQVELLSKAGDELDAEINSLPFENVTLEETLDALLQE  378 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhccccchhHHhhhhhhhhhhhhhHHHHhcc
Confidence            334444444444444444433     3356666776666666666666544

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=87.05  E-value=56  Score=36.47  Aligned_cols=44  Identities=14%  Similarity=0.103  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 002520          848 FKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLAS  891 (913)
Q Consensus       848 lrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARdLAa  891 (913)
                      +....++++.++++..=|-.++++....+..-+|+-..||||..
T Consensus       135 leDfeqrLnqAIErnAfLESELdEke~llesvqRLkdEardlrq  178 (333)
T KOG1853|consen  135 LEDFEQRLNQAIERNAFLESELDEKEVLLESVQRLKDEARDLRQ  178 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence            34456677777777777888888888888888888888888754

>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

Probab=86.98  E-value=4  Score=44.21  Aligned_cols=63  Identities=10%  Similarity=0.159  Sum_probs=30.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEI  725 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEI  725 (913)
                      ..++.+++.++++.+.+.+++..+.+++.+.+.+...++.++..+-+.++++-.++.++++..
T Consensus       138 ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~~~l~~ev~~L~~r~  200 (290)
T COG4026         138 EELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEMLKKLPGEVYDLKKRW  200 (290)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHHH
Confidence            445555555555555555555555555555444444444444444444444444444444433

>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=86.70  E-value=15  Score=41.98  Aligned_cols=47  Identities=21%  Similarity=0.339  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          686 IRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRI  732 (913)
Q Consensus       686 InaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeL  732 (913)
                      +...+.++..+-+.++++|..++.+.+..+.++.+.+.+.+.++...
T Consensus       250 i~~~lekI~sREk~iN~qle~l~~eYr~~~~~ls~~~~~y~~~s~~V  296 (359)
T PF10498_consen  250 ISKTLEKIESREKYINNQLEPLIQEYRSAQDELSEVQEKYKQASEGV  296 (359)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            34444455556666666677777666666666666666655544433

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.

>PF15294 Leu_zip: Leucine zipper

Probab=86.61  E-value=11  Score=41.91  Aligned_cols=50  Identities=10%  Similarity=0.154  Sum_probs=41.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDER  712 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIk  712 (913)
                      +-|..+|..|+.+-+.++.++..+.........++..+..+|+.++....
T Consensus       128 ~ll~kEi~rLq~EN~kLk~rl~~le~~at~~l~Ek~kl~~~L~~lq~~~~  177 (278)
T PF15294_consen  128 ELLNKEIDRLQEENEKLKERLKSLEKQATSALDEKSKLEAQLKELQDEQG  177 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55888999999998888888888888888888888888888888876433

>KOG2991 consensus Splicing regulator [RNA processing and modification]

Probab=86.56  E-value=41  Score=37.51  Aligned_cols=172  Identities=10%  Similarity=0.202  Sum_probs=0.0

Q ss_pred             ceeeccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHH
Q 002520          651 FYFLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISD-------------ERSARES  717 (913)
Q Consensus       651 fYf~Vr~rRLdDPeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeE-------------IkrLReE  717 (913)
                      +|  |.--+.....|+.+...+...-.-+..++..-..+++...+...++.+++.+.+..             +.+++.+
T Consensus       108 d~--i~nLk~se~~lkqQ~~~a~RrE~ilv~rlA~kEQEmqe~~sqi~~lK~qq~Ps~~qlR~~llDPAinl~F~rlK~e  185 (330)
T KOG2991|consen  108 DD--ITNLKESEEKLKQQQQEAARRENILVMRLATKEQEMQECTSQIQYLKQQQQPSVAQLRSTLLDPAINLFFLRLKGE  185 (330)
T ss_pred             HH--HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcHHHHHHHHhhChHHHHHHHHHHHH


Q ss_pred             HHHHHHHHHHHHHHHHhccCC-----------CCHHHHHHHHHHHHHHHhhcCC-CcHHHHH-HHHHHHHHHHHHHHhhh
Q 002520          718 LKSKRQEIDSVQSRINMMKNA-----------ISVDDIDGSIRNMEHRIAHETL-PLKEEKQ-IIREIKQLKQRREQISS  784 (913)
Q Consensus       718 InEKrKEIesLQSeLsKLrS~-----------KSVEELQeEIkeLE~QIQheSL-sLqEEKQ-lIrEISQLEkeRKdV~s  784 (913)
                      +......|+.++.+|+-.. |           ---.-|+.+=.+|.++...++| .|.-|-- -...-..|+..-..+-.
T Consensus       186 le~tk~Klee~QnelsAwk-FTPdS~tGK~LMAKCR~L~qENeElG~q~s~Gria~Le~eLAmQKs~seElkssq~eL~d  264 (330)
T KOG2991|consen  186 LEQTKDKLEEAQNELSAWK-FTPDSKTGKMLMAKCRTLQQENEELGHQASEGRIAELEIELAMQKSQSEELKSSQEELYD  264 (330)
T ss_pred             HHHHHHHHHHHHhhhheee-ecCCCcchHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHHhhHHHHHHhHHHHHH


Q ss_pred             cccchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          785 SIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVK  831 (913)
Q Consensus       785 nIs~kakIEqSLeEKenIqEQIKELKKEIDELReKIkkLekELEeLk  831 (913)
                      ++.   ++.   ...+..+..|=.+..++.+-|++|+.+.+.+.-++
T Consensus       265 fm~---eLd---edVEgmqsTiliLQq~Lketr~~Iq~l~k~~~q~s  305 (330)
T KOG2991|consen  265 FME---ELD---EDVEGMQSTILILQQKLKETRKEIQRLKKGLEQVS  305 (330)
T ss_pred             HHH---HHH---HHHhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHH

>PTZ00440 reticulocyte binding protein 2-like protein; Provisional

Probab=86.29  E-value=1.5e+02  Score=42.13  Aligned_cols=259  Identities=12%  Similarity=0.155  Sum_probs=0.0

Q ss_pred             hhhhhcccccccc-CcceeeccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHH
Q 002520          636 ASESRNIGVEVVK-QPFYFLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAA----ISD  710 (913)
Q Consensus       636 aVEe~kE~Ld~LR-r~fYf~Vr~rRLdDPeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkL----VeE  710 (913)
                      .+.+.++-|..+. .-+|     .....+..+.+|..++..+..+.+..+....++..++..-..+....+.-    ...
T Consensus      1050 ~ln~ik~KL~~~~~neD~-----kk~~N~~~~~eI~~i~~~i~~l~~~Id~~~~kl~~iK~~s~~~~~e~k~ek~~~~e~ 1124 (2722)
T PTZ00440       1050 LLEKMKTKLSSFHFNIDI-----KKYKNPKIKEEIKLLEEKVEALLKKIDENKNKLIEIKNKSHEHVVNADKEKNKQTEH 1124 (2722)
T ss_pred             hHHHHHHHHhcccchhHh-----hhccCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhccchhHHH


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHHHHhhcCC-CcHHHHH----HHHHHHHHHHHHHHhhh
Q 002520          711 ERSARESLKSKRQEIDSVQSRINMMKN-AISVDDIDGSIRNMEHRIAHETL-PLKEEKQ----IIREIKQLKQRREQISS  784 (913)
Q Consensus       711 IkrLReEInEKrKEIesLQSeLsKLrS-~KSVEELQeEIkeLE~QIQheSL-sLqEEKQ----lIrEISQLEkeRKdV~s  784 (913)
                      ...-+..+.+.-.+|..+..+|...-. -.+.++++.-.=+.+.-+-+.=+ .+.+||+    .+.+|..+...+..+..
T Consensus      1125 ~n~~kk~ie~IYe~m~kl~~El~e~~~~~~~l~~v~~iel~Yek~li~~~l~~I~~Ek~Ka~~~ie~iesyk~~Id~ikk 1204 (2722)
T PTZ00440       1125 YNKKKKSLEKIYKQMEKTLKELENMNLEDITLNEVNEIEIEYERILIDHIVEQINNEAKKSKTIMEEIESYKKDIDQVKK 1204 (2722)
T ss_pred             HhccHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh


Q ss_pred             cccchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHH
Q 002520          785 SIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESE--KLKRLLGQFKAADEIRQEAYKHW  862 (913)
Q Consensus       785 nIs~kakIEqSLeEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqa--ELdELqeElrAaeEeRQEAyekI  862 (913)
                      ...       ...+...-....+.+........+.|..+...--.|..+......  ++..+..++..--+..+..+..+
T Consensus      1205 k~~-------~~~~~~~~~~~y~~~~~~a~~~~~~I~~i~~~S~~l~~~a~~~~~i~eik~Ik~~v~~nlq~~~~~nn~i 1277 (2722)
T PTZ00440       1205 NMS-------KERNDHLTTFEYNAYYDKATASYENIEELTTEAKGLKGEANRSTNVDELKEIKLQVFSYLQQVIKENNKM 1277 (2722)
T ss_pred             cCC-------hhhhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHHHHHHHHhhHHH


Q ss_pred             HHHHHHHHHHHHHHH--HHHHHHHHHHHhhhcCCHHHHHHHHHHHHHh
Q 002520          863 QSLKKQAYDKNQHFW--KYKDDTKQANDLASKGDREALQHLCVNQVRS  908 (913)
Q Consensus       863 kELRkQ~DeLNsEFy--q~Rr~l~kARdLAa~~dv~eLqelc~~QVEk  908 (913)
                      ...+.++..++.=+.  .+...+......++  +....-.++..|..+
T Consensus      1278 ~~~L~~ikn~~~iL~s~n~~~I~~~I~~~t~--~~e~~~~~~k~El~K 1323 (2722)
T PTZ00440       1278 ENALHEIKNMYEFLISIDSEKILKEILNSTK--KAEEFSNDAKKELEK 1323 (2722)
T ss_pred             HHHHHHHHHHHHHHHHccHHHHHHHHHHHHH--HHHHHHHHHHHHHhh

>TIGR03545 conserved hypothetical protein TIGR03545

Probab=86.22  E-value=29  Score=42.00  Aligned_cols=28  Identities=4%  Similarity=-0.063  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 002520          864 SLKKQAYDKNQHFWKYKDDTKQANDLAS  891 (913)
Q Consensus       864 ELRkQ~DeLNsEFyq~Rr~l~kARdLAa  891 (913)
                      +++.-.......|.+.+..+...+..++
T Consensus       289 ~i~~~~~~~~~~y~~~~p~i~~~~~~~~  316 (555)
T TIGR03545       289 EIRKYLQKFLKYYDQAEPLLNKSKKEPK  316 (555)
T ss_pred             HHHHHHHHHHHHHHHHhHhhccchhccc
Confidence            4445555666666677777766654433

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.

>PF04065 Not3: Not1 N-terminal domain, CCR4-Not complex component ; InterPro: IPR007207 The Ccr4-Not complex (Not1, Not2, Not3, Not4 and Not5) is a global regulator of transcription that affects genes positively and negatively and is thought to regulate transcription factor TFIID []

Probab=86.15  E-value=44  Score=36.44  Aligned_cols=57  Identities=19%  Similarity=0.351  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          664 NLREQIKAAQSKVDEKTRSRDAIRDDIQTI--RASYKEYAEKLEAAISDERSARESLKS  720 (913)
Q Consensus       664 eLKaKIdeLekEIEeL~kqRdEInaELqeL--ReERdELeSeLKkLVeEIkrLReEInE  720 (913)
                      +|..+|+..-+.+.+-....+.+-.++...  .+.+..+++.|++-+-++.|+|..|+.
T Consensus         5 KLQ~Eid~~lKkv~EG~~~F~~i~~K~~~~~n~~QKEK~E~DLKkEIKKLQR~RdQIK~   63 (233)
T PF04065_consen    5 KLQQEIDRTLKKVQEGVEEFDEIYEKVESATNQNQKEKLEADLKKEIKKLQRLRDQIKT   63 (233)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCcchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            567777777777766666666665555542  345566666666665555666555553

This domain is the N-terminal region of the Not proteins.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus

>PF03915 AIP3: Actin interacting protein 3; InterPro: IPR022782 This entry represents a domain found in yeast actin interacting protein 3 and bud site selection protein 6

Probab=86.12  E-value=41  Score=39.60  Aligned_cols=23  Identities=17%  Similarity=0.302  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 002520          668 QIKAAQSKVDEKTRSRDAIRDDI  690 (913)
Q Consensus       668 KIdeLekEIEeL~kqRdEInaEL  690 (913)
                      .+..+...++.++..++.....+
T Consensus        86 ~~~~l~~~i~~lk~~l~~~~~~~  108 (424)
T PF03915_consen   86 GIGGLSEEIEELKQELDEQQETI  108 (424)
T ss_dssp             -----------------------
T ss_pred             chhHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444443333

In these proteins it is typically found towards the C terminus. It is also found in metazoan proteins, such as the mouse enhancer trap locus 4 protein. ; PDB: 3ONX_B 3OKQ_A.

>PF10481 CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR018463 Mitosin or centromere-associated protein-F (Cenp-F) is found bound across the centromere as one of the proteins of the outer layer of the kinetochore []

Probab=86.10  E-value=48  Score=37.24  Aligned_cols=25  Identities=28%  Similarity=0.553  Sum_probs=15.0

Q ss_pred             CcHHHHH-HHHHHHHHHHHHHHhhhc
Q 002520          761 PLKEEKQ-IIREIKQLKQRREQISSS  785 (913)
Q Consensus       761 sLqEEKQ-lIrEISQLEkeRKdV~sn  785 (913)
                      .|..|.+ ++..-..|++.|..+..-
T Consensus        64 ~LkREnq~l~e~c~~lek~rqKlshd   89 (307)
T PF10481_consen   64 ALKRENQSLMESCENLEKTRQKLSHD   89 (307)
T ss_pred             hhhhhhhhHHHHHHHHHHHHHHhhHH
Confidence            5566666 666666777776654333

Most of the kinetochore/centromere functions appear to depend upon binding of the C-terminal part of the molecule, whereas the N-terminal part, here, may be a cytoplasmic player in controlling the function of microtubules and dynein [].

>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family

Probab=85.91  E-value=17  Score=37.63  Aligned_cols=51  Identities=16%  Similarity=0.242  Sum_probs=25.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          808 FLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEA  858 (913)
Q Consensus       808 ELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEA  858 (913)
                      .++.+...++..+.++..+++.|.+++..+..++..+++.++.+...++++
T Consensus       101 ~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~~~eDY~~L~~Im~RA  151 (161)
T TIGR02894       101 ALQKENERLKNQNESLQKRNEELEKELEKLRQRLSTIEEDYQTLIDIMDRA  151 (161)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444455555444444455555555555555555544

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.

>COG0497 RecN ATPase involved in DNA repair [DNA replication, recombination, and repair]

Probab=85.82  E-value=50  Score=40.19  Aligned_cols=24  Identities=13%  Similarity=0.137  Sum_probs=11.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          858 AYKHWQSLKKQAYDKNQHFWKYKD  881 (913)
Q Consensus       858 AyekIkELRkQ~DeLNsEFyq~Rr  881 (913)
                      .-..+..++.++...-..+-+.|+
T Consensus       347 Le~~~~~l~~~~~~~A~~Ls~~R~  370 (557)
T COG0497         347 LEKEVKKLKAELLEAAEALSAIRK  370 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445555555555555555544

>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional

Probab=85.76  E-value=38  Score=41.74  Aligned_cols=37  Identities=16%  Similarity=0.213  Sum_probs=20.7

Q ss_pred             Cchhhhhhhccccccc-c--CcceeeccCCCCCchHHHHHH
Q 002520          632 STVDASESRNIGVEVV-K--QPFYFLVKVPRYDDENLREQI  669 (913)
Q Consensus       632 sLKDaVEe~kE~Ld~L-R--r~fYf~Vr~rRLdDPeLKaKI  669 (913)
                      .....++.+...|.+. +  .+.++-++|.. .||.+-+.|
T Consensus       206 ~~~~~~~~l~~~l~V~~~~~~s~ii~Is~~~-~dP~~Aa~i  245 (726)
T PRK09841        206 TELEAINALQETFTVSERSKESGMLELTMTG-DDPQLITRI  245 (726)
T ss_pred             CHHHHHHHHHhcCeEEecCCCCCeEEEEEeC-CCHHHHHHH
Confidence            3446666677777752 2  44442344444 567777666

>PF12795 MscS_porin: Mechanosensitive ion channel porin domain

Probab=85.68  E-value=54  Score=34.98  Aligned_cols=17  Identities=0%  Similarity=0.341  Sum_probs=7.9

Q ss_pred             HHHHHHHHHHHHHHHhh
Q 002520          741 VDDIDGSIRNMEHRIAH  757 (913)
Q Consensus       741 VEELQeEIkeLE~QIQh  757 (913)
                      ..+...++..++.++..
T Consensus       122 l~~~~~~l~ei~~~L~~  138 (240)
T PF12795_consen  122 LSEARQRLQEIRNQLQN  138 (240)
T ss_pred             HHHHHHHHHHHHHHHhc
Confidence            34444444455554444

>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch

Probab=85.58  E-value=20  Score=35.51  Aligned_cols=10  Identities=20%  Similarity=0.647  Sum_probs=3.6

Q ss_pred             HHHHHHHHHH
Q 002520          682 SRDAIRDDIQ  691 (913)
Q Consensus       682 qRdEInaELq  691 (913)
                      .++.+...+.
T Consensus        53 ~~e~l~~~~~   62 (151)
T PF11559_consen   53 QREDLSDKLR   62 (151)
T ss_pred             HHHHHHHHHH
Confidence            3333333333

pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.

>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]

Probab=85.58  E-value=65  Score=40.00  Aligned_cols=51  Identities=24%  Similarity=0.181  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          827 TQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFW  877 (913)
Q Consensus       827 LEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFy  877 (913)
                      +..|+.++..++..+..+..+.....+..++.+..+..+..++...+..|+
T Consensus       243 i~~l~~~l~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~  293 (670)
T KOG0239|consen  243 IQALQQELEELKAELKELNDQVSLLTREVQEALKESNTLQSDLESLEENLV  293 (670)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333444444444444444555555555555444444444444

>TIGR03545 conserved hypothetical protein TIGR03545

Probab=85.44  E-value=9.7  Score=45.82  Aligned_cols=52  Identities=15%  Similarity=0.231  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          809 LRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQ  863 (913)
Q Consensus       809 LKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIk  863 (913)
                      .++++++|+++++...+.++.++.+++..   ...++.++.++.+..++.|+.|.
T Consensus       217 ~~~e~d~lk~e~~~~~~~i~~~~~~l~~~---~~~~~~~~~~lk~ap~~D~~~L~  268 (555)
T TIGR03545       217 IKEEFDKLKKEGKADKQKIKSAKNDLQND---KKQLKADLAELKKAPQNDLKRLE  268 (555)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHh---HHHHHHHHHHHHhccHhHHHHHH
Confidence            34444444444444444444444322222   23444555555555555555555

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.

>cd07596 BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins

Probab=85.44  E-value=43  Score=33.65  Aligned_cols=25  Identities=32%  Similarity=0.363  Sum_probs=9.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          814 DSLRENVIKAEAATQAVKKLHREES  838 (913)
Q Consensus       814 DELReKIkkLekELEeLkkKIeEAq  838 (913)
                      +.++.++..++..+..+...++.+.
T Consensus       148 ~~l~~~i~~~e~~~~~~~~~~~~i~  172 (218)
T cd07596         148 EELEEELEEAESALEEARKRYEEIS  172 (218)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333444443333333

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. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.

>PRK10361 DNA recombination protein RmuC; Provisional

Probab=85.40  E-value=91  Score=37.37  Aligned_cols=20  Identities=20%  Similarity=0.067  Sum_probs=8.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 002520          813 ADSLRENVIKAEAATQAVKK  832 (913)
Q Consensus       813 IDELReKIkkLekELEeLkk  832 (913)
                      +.-+++++...++.++.+..
T Consensus       142 l~Pl~e~l~~f~~~v~~~~~  161 (475)
T PRK10361        142 LSPLREQLDGFRRQVQDSFG  161 (475)
T ss_pred             HhhHHHHHHHHHHHHHHHHH
Confidence            33344444444444444443

>PF09738 DUF2051: Double stranded RNA binding protein (DUF2051); InterPro: IPR019139 This entry represents transcriptional repressors which preferentially bind to the GC-rich consensus sequence (5'-AGCCCCCGGCG-3') and may regulate expression of TNF, EGFR and PDGFA

Probab=85.40  E-value=11  Score=42.21  Aligned_cols=20  Identities=25%  Similarity=0.355  Sum_probs=8.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 002520          708 ISDERSARESLKSKRQEIDS  727 (913)
Q Consensus       708 VeEIkrLReEInEKrKEIes  727 (913)
                      ...+..++.++..++.+|..
T Consensus       146 K~~~d~L~~e~~~Lre~L~~  165 (302)
T PF09738_consen  146 KRAHDSLREELDELREQLKQ  165 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444433

They may control smooth muscle cell proliferation following artery injury through PDGFA repression and may also bind double-stranded RNA. They interact with the leucine-rich repeat domain of human flightless-I (FliI) protein.

>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins

Probab=85.38  E-value=49  Score=34.22  Aligned_cols=109  Identities=17%  Similarity=0.234  Sum_probs=62.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-CC--CCHHHHHHHHH
Q 002520          673 QSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRINMMK-NA--ISVDDIDGSIR  749 (913)
Q Consensus       673 ekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeLsKLr-S~--KSVEELQeEIk  749 (913)
                      ++-+..+....+++.......|.+...+..+|..+..++...=.++..+...-...+..|.... +|  =|.++|...-.
T Consensus         5 ~~ti~~ie~sK~qIf~I~E~~R~E~~~l~~EL~evk~~v~~~I~evD~Le~~er~aR~rL~eVS~~f~~ysE~dik~AYe   84 (159)
T PF05384_consen    5 KKTIDTIESSKEQIFEIAEQARQEYERLRKELEEVKEEVSEVIEEVDKLEKRERQARQRLAEVSRNFDRYSEEDIKEAYE   84 (159)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCHHHHHHHHH
Confidence            3445555556666666666667777777776666666666666666665555555555553221 23  37888887766


Q ss_pred             HHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHH
Q 002520          750 NMEHRIAHETLPLKEEKQIIREIKQLKQRREQ  781 (913)
Q Consensus       750 eLE~QIQheSLsLqEEKQlIrEISQLEkeRKd  781 (913)
                      ....-+-.+.+.-..|++++..=..|+..++.
T Consensus        85 ~A~~lQ~~L~~~re~E~qLr~rRD~LErrl~~  116 (159)
T PF05384_consen   85 EAHELQVRLAMLREREKQLRERRDELERRLRN  116 (159)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            65554333333444455555555555555543

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

>PRK10884 SH3 domain-containing protein; Provisional

Probab=85.21  E-value=8.2  Score=40.99  Aligned_cols=20  Identities=20%  Similarity=0.396  Sum_probs=9.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEKTRS  682 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL~kq  682 (913)
                      |+|+.++++++.++..+..+
T Consensus        96 p~le~el~~l~~~l~~~~~~  115 (206)
T PRK10884         96 PDLENQVKTLTDKLNNIDNT  115 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHhH
Confidence            55555555555444444433

>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=85.21  E-value=35  Score=36.61  Aligned_cols=92  Identities=18%  Similarity=0.296  Sum_probs=53.4

Q ss_pred             CCHHHHHHHHHHHHHHHhhcC--C-CcHHHHH-HHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHH
Q 002520          739 ISVDDIDGSIRNMEHRIAHET--L-PLKEEKQ-IIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEAD  814 (913)
Q Consensus       739 KSVEELQeEIkeLE~QIQheS--L-sLqEEKQ-lIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEID  814 (913)
                      .+++.+...+++....-+...  + .+.+|++ +..+|.+|+.++..+..+.             +.++..+...++++.
T Consensus        21 ~~~~~~~~~~~~~~~~~~~sQ~~id~~~~e~~~L~~e~~~l~~e~e~L~~~~-------------~~l~~~v~~q~~el~   87 (251)
T PF11932_consen   21 ATLDQAQQVQQQWVQAAQQSQKRIDQWDDEKQELLAEYRQLEREIENLEVYN-------------EQLERQVASQEQELA   87 (251)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHH
Confidence            455555554444333222222  4 7888888 8888888888876543332             234455556666666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          815 SLRENVIKAEAATQAVKKLHREESEKLKR  843 (913)
Q Consensus       815 ELReKIkkLekELEeLkkKIeEAqaELdE  843 (913)
                      +|..++..+......|.+-....-+.|..
T Consensus        88 ~L~~qi~~~~~~~~~l~p~m~~m~~~L~~  116 (251)
T PF11932_consen   88 SLEQQIEQIEETRQELVPLMEQMIDELEQ  116 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666666555555555554

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.

>cd07667 BAR_SNX30 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 30

Probab=85.04  E-value=65  Score=35.37  Aligned_cols=58  Identities=14%  Similarity=0.205  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          816 LRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKY  879 (913)
Q Consensus       816 LReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~  879 (913)
                      -|+++.+++.+++++..+++...+.+..-.++++..   ++   ..++.....+-..|-+||+.
T Consensus       172 rre~~~kLe~~ie~~~~~ve~f~~~~~~E~~~Fe~~---K~---~e~k~~l~~~Ad~~i~fy~~  229 (240)
T cd07667         172 RKEERPKVPTDVEKCQDRVECFNADLKADMERWQNN---KR---QDFRQLLMGMADKNIQYYEK  229 (240)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HH---HHHHHHHHHHHHHHHHHHHH
Confidence            455566666666666655555554444333333322   11   23444444455556666654

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. The specific function of SNX30 is still unknown. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.

>PF06009 Laminin_II: Laminin Domain II; InterPro: IPR010307 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 []

Probab=84.99  E-value=0.28  Score=48.29  Aligned_cols=92  Identities=10%  Similarity=0.201  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHH
Q 002520          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYD---KNQHFW  877 (913)
Q Consensus       801 nIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~De---LNsEFy  877 (913)
                      .+.+.+..+...+...+..+..+...++.+...+..+...+.........+.+......+++..+......   +....-
T Consensus        14 ~v~~~~~~i~~~l~~~~~~~~~~~~~v~~t~~~~~~~~~~l~~a~~~v~~L~~~~~~L~~kl~~l~~~~~~~~~ls~nI~   93 (138)
T PF06009_consen   14 NVLDRLDPISENLENWSENLGEINSDVEETNQDISDANKALDDANNSVKNLEQLAPDLLDKLKPLENLSENNSNLSRNIS   93 (138)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHH
Confidence            33344445555555555555555555555555555555555555555555555555555555555555555   888888


Q ss_pred             HHHHHHHHHHHhhhc
Q 002520          878 KYKDDTKQANDLASK  892 (913)
Q Consensus       878 q~Rr~l~kARdLAa~  892 (913)
                      +.|..+..||+.|++
T Consensus        94 ~IrelI~qAR~~An~  108 (138)
T PF06009_consen   94 RIRELIAQARDAANR  108 (138)
T ss_dssp             ---------------
T ss_pred             HHHHHHHHHHHHHhh
Confidence            999999999999875

; GO: 0007155 cell adhesion, 0005604 basement membrane; PDB: 2WJS_A.

>smart00283 MA Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer)

Probab=84.89  E-value=48  Score=33.76  Aligned_cols=6  Identities=33%  Similarity=0.805  Sum_probs=2.4

Q ss_pred             HHHHHH
Q 002520          771 EIKQLK  776 (913)
Q Consensus       771 EISQLE  776 (913)
                      +|+.|-
T Consensus       134 ~I~~la  139 (262)
T smart00283      134 EVRKLA  139 (262)
T ss_pred             HHHHHH
Confidence            444443

Thought to undergo reversible methylation in response to attractants or repellants during bacterial chemotaxis.

>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=84.77  E-value=1.2e+02  Score=39.71  Aligned_cols=13  Identities=38%  Similarity=0.613  Sum_probs=7.6

Q ss_pred             ccCCCcccccccc
Q 002520          363 ETETGFDSVDAEE  375 (913)
Q Consensus       363 ~~~~~~~~~~~~e  375 (913)
                      |.+|.|||-+++.
T Consensus       667 EkdTEFH~Td~~a  679 (1439)
T PF12252_consen  667 EKDTEFHSTDPKA  679 (1439)
T ss_pred             cccccCCCCCCcc
Confidence            4556666666554

There is little literature describing the family.

>PRK03947 prefoldin subunit alpha; Reviewed

Probab=84.68  E-value=13  Score=36.30  Aligned_cols=44  Identities=23%  Similarity=0.345  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          802 IEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLL  845 (913)
Q Consensus       802 IqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELq  845 (913)
                      +.+.++.+++.++.+.+.++.+...+..+...++.+...+.++.
T Consensus        92 ~~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~l~  135 (140)
T PRK03947         92 LDEAIEILDKRKEELEKALEKLEEALQKLASRIAQLAQELQQLQ  135 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555555555555555555544444444444443

>PF15254 CCDC14: Coiled-coil domain-containing protein 14

Probab=84.60  E-value=45  Score=41.82  Aligned_cols=13  Identities=31%  Similarity=0.424  Sum_probs=9.4

Q ss_pred             CCCCCchhHHHHh
Q 002520          500 GEESDDLVCKEVL  512 (913)
Q Consensus       500 ~~~~~~~~~~~~~  512 (913)
                      ..|.|-|-|+|..
T Consensus       247 ~KEadLLkCiQt~  259 (861)
T PF15254_consen  247 PKEADLLKCIQTH  259 (861)
T ss_pred             cchHHHHHHHHHH
Confidence            3457789999873

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=84.53  E-value=32  Score=42.02  Aligned_cols=6  Identities=17%  Similarity=0.235  Sum_probs=2.9

Q ss_pred             CCCCCh
Q 002520          608 RTFQDV  613 (913)
Q Consensus       608 RsFede  613 (913)
                      |.|...
T Consensus       273 r~~~~~  278 (652)
T COG2433         273 RGIDRS  278 (652)
T ss_pred             ccCCHH
Confidence            444444

>smart00806 AIP3 Actin interacting protein 3

Probab=84.47  E-value=95  Score=36.77  Aligned_cols=58  Identities=16%  Similarity=0.335  Sum_probs=44.2

Q ss_pred             CCHHHHHHHHHHHHHHHhhcCC-CcHHHHH-HHHHHHHHHHHHHHhhhcccchhHHHHHH
Q 002520          739 ISVDDIDGSIRNMEHRIAHETL-PLKEEKQ-IIREIKQLKQRREQISSSIGEHDEVQLAF  796 (913)
Q Consensus       739 KSVEELQeEIkeLE~QIQheSL-sLqEEKQ-lIrEISQLEkeRKdV~snIs~kakIEqSL  796 (913)
                      .-+++||.-|..|-.-.-+-.. ++...-+ +.++|+.+++.++.+..++....-+|..+
T Consensus       224 tkVDDLQD~vE~LRkDV~~RgVRp~~~qLe~v~kdi~~a~keL~~m~~~i~~eKP~WkKi  283 (426)
T smart00806      224 TKVDDLQDIIEALRKDVAQRGVRPSKKQLETVQKELETARKELKKMEEYIDIEKPIWKKI  283 (426)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcChHHHHH
Confidence            4678888888888777766665 5555555 99999999999999888888666665444

Aip3p/Bud6p is a regulator of cell and cytoskeletal polarity in Saccharomyces cerevisiae that was previously identified as an actin-interacting protein. Actin-interacting protein 3 (Aip3p) localizes at the cell cortex where cytoskeleton assembly must be achieved to execute polarized cell growth, and deletion of AIP3 causes gross defects in cell and cytoskeletal polarity. Aip3p localization is mediated by the secretory pathway, mutations in early- or late-acting components of the secretory apparatus lead to Aip3p mislocalization PUBMED:10679021.

>TIGR01612 235kDa-fam reticulocyte binding/rhoptry protein

Probab=84.47  E-value=2e+02  Score=40.65  Aligned_cols=46  Identities=11%  Similarity=0.308  Sum_probs=37.0

Q ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          661 DDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEA  706 (913)
Q Consensus       661 dDPeLKaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKk  706 (913)
                      ...+...+|..++..+..+.++.+....+|..++..-+.+..+++.
T Consensus      1105 ~N~k~~~eI~kik~~i~~l~~~ID~~i~kl~~ikkks~~~~~e~~~ 1150 (2757)
T TIGR01612      1105 ENIKYADEINKIKDDIKNLDQKIDHHIKALEEIKKKSENYIDEIKA 1150 (2757)
T ss_pred             hccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHhh
Confidence            3477888888888888999898888888888888877777666655

These proteins are found in P. falciparum, P. vivax and P. yoelii.

>PF12795 MscS_porin: Mechanosensitive ion channel porin domain

Probab=84.45  E-value=61  Score=34.57  Aligned_cols=21  Identities=5%  Similarity=0.321  Sum_probs=15.1

Q ss_pred             CCCHHHHHHHHHHHHHHHhhc
Q 002520          738 AISVDDIDGSIRNMEHRIAHE  758 (913)
Q Consensus       738 ~KSVEELQeEIkeLE~QIQhe  758 (913)
                      ..|.++|..+|......+...
T Consensus        77 ~~s~~eLeq~l~~~~~~L~~~   97 (240)
T PF12795_consen   77 NLSLEELEQRLSQEQAQLQEL   97 (240)
T ss_pred             cCCHHHHHHHHHHHHHHHHHH
Confidence            468888888887777665543

>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89

Probab=84.27  E-value=13  Score=33.36  Aligned_cols=57  Identities=14%  Similarity=0.162  Sum_probs=39.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          824 EAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYK  880 (913)
Q Consensus       824 ekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~R  880 (913)
                      +..++.+..++......++.+..+++.+...+..+|..+.+|+.+...+..++-.+|
T Consensus        11 r~rLd~~~rk~~~~~~~~k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~~el~~~r   67 (69)
T PF14197_consen   11 RNRLDSLTRKNSVHEIENKRLRRERDSAERQLGDAYEENNKLKEENEALRKELEELR   67 (69)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            333444444455555677777788888888888888888888888888877754443

>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=84.11  E-value=22  Score=32.23  Aligned_cols=15  Identities=20%  Similarity=0.102  Sum_probs=5.8

Q ss_pred             HHHHHHHHHHHHHHH
Q 002520          854 IRQEAYKHWQSLKKQ  868 (913)
Q Consensus       854 eRQEAyekIkELRkQ  868 (913)
                      .+.....+|..+...
T Consensus        54 e~~~~~~rl~~LL~k   68 (72)
T PF06005_consen   54 ERNAWQERLRSLLGK   68 (72)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh
Confidence            333333344444333

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.

>KOG1103 consensus Predicted coiled-coil protein [Function unknown]

Probab=84.10  E-value=42  Score=38.75  Aligned_cols=41  Identities=15%  Similarity=0.177  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHH
Q 002520          693 IRASYKEYAEKLEAAISDERSARES----LKSKRQEIDSVQSRIN  733 (913)
Q Consensus       693 LReERdELeSeLKkLVeEIkrLReE----InEKrKEIesLQSeLs  733 (913)
                      +..+...+...|.+-++...++-.+    ...++++-+.|++++.
T Consensus       112 aE~khrKli~dLE~dRe~haqdaaeGDDlt~~LEKEReqL~QQiE  156 (561)
T KOG1103|consen  112 AEKKHRKLIKDLEADREAHAQDAAEGDDLTAHLEKEREQLQQQIE  156 (561)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhccchHHHHHHHHHHHHHHHHH
Confidence            3333344444455555444444333    3445555556666553

>smart00503 SynN Syntaxin N-terminal domain

Probab=84.09  E-value=35  Score=31.50  Aligned_cols=27  Identities=11%  Similarity=0.188  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          859 YKHWQSLKKQAYDKNQHFWKYKDDTKQ  885 (913)
Q Consensus       859 yekIkELRkQ~DeLNsEFyq~Rr~l~k  885 (913)
                      ......|...|.....+|...++..++
T Consensus        88 ~~q~~~L~~~f~~~m~~fq~~Q~~~~~  114 (117)
T smart00503       88 KAQTEKLRKKFKEVMNEFQRLQRKYRE  114 (117)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455666777788888888877776653

Three-helix domain that (in Sso1p) slows the rate of its reaction with the SNAP-25 homologue Sec9p

>COG5293 Predicted ATPase [General function prediction only]

Probab=83.96  E-value=1.1e+02  Score=36.91  Aligned_cols=27  Identities=15%  Similarity=0.447  Sum_probs=20.1

Q ss_pred             CcHHHHH--HHHHHHHHHHHHHHhhhccc
Q 002520          761 PLKEEKQ--IIREIKQLKQRREQISSSIG  787 (913)
Q Consensus       761 sLqEEKQ--lIrEISQLEkeRKdV~snIs  787 (913)
                      -++++|.  +..+|..+++.++.+...+.
T Consensus       331 ~~~e~R~~yl~~ei~~i~~dLk~~n~~~~  359 (591)
T COG5293         331 AITEERHDYLQEEIAEIEGDLKEVNAELD  359 (591)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4677776  88888888888887766554

>PF06120 Phage_HK97_TLTM: Tail length tape measure protein; InterPro: IPR009302 This entry consists of the tail length tape measure protein from Bacteriophage HK97 and related sequences from Escherichia coli (strain K12)

Probab=83.66  E-value=85  Score=35.58  Aligned_cols=8  Identities=25%  Similarity=0.609  Sum_probs=3.1

Q ss_pred             HHHHHHHH
Q 002520          743 DIDGSIRN  750 (913)
Q Consensus       743 ELQeEIke  750 (913)
                      .|+..|..
T Consensus        99 ~l~~~i~~  106 (301)
T PF06120_consen   99 SLKDQIKN  106 (301)
T ss_pred             HHHHHHHH
Confidence            33334433

>cd00179 SynN Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may be identified by a specific member of the syntaxin family; syntaxins contain a moderately well conserved amino-terminal domain, called Habc, whose structure is an antiparallel three-helix bundle; a linker of about 30 amino acids connects this to the carboxy-terminal region, designated H3 (t_SNARE), of the syntaxin cytoplasmic domain; the highly conserved H3 region forms a single, long alpha-helix when it is part of the core SNARE complex and anchors the protein on the cytoplasmic surface of cellular membranes; H3 is not included in defining this domain

Probab=83.60  E-value=32  Score=33.37  Aligned_cols=118  Identities=12%  Similarity=0.114  Sum_probs=0.0

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------
Q 002520          796 FDQKDQIEEKMKFLRKEADSLRENVIKAEAATQ---AVKKLHREESEKLKRLLGQFKAADEIRQEA--------------  858 (913)
Q Consensus       796 LeEKenIqEQIKELKKEIDELReKIkkLekELE---eLkkKIeEAqaELdELqeElrAaeEeRQEA--------------  858 (913)
                      +.....|...|..++..++.|+.....+-....   .+..+++.+.+....+........+.+...              
T Consensus         5 ~~~v~~I~~~i~~i~~~v~~l~~l~~~~~t~~~~~~~~~~~l~~~~~~~~~~~~~ik~~lk~l~~~~~~~~~~~~s~~~r   84 (151)
T cd00179           5 FEEVEEIRGNIDKISEDVEELQKLHSQLLTAPDADPELKQELESLVQEIKKLAKEIKGKLKELEESNEQNEALNGSSVDR   84 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHH


Q ss_pred             --HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCHHHHH-HHHHHHHHhhhhcC
Q 002520          859 --YKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREALQ-HLCVNQVRSRTLLL  913 (913)
Q Consensus       859 --yekIkELRkQ~DeLNsEFyq~Rr~l~kARdLAa~~dv~eLq-elc~~QVEkfm~lw  913 (913)
                        ......|...|.....+|...++..+..---......+-+. .+.-.||+.+|.-+
T Consensus        85 ~~~~q~~~L~~~f~~~m~~fq~~Q~~~~~~~k~~i~Rq~~i~~~~~tdeei~~~~~~~  142 (151)
T cd00179          85 IRKTQHSGLSKKFVEVMTEFNKAQRKYRERYKERIQRQLEITGGEATDEELEDMLESG  142 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCChHHHHHHHHcC

>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast)

Probab=83.16  E-value=11  Score=39.46  Aligned_cols=114  Identities=17%  Similarity=0.274  Sum_probs=65.5

Q ss_pred             CCCCChhhhhhhhccccCCCCcCCCchhhhhhhccc--ccccc--CcceeeccCCCCCchHHHHHHHHHHHHHHHHHHHH
Q 002520          608 RTFQDVEGIERSDRCETQTSTPEGSTVDASESRNIG--VEVVK--QPFYFLVKVPRYDDENLREQIKAAQSKVDEKTRSR  683 (913)
Q Consensus       608 RsFedeeefkkFLkkeklDk~~eesLKDaVEe~kE~--Ld~LR--r~fYf~Vr~rRLdDPeLKaKIdeLekEIEeL~kqR  683 (913)
                      +.|-+-.++.++.-+  .......++|+-++.+=.+  +..-|  .+.|| =.+|.-.-..++.++..++++++.+..++
T Consensus         9 ~~~y~lKELEK~~pK--~~gI~~~~VKdvlq~LvDDglV~~EKiGssn~Y-WsFps~~~~~~~~~~~~l~~~~~~~~~~i   85 (188)
T PF03962_consen    9 KDFYTLKELEKLAPK--EKGIVSMSVKDVLQSLVDDGLVHVEKIGSSNYY-WSFPSQAKQKRQNKLEKLQKEIEELEKKI   85 (188)
T ss_pred             CCcccHHHHHHHccc--ccCCchhhHHHHHHHHhccccchhhhccCeeEE-EecChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444433  2233345666666655442  11113  33342 45555344778889999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          684 DAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEI  725 (913)
Q Consensus       684 dEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEI  725 (913)
                      ..+...+...+..|.+-.. -..+.+++..++.++..+.+++
T Consensus        86 ~~l~~~i~~~~~~r~~~~e-R~~~l~~l~~l~~~~~~l~~el  126 (188)
T PF03962_consen   86 EELEEKIEEAKKGREESEE-REELLEELEELKKELKELKKEL  126 (188)
T ss_pred             HHHHHHHHHHHhcccccHH-HHHHHHHHHHHHHHHHHHHHHH
Confidence            9999988888877766633 3334444444444444444444

The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].

>PF14992 TMCO5: TMCO5 family

Probab=82.87  E-value=66  Score=36.16  Aligned_cols=95  Identities=18%  Similarity=0.230  Sum_probs=46.1

Q ss_pred             CCCHHHHHHHHHHHHHHHhhcC--C--CcHHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHH-HHHHHHHHH
Q 002520          738 AISVDDIDGSIRNMEHRIAHET--L--PLKEEKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIE-EKMKFLRKE  812 (913)
Q Consensus       738 ~KSVEELQeEIkeLE~QIQheS--L--sLqEEKQlIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIq-EQIKELKKE  812 (913)
                      .+++.++|.+|.+-+..+++..  +  +|+.=|-   .+++|....-.....+.   ++++...+...+. ++...+++-
T Consensus        83 ~~~~~elq~k~~e~~~~~~~e~~~~~~~lq~sk~---~lqql~~~~~~qE~ei~---kve~d~~~v~~l~eDq~~~i~kl  156 (280)
T PF14992_consen   83 SKSVQELQRKQDEQETNVQCEDPQLSQSLQFSKN---KLQQLLESCASQEKEIA---KVEDDYQQVHQLCEDQANEIKKL  156 (280)
T ss_pred             hhhhhhhhhhhccccCCCCCCccchhcccHHhhh---hHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Confidence            5889999999988887776665  3  4444442   22222222222222222   3443444433343 222222222


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          813 ADSLRENVIKAEAATQAVKKLHREESEK  840 (913)
Q Consensus       813 IDELReKIkkLekELEeLkkKIeEAqaE  840 (913)
                      .+.| .+|+. +.++.-|..++..++..
T Consensus       157 kE~L-~rmE~-ekE~~lLe~el~k~q~~  182 (280)
T PF14992_consen  157 KEKL-RRMEE-EKEMLLLEKELSKYQMQ  182 (280)
T ss_pred             HHHH-HHHHH-HHHHHHHHHHHHHHhch
Confidence            2222 45555 55556666555555543

>PF15035 Rootletin: Ciliary rootlet component, centrosome cohesion

Probab=82.78  E-value=59  Score=34.12  Aligned_cols=32  Identities=19%  Similarity=0.254  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 002520          858 AYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLAS  891 (913)
Q Consensus       858 AyekIkELRkQ~DeLNsEFyq~Rr~l~kARdLAa  891 (913)
                      .+..|-.|=.++-.+...|-.+|...-  |||+.
T Consensus       139 eh~rll~LWr~v~~lRr~f~elr~~Te--rdL~~  170 (182)
T PF15035_consen  139 EHSRLLSLWREVVALRRQFAELRTATE--RDLSD  170 (182)
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHHHH--hhHHH
Confidence            345555555666666666666655443  55544

>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=82.67  E-value=28  Score=38.64  Aligned_cols=81  Identities=11%  Similarity=0.163  Sum_probs=52.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          799 KDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWK  878 (913)
Q Consensus       799 KenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq  878 (913)
                      .+.++.++..+...-..|..+|++-+.+++..++.+..++.--....++++.++.++++.|+....-...++-+...+-.
T Consensus       178 ~~~~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~sLq~vRPAfmdEyEklE~EL~~lY~~Y~~kfRNl~yLe~qle~  257 (267)
T PF10234_consen  178 LQQTQQQLNNLASDEANLEAKIEKKKQELERNQKRLQSLQSVRPAFMDEYEKLEEELQKLYEIYVEKFRNLDYLEHQLEE  257 (267)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            34445555566666666666666666666666666666666666777788888888887777666655555555554444


Q ss_pred             H
Q 002520          879 Y  879 (913)
Q Consensus       879 ~  879 (913)
                      +
T Consensus       258 ~  258 (267)
T PF10234_consen  258 Y  258 (267)
T ss_pred             H
Confidence            3

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 [].

>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]

Probab=82.49  E-value=62  Score=35.04  Aligned_cols=14  Identities=14%  Similarity=0.237  Sum_probs=7.6

Q ss_pred             HHHHHHHHHHHHHH
Q 002520          768 IIREIKQLKQRREQ  781 (913)
Q Consensus       768 lIrEISQLEkeRKd  781 (913)
                      ++.++..|+..++.
T Consensus        90 al~~~~~le~~~~~  103 (225)
T COG1842          90 ALEEKQSLEDLAKA  103 (225)
T ss_pred             HHHHHHHHHHHHHH
Confidence            55555555555543

>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=82.16  E-value=30  Score=31.40  Aligned_cols=27  Identities=19%  Similarity=0.359  Sum_probs=10.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          805 KMKFLRKEADSLRENVIKAEAATQAVK  831 (913)
Q Consensus       805 QIKELKKEIDELReKIkkLekELEeLk  831 (913)
                      .|..++.++.+|+.+-..+..+...|.
T Consensus        19 ti~~Lq~e~eeLke~n~~L~~e~~~L~   45 (72)
T PF06005_consen   19 TIALLQMENEELKEKNNELKEENEELK   45 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            333344444444444333333344443

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.

>PRK11519 tyrosine kinase; Provisional

Probab=82.14  E-value=71  Score=39.46  Aligned_cols=37  Identities=11%  Similarity=0.079  Sum_probs=19.1

Q ss_pred             chhhhhhhcccccccc---CcceeeccCCCCCchHHHHHHH
Q 002520          633 TVDASESRNIGVEVVK---QPFYFLVKVPRYDDENLREQIK  670 (913)
Q Consensus       633 LKDaVEe~kE~Ld~LR---r~fYf~Vr~rRLdDPeLKaKId  670 (913)
                      ....+..+...|.+-+   .+.++-++|.. .||.+-+.|-
T Consensus       207 ~~~~~~~l~~~l~V~~~~k~S~ii~Is~~~-~dP~~Aa~ia  246 (719)
T PRK11519        207 TLGMINNLQNNLTVTENGKDTGVLSLTYTG-EDREQIRDIL  246 (719)
T ss_pred             HHHHHHHHHhcceEEecCCCceEEEEEEEc-CCHHHHHHHH
Confidence            3455555555555532   23342344444 5677776663

>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]

Probab=82.11  E-value=21  Score=37.68  Aligned_cols=91  Identities=20%  Similarity=0.294  Sum_probs=48.8

Q ss_pred             cHHHHH-HHHHHHHHHHHHHHhhhcccchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          762 LKEEKQ-IIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEK  840 (913)
Q Consensus       762 LqEEKQ-lIrEISQLEkeRKdV~snIs~kakIEqSLeEKenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaE  840 (913)
                      |++-++ +.+.++-.+..++.+.+.+.           ...+++.|.+++++....++++..+++-+..+.|        
T Consensus        91 l~ek~q~l~~t~s~veaEik~L~s~Lt-----------~eemQe~i~~L~kev~~~~erl~~~k~g~~~vtp--------  151 (201)
T KOG4603|consen   91 LTEKVQSLQQTCSYVEAEIKELSSALT-----------TEEMQEEIQELKKEVAGYRERLKNIKAGTNHVTP--------  151 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcC-----------hHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCH--------
Confidence            344444 66777777777776655544           1245556666666666666665555544443332        


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          841 LKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHF  876 (913)
Q Consensus       841 LdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEF  876 (913)
                           +...++...++++...|.+.+.-|+++...+
T Consensus       152 -----edk~~v~~~y~~~~~~wrk~krmf~ei~d~~  182 (201)
T KOG4603|consen  152 -----EDKEQVYREYQKYCKEWRKRKRMFREIIDKL  182 (201)
T ss_pred             -----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                 2333444555555555555555444444433

>cd09236 V_AnPalA_UmRIM20_like Protein-interacting V-domains of Aspergillus nidulans PalA/RIM20, Ustilago maydis RIM20, and related proteins

Probab=82.11  E-value=97  Score=35.15  Aligned_cols=37  Identities=8%  Similarity=0.055  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          844 LLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYK  880 (913)
Q Consensus       844 LqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~R  880 (913)
                      ...++..+.+.+..+|..+.++...+.+..+-|....
T Consensus       300 ~~~~re~~lq~L~~ay~~y~el~~nl~eG~kFY~dL~  336 (353)
T cd09236         300 ATKERERALQSLDLAYFKYKEIVSNLDEGRKFYNDLA  336 (353)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445556666666777777777777777666555443

This family belongs to the V_Alix_like superfamily which includes the V-shaped (V) domains of Bro1 and Rim20 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. Aspergillus nidulas PalA/RIM20 and Ustilago maydis RIM20, like Saccharomyces cerevisiae Rim20, participate in the response to the external pH via the Pal/Rim101 pathway; however, Saccharomyces cerevisiae Rim20 does not belong to this family. This pathway is a signaling cascade resulting in the activation of the transcription factor PacC/Rim101. The mammalian Alix V-domain (belonging to a different family) contains a binding site, partially conserved in the superfamily, for the retroviral late assembly (L) domain YPXnL motif. Aspergillus nidulas Pa

>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6

Probab=82.09  E-value=32  Score=32.17  Aligned_cols=23  Identities=26%  Similarity=0.644  Sum_probs=11.0

Q ss_pred             CcHHHHH-HHHHHHHHHHHHHHhh
Q 002520          761 PLKEEKQ-IIREIKQLKQRREQIS  783 (913)
Q Consensus       761 sLqEEKQ-lIrEISQLEkeRKdV~  783 (913)
                      .|..+++ ++.++..|+..+..+.
T Consensus        33 ~ld~~~r~l~~~~e~lr~~rN~~s   56 (108)
T PF02403_consen   33 ELDQERRELQQELEELRAERNELS   56 (108)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHH
Confidence            3444444 5555555555554433

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 ....

>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]

Probab=82.08  E-value=57  Score=34.55  Aligned_cols=31  Identities=13%  Similarity=0.105  Sum_probs=18.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 002520          863 QSLKKQAYDKNQHFWKYKDDTKQANDLASKG  893 (913)
Q Consensus       863 kELRkQ~DeLNsEFyq~Rr~l~kARdLAa~~  893 (913)
                      ....+.+...++.|.+.+|..+..-+-...|
T Consensus       155 ~~v~~~y~~~~~~wrk~krmf~ei~d~~~e~  185 (201)
T KOG4603|consen  155 EQVYREYQKYCKEWRKRKRMFREIIDKLLEG  185 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            3444555666777777777666555544443

>cd09234 V_HD-PTP_like Protein-interacting V-domain of mammalian His-Domain type N23 protein tyrosine phosphatase and related domains

Probab=82.06  E-value=94  Score=34.98  Aligned_cols=63  Identities=13%  Similarity=0.002  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 002520          828 QAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLA  890 (913)
Q Consensus       828 EeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARdLA  890 (913)
                      +.|-+.+.++++++...+........+|...+..+......+.++.+..-+-+.+++.-...+
T Consensus       261 ~~ll~~i~~an~~f~~~r~~~~~~~~~Re~~l~~L~~ay~~y~el~~~l~eG~~FY~dL~~~v  323 (337)
T cd09234         261 ENILKALTEANAKYAPVRKALSETKQKRESTISSLIASYEAYEDLLKKSQKGIDFYKKLEGNV  323 (337)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            334444444444444333333444555555555555555555555555555555555444433

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

>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function

Probab=82.04  E-value=25  Score=35.09  Aligned_cols=51  Identities=8%  Similarity=0.163  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          799 KDQIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQFK  849 (913)
Q Consensus       799 KenIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdELqeElr  849 (913)
                      |+.|..+|..+-..+++..+-.+..+.++.+++..+..+..+++.++.-..
T Consensus        63 KkhLsqRId~vd~klDe~~ei~~~i~~eV~~v~~dv~~i~~dv~~v~~~V~  113 (126)
T PF07889_consen   63 KKHLSQRIDRVDDKLDEQKEISKQIKDEVTEVREDVSQIGDDVDSVQQMVE  113 (126)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444444444444433333

The region featured in this family is approximately 100 amino acids long.

>PF05911 DUF869: Plant protein of unknown function (DUF869); InterPro: IPR008587 This family consists of a number of sequences found in plants

Probab=81.95  E-value=1.6e+02  Score=37.44  Aligned_cols=62  Identities=16%  Similarity=0.328  Sum_probs=25.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHH
Q 002520          666 REQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISD-ERSARESLKSKRQEIDS  727 (913)
Q Consensus       666 KaKIdeLekEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeE-IkrLReEInEKrKEIes  727 (913)
                      +++...++.+++....+.-.+...+.-+-.-+++.-.||+-.+++ -.++...+..+-.+.+.
T Consensus        23 e~e~~~lk~~l~~~~~~~~~~e~r~~hld~aLkec~~qlr~~ree~eq~i~~~~~~~s~e~e~   85 (769)
T PF05911_consen   23 EAEAASLKQQLEAATQQKLALEDRVSHLDGALKECMRQLRQVREEQEQKIHEAVAKKSKEWEK   85 (769)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHH
Confidence            334444444444444444444444444444444444444444433 23333333333344333

The function of this family is unknown.

>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []

Probab=81.76  E-value=84  Score=34.20  Aligned_cols=13  Identities=8%  Similarity=0.223  Sum_probs=4.9

Q ss_pred             HHHHHHHHHHHHH
Q 002520          872 KNQHFWKYKDDTK  884 (913)
Q Consensus       872 LNsEFyq~Rr~l~  884 (913)
                      +...+...|..+.
T Consensus       108 lq~el~~ar~~~~  120 (246)
T PF00769_consen  108 LQEELEEAREDEE  120 (246)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333333333

Ezrin was first identified as a constituent of microvilli [], radixin as a barbed, end-capping actin-modulating protein from isolated junctional fractions [], and moesin as a heparin binding protein []. A tumour suppressor molecule responsible for neurofibromatosis type 2 (NF2) is highly similar to ERM proteins and has been designated merlin (moesin-ezrin-radixin-like protein). ERM molecules contain 3 domains, an N-terminal globular domain; an extended alpha-helical domain; and a charged C-terminal domain []. Ezrin, radixin and merlin also contain a polyproline region between the helical and C-terminal domains. The N-terminal domain is highly conserved, and is also found in merlin, band 4.1 proteins and members of the band 4.1 superfamily. ERM proteins crosslink actin filaments with plasma membranes. They co-localise with CD44 at actin filament-plasma membrane interaction sites, associating with CD44 via their N-terminal domains and with actin filaments via their C-terminal domains [].; GO: 0008092 cytoskeletal protein binding, 0005737 cytoplasm, 0019898 extrinsic to membrane; PDB: 2I1J_A 2I1K_A 1E5W_A 1EF1_C.

>PF08647 BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR013956 BRE1 is an E3 ubiquitin ligase that has been shown to act as a transcriptional activator through direct activator interactions []

Probab=81.54  E-value=29  Score=32.60  Aligned_cols=59  Identities=5%  Similarity=0.066  Sum_probs=32.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          674 SKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQEIDSVQSRI  732 (913)
Q Consensus       674 kEIEeL~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKEIesLQSeL  732 (913)
                      .++..+..+.......+..+..+...++..+.++..++.+...++....+.++.|..++
T Consensus         3 ~EL~~~~~a~~~~~~~~~~k~~~~~~lE~k~~rl~~Ek~kadqkyfa~mr~~d~l~~e~   61 (96)
T PF08647_consen    3 TELVSMEQAFKELSEQADKKVKELTILEQKKLRLEAEKAKADQKYFAAMRSKDALDNEM   61 (96)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            34455555555555555555555555555555555555555555555555554444443

>cd09237 V_ScBro1_like Protein-interacting V-domain of Saccharomyces cerevisiae Bro1 and related domains

Probab=81.46  E-value=1e+02  Score=34.91  Aligned_cols=33  Identities=12%  Similarity=0.046  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          844 LLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHF  876 (913)
Q Consensus       844 LqeElrAaeEeRQEAyekIkELRkQ~DeLNsEF  876 (913)
                      ...++....+....+|..+.++...+....+-|
T Consensus       303 ~~~~R~~~l~~l~~ay~~y~el~~~l~~G~~FY  335 (356)
T cd09237         303 KQKLRKEFFEKLKKAYNSFKKFSAGLPKGLEFY  335 (356)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhChHHHHHHH
Confidence            344444444555555555555555555544433

This family contains the V-shaped (V) domain of Saccharomyces cerevisiae Bro1, and related domains. It belongs to the V_Alix_like superfamily which also includes the V-domain of Saccharomyces cerevisiae Rim20 (also known as PalA), 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. Bro1 interacts with the ESCRT (Endosomal Sorting Complexes Required for Transport) system, and participates in endosomal trafficking. The mammalian Alix V-domain (belonging to a different family) 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. Bro1 also has an N-terminal Bro1-like domain, which binds Snf7, a component of the ESCRT-III complex, and a C-terminal proline-rich

>PF06548 Kinesin-related: Kinesin-related; InterPro: IPR010544 This entry represents a domain within kinesin-related proteins from higher plants

Probab=81.28  E-value=1.3e+02  Score=36.03  Aligned_cols=51  Identities=18%  Similarity=0.117  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          830 VKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYK  880 (913)
Q Consensus       830 LkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~R  880 (913)
                      |--.+.++.....-.+.++..++++..++|..|.+|++.++.-..-..+|-
T Consensus       432 llvrl~eaeea~~~a~~r~~~~eqe~ek~~kqiekLK~kh~~Ei~t~kq~l  482 (488)
T PF06548_consen  432 LLVRLREAEEAASVAQERAMDAEQENEKAKKQIEKLKRKHKMEISTMKQYL  482 (488)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333455666666666777888888888899999999988777655555443

Many proteins containing this domain also contain the IPR001752 from INTERPRO domain. Kinesins are ATP-driven microtubule motor proteins that produce directed force []. Some family members are associated with the phragmoplast, a structure composed mainly of microtubules that executes cytokinesis in higher plants [].

>KOG0240 consensus Kinesin (SMY1 subfamily) [Cytoskeleton]

Probab=81.24  E-value=70  Score=39.06  Aligned_cols=86  Identities=15%  Similarity=0.140  Sum_probs=50.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCHHH
Q 002520          818 ENVIKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDLASKGDREA  897 (913)
Q Consensus       818 eKIkkLekELEeLkkKIeEAqaELdELqeElrAaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARdLAa~~dv~e  897 (913)
                      ...+.+.+++..|..+.+....+++...+-...+..++.+.-+.+...+..+..+..+.|..+.....|++= -+.-..+
T Consensus       414 ~~~~~~~e~~~~L~qqlD~kd~~~n~~sqL~~~lk~q~~~qee~~s~~~~~~e~~q~e~~~~Q~~~e~~~~e-~~e~~~a  492 (607)
T KOG0240|consen  414 EEEDILTERIESLYQQLDQKDDQINKQSQLMEKLKEQLLDQEELLSSTRRLYEDIQQELSEIQEENEAAKDE-VKEVLTA  492 (607)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHH
Confidence            334444455555555555555666666666666666666666666666666666666666666655555544 3345556


Q ss_pred             HHHHHHH
Q 002520          898 LQHLCVN  904 (913)
Q Consensus       898 Lqelc~~  904 (913)
                      |.+||++
T Consensus       493 l~el~~~  499 (607)
T KOG0240|consen  493 LEELAVN  499 (607)
T ss_pred             HHHHHHh
Confidence            6666653

>cd07624 BAR_SNX7_30 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 7 and 30

Probab=81.21  E-value=74  Score=33.24  Aligned_cols=17  Identities=12%  Similarity=0.198  Sum_probs=8.0

Q ss_pred             hHHHHHHHHHHHHHHHH
Q 002520          663 ENLREQIKAAQSKVDEK  679 (913)
Q Consensus       663 PeLKaKIdeLekEIEeL  679 (913)
                      .+++..++.|+..+..+
T Consensus        17 ~e~~eyi~~L~~~l~~~   33 (200)
T cd07624          17 DKMNEYLTLFGEKLGTI   33 (200)
T ss_pred             HHHHHHHHHHHHHhHHH
Confidence            44555555555444333

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 SNX7, SNX30, and similar proteins. The specific functions of SNX7 and SNX30 have not been elucidated. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.

>cd09237 V_ScBro1_like Protein-interacting V-domain of Saccharomyces cerevisiae Bro1 and related domains

Probab=81.03  E-value=1e+02  Score=34.80  Aligned_cols=40  Identities=8%  Similarity=0.016  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 002520          850 AADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTKQANDL  889 (913)
Q Consensus       850 AaeEeRQEAyekIkELRkQ~DeLNsEFyq~Rr~l~kARdL  889 (913)
                      .....|+..+..|......+.++.+..-+-+.+++.-.++
T Consensus       302 ~~~~~R~~~l~~l~~ay~~y~el~~~l~~G~~FY~dL~~~  341 (356)
T cd09237         302 SKQKLRKEFFEKLKKAYNSFKKFSAGLPKGLEFYDDLLKM  341 (356)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHH
Confidence            3444445555555555555555555444444444444433

This family contains the V-shaped (V) domain of Saccharomyces cerevisiae Bro1, and related domains. It belongs to the V_Alix_like superfamily which also includes the V-domain of Saccharomyces cerevisiae Rim20 (also known as PalA), 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. Bro1 interacts with the ESCRT (Endosomal Sorting Complexes Required for Transport) system, and participates in endosomal trafficking. The mammalian Alix V-domain (belonging to a different family) 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. Bro1 also has an N-terminal Bro1-like domain, which binds Snf7, a component of the ESCRT-III complex, and a C-terminal proline-rich

>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]

Probab=80.81  E-value=1.8e+02  Score=37.31  Aligned_cols=36  Identities=19%  Similarity=0.099  Sum_probs=19.4

Q ss_pred             CCCCCcccccCCcccccCCCC----Ccccccccccccccc
Q 002520          286 DTTAKPDVDFRDSVVTESSPS----GEVDDMERDNEVGKL  321 (913)
Q Consensus       286 d~~~~~~v~~~ds~~~~~~~~----~~~d~~~~~~~v~~l  321 (913)
                      |++.+-+-+..|-||-|--|-    -+||.-.--+.+-+|
T Consensus       573 dIa~edik~Lqd~cPsElePFLkVpLlcd~e~L~qh~lal  612 (1424)
T KOG4572|consen  573 DIAKEDIKDLQDACPSELEPFLKVPLLCDAEKLAQHGLAL  612 (1424)
T ss_pred             hhhHHHHHHHHHhChhhccchhcCccccchHHHHHHHHhh
Confidence            566666667777777554442    345543333444443

>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]

Probab=80.80  E-value=55  Score=38.57  Aligned_cols=108  Identities=16%  Similarity=0.235  Sum_probs=53.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHH---
Q 002520          801 QIEEKMKFLRKEADSLRENVIKAEAATQAVKKLHREESEKLKR-------LLGQFKAADEIRQEAYKHWQSLKKQAY---  870 (913)
Q Consensus       801 nIqEQIKELKKEIDELReKIkkLekELEeLkkKIeEAqaELdE-------LqeElrAaeEeRQEAyekIkELRkQ~D---  870 (913)
                      .+.+|...++++...++.++...+.+|..|+.+...++.+.-.       +......++..+-....++.+++.+.-   
T Consensus        31 ~~~aq~~~~~a~~~ai~a~~~~~E~~l~~Lq~e~~~l~e~~v~~~a~~~~~t~~~~~~en~~~r~~~eir~~~~q~~e~~  110 (459)
T KOG0288|consen   31 RLSAQLVILRAESRAIKAKLQEKELELNRLQEENTQLNEERVREEATEKTLTVDVLIAENLRIRSLNEIRELREQKAEFE  110 (459)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Confidence            3444444555555555555555555555555544444444433       222222233333333445555555433   


Q ss_pred             HHHHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHh
Q 002520          871 DKNQHFWKYKDDTKQANDLASKGDREALQHLCVNQVRS  908 (913)
Q Consensus       871 eLNsEFyq~Rr~l~kARdLAa~~dv~eLqelc~~QVEk  908 (913)
                      ...-....-|+.++-+..||....--.|+.+.-.+|..
T Consensus       111 n~~~~l~~~~~~~r~~e~la~~~~~l~~~~~r~~s~~g  148 (459)
T KOG0288|consen  111 NAELALREMRRKMRIAERLAEALKDLGLKDLRRQSVDG  148 (459)
T ss_pred             cchhhHHHHHHHHHHHHHHHHHhhhcchhhhhhhhhcC
Confidence            33335556677777777777654434444444444443

>KOG1103 consensus Predicted coiled-coil protein [Function unknown]

Probab=80.75  E-value=1.2e+02  Score=35.32  Aligned_cols=67  Identities=21%  Similarity=0.293  Sum_probs=28.5

Q ss_pred             ccCCCC--Cc--hHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          655 VKVPRY--DD--ENLREQIKAAQSKVDEK------TRSRDAIRDDIQTIRASYKEYAEKLEAAISDERSARESLKSKRQE  724 (913)
Q Consensus       655 Vr~rRL--dD--PeLKaKIdeLekEIEeL------~kqRdEInaELqeLReERdELeSeLKkLVeEIkrLReEInEKrKE  724 (913)
                      .+|-+|  .|  -+|+....-+..+++.-      ...++.++.-+..-+.-....-+.|-++   -++-++.|.+++.+
T Consensus        50 ~kYGK~NinDP~~ALqRDf~~l~Ek~D~EK~p~ct~spl~iL~~mM~qcKnmQe~~~s~LaAa---E~khrKli~dLE~d  126 (561)
T KOG1103|consen   50 AKYGKLNINDPFAALQRDFAILGEKIDEEKIPQCTESPLDILDKMMAQCKNMQENAASLLAAA---EKKHRKLIKDLEAD  126 (561)
T ss_pred             HhhcccccCChHHHHHHHHHHHhccccccccceeccChhHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHH
Confidence            345555  34  34544444444443332      2345555554444444333333333333   33334444444443

>cd09238 V_Alix_like_1 Protein-interacting V-domain of an uncharacterized family of the V_Alix_like superfamily

Probab=80.56  E-value=1.1e+02  Score=34.66  Aligned_cols=33  Identities=6%  Similarity=0.071  Sum_probs=20.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          845 LGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFW  877 (913)
Q Consensus       845 qeElrAaeEeRQEAyekIkELRkQ~DeLNsEFy  877 (913)
                      +.++....+....+|..+.++...+.+..+-|.
T Consensus       287 ~~~re~~l~~L~~ay~~y~el~~~l~eG~kFY~  319 (339)
T cd09238         287 RAATESHATQIRAAVAKYRELREGMEEGLRFYS  319 (339)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHchHHHHHHHH
Confidence            344455556666667777777766666655444

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

>PRK05431 seryl-tRNA synthetase; Provisional

Probab=80.38  E-value=4.3  Score=46.97  Aligned_cols=27  Identities=33%  Similarity=0.647  Sum_probs=18.5

Q ss_pred             CcHHHHH-HHHHHHHHHHHHHHhhhccc
Q 002520          761 PLKEEKQ-IIREIKQLKQRREQISSSIG  787 (913)
Q Consensus       761 sLqEEKQ-lIrEISQLEkeRKdV~snIs  787 (913)
                      .|..+++ ++.++.+|+.+++.+...++
T Consensus        32 ~ld~~~r~l~~~~~~lr~~rn~~sk~i~   59 (425)
T PRK05431         32 ELDEERRELQTELEELQAERNALSKEIG   59 (425)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556655 88888888888876555544

>KOG3647 consensus Predicted coiled-coil protein [General function prediction only]

Probab=80.24  E-value=45  Score=37.44  Aligned_cols=16  Identities=19%  Similarity=0.245  Sum_probs=10.2

Q ss_pred             HHHHHHHHHHHHHHHH
Q 002520          711 ERSARESLKSKRQEID  726 (913)
Q Consensus       711 IkrLReEInEKrKEIe  726 (913)
                      -.+|+..|.++..++.
T Consensus        48 ~~q~~~~i~~k~~e~r   63 (338)
T KOG3647|consen   48 RDQYRSLIGDKIEELR   63 (338)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            4556666777766664

>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []

Probab=80.16  E-value=1.2e+02  Score=34.96  Aligned_cols=27  Identities=15%  Similarity=0.148  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          697 YKEYAEKLEAAISDERSARESLKSKRQ  723 (913)
Q Consensus       697 RdELeSeLKkLVeEIkrLReEInEKrK  723 (913)
                      ...+..+|+.+++-..++..++.+|..
T Consensus       139 l~~~~eQl~~lr~ar~~Le~Dl~dK~~  165 (384)
T PF03148_consen  139 LEQAEEQLRLLRAARYRLEKDLSDKFE  165 (384)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333444444444444445555544

The proteins are predicted to form extended rods composed of 2 alpha- helical segments (~180 residues long) capable of forming coiled coils, interrupted by non-helical linkers []. The 2 segments are similar in sequence, indicating a gene duplication event. Along each tektin rod, cysteine residues occur with a periodicity of ~8nm, coincident with the axial repeat of tubulin dimers in microtubules []. It is proposed that the assembly of tektin heteropolymers produces filaments with repeats of 8, 16, 24, 32, 40, 48 and 96nm, generating the basis for the complex spatial arrangements of axonemal components [].; GO: 0000226 microtubule cytoskeleton organization, 0005874 microtubule

>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]

Probab=80.09  E-value=1.8e+02  Score=36.83  Aligned_cols=14  Identities=43%  Similarity=0.553  Sum_probs=5.7

Q ss_pred             HHHHHHHHHHHHHH
Q 002520          804 EKMKFLRKEADSLR  817 (913)
Q Consensus       804 EQIKELKKEIDELR  817 (913)
                      ..+..++.++++|+
T Consensus       244 ~d~E~Lr~e~~qL~  257 (916)
T KOG0249|consen  244 TDIEDLRGELDQLR  257 (916)
T ss_pred             hhHHHHHHHHHHHH
Confidence            33334444444444

>COG5283 Phage-related tail protein [Function unknown]

Probab=80.03  E-value=2.1e+02  Score=37.82  Aligned_cols=47  Identities=11%  Similarity=0.223  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhcC
Q 002520          711 ERSARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHET  759 (913)
Q Consensus       711 IkrLReEInEKrKEIesLQSeLsKLrS~KSVEELQeEIkeLE~QIQheS  759 (913)
                      ....+.-+.++.+++..+.......+  +...+++.++.+.+...+..+
T Consensus        66 meK~k~~~~~~kqe~~evn~at~a~~--kay~e~~~q~tqae~~~~sas  112 (1213)
T COG5283          66 MEKQKKAYEDLKQEVKEVNRATQASK--KAYQEYNAQYTQAENKLRSLS  112 (1213)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHH
Confidence            33333344444444444444443333  566777777777777777555

>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal

Probab=80.02  E-value=28  Score=33.11  Aligned_cols=35  Identities=20%  Similarity=0.293  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002520          815 SLRENVIKAEAATQAVKKLHREESEKLKRLLGQFK  849 (913)
Q Consensus       815 ELReKIkkLekELEeLkkKIeEAqaELdELqeElr  849 (913)
                      .|.++++.++..++.+.++...++.++.+++.+++
T Consensus        71 ~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l~  105 (110)
T TIGR02338        71 ELKEKKETLELRVKTLQRQEERLREQLKELQEKIQ  105 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444444444444333

Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.

---

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	913
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-05
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	2e-07
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	5e-04
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	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 = 62.9 bits (152), Expect = 4e-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 = 61.0 bits (147), Expect = 2e-09
 Identities = 62/417 (14%), Positives = 121/417 (29%), Gaps = 117/417 (28%)

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 -RKEADSLRENVIKAEAATQAVKKLHREESEKLKRLLGQF--KAADEIRQEAYK------ 860
            ++  D L        +       L  +E + L   L ++      ++ +E         
Sbjct: 274 FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL---LLKYLDCRPQDLPREVLTTNPRRL 330

Query: 861 ------------HWQSLKKQAYDKNQHFWKYKDDTKQA--NDLASKGDREALQHLCV 903
                        W + K    DK            ++  N L     R+    L V
Sbjct: 331 SIIAESIRDGLATWDNWKHVNCDK-------LTTIIESSLNVLEPAEYRKMFDRLSV 380

>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 = 46.8 bits (110), Expect = 4e-05
 Identities = 34/265 (12%), Positives = 85/265 (32%), Gaps = 68/265 (25%)

Query: 686 IRDDIQTIRASYKEYAEKLEAAISDERSAR--ESLKSKRQEI------DSVQSRINMMKN 737
           ++D  ++I +  +E    + +  +   + R   +L SK++E+      + ++     + +
Sbjct: 38  VQDMPKSILSK-EEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMS 96

Query: 738 AISVDDIDGSIRNMEHRIAHETL----PLKEEKQIIRE--IKQLKQRREQISSS--IGEH 789
            I  +    S+    +    + L     +  +  + R     +L+Q   ++  +  +   
Sbjct: 97  PIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLID 156

Query: 790 ------DEVQLAFD--QKDQIEEKMKFLRKEADSLRENV--IKAEAATQAVKKLHREES- 838
                     +A D     +++ KM F           +  +        +K  +  E+ 
Sbjct: 157 GVLGSGKTW-VALDVCLSYKVQCKMDF----------KIFWLN-------LKNCNSPETV 198

Query: 839 -EKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYK---------DDTKQAND 888
            E L++LL Q       R +   + +        + +   K K          + + A  
Sbjct: 199 LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA 258

Query: 889 LASKGDREALQHLCVNQVRSRTLLL 913
                   A    C      + LL 
Sbjct: 259 W------NAFNLSC------KILLT 271

>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 = 54.1 bits (130), Expect = 2e-07
 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

>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 = 43.3 bits (102), Expect = 5e-04
 Identities = 34/256 (13%), Positives = 96/256 (37%), Gaps = 14/256 (5%)

Query: 653  FLVKVPRYDDENLREQIKAAQSKVDEKTRSRDAIRDDIQTIRASYKEYAEKLEAAISDER 712
            F    P        E+++A   ++      +     +++ +   + +  E+        +
Sbjct: 843  FFXIXPLLKVTRQEEEMQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQ 902

Query: 713  SARESLKSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAH-ETLPLKEEKQIIRE 771
            +  E      +    + ++   ++  +   +++  I   E R    +    K ++Q++  
Sbjct: 903  AETELYAEAEEMRVRLAAKKQELEEILH--EMEARIEEEEERSQQLQAEKKKMQQQMLDL 960

Query: 772  IKQLKQRREQISSSIGEH-----------DEVQLAFDQKDQIEEKMKFLRKEADSLRENV 820
             +QL++          E            D++ +  DQ +++ ++ K L +    L  N+
Sbjct: 961  EEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNL 1020

Query: 821  IKAEAATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYK 880
             + E   + + KL  +    +  L  + K  ++ RQE  K  + L+ ++ D ++   + +
Sbjct: 1021 AEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQ 1080

Query: 881  DDTKQANDLASKGDRE 896
                +     +K + E
Sbjct: 1081 AQIAELKAQLAKKEEE 1096

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 43.2 bits (102), Expect = 4e-04
 Identities = 29/192 (15%), Positives = 69/192 (35%), Gaps = 11/192 (5%)

Query: 714  ARESLKSKRQEIDSVQSRINMMKNAISVDD---------IDGSIRNMEHRIAHETLPLKE 764
             R+  +  R    ++Q+ +                    I   +R    R+ +    LK 
Sbjct: 831  VRKRYQCMRDATIALQALLRGYLVRNKYQMMLREHKSIIIQKHVRGWLARVHYHRT-LKA 889

Query: 765  EKQIIREIKQLKQRREQISSSIGEHDEVQLAFDQKDQIEEKMKFLRKEADSLRENVIKAE 824
               +    +++  +RE     I E   V+        +E K+  L+++ D   +      
Sbjct: 890  IVYLQCCYRRMMAKRELKKLKI-EARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLL 948

Query: 825  AATQAVKKLHREESEKLKRLLGQFKAADEIRQEAYKHWQSLKKQAYDKNQHFWKYKDDTK 884
                 ++  +  E+EKL+  + + + ++E  + A     SL+++     +   + + + K
Sbjct: 949  EKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKK 1008

Query: 885  QANDLASKGDRE 896
               + A K   E
Sbjct: 1009 TIEEWADKYKHE 1020

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	913
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	913
d1gqea_	362	Polypeptide chain release factor 2 (RF2) {Escheric	91.88
d1seta1	110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	88.66

>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=91.88  E-value=0.28  Score=23.24  Aligned_cols=63  Identities=8%  Similarity=0.216  Sum_probs=47.5

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHHHHHH
Q ss_conf             999998999999997402799988899999999998730678--928999999999999999997
Q 002520          719 KSKRQEIDSVQSRINMMKNAISVDDIDGSIRNMEHRIAHETL--PLKEEKQIIREIKQLKQRREQ  781 (913)
Q Consensus       719 kEKrKEIesLQSeLsKlrSakSVEEIQeEIkkLEeKIQtlSL--sLqEEKQlIKEISqLEkeRKd  781 (913)
                      ++..++|..|+..+..++.+..++.+..++..|+.++..-.+  ....-+++.++++.|+..+..
T Consensus         2 ~~l~~~i~eL~~rl~~Lr~~fDld~kk~Rl~ELE~~lsdP~fW~D~~kAqkl~KE~s~L~~iVe~   66 (362)
T d1gqea_           2 NPVNNRIQDLTERSDVLRGYLDYDAKKERLEEVNAELEQPDVWNEPERAQALGKERSSLEAVVDT   66 (362)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHSGGGGGSHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCHHHHCHHHHHHHHHHHHHHHHHHHH
T ss_conf             16899999999999999977697989999999999863971444999999999999999999999

>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=88.66  E-value=0.51  Score=21.41  Aligned_cols=27  Identities=19%  Similarity=0.460  Sum_probs=18.7

Q ss_pred             CCHHHHH-HHHHHHHHHHHHHHHHHCCC
Q ss_conf             9289999-99999999999997320015
Q 002520          761 PLKEEKQ-IIREIKQLKQRREQISSSIG  787 (913)
Q Consensus       761 sLqEEKQ-lIKEISqLEkeRKdVkanIs  787 (913)
                      .|..+++ ++.++..|+..+..+...++
T Consensus        32 ~ld~~rr~l~~~~e~l~~~rN~~sk~i~   59 (110)
T d1seta1          32 ALDREVQELKKRLQEVQTERNQVAKRVP   59 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9999999999999999999999999988