Citrus Sinensis ID: 002627

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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-------90
Protein Sequence
MASLVAKGSSSSCQVSPLMLVQEKGSRNKRKFRADPPLGEPNKIIPSPQNECPTYEFTAEKFDITPGHGQTGACDLCGVNQDHSDGLKLDLGLSSAVGSSEVGPSRPREELEVEEFQDADWSDLTESQLEELVLSNLDAIFKSAIKKIVACGYMEEVATKAVLRSGLCYGSKDTVSNIVDNTLAFLRSGQEINSSREHYFQDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICDMNVSHACAMDGDPLSSFSGDGASNGNSHITTQLQTKTEAKCSELNLPNPSKPVPSIPCSHSSQPEAPTVAGIPNITKSKNSHVGSEISEKDGTNSISDNVDKTFSVAGTSQSPALEEKFVGSRKVHSGSSKREYMLRQKSLHLEKHYRTYGSKGSSRAGKLSGLGGLILDKKLKSVSDTTSVNLKNASSKISKAIEVHQDNGSHNLSTSPGTSSPATFHSQGANAISALPKTSMPSTFPPGGTPAVLPLANTLPVLSAADTELSLSLPTKSNSTQVPAGINSVAPNCGYAGILSDDTSLEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSKIAALRRGIDGSYAGRLTDIKSSSVHKESQTPLISEVMKDYHDFSGTGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRYARS
Secondary Structure (PSIPRED)
cccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHcccccccccHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccHHHccccHHHHHHHHcccccccccccHHHHHHHHHHcccccEEEEccccEEEccccHHHHHHccccccccccccccccEEEccccc
Secondary Structure Prediction (SSPRO)
cccEEEEcccccccccccEcccccccccccccccccccccccccccccccccccccccHHHcccccccccccHHHHHcccHHHHHHHccccccccccccHccccccccccccHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHccccccccccHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHcccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEcccccHHHHHHHcccccEEccccEccccccccccccccccHHHHHcccccccccccccccccccHHHEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccEccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHcccHHHHHHHHHHHHccHccccccHHHHHHHHHccccccccccccccEEEEEccccEEEEEEccccEEEEHHHHHHHHHccccccccccccccEEEEEEEccc
Coil and Loop (DISEMBL)
maslvakgsssscqvsplmlvqekgsrnkrkfradpplgepnkiipspqnecptyeftaekfditpghgqtgacdlcgvnqdhsdglkldlglssavgssevgpsrpreeleveefqdadwsdlteSQLEELVLSNLDAIFKSAIKKIVACGYMEEVATKAVLrsglcygskdtvsniVDNTLAFLRSGQEINSSREHYFQDLPQLEKYILAELVCVLRevrpffstgDAMWCLLICDMnvshacamdgdplssfsgdgasngnshittqlqtkteakcselnlpnpskpvpsipcshssqpeaptvagipnitksknshvgseisekdgtnsisdnvdktfsvagtsqspaleekfvgsrkvhsgsskrEYMLRQKSLHLEKHYrtygskgssragklsglgglildkklksvsdttsvnlknasSKISKAIEVhqdngshnlstspgtsspatfhsqganaisalpktsmpstfppggtpavlplantlpvlsaadtelslslptksnstqvpaginsvapncgyagilsddtslehlvpqdkrdEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSKIAALRRGidgsyagrltdiksssvhkesqtpLISEVMKDyhdfsgtggvkreRECVMCLseemsvvflpcahQVVCTTcnelhekqgmkdcpscrspiqrripvryars
Flexible Loop (DISEMBL)
maslvakgsssscqvsplmlvqekgsrnkrkfradpplgepnkiipspqnECPTYEFTAEKFDITPGHGQTGACDLCGVNQDHSDGLKLDLGLSSavgssevgpsrpreelevEEFQDADWSDLTESQLEELVLSNLDAIFKSAIKKIVACGYMEEVATKAVLRSGLCYGSKDTVSNIVDNTLAFLRSGQEINSSREHYFQDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICDMNVSHACAMDGDPLSSFSGDGASNGNSHITTQLQTKTEAKCSELNLPNPSKPVPSIPCSHSSQPEAPTVAGipnitksknshvgseisekdgtnsisdNVDKTFSVagtsqspaleekfvgsrkvhsgsskreYMLRQKSLHLEKHYRtygskgssragklSGLGGLILDKKLKSVSDTTSVNLKNASSKISKAIEVHQDNGSHNLSTSPGTSSPATFHSQGANAISALPKTSMPSTFPPGGTPAVLPLANTLPVLSAADTELSLSlptksnstqvpaGINSVAPNCGYAGILSDDTSLEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKaelktlrqekeeverlkkekqilEENTMKKLSEMENALCKASgqveransavRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMqassirkereqieasakskedmikskaetnlmrykdDIHRLEKEisqlrlktdsskiaalrrgidgsyagrltdiksssvhkesqtpliseVMKDYHDFSGTGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELhekqgmkdcpscrspiqrripvryars
Low Complexity Region (SEG)
MASLVAKGSSSSCQVSPLMLVQEKGSRNKRKFRADPPLGEPNKIIPSPQNECPTYEFTAEKFDITPGHGQTGACDLCGVNQDHsdglkldlglssAVGSSEVGPSRPREELEVEEFQDADWSDLTESQLEELVLSNLDAIFKSAIKKIVACGYMEEVATKAVLRSGLCYGSKDTVSNIVDNTLAFLRSGQEINSSREHYFQDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICDMNVSHACAMDGDPLSSFSGDGASNGNSHITTQLQTKTEAKCSELNLPNPSKPVPSIPCSHSSQPEAPTVAGIPNITKSKNSHVGSEISEKDGTNSISDNVDKTFSVAGTSQSPALEEKFVGSRKVHSGSSKREYMLRQKSLHLEKHYRTYGSKGSSRAgklsglgglildkklkSVSDTTSVNLKNASSKISKAIEVHQDNGSHNLSTSPGTSSPATFHSQGANAISALPKTSMPSTFPPGGTPAVLPLANTLPVLSAADTELSLSLPTKSNSTQVPAGINSVAPNCGYAGILSDDTSLEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTlrqekeeverlkkekqILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMeaaklraaesaasCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSKIAALRRGIDGSYAGRLTDIKSSSVHKESQTPLISEVMKDYHDFSGTGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRYARS
Disordered region (IsUnstruct)
*****************************************************TYEFTAEKFDITPGHGQTGACDLCGVNQD*****************************************LTESQLEELVLSNLDAIFKSAIKKIVACGYMEEVATKAVLRSGLCYGSKDTVSNIVDNTLAFLRSGQEINSSREHYFQDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICDMNVSHACAM************************************************************************************************************************************************************GLIL**********************************************************************************TL*V***********************GINSVAPNCGYAGILSDDTSLEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKV*****************************************************************************************************************LFQEELVTEKRKVVQLL****************************************************************************************L**GI***Y***********************VMKDYHDFSGTGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHE*************************
Disordered Region (DISOPRED)
**********************************************SPQNECPTYEFTAEKFDITPGHG*********************LGLS********************EFQDADWSDLTESQLEELVLSNLDAIFKSAIKKIVACGYMEEVATKAVLRSGLCYGSKDTVSNIVDNTLAF*************YFQDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICDMNVSH****************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************CLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRY***
Disordered Region (DISEMBL)
**************VSPLMLVQEKGSRNKRKFRADPPLGEPNKIIPSPQNECPTYEFTAEKFDITPGHGQTGACDLCGVNQDHSDGLKLDLGLS**********************QDADWSDLTESQLEELVLSNLDAIFKSAIKKIVACGYMEEVATKAVLRSGLCYGSKDTVSNIVDNTLAFLRSGQEINSSREHYFQDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICDMNVSHACAMDGDPLSSFSGDGASNGNSHITTQLQTKTEAKCSELNLPNPSK***************PTVAGIPNITKS***************NSISDNVDKTFSVAGTSQSPALEEK**************EYMLRQKSLHLEKHYRTYGSKGSSRAGKLSGLGGLILDKKLKSVSDTTSVNLKNASSKISKAIEVHQD****************TFHSQGANAISALPKTSMPSTFPPGGTPAVLPLANTLPVLSAADTELSLSLPTKSNSTQVPAGINSVAPNCGYAGILSDDTSLEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEA***************************SWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWR********************************MIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSKIAALRRGIDGSYAGRLTDIKS*********PLISEVMKDYHDFSGTGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRYARS
Disordered Region (DISPRO)
*********************************************PSPQNECPTYEFTAEKFDITPGHGQTGACDLCGVNQDHSDGLKLDLGLSSAVGSSEVGPS***EELEVEEFQDADWSDLTESQLEELVLSNLDAIFKSAIKKIVACGYMEEVATKAVLRSGLCYGSKDTVSNIVDNTLAFLRSGQEINSSREHYFQDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICDMNVSHACAMDGDP********************************************************************************************************************SKREYMLRQKSLHLEKHYRTY***************************************KISKAIE*H************************************************************************************VAPNCGYAGILSDDTSLEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSKIAALRRGIDGSYAGRLTDIKSS*******TPL*SEV********GTGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRYA**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MASLVAKGSSSSCQVSPLMLVQEKGSRNKRKFRADPPLGEPNKIIPSPQNECPTYEFTAEKFDITPGHGQTGACDLCGVNQDHSDGLKLDLGLSSAVGSSEVGPSRPREELEVEEFQDADWSDLTESQLEELVLSNLDAIFKSAIKKIVACGYMEEVATKAVLRSGLCYGSKDTVSNIVDNTLAFLRSGQEINSSREHYFQDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICDMNVSHACAMDGDPLSSFSGDGASNGNSHITTQLQTKTEAKCSELNLPNPSKPVPSIPCSHSSQPEAPTVAGIPNITKSKNSHVGSEISEKDGTNSISDNVDKTFSVAGTSQSPALEEKFVGSRKVHSGSSKREYMLRQKSLHLEKHYRTYGSKGSSRAGKLSGLGGLILDKKLKSVSDTTSVNLKNASSKISKAIEVHQDNGSHNLSTSPGTSSPATFHSQGANAISALPKTSMPSTFPPGGTPAVLPLANTLPVLSAADTELSLSLPTKSNSTQVPAGINSVAPNCGYAGILSDDTSLEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxMENALCKASGQxxxxxxxxxxxxxxxxxxxxxxxxxxxxAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEExxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxAKSKEDMIxxxxxxxxxxxxxxxxxxxxxxxxxxxxTDSSKIAALRRGIDGSYAGRLTDIKSSSVHKESQTPLISEVMKDYHDFSGTGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRYARS
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	899	2.2.26 [Sep-21-2011]
Q0WPJ7	814	Putative E3 ubiquitin-pro	yes	no	0.873	0.964	0.402	1e-158
Q9ZVT8	823	Putative E3 ubiquitin-pro	no	no	0.870	0.951	0.395	1e-138
Q8RX22	711	MND1-interacting protein	no	no	0.391	0.495	0.375	2e-54
A6H5Y1	991	M-phase phosphoprotein 9	no	no	0.195	0.177	0.277	0.0007

>sp|Q0WPJ7|RF298_ARATH Putative E3 ubiquitin-protein ligase RF298 OS=Arabidopsis thaliana GN=RF298 PE=2 SV=1

 Score =  558 bits (1438), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 362/900 (40%), Positives = 514/900 (57%), Gaps = 115/900 (12%)

Query: 8   GSSSSCQVSPLMLVQEKGSRNKRKFRADPPLGEPNKIIPSPQNECPTYEFTAEKFDITPG 67
           G+SSS  VSP    Q+KG +NKRK  ADP          SPQN     EF   ++++   
Sbjct: 20  GTSSS--VSP---PQDKGRKNKRKL-ADP----------SPQNAASLTEFP--RYELHSF 61

Query: 68  HGQTGACDLCGVNQDHSDGLKLDLGLSSAVGSSEVGPSRPREELEVEEFQDADWSDLTES 127
             Q+  C      ++ S+G                       +L+ EE     W D    
Sbjct: 62  KSQSPLC------ENDSNG-----------------------QLKAEESDSVGWDDPFAC 92

Query: 128 QLEELVLSNLDAIFKSAIKKIVACGYMEEVATKAVLRSGLCYGSKDTVSNIVDNTLAFLR 187
            LE L+ SNL  +F+SA+ +I+ CGY E+V  KA+  S    G  D VSNIV++TL+FL+
Sbjct: 93  HLEGLLSSNLLTLFRSAMNQIMDCGYSEDVVLKAISSSRFYCGGTDLVSNIVNDTLSFLK 152

Query: 188 SGQEINSSREHYFQDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICDMNVSHACAM 247
           SG+++  SR++ F+DL QL  Y L E + ++REVRP  ST +AMW LLICD+NV  A  +
Sbjct: 153 SGKKVAGSRDYVFEDLQQLVAYSLVEKISLVREVRPSLSTDEAMWRLLICDLNVLKAFEV 212

Query: 248 DGDPLSSFSGDGASNGNSHITTQLQTKTEAKCSELNLP------NPSKPVPSIPCSHSSQ 301
           D D L                +     +E+  +E N P      NP  PV +   + S Q
Sbjct: 213 DADGLEG-----------SSVSNASKSSESPVAECNPPKSSDADNPKAPVSN---TQSKQ 258

Query: 302 PEAPTVAGIPNITKSKNSHVGSEISEKDGTNSISDNVDKTFSVAGTSQSPALEEKFVGSR 361
            E        N+  SKN H       K+  +  + + + T S + TS S   +EK V  R
Sbjct: 259 SEPVKFGNFANVNNSKNPHASGATPGKEVFSVSTASGEGTKSASLTSVS---DEKLVSCR 315

Query: 362 KVHSGSSKREY-MLRQKSLHLEKHYRTYGSKGSSRAGKLSGLGGLILDKKLKSVSDTTSV 420
           K   G +K+E  MLRQKS  +EK  RTY   G  +  K    GG +++K+ KS SD  S 
Sbjct: 316 K---GRTKKEMAMLRQKSC-VEK-IRTYSKGGGYKTAKF---GGFLVEKRGKSASDLLSA 367

Query: 421 NLKNASSKIS-KAIEVHQDNGSHNLSTSPGTSSPATFHSQGANAISALPKTSMPSTFPPG 479
             +N+SSKI+ + +++     S  LS S  + SPA    +    ++ALP  + P+     
Sbjct: 368 QARNSSSKITTEVMKIPLAESSSTLSNSTKSDSPALDVKE---HVTALPANNAPA----- 419

Query: 480 GTPAVLPLANTLPVLSAADTELSLSLPTKSNSTQVPAGINSVAPNCGYAGILSDDTSLEH 539
                 P+A+     S ++ E   S+ TK              P   Y   +  D +L  
Sbjct: 420 ------PVASEKK--SGSEPEEKPSVSTK--------------PAPDYYAAIPYDATLGI 457

Query: 540 LVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEV 599
            +P++KRDE+ILKL+PR+++L  +L +WT+WANQKV QA  RL KD+ ELK LR+EKEE 
Sbjct: 458 YIPRNKRDELILKLVPRMKDLQKELQDWTDWANQKVKQATVRLLKDQPELKALRKEKEEA 517

Query: 600 ERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRA 659
           E  +KEKQ+LEENT+K+ SEME AL  A+ Q+ER N+ +RRLE+E + L++E EAA +RA
Sbjct: 518 EEFRKEKQLLEENTIKRRSEMELALNNATNQLERTNNTIRRLELEQSLLKREREAANIRA 577

Query: 660 AESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLE 719
           +ESA SC+E  +R ++     QSWE QK L QEEL +++ KV  L QE+ +AK  Q Q+E
Sbjct: 578 SESAESCREAKERVQRLLKNSQSWEGQKNLLQEELKSQRDKVAGLQQEVAKAKTRQNQIE 637

Query: 720 ARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEI 779
           A W+QE+ A  +L  QA++++KER ++E   K++E+ IK+KAE ++  Y ++I RL+ EI
Sbjct: 638 ATWKQEKSATGKLTAQAAALKKERGKLEELGKAEEERIKTKAENDVKYYIENIKRLDTEI 697

Query: 780 SQLRLKTDSSKIAALRRGIDGSYAGRLTDIKSSSVHKESQTPLISEVMKDYHDFSGT-GG 838
           S+L+LK+DS KIAAL++GIDG+  G     KS   H  +         K + +  G    
Sbjct: 698 SKLKLKSDSLKIAALKKGIDGNNDGN----KSGMNHTTNTKANSMASAKVWENNQGAESK 753

Query: 839 VKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRYAR 898
           +KRERECVMCLSEEMSV+FLPCAHQV+C+ CN+LHEK+ M+DCPSCR+ IQRRI  R+AR
Sbjct: 754 IKRERECVMCLSEEMSVIFLPCAHQVLCSKCNQLHEKEAMEDCPSCRAKIQRRIQARFAR 813

Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q9ZVT8|RF4_ARATH Putative E3 ubiquitin-protein ligase RF4 OS=Arabidopsis thaliana GN=RF4 PE=3 SV=1

 Score =  492 bits (1266), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 356/900 (39%), Positives = 507/900 (56%), Gaps = 117/900 (13%)

Query: 15  VSPLMLVQEKGSRNKRKFRADPPLGEPNKIIPSPQNECPTYEFTAEKFDITPGHGQTGAC 74
           VSP    QEKG +NKRK  ADP   +PN    S   E P YE  +    + P        
Sbjct: 25  VSP----QEKGRKNKRKL-ADP--SQPN---ASSLTEFPPYELPS----LKP-------- 62

Query: 75  DLCGVNQDHSDGLKLDLGLSSAVGSSEVGPSRPREELEVEEFQDADWSDLTESQLEELVL 134
                 Q+H  G       + +VG  EV       +L+VE  +  +W D     LEEL+ 
Sbjct: 63  ------QNHLSG-------NGSVG--EVS-----NQLQVEVSESVEWDDPFACHLEELLS 102

Query: 135 SNLDAIFKSAIKKIVACGYMEEVATKAVLRSGLCYGSKDTVSNIVDNTLAFLRSGQEINS 194
           SNL  +F   +K+++  GY ++   KAV R  L  G  + +SNIV+NTL+ L++G E   
Sbjct: 103 SNLLTLFLDTMKQLIDLGYTDDEVLKAVSRCRLYCGGNNLLSNIVNNTLSALKTGDEGAG 162

Query: 195 SREHYFQDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICDMNVSHACAMDGDPLSS 254
           S ++ F+DL QL  Y L E++ +++EVRP  ST +AMW LL+CD+NV  A   +GD L  
Sbjct: 163 SGDYVFEDLQQLVSYTLVEMISLIKEVRPSLSTVEAMWRLLMCDLNVLQAFEAEGDGL-- 220

Query: 255 FSGDGASNGNSHITTQLQTKTEAKCSELNLP---NPSKPVPSIPCSHSSQPEAPTVAGIP 311
                       +++   + +E+  +E N P   +P  P P      S++ E       P
Sbjct: 221 ------------VSSSKLSDSESLGAESNPPKSSDPDNPKPPQSDPQSNRNEPLKFGNFP 268

Query: 312 NITKSKNSHVGSEISEKDGTNSISDNVDKTFSVAGTSQSPALEEKFVGSRKVHSGSSKRE 371
           N   SK +          G    S +      +  TS +   +EK V  RK   G +K+E
Sbjct: 269 NTPNSKKTQSSGTTP---GKEVCSGSTVSCQGMRSTSFTLVSDEKLVSCRK---GRTKKE 322

Query: 372 Y-MLRQKSLHLEKHYRTYGSKGSSRAGKLSGLGGLILDKKLKSVSDTTSVNLKNASSKIS 430
             MLRQKS  +EK  RTY      +A K + +G  +L+K++KS S+      +N+SSKI+
Sbjct: 323 IAMLRQKSC-VEK-IRTYSKGSGYKAAKFASVGSFLLEKRVKSSSEFVP---RNSSSKIT 377

Query: 431 KAIEVH----QDNGSHNLSTSPGTSSPATFHSQGANAISALPKTSMPS-TFPPGGTPAVL 485
             I V     +D+G      S   S      ++G   I+ALP  S+ S +    G+ +V 
Sbjct: 378 AEIGVKVSLAEDSGCFVRKNSKLDSPVVVVDAKG--YITALPARSVKSASKKKTGSESV- 434

Query: 486 PLANTLPVLSAADTELSLSLPTKS-----NSTQVPAGINS-VAPNCGYAGILSDDTSLEH 539
               TL + SA++ +   S+P+ S     + ++  A +++ +AP+  YAGI   D +L  
Sbjct: 435 ----TL-IPSASEKKSDSSIPSTSEKKSGSESEEKASVSAKLAPDY-YAGI-PYDAALGI 487

Query: 540 LVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEV 599
            VP+DK+DE+ILKL+PRV +L N+L  WT+WANQKV +A  RL KD+ ELK LR+E+EE 
Sbjct: 488 YVPRDKKDELILKLVPRVNDLQNELQVWTDWANQKVKEATGRLLKDQPELKALRKEREEA 547

Query: 600 ERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRA 659
           E+ KKEKQ+LEENT K+LSEM+ AL  A+ Q+E+A +   RLE+E + L++EMEAAK++A
Sbjct: 548 EQYKKEKQLLEENTRKRLSEMDFALKNATSQLEKAFNTAHRLELEQSILKKEMEAAKIKA 607

Query: 660 AESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLE 719
            ESA S +E  +R +++     SWE QK + QEEL  ++ KV  L +E+ +AK  Q Q+E
Sbjct: 608 VESAESFREAKERGERSLKDIHSWEGQKIMLQEELKGQREKVTVLQKEVTKAKNRQNQIE 667

Query: 720 ARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEI 779
           A  +QE  AK +L  QAS IRKE +++EA  K +E+ IK KAET++  Y D+I RLE+EI
Sbjct: 668 AALKQERTAKGKLSAQASLIRKETKELEALGKVEEERIKGKAETDVKYYIDNIKRLEREI 727

Query: 780 SQLRLKTDSSKIAALRRGIDGSYAGRLTDIKSSSVHKESQTPLISEVMKDYHDFSGTGGV 839
           S+L+LK+D S+I AL++G   S A +   +                         G   V
Sbjct: 728 SELKLKSDYSRIIALKKGSSESKATKRESL-------------------------GMPKV 762

Query: 840 KRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRYARS 899
           KRERECVMCLSEEMSV+FLPCAHQV+C  CN+LHEK+GM DCPSCR  I RRI  R+ARS
Sbjct: 763 KRERECVMCLSEEMSVIFLPCAHQVLCFKCNQLHEKEGMMDCPSCRGTIHRRIQARFARS 822

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q8RX22|MIP1_ARATH MND1-interacting protein 1 OS=Arabidopsis thaliana GN=MIP1 PE=1 SV=1

 Score =  214 bits (545), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 141/376 (37%), Positives = 222/376 (59%), Gaps = 24/376 (6%)

Query: 531 LSDDTSLEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELK 590
           L+ D +LE  V  D +D +I+ L+ +V++   ++ E  EWA +  MQAA+++S++ AELK
Sbjct: 353 LNLDDNLES-VGVDDKDCVIVDLLHQVKDFEKKVKERKEWAQKNAMQAAQKVSEELAELK 411

Query: 591 TLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQ 650
           TL  E+E ++ LKK KQ +EE+T K+ ++ E  L KA  Q +RAN  VR+LE +N  +R 
Sbjct: 412 TLSSEREGIQLLKKGKQAVEESTAKRFTDKEIELRKACSQNDRANVIVRKLENQNAEIRA 471

Query: 651 EMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQ 710
           E E +KL A+ES  +C E SK+EKK   K  +WEKQ    Q+E+  EK K+  L + L Q
Sbjct: 472 EREGSKLSASESLKACMEASKKEKKCLKKLVAWEKQILKLQDEITAEKEKIKALYKTLAQ 531

Query: 711 AKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKD 770
               ++++EA+WRQE+KAKEE + Q    ++ +E  E   K K + ++ K E +  R+KD
Sbjct: 532 ITEYEKEIEAKWRQEQKAKEEALAQMEEEQRSKEAAEGHNKRKLETLRLKIELDFQRHKD 591

Query: 771 DIHRLEKEISQLRLKTDSSKIAALRRGIDGSYAGRLTDIKSSSVH-KESQTPLISEVMKD 829
           D  RLE+E+ +L+                 S     + I +++   K+SQ   I++++++
Sbjct: 592 DHQRLEQELGRLK----------------ASSDSDSSHISNNAWKPKKSQGENIAKLLEE 635

Query: 830 YHDFSGT--GGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNE---LHEKQGMK-DCPS 883
                G+       +REC++C+ +E+SVVFLPCAHQVVC +C++        G K  CP 
Sbjct: 636 IDKLEGSYDNEANYDRECIICMKDEVSVVFLPCAHQVVCGSCSDSFFASNNGGSKVTCPC 695

Query: 884 CRSPIQRRIPVRYARS 899
           CR  +Q+RI +  A S
Sbjct: 696 CRGLVQQRIRIFGATS 711

Arabidopsis thaliana (taxid: 3702)

>sp|A6H5Y1|MPP9_MOUSE M-phase phosphoprotein 9 OS=Mus musculus GN=Mphosph9 PE=2 SV=1

 Score = 47.0 bits (110), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 56/202 (27%), Positives = 103/202 (50%), Gaps = 26/202 (12%)

Query: 586 KAELKTLRQEKEE-----VERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRR 640
           ++E+ +L+Q+ E      VE  KK+ +IL +    +  ++++AL +A+       S VR 
Sbjct: 421 ESEISSLKQKLEAKDISAVEEWKKKNEILAD----RCGQLDSALNEAT-------SRVRT 469

Query: 641 LEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRK 700
           LE  N  L  E+E + LR   +AAS      +E+  +M+  + EK      +  +T  + 
Sbjct: 470 LEKNNNLL--EIEVSDLRERFNAASSASKVLQERIEEMRTSNKEK------DNTITRLKC 521

Query: 701 VVQLLQE-LDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKS 759
            +Q L+E  + A  L +  EAR RQE K  ++L+ +  S+ KE  +++ +  + E+ +  
Sbjct: 522 RLQDLEEAFENAYKLSDDKEARLRQENKMFQDLLGEYESLGKEHGRVKDTLNTTENKLLD 581

Query: 760 KAETNLMRYKDDIHRLEKEISQ 781
            A T +   K  I +LE ++ Q
Sbjct: 582 -AHTQISDLKRTISKLEAQVKQ 602

Mus musculus (taxid: 10090)

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	899
225432464	893	PREDICTED: putative E3 ubiquitin-protein	0.986	0.993	0.759	0.0
255551557	894	conserved hypothetical protein [Ricinus	0.987	0.993	0.751	0.0
449432767	901	PREDICTED: putative E3 ubiquitin-protein	0.996	0.994	0.681	0.0
449495437	901	PREDICTED: LOW QUALITY PROTEIN: putative	0.996	0.994	0.678	0.0
356549037	883	PREDICTED: putative E3 ubiquitin-protein	0.972	0.989	0.675	0.0
356520015	890	PREDICTED: putative E3 ubiquitin-protein	0.975	0.985	0.650	0.0
356555592	855	PREDICTED: putative E3 ubiquitin-protein	0.948	0.997	0.675	0.0
356564559	877	PREDICTED: putative E3 ubiquitin-protein	0.969	0.994	0.653	0.0
224102555	762	predicted protein [Populus trichocarpa]	0.840	0.992	0.672	0.0
224107285	736	predicted protein [Populus trichocarpa]	0.816	0.997	0.624	0.0

>gi|225432464|ref|XP_002277269.1| PREDICTED: putative E3 ubiquitin-protein ligase RF298-like [Vitis vinifera]

 Score = 1378 bits (3567), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 686/903 (75%), Positives = 759/903 (84%), Gaps = 16/903 (1%)

Query: 1   MASLVAKGSSS-SCQVSPLMLVQEKGSRNKRKFRADPPLGEPNKIIPSPQNECPTYEFTA 59
           M+S+   GSS+   Q SP +  QEKGSRNKRKFRADPPLG+PNKI+ S Q++C +YEF+A
Sbjct: 1   MSSMAVNGSSTCGTQGSPSVSAQEKGSRNKRKFRADPPLGDPNKIVSS-QDQCLSYEFSA 59

Query: 60  EKFDITPGHGQTGACDLCGVNQDHSDGLKLDLGLSSAVGSSEVGPSRPREELEVEEFQDA 119
           EKF++T  HGQ GAC +C +NQDHSDGLKLDLGLSSA GSSEVGPS+PR+ELE ++FQDA
Sbjct: 60  EKFEVTSSHGQPGACGMCNLNQDHSDGLKLDLGLSSAAGSSEVGPSQPRDELEADDFQDA 119

Query: 120 DWSDLTESQLEELVLSNLDAIFKSAIKKIVACGYMEEVATKAVLRSGLCYGSKDTVSNIV 179
           DWSDLTESQLEELVLSNLD IFKSAIKKIVACGY EEVATKAVLRSGLCYG KDTVSNIV
Sbjct: 120 DWSDLTESQLEELVLSNLDTIFKSAIKKIVACGYSEEVATKAVLRSGLCYGCKDTVSNIV 179

Query: 180 DNTLAFLRSGQEINSSREHYFQDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICDM 239
           DNTLAFLR+GQEI+ SREHYF DL QLEKYILAELVCVLREVRPFFSTGDAMWCLLICDM
Sbjct: 180 DNTLAFLRNGQEIDPSREHYFDDLQQLEKYILAELVCVLREVRPFFSTGDAMWCLLICDM 239

Query: 240 NVSHACAMDGDPLSSF-SGDGASNGNSHITTQLQTKTEAKCSELNLPNPSKPVPSIPCSH 298
           NVSHACAMDGD  SS  SGDGASNG+S  + Q Q+KTEAK SELNLPNP  PV SIPC+H
Sbjct: 240 NVSHACAMDGDSFSSIVSGDGASNGSSSTSGQPQSKTEAKSSELNLPNPCNPVHSIPCAH 299

Query: 299 SSQPEAPTVAGIPNITKSKNSHV-GSEISEKDGTNSISDNVDKTFSVAGTSQSPALEEKF 357
           SSQ E P  +G+PN+ K KNS V    +SEKDG N+ SD  DK+FSV GTSQS A EEKF
Sbjct: 300 SSQSETPIASGVPNLAKPKNSLVLNGLVSEKDGLNNTSDTTDKSFSVTGTSQSAAPEEKF 359

Query: 358 VGSRKVHSGSSKREYMLRQKSLHLEKHYRTYGSKGSSRAGKLSGLGGLILDKKLKSVSDT 417
             SRKVHSG +KRE MLRQKSLHLEK+YRTYG KGSSR  KLSGLG  +LDKKLKSVSD+
Sbjct: 360 GLSRKVHSGGTKRESMLRQKSLHLEKNYRTYGCKGSSRTAKLSGLGSYMLDKKLKSVSDS 419

Query: 418 TSVNLKNASSKISKA--IEVHQDNGSHNLSTSPGTSSPATFHSQGANAISALPKTSMPST 475
           T VNLKNAS KISKA  ++V QDNG+HNLS + G SS A F+ +  N I +LPKT+ PS 
Sbjct: 420 TGVNLKNASLKISKAMGVDVPQDNGNHNLSPNSGLSSSAAFNLETVNTIGSLPKTNSPSA 479

Query: 476 FPPGGTPAVLPLANTLPVLSAADTELSLSLPTKSNSTQVPAGINSVAPNCGYAGILSDDT 535
            PP  TP         P+ S ADTELSLSL TKSNS  VP   N+   NC Y GI   D 
Sbjct: 480 LPPVNTP---------PIPSGADTELSLSLTTKSNSAPVPLSCNAETSNCSYTGI-PYDK 529

Query: 536 SLEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQE 595
           SL   VPQDK+DE+ILKL+PRVREL NQL EWTEWANQKVMQAARRL KDKAELKTLRQE
Sbjct: 530 SLGQWVPQDKKDEMILKLVPRVRELQNQLQEWTEWANQKVMQAARRLGKDKAELKTLRQE 589

Query: 596 KEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAA 655
           KEEVERLKKEKQ LE+NT KKLSEMENAL KASGQVERAN+AVRRLEVEN++LRQEMEAA
Sbjct: 590 KEEVERLKKEKQTLEDNTAKKLSEMENALGKASGQVERANAAVRRLEVENSSLRQEMEAA 649

Query: 656 KLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQ 715
           KL AAESAASCQEVSKREKKT MKFQ+WEKQKA F EEL +EKR++ QL QEL+QA  LQ
Sbjct: 650 KLEAAESAASCQEVSKREKKTLMKFQTWEKQKAFFHEELTSEKRRLAQLRQELEQATELQ 709

Query: 716 EQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRL 775
           +QLEARW+QEEKAKEEL+MQASS RKEREQIE SAKSKEDMIK KAE NL +YKDDI +L
Sbjct: 710 DQLEARWKQEEKAKEELLMQASSTRKEREQIEVSAKSKEDMIKLKAEANLQKYKDDIQKL 769

Query: 776 EKEISQLRLKTDSSKIAALRRGIDGSYAGRLTDIKSSSVHKESQTPLISEVMKDYHDFSG 835
           EK+IS+LRLKTDSSKIAALRRGIDGSYA RLTD  + S HKESQ P ISE++ ++H+++G
Sbjct: 770 EKQISELRLKTDSSKIAALRRGIDGSYASRLTDTINGSAHKESQAPFISEMVTNFHNYAG 829

Query: 836 TGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVR 895
           +GGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRI +R
Sbjct: 830 SGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIRIR 889

Query: 896 YAR 898
           YAR
Sbjct: 890 YAR 892

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255551557|ref|XP_002516824.1| conserved hypothetical protein [Ricinus communis] gi|223543912|gb|EEF45438.1| conserved hypothetical protein [Ricinus communis]

 Score = 1308 bits (3385), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 680/905 (75%), Positives = 754/905 (83%), Gaps = 17/905 (1%)

Query: 1   MASLVAKGSSSSCQVSP--LMLVQEKGSRNKRKFRADPPLGEPNKIIPSPQNECPTYEFT 58
           MAS+VAK SSSSC      L+ VQEKGSRNKRKFRAD PLG+P KIIPSPQNEC  YEF+
Sbjct: 1   MASMVAKASSSSCSTQVSSLVSVQEKGSRNKRKFRADTPLGDPGKIIPSPQNECSGYEFS 60

Query: 59  AEKFDITPGHGQTGACDLCGVNQDHSDGLKLDLGLSSAVGSSEVGPSRPREELEVEEFQD 118
           AEKF+ TP HG +  CDLCGVNQDHS+GLKLDLGLSSA+ SSEVG S+PREELE EE  D
Sbjct: 61  AEKFEATPAHGPSSVCDLCGVNQDHSEGLKLDLGLSSALSSSEVGTSQPREELESEESHD 120

Query: 119 ADWSDLTESQLEELVLSNLDAIFKSAIKKIVACGYMEEVATKAVLRSGLCYGSKDTVSNI 178
           ADWSDLTESQLEELVLSNLDAIFKSAIKKIVACGY EEVATKAVLRSGLCYG KDTVSNI
Sbjct: 121 ADWSDLTESQLEELVLSNLDAIFKSAIKKIVACGYTEEVATKAVLRSGLCYGCKDTVSNI 180

Query: 179 VDNTLAFLRSGQEINSSREHYFQDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICD 238
           VDNTLAFLR+GQEI+ SR+H F+DL QLEKYILAELVCVLREVRPFFSTGDAMWCLLICD
Sbjct: 181 VDNTLAFLRNGQEIDPSRDHCFEDLQQLEKYILAELVCVLREVRPFFSTGDAMWCLLICD 240

Query: 239 MNVSHACAMDGDPLSSFSGDGASNGNSHITTQLQTKTEAKCSELNLPNPSKPVPSIPCSH 298
           MNVSHACAMDGDPLS F+GDG SNG S  + Q Q   E+K SELNLPNP K  PS+ CS 
Sbjct: 241 MNVSHACAMDGDPLSGFAGDGTSNGTSSTSNQPQ--IESKSSELNLPNPCKSEPSVTCSQ 298

Query: 299 SSQPEAPTVAG-IPNITKSKNS-HVGSEISEKDGTNSISDNVDKTFSVAGTSQSPALEEK 356
           S   EAP +   +PNI+K KNS  V   ++EKDG+NS  D+ DK+FSVAGTSQSP +EEK
Sbjct: 299 S---EAPNIMTRVPNISKPKNSVAVSGLVTEKDGSNSTFDSADKSFSVAGTSQSPVVEEK 355

Query: 357 FVGSRKVHSGSSKREYMLRQKSLHLEKHYRTYGSKGSSRAGKLSGLGGLILDKKLKSVSD 416
            + SRKVHS S+KREY+LRQKSLHLEK YRTYG KG SRAGKLSGLGGLILDKKLKSVS+
Sbjct: 356 LIVSRKVHSNSTKREYILRQKSLHLEKGYRTYGPKG-SRAGKLSGLGGLILDKKLKSVSE 414

Query: 417 TTSVNLKNASSKISK--AIEVHQDNGSHNLSTSPGTSSPATFHSQGANAISALPKTSMPS 474
            ++VN+KNAS ++SK   ++V QDN S NLS++  +SSPA+F+ + +   SA PKT+  S
Sbjct: 415 -SAVNIKNASLRLSKVMGVDVSQDNASQNLSSNTRSSSPASFNLETSGTTSAFPKTNNQS 473

Query: 475 TFPPGGTPAVLPLANTLPVLSAADTELSLSLPTKSNSTQVPAGINSVAPNCGYAGILSDD 534
             P    P  L   NT PVLSA DTELSLSLP KSNST VP   N+ A +C ++GI   D
Sbjct: 474 ALPVVTKPPALTAVNTPPVLSATDTELSLSLPAKSNSTSVPGDSNAEATSCNFSGI-PYD 532

Query: 535 TSLEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQ 594
            SL   VP+DK+DE+I+KL+PR REL NQL EWTEWANQKVMQAARRLSKDKAELK+LRQ
Sbjct: 533 KSLAQWVPRDKKDEMIMKLVPRARELQNQLQEWTEWANQKVMQAARRLSKDKAELKSLRQ 592

Query: 595 EKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEA 654
           EKEEVERLKKEKQ LEENTMKKL+EMENALCKASGQVERANSAVRRLEVEN ALRQEMEA
Sbjct: 593 EKEEVERLKKEKQTLEENTMKKLTEMENALCKASGQVERANSAVRRLEVENAALRQEMEA 652

Query: 655 AKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKAL 714
            KL AAESAASCQEVSKREK T MKFQSWEKQK + QEEL TEKRKV QL Q+L+QAK L
Sbjct: 653 EKLNAAESAASCQEVSKREKNTLMKFQSWEKQKIILQEELATEKRKVAQLRQDLEQAKQL 712

Query: 715 QEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHR 774
           QEQ EARW+QEEKAKEEL++QA+S+RKEREQIE +AKSKED IK KAE NL +YKDDI +
Sbjct: 713 QEQHEARWQQEEKAKEELLLQANSMRKEREQIETAAKSKEDTIKLKAEINLQKYKDDIQK 772

Query: 775 LEKEISQLRLKTDSSKIAALRRGIDGSYAGRLTDIKSSSVHKESQTPLISEVMKDYHDFS 834
           LEKEI+QLRLKTDSSKIAALR GI+ SYA RLTDIK +   KES +PL      D+HD+S
Sbjct: 773 LEKEIAQLRLKTDSSKIAALRMGINQSYASRLTDIKYNIAQKES-SPLY--FSADFHDYS 829

Query: 835 GTGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPV 894
            TGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCN+LHEKQGMKDCPSCRS IQRRI V
Sbjct: 830 ETGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNDLHEKQGMKDCPSCRSTIQRRISV 889

Query: 895 RYARS 899
           RYARS
Sbjct: 890 RYARS 894

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449432767|ref|XP_004134170.1| PREDICTED: putative E3 ubiquitin-protein ligase RF298-like [Cucumis sativus]

 Score = 1194 bits (3089), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 616/904 (68%), Positives = 717/904 (79%), Gaps = 8/904 (0%)

Query: 1   MASLVAKGS--SSSCQVSPLMLVQEKGSRNKRKFRADPPLGEPNKIIPSPQNECPTYEFT 58
           MAS+VAK S  S+S      M VQEKGSRNKRK+RADPPLG+ NKI  S Q++CP+YEF+
Sbjct: 1   MASMVAKPSCPSTSNHGPSSMTVQEKGSRNKRKYRADPPLGDLNKITSSSQDKCPSYEFS 60

Query: 59  AEKFDITPGHGQTGACDLCGVNQDHSDGLKLDLGLSSAVGSSEVGPSRPREELEVEEFQD 118
           AEKF+I+   GQ+  CDLC ++Q+ S GLKLDLGLS+  GSS+VG + PR ELEV+E QD
Sbjct: 61  AEKFEISSSMGQSSGCDLCSISQEFSAGLKLDLGLSNG-GSSDVGINWPRGELEVDEDQD 119

Query: 119 ADWSDLTESQLEELVLSNLDAIFKSAIKKIVACGYMEEVATKAVLRSGLCYGSKDTVSNI 178
           ADWSDLTE+QLEELVL NLD IFK AIKKIVA GY EEVA KAV RSG+C+G KDTVSN+
Sbjct: 120 ADWSDLTEAQLEELVLINLDTIFKGAIKKIVASGYTEEVAIKAVSRSGICFGGKDTVSNV 179

Query: 179 VDNTLAFLRSGQEINSSREHYFQDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICD 238
           VDNTLAFLR GQEI+ SREHYF+DL QLEKYILAELVCVLRE+RPFFSTGDAMWCLLI D
Sbjct: 180 VDNTLAFLRRGQEIDHSREHYFEDLQQLEKYILAELVCVLREIRPFFSTGDAMWCLLISD 239

Query: 239 MNVSHACAMDGDPLSSFSGDGASNGNSHITTQLQTKTEAKCSELNLPNPSKPVPSIPCSH 298
           M+V+ ACAMD DP ++   DG SN +S  T   Q K E K SE+NLP P KP+  I C+H
Sbjct: 240 MSVALACAMDSDPCNALVCDGTSNESSSNTIP-QLKAEVKSSEMNLPKPVKPISPISCAH 298

Query: 299 SSQPEAPTVAGIPNITKSKNSHVGS-EISEKDGTNSISDNVDKTFSVAGTSQSPALEEKF 357
            SQ + P   G+P+I+K K+    S  +SEK+  NS  D V+++FSVA  SQ+   EEK 
Sbjct: 299 GSQYDGPATVGVPSISKPKDPLFSSGPLSEKELQNSTFDVVEESFSVAVNSQTSVSEEKI 358

Query: 358 VGSRKVHSGSSKREYMLRQKSLHLEKHYRTYGSKGSSRAGKLSGLGGLILDKKLKSVSDT 417
             SRKVHS  +KREYMLRQKSLH++K++RTYG+KGSSRAGKL+GLGGL+LDKKLKSVS +
Sbjct: 359 ESSRKVHSNITKREYMLRQKSLHVDKNFRTYGAKGSSRAGKLTGLGGLMLDKKLKSVSGS 418

Query: 418 TSVNLKNASSKISKA--IEVHQDNGSHNLSTSPGTSSPATFHSQGANAISALPKTSMPST 475
           T+VN KNAS KISKA  I+V QDNGSHNLST    SS   F+ +  N +S   KT++PS+
Sbjct: 419 TAVNFKNASLKISKAMGIDVAQDNGSHNLSTMDIPSSSLPFNLENINTVSPFSKTNLPSS 478

Query: 476 FPPGGTPAVLPLANTLPVLSAADTELSLSLPTKSNSTQVPAGINSVAPNCGYAGILSDDT 535
            P   +P  LP  NT       D +LSLSLP KSN   VP   N  +    +      + 
Sbjct: 479 MPAPSSPPALPALNTSSAPPTTDIDLSLSLPAKSNQPSVPFNCNPESSTSSFVE-KPQEK 537

Query: 536 SLEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQE 595
            +    P+DK+DE++L L+PRV+EL NQL EWT+WANQKVMQAARRLSKDKAELK L+QE
Sbjct: 538 FIGQWFPRDKKDEMVLNLLPRVQELQNQLQEWTQWANQKVMQAARRLSKDKAELKALKQE 597

Query: 596 KEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAA 655
           KEEVERLKKEKQ LEENTMKKLSEME+ALCKASGQVE ANSAVRRLEVEN ALRQ+ME A
Sbjct: 598 KEEVERLKKEKQTLEENTMKKLSEMEHALCKASGQVELANSAVRRLEVENAALRQDMEVA 657

Query: 656 KLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQ 715
           KLRA ESAAS QEVSKREKKT MK QSWEKQK LFQEE   EKRKV +L+QEL+QA+ LQ
Sbjct: 658 KLRATESAASYQEVSKREKKTLMKVQSWEKQKMLFQEEHTEEKRKVKKLIQELEQARDLQ 717

Query: 716 EQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRL 775
           EQLE RW+ EE+AK+EL++QA+S+RKEREQIE S K KED IK KAE NL++YKDDI +L
Sbjct: 718 EQLEGRWKLEERAKDELLVQAASLRKEREQIEDSVKVKEDTIKLKAENNLIKYKDDIQKL 777

Query: 776 EKEISQLRLKTDSSKIAALRRGIDGSYAGRLTDIKSSSVHKESQTPLISEVMKDYHDFSG 835
           EKEIS LRLKTDSS+IAAL+RGIDGSYA RLTD ++++ HKES +P +SE MKD + +SG
Sbjct: 778 EKEISVLRLKTDSSRIAALKRGIDGSYASRLTDTRNNTDHKESWSPNVSESMKDLYKYSG 837

Query: 836 TGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVR 895
           TGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVR
Sbjct: 838 TGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVR 897

Query: 896 YARS 899
           YARS
Sbjct: 898 YARS 901

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449495437|ref|XP_004159841.1| PREDICTED: LOW QUALITY PROTEIN: putative E3 ubiquitin-protein ligase RF298-like [Cucumis sativus]

 Score = 1187 bits (3072), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 613/904 (67%), Positives = 714/904 (78%), Gaps = 8/904 (0%)

Query: 1   MASLVAKGS--SSSCQVSPLMLVQEKGSRNKRKFRADPPLGEPNKIIPSPQNECPTYEFT 58
           MAS+VAK S  S+S      M VQEKGSRNKRK+RADPPLG+ NKI  S Q++CP+YEF+
Sbjct: 1   MASMVAKPSCPSTSNHGPSSMTVQEKGSRNKRKYRADPPLGDLNKITSSSQDKCPSYEFS 60

Query: 59  AEKFDITPGHGQTGACDLCGVNQDHSDGLKLDLGLSSAVGSSEVGPSRPREELEVEEFQD 118
           AEKF+I+   GQ+  CDLC ++Q+ S GLKLDLGLS+  GSS+VG + PR ELEV+E QD
Sbjct: 61  AEKFEISSSMGQSSGCDLCSISQEFSAGLKLDLGLSNG-GSSDVGINWPRGELEVDEDQD 119

Query: 119 ADWSDLTESQLEELVLSNLDAIFKSAIKKIVACGYMEEVATKAVLRSGLCYGSKDTVSNI 178
           ADWSDLTE+QLEELVL NLD IFK AIKKIVA GY EEVA KAV RSG+C+G KDTVSN+
Sbjct: 120 ADWSDLTEAQLEELVLINLDTIFKGAIKKIVASGYTEEVAIKAVSRSGICFGGKDTVSNV 179

Query: 179 VDNTLAFLRSGQEINSSREHYFQDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICD 238
           VDNTLAFLR GQEI+ SREHYF+DL QLEKYILAELVCVLRE+RPFFSTGDAMWCLLI D
Sbjct: 180 VDNTLAFLRRGQEIDHSREHYFEDLQQLEKYILAELVCVLREIRPFFSTGDAMWCLLISD 239

Query: 239 MNVSHACAMDGDPLSSFSGDGASNGNSHITTQLQTKTEAKCSELNLPNPSKPVPSIPCSH 298
           M+V+ ACAMD DP ++   DG SN +S  T   Q K E K SE+NLP P KP+  I C+H
Sbjct: 240 MSVALACAMDSDPCNALVCDGTSNESSSNTIP-QLKAEVKSSEMNLPKPVKPISPISCAH 298

Query: 299 SSQPEAPTVAGIPNITKSKNSHVGS-EISEKDGTNSISDNVDKTFSVAGTSQSPALEEKF 357
            SQ + P   G+P+I+K K+    S  +SEK+  NS  D V+++FSVA  SQ+   EEK 
Sbjct: 299 GSQYDGPATVGVPSISKPKDPLFSSGPLSEKELQNSTFDVVEESFSVAVNSQTSVSEEKI 358

Query: 358 VGSRKVHSGSSKREYMLRQKSLHLEKHYRTYGSKGSSRAGKLSGLGGLILDKKLKSVSDT 417
             SRKVHS  +KREYMLRQKSLH++K++RTYG+KGSSRAGKL+GLGGL+LDKKLKSVS +
Sbjct: 359 ESSRKVHSNITKREYMLRQKSLHVDKNFRTYGAKGSSRAGKLTGLGGLMLDKKLKSVSGS 418

Query: 418 TSVNLKNASSKISKA--IEVHQDNGSHNLSTSPGTSSPATFHSQGANAISALPKTSMPST 475
           T+VN KNAS KISKA  I+V QDNGSHNLST    SS   F+ +  N +S   KT++PS+
Sbjct: 419 TAVNFKNASLKISKAMGIDVAQDNGSHNLSTMDIPSSSLPFNLENINTVSPFSKTNLPSS 478

Query: 476 FPPGGTPAVLPLANTLPVLSAADTELSLSLPTKSNSTQVPAGINSVAPNCGYAGILSDDT 535
            P   +P  LP  NT       D +LSLSLP KSN   VP   N  +    +      + 
Sbjct: 479 MPAPSSPPALPALNTSSAPPTTDIDLSLSLPAKSNQPSVPFNCNPESSTSSFVE-KPQEK 537

Query: 536 SLEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQE 595
            +    P+DK+DE++L L+PRV+EL NQL EWT+WANQKVMQAARRLSKDKAELK L+QE
Sbjct: 538 FIGQWFPRDKKDEMVLNLLPRVQELQNQLQEWTQWANQKVMQAARRLSKDKAELKALKQE 597

Query: 596 KEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAA 655
           KEEVERLKKEKQ LEENTMKKLSEME+ALCKASGQVE ANSAVRRLEVEN ALRQ+ME A
Sbjct: 598 KEEVERLKKEKQTLEENTMKKLSEMEHALCKASGQVELANSAVRRLEVENAALRQDMEVA 657

Query: 656 KLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQ 715
           KLRA ESAAS QEVSKR KKT MK QSWEKQK LFQEE   EK K  +L+QEL+QA+ LQ
Sbjct: 658 KLRATESAASYQEVSKRXKKTLMKVQSWEKQKMLFQEEHTAEKEKXEKLIQELEQARDLQ 717

Query: 716 EQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRL 775
           EQLE RW+ EE+AK+EL++QA+S+RKEREQIE S K KED IK KAE NL++YKDDI +L
Sbjct: 718 EQLEGRWKLEERAKDELLVQAASLRKEREQIEDSVKVKEDTIKLKAENNLIKYKDDIQKL 777

Query: 776 EKEISQLRLKTDSSKIAALRRGIDGSYAGRLTDIKSSSVHKESQTPLISEVMKDYHDFSG 835
           EKEIS LRLKTDSS+IAAL+RGIDGSYA RLTD ++++ HKES +P +SE MKD + +SG
Sbjct: 778 EKEISVLRLKTDSSRIAALKRGIDGSYASRLTDTRNNTDHKESWSPNVSESMKDLYKYSG 837

Query: 836 TGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVR 895
           TGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVR
Sbjct: 838 TGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVR 897

Query: 896 YARS 899
           YARS
Sbjct: 898 YARS 901

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356549037|ref|XP_003542905.1| PREDICTED: putative E3 ubiquitin-protein ligase RF298-like [Glycine max]

 Score = 1161 bits (3004), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 613/908 (67%), Positives = 716/908 (78%), Gaps = 34/908 (3%)

Query: 1   MASLVAKGSSSSCQVSPLMLVQEKGSRNKRKFRADPPLGEPNKIIPSPQNECPTYEFTAE 60
           MASLVA GSS   Q++P + VQEKGSRNKRKFRADPPLGEPNKIIPSPQ+E  + EF+AE
Sbjct: 1   MASLVASGSS---QMAPSVSVQEKGSRNKRKFRADPPLGEPNKIIPSPQHESLSNEFSAE 57

Query: 61  KFDITPGHGQTGACDLCGVNQDHSDGLKLDLGLSSAVGSSEVGPSRPREELEVEEFQDAD 120
           KF+IT GHGQ  A D+C V+QDHSDGLKLDLGLSS + SS+V  S+P+EELEV+EF DAD
Sbjct: 58  KFEITTGHGQASASDMCSVSQDHSDGLKLDLGLSSPLPSSDVRLSQPKEELEVDEFHDAD 117

Query: 121 WSDLTESQLEELVLSNLDAIFKSAIKKIVACGYMEEVATKAVLRSGLCYGSKDTVSNIVD 180
           WSDLTE+QLEELVLSNLD IFKSA+KKIVACGY+E+VATKA+LRSG+CYG KD VSN+VD
Sbjct: 118 WSDLTEAQLEELVLSNLDTIFKSAVKKIVACGYIEDVATKAILRSGICYGCKDAVSNVVD 177

Query: 181 NTLAFLRSGQEINSSREHYFQDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICDMN 240
             LAFLR+GQEI+ SREHYF+DL QLEKYILAELVCVLREVRP FSTGDAMW LLICDMN
Sbjct: 178 KGLAFLRNGQEIDPSREHYFEDLVQLEKYILAELVCVLREVRPLFSTGDAMWRLLICDMN 237

Query: 241 VSHACAMDGDPLSSFSGDGASNGNSHITTQLQTKTEAKCSELNLPNPSKPVPSIPCSHSS 300
           VS ACAMD DP SS   DG  +G S + T+ Q K E K  EL+      P  SI  S  S
Sbjct: 238 VSLACAMDDDPSSSLGSDGIDDGCSSVQTEPQLKLETKGPELS------PCKSI--SSGS 289

Query: 301 QPEAPTVAGIPNITKSKNSHVGSEISEKDGTNSISDNVDKTFSVAGTSQSPALEEKFVGS 360
           QPE  +VAG   + KSK S +    S K+  NS  + +DK+ S +GTSQSP +EEK    
Sbjct: 290 QPEKSSVAGNTGLDKSKKSQILVGPSGKEAANSGCEFIDKSSSTSGTSQSPLVEEKCGSV 349

Query: 361 RKVHSGSSKREYMLRQKSLHLEKHYRTYGSKGSSRAGKLSGLGGLILDKKLKSVSDTTSV 420
           RKVHS S+KR+Y+LRQKS H+EK YRTYG KGSSR G+L+GL GLILDKKLKSVS++T++
Sbjct: 350 RKVHSSSNKRDYILRQKSFHMEKSYRTYGPKGSSRGGRLNGLNGLILDKKLKSVSESTTI 409

Query: 421 NLKNASSKISKAI--EVHQDNGSHNLSTSPGTSSPATFH-------SQGANAISALPKTS 471
           NLK+AS  ISKA+  +V QDN + + S++ G S+P  F        SQ  N +S++ + +
Sbjct: 410 NLKSASINISKAVGVDVTQDNLNADFSSNDGPSTPTAFSLDSTVTVSQSTNTLSSVHEAN 469

Query: 472 MPSTFPPGGTPAVLPLANTLPVLSAADTELSLSLPTKSNSTQVPAGINSVAPNCGYAGIL 531
                P  G+P VL         SA DT+LSLSL + S S       N+ APN    GI 
Sbjct: 470 ---AIPAVGSPNVL---------SATDTDLSLSLSSNSKSPTTTVRCNNEAPNSSCMGI- 516

Query: 532 SDDTSLEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKT 591
             D SL   +PQD++DE+ILKL+PRVREL NQL EWTEWANQKVMQAARRLSKD+AELKT
Sbjct: 517 PHDRSLGKWIPQDRKDEMILKLVPRVRELQNQLQEWTEWANQKVMQAARRLSKDRAELKT 576

Query: 592 LRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQE 651
           LRQEK+EVERLKKEKQ LEENTMKK+SEMENAL KAS QVER N+ VR+LEVEN ALR+E
Sbjct: 577 LRQEKDEVERLKKEKQSLEENTMKKISEMENALSKASAQVERTNADVRKLEVENAALRKE 636

Query: 652 MEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQA 711
           ME AKL+AAESA SCQEVS+REKKTQMKFQSWEKQK+LFQEEL+ EK K+ QL QEL+QA
Sbjct: 637 MEVAKLQAAESATSCQEVSRREKKTQMKFQSWEKQKSLFQEELMNEKHKLAQLQQELEQA 696

Query: 712 KALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDD 771
           K  Q+Q+EARW+Q  KAKEEL++QASSIRKEREQIE SAKSKEDMIK KAE NL RY+DD
Sbjct: 697 KVQQQQVEARWQQAAKAKEELLLQASSIRKEREQIEESAKSKEDMIKLKAEENLHRYRDD 756

Query: 772 IHRLEKEISQLRLKTDSSKIAALRRGIDGSYAGRLTDIKSSSVHKESQTPLISEVMKDYH 831
           I +LEKEI+QLR KTDSSKIAALRRGIDG+Y     D+KS ++ KES+   ISE++ + +
Sbjct: 757 IQKLEKEIAQLRQKTDSSKIAALRRGIDGNYVSSFMDVKSMAL-KESRATFISEMVSNLN 815

Query: 832 DFSGTGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRR 891
           D+S  GGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCN+LHEKQGM+DCPSCRSPIQRR
Sbjct: 816 DYSLIGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNDLHEKQGMQDCPSCRSPIQRR 875

Query: 892 IPVRYARS 899
           I VR+AR+
Sbjct: 876 ISVRFART 883

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356520015|ref|XP_003528662.1| PREDICTED: putative E3 ubiquitin-protein ligase RF298-like [Glycine max]

 Score = 1159 bits (2998), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 592/910 (65%), Positives = 713/910 (78%), Gaps = 33/910 (3%)

Query: 1   MASLVAKGSSSSCQVSPLMLVQEKGSRNKRKFRADPPLGEPNKIIPSPQNECPTYEFTAE 60
           M SLVA  SS   Q+SP +  QEKGSRNKRKFR DPPLGEPNK IP+PQ +C +YEF+AE
Sbjct: 1   MISLVASCSS---QMSPSVSCQEKGSRNKRKFRVDPPLGEPNKFIPAPQLKCFSYEFSAE 57

Query: 61  KFDITPGHGQTGACDLCGVNQDHSDGLKLDLGLSSAVGSSEVGPSRPREELEVEEFQDAD 120
           +F+ITPGHGQ  ACDLCGV+QD+SDGLKL LGL +  G+SEVGPS+ ++E E +E  DAD
Sbjct: 58  RFEITPGHGQAAACDLCGVSQDYSDGLKLGLGLYNP-GTSEVGPSQSKDEPETDEINDAD 116

Query: 121 WSDLTESQLEELVLSNLDAIFKSAIKKIVACGYMEEVATKAVLRSGLCYGSKDTVSNIVD 180
           WSDLTE+QLEELVL+NLD I KSAIKKIVACGY E+VATKA+LR G+CYG KDT+SNIVD
Sbjct: 117 WSDLTEAQLEELVLTNLDTILKSAIKKIVACGYTEDVATKAILRPGICYGCKDTLSNIVD 176

Query: 181 NTLAFLRSGQEINSSREHYFQDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICDMN 240
           N+LAFLR+GQEI++SREHYF+DL QLEKY LAELVCVLREVRPFFS GDAMWCLLICDMN
Sbjct: 177 NSLAFLRNGQEIDTSREHYFEDLVQLEKYNLAELVCVLREVRPFFSVGDAMWCLLICDMN 236

Query: 241 VSHACAMDGDPLSSFSGDGASNGNSHITTQLQTKTEAKCSELNLPNPSKPVPSIPCSHSS 300
           VSHACAMD +PLSS   D ++ G S+    L +K E KC E +L +PSK +P+  CSH+S
Sbjct: 237 VSHACAMDCNPLSSLGNDNSTGGPSNQAESL-SKAETKCPEPSLISPSKSIPT--CSHNS 293

Query: 301 QPEAPTVAGIPNITKSKNSHVGSEISEKDGTNSISDNVDKTFSVAGTSQSPALEEKFVGS 360
           Q + P V  IP +  + N  +    SEK+G +  S+ ++K FS AGTSQS  ++EK    
Sbjct: 294 QSKKPFVTRIPGVN-NLNPQIIGGASEKEGASCGSECINKAFSAAGTSQSGLMKEKRGTV 352

Query: 361 RKVHSGSSKREYMLRQKSLHLEKHYRTYGSKGSSRAGKLSGLGGLILDKKLKSVSDTTSV 420
           RKVHSGS+KR+Y+L+ KS H EK YRTYG KGSSR GK++GL GL+LDKKLKSVS+++++
Sbjct: 353 RKVHSGSTKRDYILQHKSFHKEKSYRTYGLKGSSRRGKVNGLSGLVLDKKLKSVSESSTI 412

Query: 421 NLKNASSKISKA--IEVHQDNGSHNLSTSPGTSSPATFHSQGANAISALPKTSMPSTFPP 478
           NLK+AS +ISKA  I+  QD+ S N S + GTS+   F     N+  ++ +++       
Sbjct: 413 NLKSASLQISKAVGIDTTQDSISVNFSCNAGTSTSTAFSL--VNSSDSVCRST------- 463

Query: 479 GGTPAVLPLANTLPV------LSAADTELSLSLPTKSNSTQVPAGINSVAPNCGYAGIL- 531
             T   +  ANT+PV      LSA +T+LSLSL +K   +      N+ APN  Y GIL 
Sbjct: 464 -NTSFAINAANTIPVFSCPASLSATNTDLSLSLSSKIKPSTESVCSNNEAPNSSYMGILY 522

Query: 532 ---SDDTSLEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAE 588
              +++ S    +P D +DE+ILKL+PRVREL NQL EWTEWANQKVMQAARRLSK+KAE
Sbjct: 523 NNNNNNKSPRQWIPHDGKDEMILKLLPRVRELQNQLQEWTEWANQKVMQAARRLSKEKAE 582

Query: 589 LKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTAL 648
           L+TLRQEKEEVERLKKEKQ LEENT+KKLSEMENALCK SGQVERAN+ VR+LEVE  AL
Sbjct: 583 LQTLRQEKEEVERLKKEKQSLEENTLKKLSEMENALCKVSGQVERANATVRKLEVEKAAL 642

Query: 649 RQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQEL 708
           R+E+EAAK+RA E+AASCQEVS+REKKTQMKFQSWEKQK+LFQEEL  EKRK+ QLLQEL
Sbjct: 643 RKEVEAAKIRATETAASCQEVSRREKKTQMKFQSWEKQKSLFQEELTIEKRKLAQLLQEL 702

Query: 709 DQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRY 768
           +QA+  QEQ+E RW+QE KAKEE ++QASSI+KEREQIE S KSKED IK KAE N   Y
Sbjct: 703 EQARMQQEQVEGRWQQEAKAKEEFILQASSIKKEREQIEESGKSKEDAIKLKAERNRQMY 762

Query: 769 KDDIHRLEKEISQLRLKTDSSKIAALRRGIDGSYAGRLTDIKSSSVHKESQTPLISEVMK 828
           +DDIH+LEKEISQLRLKTDSSKIAALR GIDG YA +  D+K+ +  KE +   ISE++ 
Sbjct: 763 RDDIHKLEKEISQLRLKTDSSKIAALRMGIDGCYASKCLDMKNGTAQKEPRASFISELVI 822

Query: 829 DYHDFSGTGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPI 888
           D+   S TGGVKRE+ECVMCLSEEMSV+F+PCAHQVVC TCNELHEKQGM+DCPSCRSPI
Sbjct: 823 DH---SATGGVKREQECVMCLSEEMSVLFMPCAHQVVCKTCNELHEKQGMQDCPSCRSPI 879

Query: 889 QRRIPVRYAR 898
           Q+RI VR+ R
Sbjct: 880 QQRIAVRFPR 889

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356555592|ref|XP_003546114.1| PREDICTED: putative E3 ubiquitin-protein ligase RF298-like [Glycine max]

 Score = 1146 bits (2965), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 609/901 (67%), Positives = 699/901 (77%), Gaps = 48/901 (5%)

Query: 1   MASLVAKGSSSSCQVSPLMLVQEKGSRNKRKFRADPPLGEPNKIIPSPQNECPTYEFTAE 60
           MASLVA GSS   Q++P + VQEKGSRNKRKFRADPPLGEPNKIIP PQ+E  +YEF+AE
Sbjct: 1   MASLVASGSS---QMAPSVSVQEKGSRNKRKFRADPPLGEPNKIIPLPQHESLSYEFSAE 57

Query: 61  KFDITPGHGQTGACDLCGVNQDHSDGLKLDLGLSSAVGSSEVGPSRPREELEVEEFQDAD 120
           KF+ITPGHGQ  A  +C V+QDHSD LKLDLGLSS V SS+V  S+P+EELEV+EF DAD
Sbjct: 58  KFEITPGHGQVSASGMCSVSQDHSDALKLDLGLSSPVASSDVRISQPKEELEVDEFHDAD 117

Query: 121 WSDLTESQLEELVLSNLDAIFKSAIKKIVACGYMEEVATKAVLRSGLCYGSKDTVSNIVD 180
           WSDLTE+QLEELVLSNLD IFKSAIKKIVACGY+E+VATKA+LRSG+CYG KD VSN+VD
Sbjct: 118 WSDLTEAQLEELVLSNLDTIFKSAIKKIVACGYIEDVATKAILRSGICYGCKDAVSNVVD 177

Query: 181 NTLAFLRSGQEINSSREHYFQDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICDMN 240
           N LAFLR+GQEIN SREHYF+DL QLEKYILAELVCVLREVRP FSTGDAMW LLICDMN
Sbjct: 178 NGLAFLRNGQEINPSREHYFEDLVQLEKYILAELVCVLREVRPLFSTGDAMWRLLICDMN 237

Query: 241 VSHACAMDGDPLSSFSGDGASNGNSHITTQLQTKTEAKCSELNLPNPSKPVPSIPCSHSS 300
           VS ACAMDGDP SS   DG ++G S + T+ Q+K E K  EL+LP+P K V     S  S
Sbjct: 238 VSLACAMDGDPSSSLGSDGIADGCSSVQTESQSKLETKGPELSLPSPCKSV-----SSGS 292

Query: 301 QPEAPTVAGIPNITKSKNSHVGSEISEKDGTNSISDNVDKTFSVAGTSQSPALEEKFVGS 360
           QP+  +V G   + KSKNS +    SEK+  NS  D++DK+ S +GTSQSP +EEK    
Sbjct: 293 QPKKSSVEGNTGLDKSKNSQILVGPSEKEAANSGRDSIDKSSSTSGTSQSPLVEEKCGNI 352

Query: 361 RKVHSGSSKREYMLRQKSLHLEKHYRTYGSKGSSRAGKLSGLGGLILDKKLKSVSDTTSV 420
           RKVHS S+KR+Y+LRQKS H+EK YRTYGSKGSSR G+L+GL GLILDKKLKSVS+ T++
Sbjct: 353 RKVHSSSTKRDYILRQKSFHMEKGYRTYGSKGSSRGGRLNGLNGLILDKKLKSVSEPTTI 412

Query: 421 NLKNASSKISKA--IEVHQDNGSHNLSTSPGTSSPATFHSQGANAISALPKTSMPSTFPP 478
           NLK+AS  ISKA  ++V QDN + + S++ G S+P  F       +S    T+  S+   
Sbjct: 413 NLKSASINISKAMGVDVTQDNLNADFSSNDGPSTPTAFSLDSTVTVSR--STNTLSSVHD 470

Query: 479 GGTPAVLPLANTLPVLSAADTELSLSLPTKSNSTQVPAGINSVAPNCGYAGILSDDTSLE 538
           G  PAV     +  VLSA DT LSLSL + S S   P   N+  PN    GIL D  SL 
Sbjct: 471 GNIPAV----GSSNVLSATDTNLSLSLSSNSKSPTTPVCCNNKPPNSSCMGILHD-RSLG 525

Query: 539 HLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEE 598
             +PQD++DE+ILKL+PRV+EL NQL EWTEWANQKVMQAARRL KDKAELKTLRQEK+E
Sbjct: 526 KWIPQDRKDEMILKLVPRVQELQNQLQEWTEWANQKVMQAARRLCKDKAELKTLRQEKDE 585

Query: 599 VERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLR 658
           VERLKKEKQ LEENTMKK+SEMENAL KAS QVER N+ VR+ EVEN ALR+EMEAAKLR
Sbjct: 586 VERLKKEKQSLEENTMKKISEMENALSKASAQVERTNADVRKFEVENAALRKEMEAAKLR 645

Query: 659 AAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQL 718
           AAESA S QEVS+REKKTQMKFQSWEKQK+LFQEEL+TEK K+ QL QEL+QAK  Q+Q+
Sbjct: 646 AAESATSYQEVSRREKKTQMKFQSWEKQKSLFQEELMTEKHKLAQLQQELEQAKVQQQQV 705

Query: 719 EARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKE 778
           EARW+Q  KAKEEL++QASSIRKEREQIE SAKSKEDMIK KAE NL RY++ I +LEKE
Sbjct: 706 EARWQQAAKAKEELLLQASSIRKEREQIEESAKSKEDMIKLKAEENLHRYRNGIQKLEKE 765

Query: 779 ISQLRLKTDSSKIAALRRGIDGSYAGRLTDIKSSSVHKESQTPLISEVMKDYHDFSGTGG 838
           I QLR KTDSSKIAALRRGIDG+YA                                + G
Sbjct: 766 IVQLRQKTDSSKIAALRRGIDGNYAS-------------------------------SWG 794

Query: 839 VKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRYAR 898
           VKRERECVMCLS EMSVVFLPCAHQVVCTTCNELHEKQGM+DCPSCRSPIQRRI VR+AR
Sbjct: 795 VKRERECVMCLSAEMSVVFLPCAHQVVCTTCNELHEKQGMQDCPSCRSPIQRRIFVRFAR 854

Query: 899 S 899
           +
Sbjct: 855 T 855

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356564559|ref|XP_003550520.1| PREDICTED: putative E3 ubiquitin-protein ligase RF298-like [Glycine max]

 Score = 1144 bits (2958), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 580/888 (65%), Positives = 691/888 (77%), Gaps = 16/888 (1%)

Query: 15  VSPLMLVQEKGSRNKRKFRADPPLGEPNKIIPSPQNECPTYEFTAEKFDITPGHGQTGAC 74
           +SP +  QEKGSRNKRKFRADPPLGEPNK IP+PQ EC +YEF+AEKF+ITPGH Q  AC
Sbjct: 1   MSPSVSSQEKGSRNKRKFRADPPLGEPNKFIPAPQLECLSYEFSAEKFEITPGHRQVAAC 60

Query: 75  DLCGVNQDHSDGLKLDLGLSSAVGSSEVGPSRPREELEVEEFQDADWSDLTESQLEELVL 134
           DLCG++QDHSDGLKL LGL S  G+SEVGPS+ +++ E +E  DADWSDLTE+QLEELVL
Sbjct: 61  DLCGLSQDHSDGLKLGLGLYSP-GTSEVGPSQSKDKPETDEINDADWSDLTEAQLEELVL 119

Query: 135 SNLDAIFKSAIKKIVACGYMEEVATKAVLRSGLCYGSKDTVSNIVDNTLAFLRSGQEINS 194
           +NLD I KSAIKKIVACGY EEVATKA+LR G+CYG KDT+SNIVDNTLAFLR+ QEI++
Sbjct: 120 TNLDIILKSAIKKIVACGYTEEVATKAILRPGICYGCKDTLSNIVDNTLAFLRNAQEIDT 179

Query: 195 SREHYFQDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICDMNVSHACAMDGDPLSS 254
            REHYF+DL QLEKY+LAELVCVL+EVRPFFS GDAMWCLLICDMNVSHACAMD +PLSS
Sbjct: 180 LREHYFEDLVQLEKYVLAELVCVLQEVRPFFSVGDAMWCLLICDMNVSHACAMDCNPLSS 239

Query: 255 FSGDGASNGNSHITTQLQTKTEAKCSELNLPNPSKPVPSIPCSHSSQPEAPTVAGIPNIT 314
              D  ++  S    + Q+K E KC EL+L +PSK +P+   SH SQ + P V GIP + 
Sbjct: 240 LGNDNTTSAGSSSQAEPQSKAETKCPELSLLSPSKSIPA--GSHYSQSKKPFVTGIP-VV 296

Query: 315 KSKNSHVGSEISEKDGTNSISDNVDKTFSVAGTSQSPALEEKFVGSRKVHSGSSKREYML 374
            + NS +    SEK+G +  S+ ++K FS AGTSQS  +EEK    RKVHSGS+ R+Y+L
Sbjct: 297 NNLNSQIIGGTSEKEGASCGSECINKAFSAAGTSQSGLMEEKRGTVRKVHSGSTMRDYVL 356

Query: 375 RQKSLHLEKHYRTYGSKGSSRAGKLSGLGGLILDKKLKSVSDTTSVNLKNASSKISKA-- 432
           R KS H+EK +RTY  KGSSR GK++GL GL+LDKKLKSVS+++++NLK+AS +ISKA  
Sbjct: 357 RHKSFHVEKKFRTYELKGSSRGGKVNGLSGLVLDKKLKSVSESSTINLKSASLQISKAMG 416

Query: 433 IEVHQDNGSHNLSTSPGTSSPATFHS-QGANAISALPKTSMPSTFPPGGTPAVLPLANTL 491
           I+  QDN + N S++ GTS+   F     +NA+     TS             +PL +  
Sbjct: 417 IDTTQDNINVNFSSNAGTSTSTAFSPVDSSNAVCRSTNTSFAI-----NAAHTIPLFSCP 471

Query: 492 PVLSAADTELSLSLPTKSNSTQVPAGINSVAPNCGYAGILSDDT-SLEHLVPQDKRDEII 550
             LSA +T+LSLSL +K   +      N+ APN  Y GI  ++  S    +PQD +DE++
Sbjct: 472 ASLSATNTDLSLSLSSKIKPSTESVCSNNEAPNSSYMGIPYNNIKSPRQWIPQDGKDEML 531

Query: 551 LKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILE 610
           LKL PRV+EL NQL EWTEWANQKVMQAA RLSK+KAEL+TLRQEKEEVERLKKEKQ LE
Sbjct: 532 LKLFPRVQELQNQLQEWTEWANQKVMQAACRLSKEKAELQTLRQEKEEVERLKKEKQSLE 591

Query: 611 ENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVS 670
           ENT+KKLSEMENALCK SGQVERAN+AVR+LEVE  ALR+EMEAAK+ A E+AASCQEVS
Sbjct: 592 ENTLKKLSEMENALCKVSGQVERANAAVRKLEVEKAALRKEMEAAKIHATETAASCQEVS 651

Query: 671 KREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKE 730
           +REKK Q+KFQSWEKQK+ F+EEL  EK+K+ QLL EL+QA+  QEQ+E RW+QE KAKE
Sbjct: 652 RREKKAQIKFQSWEKQKSFFKEELTIEKQKLAQLLHELEQARVQQEQVEGRWQQEAKAKE 711

Query: 731 ELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSK 790
           EL++QASSIRKEREQIE S KSKED IK KAE NL  Y+DDI +LEKEISQLRLKTDSSK
Sbjct: 712 ELILQASSIRKEREQIEESGKSKEDAIKLKAERNLQSYRDDIQKLEKEISQLRLKTDSSK 771

Query: 791 IAALRRGIDGSYAGRLTDIKSSSVHKESQTPLISEVMKDYHDFSGTGGVKRERECVMCLS 850
           IA LR GIDG YA +  DIK+ +  KE     ISE++ D+   S TG VKRERECVMCLS
Sbjct: 772 IATLRMGIDGCYARKFLDIKNGTAQKEPWASFISELVIDH---SATGSVKRERECVMCLS 828

Query: 851 EEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRYAR 898
           EEMSVVFLPCAHQVVCT CNELHEKQGM+DCPSCRSPIQ+RI VR+ R
Sbjct: 829 EEMSVVFLPCAHQVVCTPCNELHEKQGMQDCPSCRSPIQQRIAVRFPR 876

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224102555|ref|XP_002312723.1| predicted protein [Populus trichocarpa] gi|222852543|gb|EEE90090.1| predicted protein [Populus trichocarpa]

 Score = 1119 bits (2894), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 593/882 (67%), Positives = 659/882 (74%), Gaps = 126/882 (14%)

Query: 21  VQEKGSRNKRKFRADPPLGEPNKIIPSPQNECPTYEFTAEKFDITPGHGQTGACDLCGVN 80
           +QEKGSRNKRKFRADPPLG+P+KI+ S QNECP YEF+AEKF+  PG             
Sbjct: 4   IQEKGSRNKRKFRADPPLGDPSKIMSSAQNECPGYEFSAEKFEAAPG------------- 50

Query: 81  QDHSDGLKLDLGLSSAVGSSEVGPSRPREELEVEEFQDADWSDLTESQLEELVLSNLDAI 140
                             SSEVGPS+PR E+E EE  DADWSDLTESQLEELVLSNLDAI
Sbjct: 51  ------------------SSEVGPSQPRGEVESEESHDADWSDLTESQLEELVLSNLDAI 92

Query: 141 FKSAIKKIVACGYMEEVATKAVLRSGLCYGSKDTVSNIVDNTLAFLRSGQEINSSREHYF 200
           FK AIKKIVACGY EE ATKA+LRSGLCYG K TVSNIVDNTLA LR+G +I  SREH F
Sbjct: 93  FKGAIKKIVACGYTEEEATKAILRSGLCYGCKYTVSNIVDNTLALLRNGHDIEPSREHCF 152

Query: 201 QDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICDMNVSHACAMDGDPLSSFSGDGA 260
           +DL QL +Y+LAELVCVLREVRPFFSTGDAMWCLLICDMNVSHACAMDGDPLSSF+ D  
Sbjct: 153 EDLQQLGRYVLAELVCVLREVRPFFSTGDAMWCLLICDMNVSHACAMDGDPLSSFATDET 212

Query: 261 SNGNSHITTQLQTKTEAKCSELNLPNPSKPVPSIPCSHSSQPEAPTVAGIPNITKSKNSH 320
           S                                             V G+P  TK KNS 
Sbjct: 213 STN-------------------------------------------VTGVPKNTKPKNSA 229

Query: 321 V-GSEISEKDGTNSISDNVDKTFSVAGTSQSPALEEKFVGSRKVHSGSSKREYMLRQKSL 379
           V    +S+K+G+NS  +  DK+ ++AG+SQS  LEEKF+ SRKVHSG +KREY+LRQKS+
Sbjct: 230 VLNGPVSDKEGSNSTVN--DKSSNIAGSSQSTILEEKFIVSRKVHSGVNKREYILRQKSV 287

Query: 380 HLEKHYRTYGSKGSSRAGKLSGLGGLILDKKLKSVSDTTSVNLKNASSKISKA--IEVHQ 437
           HLEK YRTYGSK +SRAGKLSGLGGLILDKKLKSVSD+TSVN+KNAS ++SKA  ++V Q
Sbjct: 288 HLEKSYRTYGSK-ASRAGKLSGLGGLILDKKLKSVSDSTSVNIKNASLRLSKAMGVDVPQ 346

Query: 438 DNGSHNLSTSPGTSSPATFHSQGANAISALPKTSMPSTFPPGGTPAVLPLANTLPVLSAA 497
           DN + NL ++P  SS  TF+S   ++IS LP               VLP   T P  SAA
Sbjct: 347 DNRNLNLPSNP--SSHVTFNS--VSSISVLP---------------VLPTVTTPPASSAA 387

Query: 498 DTELSLSLPTKSNSTQVPAGINSVAPNCGYAGILSDDTSLEHLVPQDKRDEIILKLIPRV 557
           DTELSLSLP KSNST VP   ++ AP   YAGIL  D SL   VP+DK+DE+I+KLIPR 
Sbjct: 388 DTELSLSLPAKSNSTLVPTSCSAEAPMSSYAGILY-DKSLTRWVPRDKKDEMIMKLIPRA 446

Query: 558 RELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKL 617
           +EL NQL EWTEWANQKVMQAARRL KDKAELK+LRQEKEEVERLKKEKQ LEE+TMKKL
Sbjct: 447 QELQNQLQEWTEWANQKVMQAARRLGKDKAELKSLRQEKEEVERLKKEKQTLEESTMKKL 506

Query: 618 SEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQ 677
           +EMENALCKASGQVE ANSAV+RLEVEN ALRQEMEAAKLRA ESAASCQEVSKREKKT 
Sbjct: 507 TEMENALCKASGQVEIANSAVQRLEVENAALRQEMEAAKLRAVESAASCQEVSKREKKTL 566

Query: 678 MKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQAS 737
           MKFQSWEKQKAL QEE  TE+ KV++LLQ+L+QA+ +QEQ EARWRQEEKAKEEL+MQAS
Sbjct: 567 MKFQSWEKQKALLQEEFATERHKVLELLQDLEQARQIQEQHEARWRQEEKAKEELLMQAS 626

Query: 738 SIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSKIAALRRG 797
           S+RKE E IEASAKSKE MIK KAETNL +YKDDI +LEKEISQLRLKTDSSKIAALRRG
Sbjct: 627 SLRKEIENIEASAKSKEGMIKLKAETNLQKYKDDIQKLEKEISQLRLKTDSSKIAALRRG 686

Query: 798 IDGSYAGRLTDIKSSSVHKESQTPLISEVMKDYHDFSGTGGVKRERECVMCLSEEMSVVF 857
           IDGSYA RL DIK                           GVKRERECVMCLSEEM+VVF
Sbjct: 687 IDGSYASRLADIKR--------------------------GVKRERECVMCLSEEMAVVF 720

Query: 858 LPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRYARS 899
           LPCAHQVVCTTCNELH KQGMKDCPSCR PIQ+RIPVRYARS
Sbjct: 721 LPCAHQVVCTTCNELHAKQGMKDCPSCRGPIQQRIPVRYARS 762

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224107285|ref|XP_002314433.1| predicted protein [Populus trichocarpa] gi|222863473|gb|EEF00604.1| predicted protein [Populus trichocarpa]

 Score = 1046 bits (2704), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 563/901 (62%), Positives = 627/901 (69%), Gaps = 167/901 (18%)

Query: 1   MASLVAKGSSS-SCQVSPLMLVQEKGSRNKRKFRADPPLGEPNKIIPSPQNECPTYEFTA 59
           MAS+VAK +SS S QVSPL  +QEKG+RNKRKF ADPPLG+ +KI               
Sbjct: 1   MASMVAKANSSCSSQVSPLASIQEKGTRNKRKFHADPPLGDSSKI--------------- 45

Query: 60  EKFDITPGHGQTGACDLCGVNQDHSDGLKLDLGLSSAVGSSEVGPS-RPREELEVEEFQD 118
                                            +SSA    +V  +  PR  +E EE  D
Sbjct: 46  ---------------------------------MSSAQNECQVPVTCVPRGGVESEESHD 72

Query: 119 ADWSDLTESQLEELVLSNLDAIFKSAIKKIVACGYMEEVATKAVLRSGLCYGSKDTVSNI 178
           ADWSDLTESQLEELVLSNLDAIFKSAIKKIVACGY EE A KA+LRSG CYG KDTVSNI
Sbjct: 73  ADWSDLTESQLEELVLSNLDAIFKSAIKKIVACGYTEEEARKAILRSGRCYGCKDTVSNI 132

Query: 179 VDNTLAFLRSGQEINSSREHYFQDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICD 238
           VDNTLAFLR+ Q+I  SREH F+DL QL KY+LAELVCVLREVRPFFSTGDAMWCLLICD
Sbjct: 133 VDNTLAFLRNCQDIELSREHCFEDLQQLGKYVLAELVCVLREVRPFFSTGDAMWCLLICD 192

Query: 239 MNVSHACAMDGDPLSSFSGDGASNGNSHITTQLQTKTEAKCSELNLPNPSKPVPSIPCSH 298
           MNVSHACAMDGDP SSF+ DGASNG S ++TQ Q+K E KCSELN PNP           
Sbjct: 193 MNVSHACAMDGDPSSSFAADGASNGASSVSTQPQSKPEPKCSELNFPNP----------- 241

Query: 299 SSQPEAPTVAGIPNITKSKNSHVGSEISEKDGTNSISDNVDKTFSVAGTSQSPALEEKFV 358
                                      S+K+G++S  D +DK+F++AG+SQS  LEEKFV
Sbjct: 242 --------------------------FSDKEGSDSTVDPIDKSFNIAGSSQSTILEEKFV 275

Query: 359 GSRKVHSGSSKREYMLRQKSLHLEKHYRTYGSKGSSRAGKLSGLGGLILDKKLKSVSDTT 418
            ++KVHSG +KR+Y++RQKSLH EK YRTYGSK +SRAGKLSGLG               
Sbjct: 276 ITKKVHSGGNKRDYIVRQKSLHQEKSYRTYGSK-ASRAGKLSGLG--------------- 319

Query: 419 SVNLKNASSKISKAIEVHQDNGSHNLSTSPGTSSPATFHSQGANAISALPKTSMPSTFPP 478
                                         G+S P T  S     +SALP          
Sbjct: 320 ------------------------------GSSIPKTDISSTLAPVSALP---------- 339

Query: 479 GGTPAVLPLANTLPVLSAADTELSLSLPTKSNSTQVPAGINSVAPNCGYAGILSDDTSLE 538
                 LP  NT P  SAADTELSLSLP KSNST + A  ++ AP   YAGI S D SL 
Sbjct: 340 -----ALPAVNTPPASSAADTELSLSLPAKSNSTSIRASCSAKAPKSSYAGI-SYDKSLT 393

Query: 539 HLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEE 598
             VP DK+DE+I+KLIPR +EL NQL EWTEWANQKVMQAARRL KDKAELK+LR EKEE
Sbjct: 394 QWVPHDKKDEMIIKLIPRAQELQNQLQEWTEWANQKVMQAARRLGKDKAELKSLRHEKEE 453

Query: 599 VERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLR 658
           VERLKKEK +LEE+TMKKL+EMENALCKASG+VERANSAVRRLEVEN  LRQEME AKLR
Sbjct: 454 VERLKKEKLVLEESTMKKLTEMENALCKASGKVERANSAVRRLEVENAVLRQEMETAKLR 513

Query: 659 AAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQL 718
           AAESAASCQEVSKREKKT MKFQSWEKQK L QEE  TE+RK ++LLQ+L++AK +QEQ 
Sbjct: 514 AAESAASCQEVSKREKKTLMKFQSWEKQKTLLQEEFATERRKFLELLQDLERAKQIQEQH 573

Query: 719 EARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKE 778
           EARWRQEEK KEE++MQAS+ RKERE IEASAKSKEDMIK KAETNL +YKDDI +LEKE
Sbjct: 574 EARWRQEEKEKEEVLMQASATRKERENIEASAKSKEDMIKLKAETNLQKYKDDIQKLEKE 633

Query: 779 ISQLRLKTDSSKIAALRRGIDGSYAGRLTDIKSSSVHKESQTPLISEVMKDYHDFSGTGG 838
           ISQLRLKTDSSKIAALRRGIDGSYA RL DI                  K++HD+   GG
Sbjct: 634 ISQLRLKTDSSKIAALRRGIDGSYASRLADI------------------KNFHDYFEMGG 675

Query: 839 VKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRYAR 898
           VKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCR PIQ RIPVRYAR
Sbjct: 676 VKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRGPIQLRIPVRYAR 735

Query: 899 S 899
           S
Sbjct: 736 S 736

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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	899
TAIR|locus:2062374	738	AT2G35330 [Arabidopsis thalian	0.432	0.527	0.378	9.8e-97
TAIR|locus:2139310	814	AT4G03000 [Arabidopsis thalian	0.459	0.507	0.436	4.9e-91
TAIR|locus:2033765	711	AT1G32530 [Arabidopsis thalian	0.392	0.496	0.344	3.2e-82
WB|WBGene00019649	400	K11D12.9 [Caenorhabditis elega	0.202	0.455	0.246	4.7e-09
UNIPROTKB|D4A8U7	1239	Dctn1 "Dynactin subunit 1" [Ra	0.416	0.301	0.233	5.4e-07
RGD|1564403	727	Lrsam1 "leucine rich repeat an	0.054	0.067	0.370	2.8e-06
ZFIN|ZDB-GENE-070117-2205	1226	dctn1a "dynactin 1a" [Danio re	0.417	0.305	0.204	3e-06
ZFIN|ZDB-GENE-060526-97	721	lrsam1 "leucine rich repeat an	0.051	0.063	0.392	3.1e-06
UNIPROTKB|F1MIC9	1239	DCTN1 "Uncharacterized protein	0.362	0.263	0.242	3.9e-06
UNIPROTKB|Q08E63	724	LRSAM1 "Uncharacterized protei	0.054	0.067	0.351	5.5e-06

TAIR|locus:2062374 AT2G35330 [Arabidopsis thaliana (taxid:3702)]

 Score = 664 (238.8 bits), Expect = 9.8e-97, Sum P(2) = 9.8e-97
 Identities = 154/407 (37%), Positives = 235/407 (57%)

Query:   499 TELSLSLP-TKSNSTQVPAGINSVAPNCGYAGILSD--DTSLEHLV---PQDKRDEIILK 552
             T LS +   T S   + P    S    C ++ +L    D +L+  V   P++ +D+ ++ 
Sbjct:   344 TSLSCTAAATHSEKCEQPHVFGS--EEC-FSSVLEKFRDLNLDDNVDSAPEELKDDALIG 400

Query:   553 LIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTXXXXXXXXXXXXXXXXILEEN 612
             L+ +V++L  QL E  +WA +K MQAA+++S + +ELK+                  E++
Sbjct:   401 LLQQVQDLKKQLKERKDWAQKKAMQAAQKVSDELSELKSLRSEREEIQRVKKGKQTREDS 460

Query:   613 TMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMXXXXXXXXXXXXXCQEVSKR 672
             T+KKLSEMENAL KASGQV++AN+ VR LE E+  +R EM             C E SK+
Sbjct:   461 TLKKLSEMENALRKASGQVDKANAVVRALENESAEIRAEMEASKLSASESLTACMEASKK 520

Query:   673 EKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEEL 732
             EKK   K  +WEKQK   Q+E+  EK K+  L + L Q    +++ EA+WRQE+KAKE++
Sbjct:   521 EKKCLKKLLAWEKQKMKLQDEITAEKEKIKALNRALAQITQEEKEYEAKWRQEQKAKEQV 580

Query:   733 VMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSKIA 792
             + Q    ++ +E IEAS K K + ++ K E +  R+KDD+ RLE+E+S  RL   SS  +
Sbjct:   581 LAQVEEEQRSKEAIEASNKRKVESLRLKIEIDFQRHKDDLQRLEQELS--RLNKASSTDS 638

Query:   793 ALRRGIDGSYAGRLTDIKSSSVHKESQTPLISEVMKDYHDFSGTGGVKRERECVMCLSEE 852
             +L+   + S+    T +KS     E+ + L+ E+ +   D S       +REC++C+ +E
Sbjct:   639 SLQSN-NTSH----TKVKSDKSKGETMSKLLEELNR--LDGSYEKEANYDRECLICMKDE 691

Query:   853 MSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRYARS 899
             +SVVFLPCAHQVVC +C++     G   CP CR+P+Q+RI V  A S
Sbjct:   692 VSVVFLPCAHQVVCASCSDSFMGSGKATCPCCRAPVQQRIRVFGASS 738

GO:0005737 "cytoplasm" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2139310 AT4G03000 [Arabidopsis thaliana (taxid:3702)]

 Score = 866 (309.9 bits), Expect = 4.9e-91, Sum P(2) = 4.9e-91
 Identities = 183/419 (43%), Positives = 260/419 (62%)

Query:   481 TPAVLPLANTLPVLSAADTELSLSLPTKSNSTQVPAGINSVAPNCGYAGILSDDTSLEHL 540
             +PA L +   +  L A +    ++   KS S        S  P   Y   +  D +L   
Sbjct:   400 SPA-LDVKEHVTALPANNAPAPVASEKKSGSEPEEKPSVSTKPAPDYYAAIPYDATLGIY 458

Query:   541 VPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTXXXXXXXXX 600
             +P++KRDE+ILKL+PR+++L  +L +WT+WANQKV QA  RL KD+ ELK          
Sbjct:   459 IPRNKRDELILKLVPRMKDLQKELQDWTDWANQKVKQATVRLLKDQPELKALRKEKEEAE 518

Query:   601 XXXXXXXILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMXXXXXXXX 660
                    +LEENT+K+ SEME AL  A+ Q+ER N+ +RRLE+E + L++E         
Sbjct:   519 EFRKEKQLLEENTIKRRSEMELALNNATNQLERTNNTIRRLELEQSLLKREREAANIRAS 578

Query:   661 XXXXXCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEA 720
                  C+E  +R ++     QSWE QK L QEEL +++ KV  L QE+ +AK  Q Q+EA
Sbjct:   579 ESAESCREAKERVQRLLKNSQSWEGQKNLLQEELKSQRDKVAGLQQEVAKAKTRQNQIEA 638

Query:   721 RWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEIS 780
              W+QE+ A  +L  QA++++KER ++E   K++E+ IK+KAE ++  Y ++I RL+ EIS
Sbjct:   639 TWKQEKSATGKLTAQAAALKKERGKLEELGKAEEERIKTKAENDVKYYIENIKRLDTEIS 698

Query:   781 QLRLKTDSSKIAALRRGIDGSYAGRLTDIKSSSVHKESQTPLISEVMKDYHDFSGTGG-V 839
             +L+LK+DS KIAAL++GIDG+  G     KS   H  +         K + +  G    +
Sbjct:   699 KLKLKSDSLKIAALKKGIDGNNDGN----KSGMNHTTNTKANSMASAKVWENNQGAESKI 754

Query:   840 KRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRYAR 898
             KRERECVMCLSEEMSV+FLPCAHQV+C+ CN+LHEK+ M+DCPSCR+ IQRRI  R+AR
Sbjct:   755 KRERECVMCLSEEMSVIFLPCAHQVLCSKCNQLHEKEAMEDCPSCRAKIQRRIQARFAR 813

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2033765 AT1G32530 [Arabidopsis thaliana (taxid:3702)]

 Score = 552 (199.4 bits), Expect = 3.2e-82, Sum P(3) = 3.2e-82
 Identities = 129/375 (34%), Positives = 204/375 (54%)

Query:   531 LSDDTSLEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELK 590
             L+ D +LE +   DK D +I+ L+ +V++   ++ E  EWA +  MQAA+++S++ AELK
Sbjct:   353 LNLDDNLESVGVDDK-DCVIVDLLHQVKDFEKKVKERKEWAQKNAMQAAQKVSEELAELK 411

Query:   591 TXXXXXXXXXXXXXXXXILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQ 650
             T                 +EE+T K+ ++ E  L KA  Q +RAN  VR+LE +N  +R 
Sbjct:   412 TLSSEREGIQLLKKGKQAVEESTAKRFTDKEIELRKACSQNDRANVIVRKLENQNAEIRA 471

Query:   651 EMXXXXXXXXXXXXXCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQ 710
             E              C E SK+EKK   K  +WEKQ    Q+E+  EK K+  L + L Q
Sbjct:   472 EREGSKLSASESLKACMEASKKEKKCLKKLVAWEKQILKLQDEITAEKEKIKALYKTLAQ 531

Query:   711 AKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKD 770
                 ++++EA+WRQE+KAKEE + Q    ++ +E  E   K K + ++ K E +  R+KD
Sbjct:   532 ITEYEKEIEAKWRQEQKAKEEALAQMEEEQRSKEAAEGHNKRKLETLRLKIELDFQRHKD 591

Query:   771 DIHRLEKEISQLRLKTDSSKIAALRRGIDGSYAGRLTDIKSSSVHKESQTPLISEVMKDY 830
             D  RLE+E+ +L+  +DS          D S+        ++   K+SQ   I++++++ 
Sbjct:   592 DHQRLEQELGRLKASSDS----------DSSHISN-----NAWKPKKSQGENIAKLLEEI 636

Query:   831 HDFSGT--GGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNE---LHEKQGMK-DCPSC 884
                 G+       +REC++C+ +E+SVVFLPCAHQVVC +C++        G K  CP C
Sbjct:   637 DKLEGSYDNEANYDRECIICMKDEVSVVFLPCAHQVVCGSCSDSFFASNNGGSKVTCPCC 696

Query:   885 RSPIQRRIPVRYARS 899
             R  +Q+RI +  A S
Sbjct:   697 RGLVQQRIRIFGATS 711

GO:0005737 "cytoplasm" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

GO:0005515 "protein binding" evidence=IPI

GO:0006486 "protein glycosylation" evidence=RCA

GO:0006914 "autophagy" evidence=RCA

GO:0009610 "response to symbiotic fungus" evidence=RCA

WB|WBGene00019649 K11D12.9 [Caenorhabditis elegans (taxid:6239)]

 Score = 167 (63.8 bits), Expect = 4.7e-09, P = 4.7e-09
 Identities = 50/203 (24%), Positives = 98/203 (48%)

Query:   706 QELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAE-TN 764
             QE+   K L E  +  + +E+  K+E ++   +++K++  +E   + K +++  +   T 
Sbjct:   203 QEIHDQKELSEHRKKIYSEEKARKDEEIL---NLQKQKTDVEMELERKSNLLDEQTNVTK 259

Query:   765 LMRYKDD-------IHRLEKEISQL-RLKTDS----SKIAALRRGIDGSYAGRLTDIKSS 812
              M  K         +  L K+ SQL  L T+     + +  L + +  S+    T++  S
Sbjct:   260 RMEEKSYQLKPLVLLDELTKKHSQLVDLSTEFLPNINAVKMLYKELFESFPQLETNVHES 319

Query:   813 SVHKESQTPLISEVMKDYH-DFSGTGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNE 871
              +  E +   + E ++  + DF      K   EC +CL+ + S+VF+PC H + C+ C  
Sbjct:   320 KLSMERRVEEVEEQLRSRNRDFQRLQE-KLVAECCICLATKPSIVFMPCRHLITCSGC-- 376

Query:   872 LHEKQGMKDCPSCRSPIQRRIPV 894
              ++    ++CP+CRS I+  I V
Sbjct:   377 -YDASDFRECPTCRSTIENSITV 398

GO:0008270 "zinc ion binding" evidence=IEA

GO:0008340 "determination of adult lifespan" evidence=IMP

UNIPROTKB|D4A8U7 Dctn1 "Dynactin subunit 1" [Rattus norvegicus (taxid:10116)]

 Score = 155 (59.6 bits), Expect = 5.4e-07, P = 5.4e-07
 Identities = 99/424 (23%), Positives = 181/424 (42%)

Query:   433 IEVHQDNGSHNLSTSPGTSSPATFHSQGANAISALPKTSMPSTFPPGGTPAVLPLANTLP 492
             I+V +D        +P +S+      +GA+A +   KTS   T  P  T    P ++  P
Sbjct:    77 IQVFEDGADTTSPETPDSSASKILKREGADAAA---KTSKLPT-RPASTGVAGPSSSLGP 132

Query:   493 VLSAADTELSLSLPTKSNSTQVPAGI--NSVAPNCGYAGIL-SDDTSLEHLVPQ-----D 544
               SA+  ELS S P+    T + A I       + G A  L S     E L  Q     +
Sbjct:   133 SGSASAGELSSSEPSTPAQTPLAAPIIPTPALTSPGAAPPLPSPSKEEEGLRAQVRDLEE 192

Query:   545 KRDEIILKLIP---RVREL--HN-QLHEWTEWANQKVMQAA---RRLSKDKAELKTXXXX 595
             K + + LK      +++EL  H  QL +  EW ++   Q A   RRL + + E K     
Sbjct:   193 KLETLRLKRSEDKAKLKELEKHKIQLEQVQEWKSKMQEQQADLQRRLKEARKEAKEALEA 252

Query:   596 XXXXXXXXXXXXILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMXXX 655
                           +E  M+++++  +A+  A+   E A      L+ E  AL++ +   
Sbjct:   253 --------------KERYMEEMADTADAIEMATLDKEMAEERAESLQQEVEALKERVDEL 298

Query:   656 XXXXXXXXXXCQEVSKREKKTQMKFQSWEKQKALFQEELV-------TEKRKVVQLLQEL 708
                        +E       +  + +  E+Q A  ++ LV       +EK++ V+L Q+L
Sbjct:   299 TTDLEILKAEIEEKGSDGAASSYQLKQLEEQNARLKDALVRMRDLSSSEKQEHVKL-QKL 357

Query:   709 DQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRY 768
              + K   ++LE   +Q E+ +EEL    S+I + +EQ++A A   E+M++   + NL   
Sbjct:   358 MEKK--NQELEVVRQQRERLQEELSQAESTIDELKEQVDA-ALGAEEMVEMLTDRNL-NL 413

Query:   769 KDDIHRLEKEISQLRLKTD-SSKIAALRRGIDGSYAGRLTDIKSSSVHK-ESQTPLISEV 826
             ++ +  L + +  L    + + ++    R  +     +L D+  + V + + +     E 
Sbjct:   414 EEKVRELRETVGDLEAMNEMNDELQENARETELELREQL-DMAGARVREAQKRVEAAQET 472

Query:   827 MKDY 830
             + DY
Sbjct:   473 VADY 476

GO:0000776 "kinetochore" evidence=IEA

GO:0000922 "spindle pole" evidence=IEA

GO:0005813 "centrosome" evidence=IEA

GO:0005874 "microtubule" evidence=IEA

GO:0031252 "cell leading edge" evidence=IEA

RGD|1564403 Lrsam1 "leucine rich repeat and sterile alpha motif containing 1" [Rattus norvegicus (taxid:10116)]

 Score = 106 (42.4 bits), Expect = 2.8e-06, Sum P(2) = 2.8e-06
 Identities = 20/54 (37%), Positives = 29/54 (53%)

Query:   844 ECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRYA 897
             ECV+CL  E  +VFL C H   C  C      Q ++ CP CR  I +R+ + ++
Sbjct:   678 ECVVCLEREAQMVFLTCGHVCCCQQCC-----QPLRTCPLCRQEISQRLRIYHS 726

GO:0000209 "protein polyubiquitination" evidence=ISO

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0008270 "zinc ion binding" evidence=IEA

GO:0030163 "protein catabolic process" evidence=ISO

GO:0044425 "membrane part" evidence=ISO

GO:0045806 "negative regulation of endocytosis" evidence=ISO

GO:0046755 "non-lytic virus budding" evidence=ISO

GO:0051865 "protein autoubiquitination" evidence=ISO

GO:0070086 "ubiquitin-dependent endocytosis" evidence=ISO

ZFIN|ZDB-GENE-070117-2205 dctn1a "dynactin 1a" [Danio rerio (taxid:7955)]

 Score = 148 (57.2 bits), Expect = 3.0e-06, P = 3.0e-06
 Identities = 85/415 (20%), Positives = 171/415 (41%)

Query:   433 IEVHQDNGSHNLSTSPGTSSPATFHSQGANAISALPKTSM----PSTFPPGGTPAVLPLA 488
             I++  D GS   +TSP T             I   PKT+     P+T+      + L  +
Sbjct:    77 IQLMDDGGSS--ATSPETPDSGVAKLL-KKEIQETPKTAKQQLKPTTYFNSFGGSALSES 133

Query:   489 NTLPVLSAADTELSLSLPT--KSNSTQVPAGINSVAPNCGYAGILSD-DTSLEHLVPQDK 545
                   S++ T++SL+ P   + ++   PA              L D +  LE L  +  
Sbjct:   134 VLAESESSSSTQMSLAAPVVPQPSTASTPAPATPSKEEESLRAQLKDLEEKLETLRMKRS 193

Query:   546 RDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTXXXXXXXXXXXXXX 605
              D+  LK + + +    QL EW      K+ +    L K   E K               
Sbjct:   194 EDKAKLKEMEKYKIQLEQLQEW----RSKMQEQQNDLQKQLKEAKKEAREALEA------ 243

Query:   606 XXILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMXXXXXXXXXXXXX 665
                 ++  M+++++  +A+  A+   E A      L+ E  +L++++             
Sbjct:   244 ----KDRYMEEMADTADAIEMATLDKEMAEERAESLQQETESLKEKLEELTMDMEILKHE 299

Query:   666 CQEVSKREKKTQMKFQSWEKQKALFQEELV--------TEKRKVVQLLQELDQAKALQEQ 717
              +E       +    +  E+Q A  +E LV        +EK++ V+L +++++  +   +
Sbjct:   300 IEEKGSDGAASSYHVKQLEEQNARLKEALVRWMRDLSSSEKQEHVKLQKQMEKKNS---E 356

Query:   718 LEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEK 777
             LE    Q+EK +EE+ +   +I + +EQ++A A   E+M+++  E NL   ++ +  L +
Sbjct:   357 LETLRSQKEKLQEEMKLAEDTIDELKEQVDA-ALGAEEMVETLTERNL-DLEEKVRELRE 414

Query:   778 EISQLR-LKTDSSKIAALRRGIDGSYAGRLTDIKSSSVHK-ESQTPLISEVMKDY 830
              +S L  +   + ++    R  +     +L D+  + V + + +     E + DY
Sbjct:   415 TVSDLESINEMNDELQENARETELELREQL-DLAGARVREAQKRVEAAQETLADY 468

GO:0045176 "apical protein localization" evidence=IMP

GO:0040023 "establishment of nucleus localization" evidence=IMP

GO:0060042 "retina morphogenesis in camera-type eye" evidence=IMP

GO:0048663 "neuron fate commitment" evidence=IMP

GO:0010842 "retina layer formation" evidence=IGI;IMP

GO:0060219 "camera-type eye photoreceptor cell differentiation" evidence=IGI

ZFIN|ZDB-GENE-060526-97 lrsam1 "leucine rich repeat and sterile alpha motif containing 1" [Danio rerio (taxid:7955)]

 Score = 120 (47.3 bits), Expect = 3.1e-06, Sum P(2) = 3.1e-06
 Identities = 20/51 (39%), Positives = 30/51 (58%)

Query:   844 ECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPV 894
             ECV+C+  E  V+FLPC H   C TC++      ++ CP CR  I +R+ +
Sbjct:   673 ECVVCMELESQVIFLPCGHVCCCQTCSD-----ALQSCPLCRGSISQRVRI 718

GO:0008270 "zinc ion binding" evidence=IEA

GO:0048666 "neuron development" evidence=IMP

UNIPROTKB|F1MIC9 DCTN1 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 147 (56.8 bits), Expect = 3.9e-06, P = 3.9e-06
 Identities = 91/375 (24%), Positives = 164/375 (43%)

Query:   433 IEVHQDNGSHNLSTSPGTSSPATFHSQGANAISALPKTSMPSTFPPGGTPAVLPLANTL- 491
             I+V +D        +P +S+      +GA++    PKTS   T P   +  V   + +L 
Sbjct:    77 IQVFEDGADTTSPETPDSSASKVLRREGADSN---PKTSKLPTRP--ASTGVAGASGSLG 131

Query:   492 PVLSAADTELSLSLPTKSNSTQVPAGI--NSVAPNCGYAGIL-SDDTSLEHLVPQ----- 543
             P  SA+  ELS S P+    T + A I       + G A  L S     E L  Q     
Sbjct:   132 PSGSASAGELSSSEPSTPAQTPLAAPIIPTPALTSPGAALPLPSPSKEEEGLRAQVRDLE 191

Query:   544 DKRDEIILKLIP---RVREL--HN-QLHEWTEWANQKVMQAA---RRLSKDKAELKTXXX 594
             +K + + LK      +++EL  H  QL +  EW ++   Q A   RRL + + E K    
Sbjct:   192 EKLETLRLKRAEDKAKLKELEKHKIQLEQVQEWKSKMQEQQADLQRRLKEARKEAKEALE 251

Query:   595 XXXXXXXXXXXXXILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMXX 654
                            +E  M+++++  +A+  A+   E A      L+ E   LR+ +  
Sbjct:   252 A--------------KERYMEEMADTADAIEMATLDKEMAEERAESLQQEAEVLRERVEE 297

Query:   655 XXXXXXXXXXXCQEVSKREKKTQMKFQSWEKQKALFQEELV-------TEKRKVVQLLQE 707
                         +E       +  + +  E+Q A  ++ LV       +EK++ V+L Q+
Sbjct:   298 LTTDLEILKAEIEEKGSDGAASSYQLKQLEEQNARLKDALVRMRDLSSSEKQEHVKL-QK 356

Query:   708 LDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMR 767
             L + K   ++LE   +Q E+ +EEL     +I + +EQ++A A   E+M+++  + NL  
Sbjct:   357 LMEKK--NQELEVVRQQRERLQEELSQAERTIDELKEQVDA-ALGAEEMVETLTDRNL-D 412

Query:   768 YKDDIHRLEKEISQL 782
              ++ + +L++ +  L
Sbjct:   413 LEEKVRKLKETVGDL 427

GO:0031252 "cell leading edge" evidence=IEA

GO:0005874 "microtubule" evidence=IEA

GO:0005813 "centrosome" evidence=IEA

GO:0000922 "spindle pole" evidence=IEA

GO:0000776 "kinetochore" evidence=IEA

UNIPROTKB|Q08E63 LRSAM1 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 107 (42.7 bits), Expect = 5.5e-06, Sum P(2) = 5.5e-06
 Identities = 19/54 (35%), Positives = 30/54 (55%)

Query:   844 ECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRYA 897
             ECV+CL  E  ++FL C H   C  C+     Q ++ CP CR  I +R+ + ++
Sbjct:   675 ECVVCLEREAQMIFLNCGHVCCCQPCS-----QPLRTCPLCRQDITQRLRIYHS 723

GO:0005737 "cytoplasm" evidence=ISS

GO:0046755 "non-lytic virus budding" evidence=ISS

GO:0044425 "membrane part" evidence=ISS

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0070086 "ubiquitin-dependent endocytosis" evidence=ISS

GO:0051865 "protein autoubiquitination" evidence=ISS

GO:0045806 "negative regulation of endocytosis" evidence=ISS

GO:0030163 "protein catabolic process" evidence=IEA

GO:0000209 "protein polyubiquitination" evidence=IEA

GO:0008270 "zinc ion 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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q0WPJ7	RF298_ARATH	6, ., 3, ., 2, ., -	0.4022	0.8731	0.9643	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00019866001 SubName- Full=Chromosome chr5 scaffold_2, whole genome shotgun sequence; (797 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	899
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	3e-15
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-14
pfam13920	49	pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RI	2e-13
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-12
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	4e-12
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	2e-11
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	5e-09
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	9e-09
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-08
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-08
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	5e-08
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-07
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	2e-07
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	5e-07
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	8e-07
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-06
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	2e-06
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	2e-06
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	2e-06
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	2e-06
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	2e-06
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	2e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-06
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	3e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	5e-06
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	9e-06
pfam01576	859	pfam01576, Myosin_tail_1, Myosin tail	1e-05
PRK12704	520	PRK12704, PRK12704, phosphodiesterase; Provisional	2e-05
COG1579	239	COG1579, COG1579, Zn-ribbon protein, possibly nucl	2e-05
PRK12704	520	PRK12704, PRK12704, phosphodiesterase; Provisional	3e-05
COG1579	239	COG1579, COG1579, Zn-ribbon protein, possibly nucl	3e-05
TIGR01843	423	TIGR01843, type_I_hlyD, type I secretion membrane	3e-05
pfam12128	1198	pfam12128, DUF3584, Protein of unknown function (D	3e-05
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	4e-05
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	4e-05
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	4e-05
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	4e-05
PRK04863	1486	PRK04863, mukB, cell division protein MukB; Provis	4e-05
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	5e-05
COG4942	420	COG4942, COG4942, Membrane-bound metallopeptidase	5e-05
PRK00409	782	PRK00409, PRK00409, recombination and DNA strand e	6e-05
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	6e-05
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	8e-05
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	8e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	9e-05
pfam01576	859	pfam01576, Myosin_tail_1, Myosin tail	9e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-04
TIGR02680	1353	TIGR02680, TIGR02680, TIGR02680 family protein	1e-04
COG4487	438	COG4487, COG4487, Uncharacterized protein conserve	1e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	2e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-04
COG4942	420	COG4942, COG4942, Membrane-bound metallopeptidase	2e-04
pfam13514	1118	pfam13514, AAA_27, AAA domain	2e-04
pfam05483	787	pfam05483, SCP-1, Synaptonemal complex protein 1 (	2e-04
pfam09726	680	pfam09726, Macoilin, Transmembrane protein	3e-04
pfam13868	349	pfam13868, Trichoplein, Tumour suppressor, Mitosta	3e-04
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	4e-04
COG4942	420	COG4942, COG4942, Membrane-bound metallopeptidase	4e-04
TIGR00618	1042	TIGR00618, sbcc, exonuclease SbcC	4e-04
pfam09731	493	pfam09731, Mitofilin, Mitochondrial inner membrane	4e-04
pfam13904	261	pfam13904, DUF4207, Domain of unknown function (DU	5e-04
COG1340	294	COG1340, COG1340, Uncharacterized archaeal coiled-	6e-04
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	8e-04
PRK04863	1486	PRK04863, mukB, cell division protein MukB; Provis	0.001
pfam05701	484	pfam05701, DUF827, Plant protein of unknown functi	0.001
COG4372	499	COG4372, COG4372, Uncharacterized protein conserve	0.001
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.002
pfam13514	1118	pfam13514, AAA_27, AAA domain	0.002
pfam09726	680	pfam09726, Macoilin, Transmembrane protein	0.002
COG3096	1480	COG3096, MukB, Uncharacterized protein involved in	0.002
pfam00769	244	pfam00769, ERM, Ezrin/radixin/moesin family	0.002
COG3064	387	COG3064, TolA, Membrane protein involved in colici	0.002
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.003
pfam01576	859	pfam01576, Myosin_tail_1, Myosin tail	0.003
COG4372	499	COG4372, COG4372, Uncharacterized protein conserve	0.003
pfam12128	1198	pfam12128, DUF3584, Protein of unknown function (D	0.004
COG3064	387	COG3064, TolA, Membrane protein involved in colici	0.004
COG1293	564	COG1293, COG1293, Predicted RNA-binding protein ho	0.004
TIGR00606	1311	TIGR00606, rad50, rad50	0.004
pfam05262	489	pfam05262, Borrelia_P83, Borrelia P83/100 protein	0.004

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

 Score = 80.1 bits (198), Expect = 3e-15
 Identities = 51/246 (20%), Positives = 111/246 (45%), Gaps = 11/246 (4%)

Query: 556 RVRELHNQL--HEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENT 613
           R +EL  +L   E      +   +    L + + ELK   +E EE+    +E +   E  
Sbjct: 214 RYKELKAELRELELALLVLRLE-ELREELEELQEELKEAEEELEELTAELQELEEKLEEL 272

Query: 614 MKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKRE 673
             ++SE+E  + +   ++    + + RLE +   LR+ +   + +  E  A  +E+  + 
Sbjct: 273 RLEVSELEEEIEELQKELYALANEISRLEQQKQILRERLANLERQLEELEAQLEELESKL 332

Query: 674 KKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELV 733
            +   +    E++    +EEL + + ++ +L  EL++ ++  E+LE +         +L 
Sbjct: 333 DELAEELAELEEKLEELKEELESLEAELEELEAELEELESRLEELEEQLETLRSKVAQLE 392

Query: 734 MQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSKIAA 793
           +Q +S+  E E++EA  +  ED           R + +I  L K++ +  LK   +++  
Sbjct: 393 LQIASLNNEIERLEARLERLED--------RRERLQQEIEELLKKLEEAELKELQAELEE 444

Query: 794 LRRGID 799
           L   ++
Sbjct: 445 LEEELE 450

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 = 78.2 bits (193), Expect = 1e-14
 Identities = 53/236 (22%), Positives = 106/236 (44%), Gaps = 6/236 (2%)

Query: 548 EIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQ 607
           E +   +  + E   +L E  E   +++ +    L   +  L  L++E EE+E  ++  Q
Sbjct: 733 EQLQSRLEELEEELEELEEELEELQERLEELEEELESLEEALAKLKEEIEELEEKRQALQ 792

Query: 608 ILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQ 667
              E   ++L E E  L     ++E       RLE E   L +E+E  + +  E     +
Sbjct: 793 EELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELE 852

Query: 668 EVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEK 727
           E+ K  ++ + + +  E +K   ++EL   + +  +L +EL + ++   +L+    + EK
Sbjct: 853 ELEKELEELKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAELK---EEIEK 909

Query: 728 AKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLR 783
            +E L    + + +   ++    +  E+  +   ET L R   +I RLE+EI  L 
Sbjct: 910 LRERLEELEAKLERLEVELPELEEELEEEYEDTLETELER---EIERLEEEIEALG 962

Length = 1163

>gnl|CDD|222454 pfam13920, zf-C3HC4_3, Zinc finger, C3HC4 type (RING finger)

 Score = 65.1 bits (159), Expect = 2e-13
 Identities = 20/51 (39%), Positives = 27/51 (52%), Gaps = 2/51 (3%)

Query: 841 RERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRR 891
            +  CV+CL    +VVFLPC H  +C  C +    +  K CP CR PI+  
Sbjct: 1   EDDLCVICLERPRNVVFLPCGHLCLCEECAKRLRSK--KKCPICRQPIESV 49

Length = 49

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

 Score = 71.3 bits (175), Expect = 2e-12
 Identities = 49/217 (22%), Positives = 101/217 (46%), Gaps = 12/217 (5%)

Query: 580 RRLSKDKAELK-TLRQEKEEVERLKKEKQILE---ENTMKKLSEMENALCKASGQVERAN 635
           R L     EL+  L + + ++E LK+E   LE   E    +L E+E  L +   ++E   
Sbjct: 698 RSLEDLLEELRRQLEELERQLEELKRELAALEEELEQLQSRLEELEEELEELEEELEELQ 757

Query: 636 SAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELV 695
             +  LE E  +L + +   K    E     Q + +  ++ + + +  E++    + EL 
Sbjct: 758 ERLEELEEELESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELE 817

Query: 696 TEKRKVVQLLQEL-------DQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEA 748
           + +++  +L QE+       ++ +   ++LE    + EK  EEL  +   +  E+E++E 
Sbjct: 818 SLEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELED 877

Query: 749 SAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLK 785
             K  E+  + + E  L   + ++  L++EI +LR +
Sbjct: 878 ELKELEEEKE-ELEEELRELESELAELKEEIEKLRER 913

Length = 1163

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

 Score = 70.1 bits (172), Expect = 4e-12
 Identities = 50/240 (20%), Positives = 105/240 (43%), Gaps = 14/240 (5%)

Query: 571 ANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQ 630
             +K+ +   ++++ +  L  LR+E EE+E   ++ +   E   +++S +   L +   +
Sbjct: 682 LEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISALRKDLARLEAE 741

Query: 631 VERANSAVRRLEVENTALRQEMEAAKLR-------AAESAASCQEVSKREKKTQMKFQSW 683
           VE+    + +L  E T L  E+E  + R        AE+ A  +E+  + ++ + + ++ 
Sbjct: 742 VEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKAL 801

Query: 684 EKQKALFQEELVTEKRKVVQLLQELD----QAKALQEQLEARWRQEEKAKEELVMQASSI 739
            +     + EL     +   L + L+    +  A + +LE    Q E+  E++   A+ I
Sbjct: 802 REALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQIEELSEDIESLAAEI 861

Query: 740 RKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSKIAALRRGID 799
            +  E IE      E ++  +A          + R E E     L+   SK + LRR ++
Sbjct: 862 EELEELIEELESELEALLNERASLEEAL---ALLRSELEELSEELRELESKRSELRRELE 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. 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 = 68.2 bits (167), Expect = 2e-11
 Identities = 53/253 (20%), Positives = 105/253 (41%), Gaps = 20/253 (7%)

Query: 543 QDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELK--------TLRQ 594
            +K  E I +L  R+ E+   L E  +       +   R+ +   EL+        ++ +
Sbjct: 253 LEKLTEEISELEKRLEEIEQLLEELNKKIKDLGEEEQLRVKEKIGELEAEIASLERSIAE 312

Query: 595 EKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEA 654
           ++ E+E  ++    LE    K L+E+E        ++E       +L  E   L++E+E 
Sbjct: 313 KERELEDAEERLAKLEAEIDKLLAEIEEL----EREIEEERKRRDKLTEEYAELKEELED 368

Query: 655 AKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKAL 714
            +          +EV K   +T+ + + + ++    + E+   KR++ +L +EL +    
Sbjct: 369 LRAEL-------EEVDKEFAETRDELKDYREKLEKLKREINELKRELDRLQEELQRLSEE 421

Query: 715 QEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHR 774
              L A     E    EL  +      E ++ E   +       SK E  L   K++  R
Sbjct: 422 LADLNAAIAGIEAKINELEEEKEDKALEIKKQEWKLEQLAAD-LSKYEQELYDLKEEYDR 480

Query: 775 LEKEISQLRLKTD 787
           +EKE+S+L+ +  
Sbjct: 481 VEKELSKLQRELA 493

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 = 60.1 bits (146), Expect = 5e-09
 Identities = 52/283 (18%), Positives = 115/283 (40%), Gaps = 40/283 (14%)

Query: 556 RVRELHNQLHEWTEWANQKVMQAARR-LSKDKAELKTLRQEKEEVERLKKEK-------- 606
           R + L  +  E+  +   K  +A  R     + +L +L +E E++     E         
Sbjct: 212 RYQALLKEKREYEGYELLKEKEALERQKEAIERQLASLEEELEKLTEEISELEKRLEEIE 271

Query: 607 QILEENT--MKKLSEMENALCKA-----SGQVERANSAVR-------------------- 639
           Q+LEE    +K L E E    K        ++     ++                     
Sbjct: 272 QLLEELNKKIKDLGEEEQLRVKEKIGELEAEIASLERSIAEKERELEDAEERLAKLEAEI 331

Query: 640 -RLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEK 698
            +L  E   L +E+E  + R  +      E+ +  +  + + +  +K+ A  ++EL   +
Sbjct: 332 DKLLAEIEELEREIEEERKRRDKLTEEYAELKEELEDLRAELEEVDKEFAETRDELKDYR 391

Query: 699 RKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIK 758
            K+ +L +E+++ K   ++L+   ++  +   +L    + I  +  ++E   + K   IK
Sbjct: 392 EKLEKLKREINELKRELDRLQEELQRLSEELADLNAAIAGIEAKINELEEEKEDKALEIK 451

Query: 759 SKAETNLMRYKDDIHRLEKEISQLRLKTD--SSKIAALRRGID 799
            K E  L +   D+ + E+E+  L+ + D    +++ L+R + 
Sbjct: 452 -KQEWKLEQLAADLSKYEQELYDLKEEYDRVEKELSKLQRELA 493

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 = 59.3 bits (144), Expect = 9e-09
 Identities = 42/226 (18%), Positives = 90/226 (39%), Gaps = 8/226 (3%)

Query: 574 KVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVER 633
           ++ +   RL   K EL +L+ E   +E    E      +  +K+ E+E  + +   + E+
Sbjct: 675 ELQRLRERLEGLKRELSSLQSELRRIENRLDELSQELSDASRKIGEIEKEIEQLEQEEEK 734

Query: 634 ANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEE 693
               +  LE + ++L QE+E  K    E  A  +E    E   +++    E    L    
Sbjct: 735 LKERLEELEEDLSSLEQEIENVKSELKELEARIEE--LEEDLHKLE----EALNDLEARL 788

Query: 694 LVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSK 753
             +   ++   L +L++  +  E       Q+               +E ++     K +
Sbjct: 789 SHSRIPEIQAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQ 848

Query: 754 EDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSKIAALRRGID 799
              I+ + E NL   K+++    +E+ +  L+   S++  L++  D
Sbjct: 849 IKSIEKEIE-NLNGKKEELEEELEEL-EAALRDLESRLGDLKKERD 892

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

 Score = 57.8 bits (140), Expect = 2e-08
 Identities = 46/266 (17%), Positives = 94/266 (35%), Gaps = 32/266 (12%)

Query: 540 LVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEV 599
           +    K    +   + ++ E   QL +       ++ +   RL + + EL     E EE+
Sbjct: 728 ISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEEL 787

Query: 600 E--------RLKKEKQILEE-------------NTMKKLSEMENALCKASGQVERANSAV 638
           E         LK  ++ L+E             N  ++L  +E  +     ++E     +
Sbjct: 788 EAQIEQLKEELKALREALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQI 847

Query: 639 RRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEK 698
             L  +  +L  E+E  +    E  +  + +       +        +     EEL   +
Sbjct: 848 EELSEDIESLAAEIEELEELIEELESELEALLNERASLEEALALLRSELEELSEELRELE 907

Query: 699 RKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIK 758
            K  +L +EL++ +    QLE R    E  +  +      +  E   +       E+   
Sbjct: 908 SKRSELRRELEELREKLAQLELRL---EGLEVRIDNLQERLS-EEYSLTL-----EEAEA 958

Query: 759 --SKAETNLMRYKDDIHRLEKEISQL 782
             +K E +    +  + RLE +I +L
Sbjct: 959 LENKIEDDEEEARRRLKRLENKIKEL 984

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 = 57.4 bits (139), Expect = 3e-08
 Identities = 39/182 (21%), Positives = 85/182 (46%), Gaps = 4/182 (2%)

Query: 577 QAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANS 636
           +   RL + K +++ L++E EE E L +E + L     +   E+E  L     ++E    
Sbjct: 320 ELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEAKEELEEKLSALLEELEELFE 379

Query: 637 AVR----RLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQE 692
           A+R     LE E   +R E+E  K          + +S+R +  + + +  E +    Q 
Sbjct: 380 ALREELAELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKELEAELEELQT 439

Query: 693 ELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKS 752
           EL     ++ +L ++L++ +   ++LE    + ++  + L  + SS+    +++EA  ++
Sbjct: 440 ELEELNEELEELEEQLEELRDRLKELERELAELQEELQRLEKELSSLEARLDRLEAEQRA 499

Query: 753 KE 754
            +
Sbjct: 500 SQ 501

Length = 1163

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

 Score = 56.6 bits (137), Expect = 5e-08
 Identities = 47/265 (17%), Positives = 107/265 (40%), Gaps = 51/265 (19%)

Query: 580 RRLSKDKAELKTLRQEKEEVE-----------RLKKEKQILEE----------------- 611
            R  + + +L+   +  E +E           +L+++ +  E                  
Sbjct: 172 ERKEEAERKLERTEENLERLEDLLEELEKQLEKLERQAEKAERYQELKAELRELELALLL 231

Query: 612 ----NTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQ 667
                  K+L E+E  L +   ++E     +   E E   L+ E+E  +    E      
Sbjct: 232 AKLKELRKELEELEEELSRLEEELEELQEELEEAEKEIEELKSELEELREELEELQEELL 291

Query: 668 EVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAK----ALQEQLEARWR 723
           E+ +  ++        E + +L +E L   + ++ +L + L++ K    AL+E+LE R  
Sbjct: 292 ELKEEIEEL-------EGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERET 344

Query: 724 QEEKAKEELVMQASSIRKEREQIEASAKSKEDMIK------SKAETNLMRYKDDIHRLEK 777
             E+ ++ L     +  +  E++ A  +  E++ +      ++ E  L   ++++  L++
Sbjct: 345 LLEELEQLLAELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEELKR 404

Query: 778 EISQL--RLKTDSSKIAALRRGIDG 800
           EI  L  RL+  S ++  L+  +  
Sbjct: 405 EIESLEERLERLSERLEDLKEELKE 429

Length = 1163

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

 Score = 55.5 bits (134), Expect = 1e-07
 Identities = 49/206 (23%), Positives = 104/206 (50%), Gaps = 11/206 (5%)

Query: 587 AELKTLRQE----KEEVERLKKEKQILEE---NTMKKLSEMENALCKASGQVERANSAVR 639
           A+LK LR+E    +EE+ RL++E + L+E      K++ E+++ L +   ++E     + 
Sbjct: 232 AKLKELRKELEELEEELSRLEEELEELQEELEEAEKEIEELKSELEELREELEELQEELL 291

Query: 640 RLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKR 699
            L+ E   L  E+   + R  E     +E+ +R ++ + K ++  K++   +E L+ E  
Sbjct: 292 ELKEEIEELEGEISLLRERLEELENELEELEERLEELKEKIEA-LKEELEERETLLEELE 350

Query: 700 KVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKS 759
           +++  L+E    + L+E+L A   + E+  E L  + + +  E  +I    +  +  I+S
Sbjct: 351 QLLAELEE--AKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEELKREIES 408

Query: 760 KAETNLMRYKDDIHRLEKEISQLRLK 785
             E  L R  + +  L++E+ +L  +
Sbjct: 409 -LEERLERLSERLEDLKEELKELEAE 433

Length = 1163

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

 Score = 54.3 bits (131), Expect = 2e-07
 Identities = 41/227 (18%), Positives = 101/227 (44%), Gaps = 10/227 (4%)

Query: 580 RRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVR 639
           + + +    L+   +  E +E L KEK+   E  +++++E+ + L +   ++E+    V+
Sbjct: 172 KEIKRRIERLEKFIKRTENIEELIKEKEKELEEVLREINEISSELPELREELEKLEKEVK 231

Query: 640 RLE---VENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQE--EL 694
            LE    E   L +E+E+ +    +     +E+ +R ++ + + +  E++    +E  E 
Sbjct: 232 ELEELKEEIEELEKELESLEGSKRKLEEKIRELEERIEELKKEIEELEEKVKELKELKEK 291

Query: 695 VTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKE 754
             E  K+ +  +E        E+  +R  +E    EE + +     +  E+++   K  E
Sbjct: 292 AEEYIKLSEFYEEYLDELREIEKRLSRLEEEINGIEERIKELEEKEERLEELKKKLKELE 351

Query: 755 D---MIKSKAET--NLMRYKDDIHRLEKEISQLRLKTDSSKIAALRR 796
                ++ + E        K+++ RL+K ++ L  +    ++  L +
Sbjct: 352 KRLEELEERHELYEEAKAKKEELERLKKRLTGLTPEKLEKELEELEK 398

Length = 880

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

 Score = 53.5 bits (129), Expect = 5e-07
 Identities = 47/251 (18%), Positives = 110/251 (43%), Gaps = 13/251 (5%)

Query: 588 ELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTA 647
           +L+ LR+E+E+ ER +   +   E    +  E+         Q E     +  LE E   
Sbjct: 199 QLERLRREREKAERYQALLKEKRE---YEGYELLKEKEALERQKEAIERQLASLEEELEK 255

Query: 648 LRQEMEAAKLRAAESAASCQEVSKR-EKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQ 706
           L +E+   + R  E     +E++K+ +   + +    +++    + E+ + +R + +  +
Sbjct: 256 LTEEISELEKRLEEIEQLLEELNKKIKDLGEEEQLRVKEKIGELEAEIASLERSIAEKER 315

Query: 707 ELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIE---ASAKSKEDMIKSKAE- 762
           EL+ A+    +LEA   +     EEL  +    RK R+++    A  K + + ++++ E 
Sbjct: 316 ELEDAEERLAKLEAEIDKLLAEIEELEREIEEERKRRDKLTEEYAELKEELEDLRAELEE 375

Query: 763 --TNLMRYKDDIHRLEKEISQLRLKTDSSKIAALRRGIDGS--YAGRLTDIKSSSVHKES 818
                   +D++    +++ +L+ + +  K   L R  +     +  L D+ ++    E+
Sbjct: 376 VDKEFAETRDELKDYREKLEKLKREINELK-RELDRLQEELQRLSEELADLNAAIAGIEA 434

Query: 819 QTPLISEVMKD 829
           +   + E  +D
Sbjct: 435 KINELEEEKED 445

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|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 52.8 bits (126), Expect = 8e-07
 Identities = 47/208 (22%), Positives = 91/208 (43%), Gaps = 3/208 (1%)

Query: 556  RVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMK 615
            R  E   +  E       +   A +     KA+     +EK++ +  KK ++  + +  K
Sbjct: 1249 RNNEEIRKFEEARMAHFARRQAAIKAEEARKADELKKAEEKKKADEAKKAEEKKKADEAK 1308

Query: 616  KLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKK 675
            K +E      +A  + E A       + +    ++  EAAK   AE+AA   E ++ + +
Sbjct: 1309 KKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAK-AEAEAAADEAEAAEEKAE 1367

Query: 676  TQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQ 735
               K +   K+KA   ++   EK+K  +  ++ ++ K   ++L+     ++KA +E   +
Sbjct: 1368 AAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKA-DEAKKK 1426

Query: 736  ASSIRKERE-QIEASAKSKEDMIKSKAE 762
            A   +K  E + +A    K D  K KAE
Sbjct: 1427 AEEKKKADEAKKKAEEAKKADEAKKKAE 1454

Length = 2084

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

 Score = 51.6 bits (124), Expect = 2e-06
 Identities = 45/220 (20%), Positives = 100/220 (45%), Gaps = 19/220 (8%)

Query: 543  QDKRDEI---ILKLIPRVRELHNQLHEWT---EWANQKVMQAARRLSKDKAELKTLRQEK 596
            Q++ +E+   + +   R+  L  +L       E   Q++ +    + + + +L  L +E 
Sbjct: 792  QEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEEL 851

Query: 597  EEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAK 656
            EE+E+  +E +   E    +  E+E+ L +   + E     +R LE E   L++E+E  +
Sbjct: 852  EELEKELEELKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAELKEEIEKLR 911

Query: 657  LRAAESAASCQEVSKREKKTQMKFQS---------WEKQKALFQEELVTEKRKVVQL--L 705
             R  E  A  + +     + + + +           E++    +EE+  E    V L  +
Sbjct: 912  ERLEELEAKLERLEVELPELEEELEEEYEDTLETELEREIERLEEEI--EALGPVNLRAI 969

Query: 706  QELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQ 745
            +E ++ +   E+L+++    E+AKE+L+     + KE+ +
Sbjct: 970  EEYEEVEERYEELKSQREDLEEAKEKLLEVIEELDKEKRE 1009

Length = 1163

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

 Score = 51.6 bits (124), Expect = 2e-06
 Identities = 39/222 (17%), Positives = 93/222 (41%), Gaps = 27/222 (12%)

Query: 556 RVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMK 615
           ++ E+  ++    E   Q+  +   RL + + +L +L QE E V+    E + LE     
Sbjct: 717 KIGEIEKEI----EQLEQEEEKLKERLEELEEDLSSLEQEIENVKS---ELKELE----A 765

Query: 616 KLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKK 675
           ++ E+E  L K    +    + +    +    ++ E+   +   +   A  +E+ ++  +
Sbjct: 766 RIEELEEDLHKLEEALNDLEARLSHSRIPE--IQAELSKLEEEVSRIEARLREIEQKLNR 823

Query: 676 TQMKFQS--------------WEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEAR 721
             ++ +                ++Q    ++E+     K  +L +EL++ +A    LE+R
Sbjct: 824 LTLEKEYLEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEELEEELEELEAALRDLESR 883

Query: 722 WRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAET 763
               +K ++EL  Q   + ++ E++EA  + K   +      
Sbjct: 884 LGDLKKERDELEAQLRELERKIEELEAQIEKKRKRLSELKAK 925

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 = 51.6 bits (124), Expect = 2e-06
 Identities = 43/153 (28%), Positives = 72/153 (47%), Gaps = 8/153 (5%)

Query: 639 RRLEVENTALRQEMEAAKLRAAESAASCQEVSKR------EKKTQMKFQSWEKQKALFQE 692
           RR  ++  A   E +  K +A E     +E  +R      EK+ Q++    E++KA   +
Sbjct: 155 RRKIIDEIAGVAEFDRKKEKALEELEEVEENIERLDLIIDEKRQQLERLRREREKAERYQ 214

Query: 693 ELVTEKRKVVQ--LLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASA 750
            L+ EKR+     LL+E +  +  +E +E +    E+  E+L  + S + K  E+IE   
Sbjct: 215 ALLKEKREYEGYELLKEKEALERQKEAIERQLASLEEELEKLTEEISELEKRLEEIEQLL 274

Query: 751 KSKEDMIKSKAETNLMRYKDDIHRLEKEISQLR 783
           +     IK   E   +R K+ I  LE EI+ L 
Sbjct: 275 EELNKKIKDLGEEEQLRVKEKIGELEAEIASLE 307

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|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 51.2 bits (123), Expect = 2e-06
 Identities = 54/254 (21%), Positives = 106/254 (41%), Gaps = 36/254 (14%)

Query: 557 VRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENT--M 614
           + +   +L E  E   +   +        +   + +R+ +E +E LKKE + LEE    +
Sbjct: 226 LEKEVKELEELKEEIEELEKELESLEGSKRKLEEKIRELEERIEELKKEIEELEEKVKEL 285

Query: 615 KKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEA--AKLRAAESAAS-CQEVSK 671
           K+L E      K S   E     +R +E   + L +E+     +++  E      +E+ K
Sbjct: 286 KELKEKAEEYIKLSEFYEEYLDELREIEKRLSRLEEEINGIEERIKELEEKEERLEELKK 345

Query: 672 REKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQ-----EQLEARWRQEE 726
           + K+ + + +  E++  L++E             +EL++ K        E+LE    + E
Sbjct: 346 KLKELEKRLEELEERHELYEE--------AKAKKEELERLKKRLTGLTPEKLEKELEELE 397

Query: 727 KAKEELVMQASSIRKEREQIEASAKSKEDMI----KSKA-------------ETNLMR-Y 768
           KAKEE+  + S I     +++   K  +  I    K+K                 L+  Y
Sbjct: 398 KAKEEIEEEISKITARIGELKKEIKELKKAIEELKKAKGKCPVCGRELTEEHRKELLEEY 457

Query: 769 KDDIHRLEKEISQL 782
             ++ R+EKE+ ++
Sbjct: 458 TAELKRIEKELKEI 471

Length = 880

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

 Score = 51.7 bits (124), Expect = 2e-06
 Identities = 55/274 (20%), Positives = 114/274 (41%), Gaps = 34/274 (12%)

Query: 548 EIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDK-----------AELKTLRQEK 596
           E + KL  ++ +L ++L E  E  N+       RL + +             L+ L+Q +
Sbjct: 329 ERLEKLEEKLEKLESELEELAEEKNELAKLLEERLKELEERLEELEKELEKALERLKQLE 388

Query: 597 EEVERLKKEKQILE---ENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEME 653
           E ++ LK+E   L    E   ++L E+E  L +   ++E     +++LE +   L  +  
Sbjct: 389 EAIQELKEELAELSAALEEIQEELEELEKELEELERELEELEEEIKKLEEQINQLESKEL 448

Query: 654 AAKLRAAESAA------SCQEVSKREKKTQMKFQSWEKQKAL----FQEELVTEKRKVVQ 703
                A              E  ++E     + +  E ++ L     + EL  E  ++ +
Sbjct: 449 MIAELAGAGEKCPVCGQELPEEHEKELLELYELELEELEEELSREKEEAELREEIEELEK 508

Query: 704 LLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAET 763
            L+EL++      +LE   ++E + K E       +    E++E   + KE +   + + 
Sbjct: 509 ELRELEEELIELLELEEALKEELEEKLE------KLENLLEELE---ELKEKLQLQQLKE 559

Query: 764 NLMRYKDDIHRLEKEISQLRLKTDS-SKIAALRR 796
            L + +D +  L++ + +LRL      ++  LR 
Sbjct: 560 ELRQLEDRLQELKELLEELRLLRTRKEELEELRE 593

Length = 908

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

 Score = 51.3 bits (123), Expect = 2e-06
 Identities = 52/248 (20%), Positives = 114/248 (45%), Gaps = 16/248 (6%)

Query: 552 KLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLR---QEKEE-VERLKKEKQ 607
           +L  R+ E+ +   E  +   +++ +  R L + + +++ L    +E EE  E L+  + 
Sbjct: 253 ELKARLLEIESLELEALKIREEELRELERLLEELEEKIERLEELEREIEELEEELEGLRA 312

Query: 608 ILEENT--MKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAAS 665
           +LEE    ++KL  +E  L K   ++E+  S +  L  E   L + +E    R  E    
Sbjct: 313 LLEELEELLEKLKSLEERLEKLEEKLEKLESELEELAEEKNELAKLLEE---RLKELEER 369

Query: 666 CQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQE 725
            +E+ K  +K   + +  E+     +EEL      + ++ +EL++ +   E+LE    + 
Sbjct: 370 LEELEKELEKALERLKQLEEAIQELKEELAELSAALEEIQEELEELEKELEELERELEEL 429

Query: 726 EKAKEELVMQASSIRKEREQIEASAKSKE-------DMIKSKAETNLMRYKDDIHRLEKE 778
           E+  ++L  Q + +  +   I   A + E       ++ +   +  L  Y+ ++  LE+E
Sbjct: 430 EEEIKKLEEQINQLESKELMIAELAGAGEKCPVCGQELPEEHEKELLELYELELEELEEE 489

Query: 779 ISQLRLKT 786
           +S+ + + 
Sbjct: 490 LSREKEEA 497

Length = 908

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 51.9 bits (124), Expect = 2e-06
 Identities = 42/249 (16%), Positives = 95/249 (38%), Gaps = 11/249 (4%)

Query: 562 NQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEME 621
            ++    E    +  +      + + E + L Q  +E +  +KEK++ EE       E E
Sbjct: 238 ERIDLLQELLRDEQEEIESSKQELEKEEEILAQVLKENKEEEKEKKLQEEELKLLAKEEE 297

Query: 622 NALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQ 681
               +      R      +L+             +L+  E     ++    E + ++K  
Sbjct: 298 ELKSELLKLERRKVDDEEKLKESE---------KELKKLEKELKKEKEEIEELEKELK-- 346

Query: 682 SWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRK 741
             E ++   +EE    ++   +L Q  ++  A ++    R     K KEE +   +   K
Sbjct: 347 ELEIKREAEEEEEEQLEKLQEKLEQLEEELLAKKKLESERLSSAAKLKEEELELKNEEEK 406

Query: 742 EREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSKIAALRRGIDGS 801
           E + +   ++ +ED++K + +  L   ++    LE +  +L  + +  +  AL+   D  
Sbjct: 407 EAKLLLELSEQEEDLLKEEKKEELKIVEELEESLETKQGKLTEEKEELEKQALKLLKDKL 466

Query: 802 YAGRLTDIK 810
              +  D+ 
Sbjct: 467 ELKKSEDLL 475

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

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

 Score = 50.9 bits (121), Expect = 3e-06
 Identities = 40/224 (17%), Positives = 97/224 (43%), Gaps = 5/224 (2%)

Query: 571  ANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQ 630
            A +  ++   +L +++ ++K    +K E  ++K E+    E   KK+ +++    +   +
Sbjct: 1589 AEEARIEEVMKLYEEEKKMKAEEAKKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKK 1648

Query: 631  VERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKA-L 689
             E    A    +++     ++ E  K +A E  A   E  +++    +K ++ E +KA  
Sbjct: 1649 AEELKKAEEENKIKAAEEAKKAEEDKKKAEE--AKKAEEDEKKAAEALKKEAEEAKKAEE 1706

Query: 690  FQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEAS 749
             +++   EK+K  +L +  ++ K   E+ +    +++K  EE        +K     +  
Sbjct: 1707 LKKKEAEEKKKAEELKKAEEENKIKAEEAKKEAEEDKKKAEEAKKDEEEKKKIAHLKKEE 1766

Query: 750  AKSKEDMIKSKAET--NLMRYKDDIHRLEKEISQLRLKTDSSKI 791
             K  E++ K K       +  +D+  R+E +     +  + + I
Sbjct: 1767 EKKAEEIRKEKEAVIEEELDEEDEKRRMEVDKKIKDIFDNFANI 1810

Length = 2084

>gnl|CDD|238093 cd00162, RING, RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)

 Score = 44.4 bits (105), Expect = 3e-06
 Identities = 22/46 (47%), Positives = 26/46 (56%), Gaps = 2/46 (4%)

Query: 844 ECVMCLSE-EMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPI 888
           EC +CL E    VV LPC H V C +C +   K G   CP CR+PI
Sbjct: 1   ECPICLEEFREPVVLLPCGH-VFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 50.1 bits (119), Expect = 5e-06
 Identities = 45/215 (20%), Positives = 91/215 (42%), Gaps = 28/215 (13%)

Query: 569  EWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENA----- 623
              A +K  +A +     KA+     +E ++ +  KK ++  + + +KK  E++ A     
Sbjct: 1506 AEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKAEEKKK 1565

Query: 624  LCKASGQVERANSAVRRLEVENTA-------------LRQEMEAAKLRAAESAASCQEVS 670
              +A    E  N A+R+ E    A               ++M+A + + AE A    E  
Sbjct: 1566 AEEAKKAEEDKNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKAEEAKKAEEAKIKAEEL 1625

Query: 671  KREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKE 730
            K+ ++ + K +  +K++A        EK+K  +L +  ++ K    +   +  +++K  E
Sbjct: 1626 KKAEEEKKKVEQLKKKEA-------EEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAE 1678

Query: 731  ELVMQASSIRKEREQI---EASAKSKEDMIKSKAE 762
            E        +K  E +      AK  E++ K +AE
Sbjct: 1679 EAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEAE 1713

Length = 2084

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

 Score = 49.4 bits (118), Expect = 9e-06
 Identities = 49/218 (22%), Positives = 101/218 (46%), Gaps = 6/218 (2%)

Query: 543 QDKRDEIILKLIPRVRELHNQLHEWTEW-ANQKVMQAARRLSKDKAELKTLRQEKEEVER 601
           +++ +E + KL   + EL     +       +++ Q   RL + K  L+ LR  +   E 
Sbjct: 528 KEELEEKLEKLENLLEELEELKEKLQLQQLKEELRQLEDRLQELKELLEELRLLRTRKEE 587

Query: 602 LKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTA--LRQEMEAAKLRA 659
           L++ ++ L+E   KKL E+E  L +    ++    +    E+E     L  E+E   L+A
Sbjct: 588 LEELRERLKELK-KKLKELEERLSQLEELLQSLELSEAENELEEAEEELESELEKLNLQA 646

Query: 660 AESAASCQEVSKREKKTQMKFQSW--EKQKALFQEELVTEKRKVVQLLQELDQAKALQEQ 717
                    + + E+K +        E Q+   +E+L  +  ++ QL +EL+Q +   E+
Sbjct: 647 ELEELLQAALEELEEKVEELEAEIRRELQRIENEEQLEEKLEELEQLEEELEQLREELEE 706

Query: 718 LEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKED 755
           L  +  + E+  EEL  + + + + ++++E   K+ E 
Sbjct: 707 LLKKLGEIEQLIEELESRKAELEELKKELEKLEKALEL 744

Length = 908

>gnl|CDD|144972 pfam01576, Myosin_tail_1, Myosin tail

 Score = 48.5 bits (116), Expect = 1e-05
 Identities = 54/211 (25%), Positives = 88/211 (41%), Gaps = 44/211 (20%)

Query: 580 RRLSKDKAELKTLR--------QEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQV 631
           R+LSK  AE++  R           EE+E LKK+         +K+SE+E          
Sbjct: 292 RQLSKANAEIQQWRSKFESEGALRAEELEELKKKLN-------QKISELEE-------AA 337

Query: 632 ERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQ 691
           E AN+    LE   + L+ E+E  ++    + A+  E+ K++K               F 
Sbjct: 338 EAANAKCDSLEKTKSRLQSELEDLQIELERANAAASELEKKQKN--------------FD 383

Query: 692 EELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAK 751
           + L   KRKV +L  ELD A+     L     + +   EEL  Q  ++R+E + ++    
Sbjct: 384 KILAEWKRKVDELQAELDTAQREARNLSTELFRLKNELEELKDQVEALRRENKNLQDEIH 443

Query: 752 SKEDMIKSKAETNLMRYKDDIHRLEKEISQL 782
              D+     E        ++H LEK   +L
Sbjct: 444 ---DLTDQLGEGG-----RNVHELEKARRRL 466

The myosin molecule is a multi-subunit complex made up of two heavy chains and four light chains it is a fundamental contractile protein found in all eukaryote cell types. 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 the thick filament. Length = 859

>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional

 Score = 47.9 bits (115), Expect = 2e-05
 Identities = 49/188 (26%), Positives = 86/188 (45%), Gaps = 44/188 (23%)

Query: 577 QAARRLSKDKAELKTLRQE-----KEEVERLKK--EKQILEENTMKKLSEMENALCKASG 629
           +A R L + K E + +++E     KEE+ +L+   EK++ E     +L ++E  L +   
Sbjct: 39  EAKRILEEAKKEAEAIKKEALLEAKEEIHKLRNEFEKELRERR--NELQKLEKRLLQKEE 96

Query: 630 QVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKAL 689
            ++R    + + E E     +E+E  +          QE+ K+E++              
Sbjct: 97  NLDRKLELLEKREEELEKKEKELEQKQ----------QELEKKEEE-------------- 132

Query: 690 FQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQI--- 746
             EEL+ E       LQEL++   L  + EA+    EK +EE   +A+ + KE E+    
Sbjct: 133 -LEELIEE------QLQELERISGLTAE-EAKEILLEKVEEEARHEAAVLIKEIEEEAKE 184

Query: 747 EASAKSKE 754
           EA  K+KE
Sbjct: 185 EADKKAKE 192

Length = 520

>gnl|CDD|224495 COG1579, COG1579, Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

 Score = 46.2 bits (110), Expect = 2e-05
 Identities = 38/178 (21%), Positives = 81/178 (45%), Gaps = 15/178 (8%)

Query: 579 ARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERAN--- 635
             R+ + +  LK  + E E + +  +  +I  E+   ++S++E+ + +   +++RA    
Sbjct: 23  EPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKL 82

Query: 636 SAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELV 695
           SAV+  E E  AL  E++ AK R         E+ +  +K        EK+    +E L 
Sbjct: 83  SAVKD-ERELRALNIEIQIAKERINSLEDELAELMEEIEKL-------EKEIEDLKERLE 134

Query: 696 TEKRKVVQLLQELDQA-KALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKS 752
             ++ + +    L++    ++E+ +    + E+ KE+L      +  E E+I  + K 
Sbjct: 135 RLEKNLAEAEARLEEEVAEIREEGQELSSKREELKEKL---DPELLSEYERIRKNKKG 189

Length = 239

>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional

 Score = 47.1 bits (113), Expect = 3e-05
 Identities = 35/146 (23%), Positives = 67/146 (45%), Gaps = 20/146 (13%)

Query: 638 VRRLEVENTALRQEMEAAK-LRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVT 696
           VR+   E      E EA + L  A+  A   E  K+E   + K +   K +  F++EL  
Sbjct: 24  VRKKIAEAKIKEAEEEAKRILEEAKKEA---EAIKKEALLEAK-EEIHKLRNEFEKELRE 79

Query: 697 EKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDM 756
            + ++ +L + L Q +   E L+ +    EK +EEL  +   + ++++++E   +  E++
Sbjct: 80  RRNELQKLEKRLLQKE---ENLDRKLELLEKREEELEKKEKELEQKQQELEKKEEELEEL 136

Query: 757 IKSKAETNLMRYKDDIHRLEKEISQL 782
           I+ + +            LE  IS L
Sbjct: 137 IEEQLQ-----------ELE-RISGL 150

Length = 520

>gnl|CDD|224495 COG1579, COG1579, Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

 Score = 46.2 bits (110), Expect = 3e-05
 Identities = 45/222 (20%), Positives = 89/222 (40%), Gaps = 40/222 (18%)

Query: 588 ELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTA 647
            ++ L  EK+ +E   KE +               AL KA  ++E  N A+  LE+E   
Sbjct: 11  AIQKLDLEKDRLEPRIKEIR--------------KALKKAKAELEALNKALEALEIELED 56

Query: 648 LRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQE 707
           L  ++   +          QE+ +R K+ +      EK  A      V ++R++  L  E
Sbjct: 57  LENQVSQLESEI-------QEIRERIKRAE------EKLSA------VKDERELRALNIE 97

Query: 708 LDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMR 767
           +  AK     LE    +  +  E+L  +   +++  E++E +        +++ E  +  
Sbjct: 98  IQIAKERINSLEDELAELMEEIEKLEKEIEDLKERLERLEKNLAE----AEARLEEEVAE 153

Query: 768 YKDDIHRLEKEISQLRLKTDS---SKIAALRRGIDGSYAGRL 806
            +++   L  +  +L+ K D    S+   +R+   G     L
Sbjct: 154 IREEGQELSSKREELKEKLDPELLSEYERIRKNKKGVGVVPL 195

Length = 239

>gnl|CDD|130902 TIGR01843, type_I_hlyD, type I secretion membrane fusion protein, HlyD family

 Score = 46.9 bits (112), Expect = 3e-05
 Identities = 45/232 (19%), Positives = 94/232 (40%), Gaps = 23/232 (9%)

Query: 603 KKEKQILEENTMKKLSEMENALCKASGQV------ERANSAVRRLEVENTALRQEMEAAK 656
            K  Q LE   ++++   E    KA GQV          +    LE  +  LR E E A+
Sbjct: 43  VKVVQHLEGGIVREILVREGDRVKA-GQVLVELDATDVEADAAELE--SQVLRLEAEVAR 99

Query: 657 LRA-AESAASC-QEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKAL 714
           LRA A+S A+          +     +  + Q++LF+    T + ++  +L ++ Q +A 
Sbjct: 100 LRAEADSQAAIEFPDDLLSAEDPAVPELIKGQQSLFESRKSTLRAQLELILAQIKQLEAE 159

Query: 715 QEQLEARWRQEEKAKEELVMQASSIRKEREQIEAS-AKSKEDMIKSKAETNLMRYKDDIH 773
              L+A+ +    A  + +   S   + R +++     S+ +++  + E      + ++ 
Sbjct: 160 LAGLQAQLQ----ALRQQLEVISEELEARRKLKEKGLVSRLELL--ELERERAEAQGELG 213

Query: 774 RLEKEISQLRLKTDSSKIAALRRGIDGSYAGRLTDIKSSSVHKESQTPLISE 825
           RLE E+  L+      +I  L+            ++       +++   + E
Sbjct: 214 RLEAELEVLK-----RQIDELQLERQQIEQTFREEVLEELTEAQARLAELRE 260

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 [Protein fate, Protein and peptide secretion and trafficking]. Length = 423

>gnl|CDD|221432 pfam12128, DUF3584, Protein of unknown function (DUF3584)

 Score = 47.8 bits (114), Expect = 3e-05
 Identities = 51/263 (19%), Positives = 110/263 (41%), Gaps = 35/263 (13%)

Query: 543 QDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKE--EVE 600
           Q++R E   +L  ++R L +QL E  +  NQ++  A  +L+ D++EL+ L  +K   E  
Sbjct: 283 QEERQEAKNRLRQQLRTLEDQLKEARDELNQELSAANAKLAADRSELELLEDQKGAFEDA 342

Query: 601 RLKKEKQILE-----ENTMKKLSEMENALCKASGQVERA------------NSAVRRLEV 643
            +++ +  L+      + ++++    +AL      V+R                + +   
Sbjct: 343 DIEQLQADLDQLPSIRSELEEVEARLDALTGKHQDVQRKYERLKQKIKEQLERDLEKNNE 402

Query: 644 ENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQ 703
              A+R+E +  K  A E      E   R++    K   + +++   +  L   K+++  
Sbjct: 403 RLAAIREEKDRQKA-AIEEDLQALESQLRQQLEAGK-LEFNEEEYELELRLGRLKQRLDS 460

Query: 704 ------LLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMI 757
                  L++L+      E+ +    Q E   E+L  +   +RK R++            
Sbjct: 461 ATATPEELEQLEINDEALEKAQEEQEQAEANVEQLQSELRQLRKRRDE--------ALEA 512

Query: 758 KSKAETNLMRYKDDIHRLEKEIS 780
             +AE  L++ +  +  LE ++S
Sbjct: 513 LQRAERRLLQLRQALDELELQLS 535

This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 943 to 1234 amino acids in length. This family contains a P-loop motif suggesting it is a nucleotide binding protein. It may be involved in replication. Length = 1198

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

 Score = 47.0 bits (112), Expect = 4e-05
 Identities = 48/192 (25%), Positives = 95/192 (49%), Gaps = 15/192 (7%)

Query: 580 RRLSKDKAELKTLRQEKEEVERLKKEKQILEE---NTMKKLSEMENALCKAS-GQVERAN 635
            +L K K E+K+L++E E++E LKK+   LE+      ++L+E+   L +     VE   
Sbjct: 532 EKLIKLKGEIKSLKKELEKLEELKKKLAELEKKLDELEEELAELLKELEELGFESVEELE 591

Query: 636 SAVRRLE------VENTALRQEMEAAKLR----AAESAASCQEVSKREKKTQMKFQSWEK 685
             ++ LE      +E     +E+E  +        E   + +E+++ EK+ +   +  E+
Sbjct: 592 ERLKELEPFYNEYLELKDAEKELEREEKELKKLEEELDKAFEELAETEKRLEELRKELEE 651

Query: 686 QKALFQEELVTEKR-KVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKERE 744
            +  + EE   E R + ++L +EL   +A  E+LE R  + +K  E+L  +     K ++
Sbjct: 652 LEKKYSEEEYEELREEYLELSRELAGLRAELEELEKRREEIKKTLEKLKEELEEREKAKK 711

Query: 745 QIEASAKSKEDM 756
           ++E   K+ E +
Sbjct: 712 ELEKLEKALERV 723

Length = 880

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

 Score = 47.1 bits (112), Expect = 4e-05
 Identities = 55/264 (20%), Positives = 108/264 (40%), Gaps = 29/264 (10%)

Query: 538 EHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKE 597
           E L   ++R E + K + +  E   QL E  +   +++ + +  L + + EL+ L +E E
Sbjct: 361 ERLKELEERLEELEKELEKALERLKQLEEAIQELKEELAELSAALEEIQEELEELEKELE 420

Query: 598 EVERL--KKEKQILEENTMKKLSEMENA-------------LCKASGQVERANSAVRRLE 642
           E+ER   + E++I +        E +               +C      E     +   E
Sbjct: 421 ELERELEELEEEIKKLEEQINQLESKELMIAELAGAGEKCPVCGQELPEEHEKELLELYE 480

Query: 643 VENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVV 702
           +E   L +E+   K  A       +E+ + EK+         + +    E L  E+    
Sbjct: 481 LELEELEEELSREKEEAEL----REEIEELEKE-------LRELEEELIELLELEEALKE 529

Query: 703 QLLQELDQAKALQEQLEARWR--QEEKAKEELVMQASSIRKEREQIEASAKSKEDMIK-S 759
           +L ++L++ + L E+LE      Q ++ KEEL      +++ +E +E     +    +  
Sbjct: 530 ELEEKLEKLENLLEELEELKEKLQLQQLKEELRQLEDRLQELKELLEELRLLRTRKEELE 589

Query: 760 KAETNLMRYKDDIHRLEKEISQLR 783
           +    L   K  +  LE+ +SQL 
Sbjct: 590 ELRERLKELKKKLKELEERLSQLE 613

Length = 908

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

 Score = 47.1 bits (112), Expect = 4e-05
 Identities = 32/210 (15%), Positives = 81/210 (38%), Gaps = 6/210 (2%)

Query: 584 KDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEV 643
           +++ E + L QE E +E    E +  +E   +  + +          ++     +R LE 
Sbjct: 222 QEEQEEEELEQEIEALEERLAELEEEKERLEELKARLLEIESLELEALKIREEELRELER 281

Query: 644 ENTALR---QEMEAAKLRAAESAASCQEVSKREKKTQM---KFQSWEKQKALFQEELVTE 697
               L    + +E  +    E     + +    ++ +    K +S E++    +E+L   
Sbjct: 282 LLEELEEKIERLEELEREIEELEEELEGLRALLEELEELLEKLKSLEERLEKLEEKLEKL 341

Query: 698 KRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMI 757
           + ++ +L +E ++   L E+      +  +  E+ + +A    K+ E+     K +   +
Sbjct: 342 ESELEELAEEKNELAKLLEERLKELEERLEELEKELEKALERLKQLEEAIQELKEELAEL 401

Query: 758 KSKAETNLMRYKDDIHRLEKEISQLRLKTD 787
            +  E      ++    LE+   +L    +
Sbjct: 402 SAALEEIQEELEELEKELEELERELEELEE 431

Length = 908

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 47.3 bits (112), Expect = 4e-05
 Identities = 49/238 (20%), Positives = 98/238 (41%), Gaps = 14/238 (5%)

Query: 543 QDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERL 602
           +++   +  +      EL  +L        +K+ ++ + L K + ELK  ++E EE+E+ 
Sbjct: 286 EEELKLLAKEEEELKSEL-LKLERRKVDDEEKLKESEKELKKLEKELKKEKEEIEELEKE 344

Query: 603 KKEKQI-----------LEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQE 651
            KE +I           LE+   K     E  L K   + ER +SA +  E E   L+ E
Sbjct: 345 LKELEIKREAEEEEEEQLEKLQEKLEQLEEELLAKKKLESERLSSAAKLKE-EELELKNE 403

Query: 652 MEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQA 711
            E       E +   +++ K EKK ++K     ++    ++  +TE+++ ++        
Sbjct: 404 EEKEAKLLLELSEQEEDLLKEEKKEELKIVEELEESLETKQGKLTEEKEELEKQALKLLK 463

Query: 712 KALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYK 769
             L+ +      +E K   +L+ Q   +   ++  EAS K  +          L++  
Sbjct: 464 DKLELKKSEDLLKETK-LVKLLEQLELLLLRQKLEEASQKESKAREGLAVLLALIKDG 520

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|235316 PRK04863, mukB, cell division protein MukB; Provisional

 Score = 47.3 bits (113), Expect = 4e-05
 Identities = 55/265 (20%), Positives = 97/265 (36%), Gaps = 58/265 (21%)

Query: 553  LIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEEN 612
            L  RV E+  QL E  E A + V Q    L++ +  +  L+ + E+ E+LK++ Q  ++ 
Sbjct: 892  LADRVEEIREQLDE-AEEAKRFVQQHGNALAQLEPIVSVLQSDPEQFEQLKQDYQQAQQ- 949

Query: 613  TMKKLSEMENALCKASGQVERAN-----SAVRRLEVENTALRQEMEAAKLRAAESAASCQ 667
            T +   +   AL   +  V+R        A   L  +N+ L  E    +L  AE   +  
Sbjct: 950  TQRDAKQQAFAL---TEVVQRRAHFSYEDAAEMLA-KNSDL-NEKLRQRLEQAEQERTRA 1004

Query: 668  EVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQ----------------A 711
                R+ + Q+       Q       L +      Q+LQEL Q                A
Sbjct: 1005 REQLRQAQAQL------AQYNQVLASLKSSYDAKRQMLQELKQELQDLGVPADSGAEERA 1058

Query: 712  KALQEQLEARWRQEEKAKEELVMQASSIRKE------------------REQIEASAKSK 753
            +A +++L AR       + +L  Q +    E                  REQ+  +    
Sbjct: 1059 RARRDELHARLSANRSRRNQLEKQLTFCEAEMDNLTKKLRKLERDYHEMREQVVNAKAGW 1118

Query: 754  EDMIKSKAETNLMRYKDDIHRLEKE 778
              +++      L++      RL + 
Sbjct: 1119 CAVLR------LVKDNGVERRLHRR 1137

Length = 1486

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

 Score = 47.0 bits (112), Expect = 5e-05
 Identities = 43/217 (19%), Positives = 87/217 (40%), Gaps = 23/217 (10%)

Query: 537 LEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAEL-KTLRQE 595
            E     ++  E I  L   + E    L        +++ Q    L + K EL + L   
Sbjct: 319 EELEERLEELKEKIEALKEELEERETLL--------EELEQLLAELEEAKEELEEKLSAL 370

Query: 596 KEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAA 655
            EE+E L +  +       ++L+E+E  L +   ++E     +  LE     L + +E  
Sbjct: 371 LEELEELFEALR-------EELAELEAELAEIRNELEELKREIESLEERLERLSERLEDL 423

Query: 656 KLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQ 715
           K    E      E    E +T+++  + E ++   +E+L   + ++ +L +EL + +   
Sbjct: 424 KEELKE-----LEAELEELQTELEELNEELEEL--EEQLEELRDRLKELERELAELQEEL 476

Query: 716 EQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKS 752
           ++LE      E   + L  +  + +  R  +EA    
Sbjct: 477 QRLEKELSSLEARLDRLEAEQRASQGVRAVLEALESG 513

Length = 1163

>gnl|CDD|227278 COG4942, COG4942, Membrane-bound metallopeptidase [Cell division and chromosome partitioning]

 Score = 46.3 bits (110), Expect = 5e-05
 Identities = 46/213 (21%), Positives = 80/213 (37%), Gaps = 25/213 (11%)

Query: 572 NQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQV 631
            +K+ +   + +K + +LK+L  E   +E    E     +   K+++++   L     Q 
Sbjct: 51  EKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALEVQ- 109

Query: 632 ERANSAVRRLEVENTAL----RQEMEAAKLRAAESAASC-------------QEVSKREK 674
           ER     RRL  +  AL    R    A  +   ++  S               E     K
Sbjct: 110 EREQR--RRLAEQLAALQRSGRNPPPALLVSPEDAQRSVRLAIYYGALNPARAERIDALK 167

Query: 675 KTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQA----KALQEQLEARWRQEEKAKE 730
            T  +  +   + A  Q EL T   +      +L Q     K    QL +    ++K  E
Sbjct: 168 ATLKQLAAVRAEIAAEQAELTTLLSEQRAQQAKLAQLLEERKKTLAQLNSELSADQKKLE 227

Query: 731 ELVMQASSIRKEREQIE-ASAKSKEDMIKSKAE 762
           EL    S ++ E    E A+AK++E    ++A 
Sbjct: 228 ELRANESRLKNEIASAEAAAAKAREAAAAAEAA 260

Length = 420

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

 Score = 46.7 bits (112), Expect = 6e-05
 Identities = 47/239 (19%), Positives = 91/239 (38%), Gaps = 51/239 (21%)

Query: 577 QAARRLSKDKAEL-----------KTLRQEKEEVERLKKEKQILEENTMKKLSEMENALC 625
           +A + + +DK +L           + L Q+ EE E L KE + L+E   +K  +++    
Sbjct: 506 EAKKLIGEDKEKLNELIASLEELERELEQKAEEAEALLKEAEKLKEELEEKKEKLQ---- 561

Query: 626 KASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEK 685
                 E  +  +   E E    +Q ++ AK  A E     +++ K    +    +  E 
Sbjct: 562 ------EEEDKLLEEAEKE---AQQAIKEAKKEADEIIKELRQLQKGGYASVKAHELIEA 612

Query: 686 QKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQ--------EEKAKEELVMQAS 737
           +K L +     EK+K  Q  +E  + + L+   E ++               +E ++QA 
Sbjct: 613 RKRLNKANEKKEKKKKKQ--KE--KQEELKVGDEVKYLSLGQKGEVLSIPDDKEAIVQAG 668

Query: 738 --SIRKEREQIEASAKSKEDMIKSKAETNL-------------MRYKDDIHRLEKEISQ 781
              ++     +E   K K+   K                    MRY++ + RL+K +  
Sbjct: 669 IMKMKVPLSDLEKIQKPKKKKKKKPKTVKPKPRTVSLELDLRGMRYEEALERLDKYLDD 727

Length = 782

>gnl|CDD|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger)

 Score = 40.9 bits (96), Expect = 6e-05
 Identities = 19/46 (41%), Positives = 23/46 (50%), Gaps = 3/46 (6%)

Query: 842 ERECVMCLSE-EMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRS 886
           E EC +CL      VV  PC H V C  C   + K+  K CP CR+
Sbjct: 2   ELECPICLDLLRDPVVLTPCGH-VFCRECILRYLKKKSK-CPICRT 45

Length = 45

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

 Score = 46.2 bits (110), Expect = 8e-05
 Identities = 50/225 (22%), Positives = 98/225 (43%), Gaps = 27/225 (12%)

Query: 574 KVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQ-VE 632
           ++ +   +  K + EL+ L +  ++   L K K++ E+     L E+E  L K + + +E
Sbjct: 467 ELKEIEEKERKLRKELRELEKVLKKESELIKLKELAEQ-----LKELEEKLKKYNLEELE 521

Query: 633 RANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQE 692
           +      +L+ +   L+ E+                  K  KK   K +  +K+ A  ++
Sbjct: 522 KKAEEYEKLKEKLIKLKGEI------------------KSLKKELEKLEELKKKLAELEK 563

Query: 693 ELVTEKRKVVQLLQELDQ-AKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAK 751
           +L   + ++ +LL+EL++      E+LE R ++ E    E + +     KE E+ E   K
Sbjct: 564 KLDELEEELAELLKELEELGFESVEELEERLKELEPFYNEYL-ELKDAEKELEREEKELK 622

Query: 752 SKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSKIAALRR 796
             E+ +  KA   L   +  +  L KE+ +L  K    +   LR 
Sbjct: 623 KLEEELD-KAFEELAETEKRLEELRKELEELEKKYSEEEYEELRE 666

Length = 880

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

 Score = 46.3 bits (110), Expect = 8e-05
 Identities = 38/220 (17%), Positives = 77/220 (35%), Gaps = 22/220 (10%)

Query: 578 AARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSA 637
               L ++ +  K   + +EE+E L+KE + LEE  ++ L   E    +   ++E+  + 
Sbjct: 482 ELEELEEELSREKEEAELREEIEELEKELRELEEELIELLELEEALKEELEEKLEKLENL 541

Query: 638 VRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTE 697
           +  LE     L+ +    +LR  E                        Q+     E +  
Sbjct: 542 LEELEELKEKLQLQQLKEELRQLED---------------------RLQELKELLEELRL 580

Query: 698 KRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMI 757
            R   + L+EL +     ++      +     EEL+        E E  EA  + + ++ 
Sbjct: 581 LRTRKEELEELRERLKELKKKLKELEERLSQLEELLQSLELSEAENELEEAEEELESELE 640

Query: 758 KSKAETNLMRYK-DDIHRLEKEISQLRLKTDSSKIAALRR 796
           K   +  L       +  LE+++ +L  +           
Sbjct: 641 KLNLQAELEELLQAALEELEEKVEELEAEIRRELQRIENE 680

Length = 908

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

 Score = 46.3 bits (109), Expect = 9e-05
 Identities = 52/237 (21%), Positives = 106/237 (44%), Gaps = 23/237 (9%)

Query: 569  EWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENA----- 623
            E A +K   A ++  + K +    +++ EE ++  + K+  EE+  KK  E++ A     
Sbjct: 1360 EAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDK-KKADELKKAAAAKK 1418

Query: 624  ----LCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMK 679
                  K + + ++A+ A ++ E    A   + +A + + AE A    E +K  K  + K
Sbjct: 1419 KADEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAK--KADEAK 1476

Query: 680  FQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSI 739
             ++ E +KA   ++   E +K     ++  +AK   ++ +   + EE  K +   +A   
Sbjct: 1477 KKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAK---KAEEAKKADEAKKAEEA 1533

Query: 740  RKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSKIAALRR 796
            +K  E  +A  K K D +K   E   ++  ++  + E+       K +  K  ALR+
Sbjct: 1534 KKADEAKKAEEKKKADELKKAEE---LKKAEEKKKAEE-----AKKAEEDKNMALRK 1582

Length = 2084

>gnl|CDD|144972 pfam01576, Myosin_tail_1, Myosin tail

 Score = 45.8 bits (109), Expect = 9e-05
 Identities = 55/215 (25%), Positives = 99/215 (46%), Gaps = 38/215 (17%)

Query: 559 ELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEE---NTMK 615
           E  N+L    E A +K    A RL+++      LRQE+E  + L++ ++ LE        
Sbjct: 676 EAVNELKAAEERA-KKAQADAARLAEE------LRQEQEHSQHLERLRKQLESQVKELQV 728

Query: 616 KLSEME-NALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREK 674
           +L E E  AL      +++  + VR LE        E++  + R AE+  + +++ +R K
Sbjct: 729 RLDEAEAAALKGGKKMIQKLEARVRELE-------AELDGEQRRHAETQKNLRKMERRVK 781

Query: 675 KTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVM 734
           + Q +               V E +K ++ LQ+L     LQ +++   RQ E+A+E   +
Sbjct: 782 ELQFQ---------------VEEDKKNLERLQDL--VDKLQAKIKTYKRQLEEAEEVAQI 824

Query: 735 QASSIRKEREQIEASAKSKEDMIKSKAETNLMRYK 769
             S  RK + ++E  A+ + D  +     N +R K
Sbjct: 825 NLSKYRKAQRELED-AEERADTAER--SLNKLRAK 856

The myosin molecule is a multi-subunit complex made up of two heavy chains and four light chains it is a fundamental contractile protein found in all eukaryote cell types. 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 the thick filament. Length = 859

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

 Score = 45.9 bits (108), Expect = 1e-04
 Identities = 41/203 (20%), Positives = 90/203 (44%), Gaps = 24/203 (11%)

Query: 579  ARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAV 638
            A    K   E K   + K++ +  KK ++  + +  KK  E + A      + ++    +
Sbjct: 1492 AEEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADEL 1551

Query: 639  RRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEK 698
            ++ E             +L+ AE     +E  K E+   M  +  E+ K         E+
Sbjct: 1552 KKAE-------------ELKKAEEKKKAEEAKKAEEDKNMALRKAEEAKKA-------EE 1591

Query: 699  RKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQI---EASAKSKED 755
             ++ ++++  ++ K ++ + EA+  +E K K E + +A   +K+ EQ+   EA  K K +
Sbjct: 1592 ARIEEVMKLYEEEKKMKAE-EAKKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAE 1650

Query: 756  MIKSKAETNLMRYKDDIHRLEKE 778
             +K   E N ++  ++  + E++
Sbjct: 1651 ELKKAEEENKIKAAEEAKKAEED 1673

Length = 2084

>gnl|CDD|233973 TIGR02680, TIGR02680, TIGR02680 family protein

 Score = 46.0 bits (109), Expect = 1e-04
 Identities = 33/180 (18%), Positives = 65/180 (36%), Gaps = 17/180 (9%)

Query: 571 ANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQ 630
                 Q A  L + +A+ + L+    +  +  +E +   E   ++L E           
Sbjct: 324 QGSPAYQDAEELERARADAEALQAAAADARQAIREAESRLEEERRRLDEEA--------- 374

Query: 631 VERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALF 690
             R + A R L      L +  E A L  A +A     ++ +E +      +  +Q A  
Sbjct: 375 -GRLDDAERELRAAREQLARAAERAGLSPAHTAEPDAALAAQELQELGALDAR-RQDA-- 430

Query: 691 QEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASA 750
            + ++ ++ + V LL+  D      E   A  R     ++EL  +A       E  + + 
Sbjct: 431 -DRVIAQRSEQVALLRRRDDVADRAEATHAAARA---RRDELDEEAEQAAARAELADEAV 486

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 [Hypothetical proteins, Conserved]. Length = 1353

>gnl|CDD|226889 COG4487, COG4487, Uncharacterized protein conserved in bacteria [Function unknown]

 Score = 45.2 bits (107), Expect = 1e-04
 Identities = 38/224 (16%), Positives = 81/224 (36%), Gaps = 21/224 (9%)

Query: 562 NQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQI-------LEENTM 614
           N L E+ + AN+K  Q      K+ ++L+     +++ ++    +QI        +E   
Sbjct: 42  NTLEEFEKEANEKRAQYRSAKKKELSQLEEQLINQKKEQKNLFNEQIKQFELALQDEIAK 101

Query: 615 KKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREK 674
            +  E+ N       ++          E++   L+   E  + +   +    +   + EK
Sbjct: 102 LEALELLNLEKDKELELLEKELDELSKELQK-QLQNTAEIIEKKRENNKNEERLKFENEK 160

Query: 675 KTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKE--EL 732
           K +   +  E++K   Q        +           K  +EQ E++W   +K K   EL
Sbjct: 161 KLEESLEL-EREKFEEQLHEANLDLEF----------KENEEQRESKWAILKKLKRRAEL 209

Query: 733 VMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLE 776
             Q           E+  +SK     ++      R  D ++++ 
Sbjct: 210 GSQQVQGEALELPNESFIRSKFPSDINEKADKGFRGFDCLNKVP 253

Length = 438

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

 Score = 45.1 bits (107), Expect = 2e-04
 Identities = 52/246 (21%), Positives = 110/246 (44%), Gaps = 15/246 (6%)

Query: 528 AGILSDDTSLEHLVPQ--DKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSK- 584
           + + S+   +E+ + +   +  +   K+    +E+  QL +  E   +++ +    LS  
Sbjct: 691 SSLQSELRRIENRLDELSQELSDASRKIGEIEKEI-EQLEQEEEKLKERLEELEEDLSSL 749

Query: 585 ------DKAELKTLRQEKEEVER-LKKEKQILEE----NTMKKLSEMENALCKASGQVER 633
                  K+ELK L    EE+E  L K ++ L +     +  ++ E++  L K   +V R
Sbjct: 750 EQEIENVKSELKELEARIEELEEDLHKLEEALNDLEARLSHSRIPEIQAELSKLEEEVSR 809

Query: 634 ANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEE 693
             + +R +E +   L  E E  +    E      ++ ++ K  + + ++   +K   +EE
Sbjct: 810 IEARLREIEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEELEEE 869

Query: 694 LVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSK 753
           L   +  +  L   L   K  +++LEA+ R+ E+  EEL  Q    RK   +++A  ++ 
Sbjct: 870 LEELEAALRDLESRLGDLKKERDELEAQLRELERKIEELEAQIEKKRKRLSELKAKLEAL 929

Query: 754 EDMIKS 759
           E+ +  
Sbjct: 930 EEELSE 935

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|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 45.1 bits (106), Expect = 2e-04
 Identities = 54/209 (25%), Positives = 86/209 (41%), Gaps = 21/209 (10%)

Query: 597  EEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAK 656
            EE  + +  K+       ++  +      KA  + ER N  +R+ E    A     +AA 
Sbjct: 1215 EEARKAEDAKKAEAVKKAEEAKKDAEEAKKA--EEERNNEEIRKFEEARMAHFARRQAAI 1272

Query: 657  LRAAESAASCQEVSKRE--KKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAK-- 712
               AE A    E+ K E  KK     ++ EK+KA   ++   E +K  +  ++ ++AK  
Sbjct: 1273 --KAEEARKADELKKAEEKKKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKK 1330

Query: 713  --ALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEAS------AKSKEDMIKSKAETN 764
              A +++ E   +  E AK E    A       E+ EA+      AK K D  K KAE  
Sbjct: 1331 ADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEE- 1389

Query: 765  LMRYKDDIHRLEKEISQLRLKTDSSKIAA 793
                K      +K+  + + K D  K AA
Sbjct: 1390 ----KKKADEAKKKAEEDKKKADELKKAA 1414

Length = 2084

>gnl|CDD|227278 COG4942, COG4942, Membrane-bound metallopeptidase [Cell division and chromosome partitioning]

 Score = 44.3 bits (105), Expect = 2e-04
 Identities = 43/237 (18%), Positives = 91/237 (38%), Gaps = 16/237 (6%)

Query: 573 QKVMQAARRLSKDKAEL----KTLRQEKEEVERLKKEKQILEEN---TMKKLSEMENALC 625
                  ++L + + E+    K +R+++++  +L+K+ + LE        +L E  + L 
Sbjct: 31  FSAAADDKQLKQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLK 90

Query: 626 KASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEK 685
           K   Q+   N+ +  LEV+    ++   A +L A +   S +        +    Q   +
Sbjct: 91  KLRKQIADLNARLNALEVQERE-QRRRLAEQLAALQR--SGRNPPPALLVSPEDAQRSVR 147

Query: 686 QKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSI---RKE 742
               +         ++  L   L Q  A++ ++ A   +      E   Q + +    +E
Sbjct: 148 LAIYYGALNPARAERIDALKATLKQLAAVRAEIAAEQAELTTLLSEQRAQQAKLAQLLEE 207

Query: 743 REQIEAS-AKSKEDMIKSKAE--TNLMRYKDDIHRLEKEISQLRLKTDSSKIAALRR 796
           R++  A          K   E   N  R K++I   E   ++ R    +++ AA R 
Sbjct: 208 RKKTLAQLNSELSADQKKLEELRANESRLKNEIASAEAAAAKAREAAAAAEAAAARA 264

Length = 420

>gnl|CDD|205692 pfam13514, AAA_27, AAA domain

 Score = 45.5 bits (108), Expect = 2e-04
 Identities = 50/268 (18%), Positives = 96/268 (35%), Gaps = 40/268 (14%)

Query: 589 LKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVR------RLE 642
           L+  RQ  EE E+    K  L+E    +L + E AL +A  + + A SA+          
Sbjct: 665 LELARQLLEEAEKQAARKASLDE----RLRDAERALEEAEERHDEAQSALEAWQEQWYDA 720

Query: 643 VENTALRQEMEAAKLRAA-ESAASCQEVSKREKKTQMKFQSWEKQKALFQEEL--VTEK- 698
           +    L      A    A E   + +E  +     + +  + E+  A F+EE+  + E  
Sbjct: 721 LLEAGLGGRASPAGALDALELLQNIKEKLQAADDLRQRIAAMERDLARFEEEVEALAEAV 780

Query: 699 ----------RKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIE- 747
                          L Q L +A+      E    + E+A++E+   A+++ +   ++  
Sbjct: 781 APEMLGTPADETARALKQRLKRARDTAAAAEKLAEEIEEAEKEVSEAAAALDEAEARLTA 840

Query: 748 ----ASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRL----KTDSSKIAALRRGID 799
               A   + E+++   A      Y+     L K I+ L            + AL     
Sbjct: 841 LLRAARCTTIEELL--AAVERSDTYR----ELRKRIAALERTLVRAGGGLSLEALVAEAA 894

Query: 800 GSYAGRLT-DIKSSSVHKESQTPLISEV 826
                 L   ++  +   E     ++E+
Sbjct: 895 ALDPDELPARLEELARDIEELEEELNEL 922

This domain is found in a number of double-strand DNA break proteins. This domain contains a P-loop motif. Length = 1118

>gnl|CDD|114219 pfam05483, SCP-1, Synaptonemal complex protein 1 (SCP-1)

 Score = 44.7 bits (105), Expect = 2e-04
 Identities = 49/236 (20%), Positives = 114/236 (48%), Gaps = 6/236 (2%)

Query: 545 KRDEIILKLIP-RVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLK 603
           +++E  LK+I   +++  ++L E T++ N K ++    L K  AE + L  EK++ E++ 
Sbjct: 373 EKNEDQLKIITMELQKKSSELEEMTKFKNNKEVEL-EELKKILAEDEKLLDEKKQFEKIA 431

Query: 604 KEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESA 663
           +E +  E+  +  L   E  +     Q+    ++      E   L+ E+E  KL+  E  
Sbjct: 432 EELKGKEQELIFLLQAREKEIHDLEIQLTAIKTSEEHYLKEVEDLKTELEKEKLKNIELT 491

Query: 664 ASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWR 723
           A C ++    K+   +      +    QE+++  K++  ++L++++  +  +  L     
Sbjct: 492 AHCDKLLLENKELTQEASDMTLELKKHQEDIINCKKQEERMLKQIENLEEKEMNLR---D 548

Query: 724 QEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEI 779
           + E  +EE + +   ++ + ++ E +A+S E  +  K E  +   ++  + L+K+I
Sbjct: 549 ELESVREEFIQKGDEVKCKLDKSEENARSIEYEVLKK-EKQMKILENKCNNLKKQI 603

Synaptonemal complex protein 1 (SCP-1) is the major component of the transverse filaments of the synaptonemal complex. Synaptonemal complexes are structures that are formed between homologous chromosomes during meiotic prophase. Length = 787

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

 Score = 44.5 bits (105), Expect = 3e-04
 Identities = 46/172 (26%), Positives = 79/172 (45%), Gaps = 20/172 (11%)

Query: 636 SAVRRLEVENTALRQEMEAAK-----LRAAESAASCQEVSKREKKTQMKFQSWEKQKALF 690
           SA+ RLE +   L+ E++ A+     LR   S  +  E S +    Q+K ++   Q  L 
Sbjct: 406 SAIERLEQDIKKLQAELQQARQNESELRNQISLLTSLERSLKSDLGQLKKENDMLQTKL- 464

Query: 691 QEELVTEKRKVVQLLQELDQ------------AKALQEQLEARWRQEEKAKEELVMQASS 738
              +V+ K+K  Q +Q +++             K L E+ + +  +EE A      QA++
Sbjct: 465 -NSMVSAKQKDKQSMQSMEKRLKSEADSRVNAEKQLAEEKKRKKEEEETAARA-AAQAAA 522

Query: 739 IRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSK 790
            R+E  +    AK   +M   K E +L   +++   LEKE  +LR   +S K
Sbjct: 523 SREECAESLKQAKQDLEMEIKKLEHDLKLKEEECRMLEKEAQELRKYQESEK 574

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

>gnl|CDD|206039 pfam13868, Trichoplein, Tumour suppressor, Mitostatin

 Score = 43.7 bits (104), Expect = 3e-04
 Identities = 43/217 (19%), Positives = 100/217 (46%), Gaps = 22/217 (10%)

Query: 572 NQKVMQAARRLSKDK--AELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASG 629
           N+K+  A     +D    E K ++ E++E ER  +  +++EE  +K L+E E        
Sbjct: 10  NEKLRAAKVNKERDAQIEEKKRIKAEEKEEER--RIDEMMEEERLKALAEEEER------ 61

Query: 630 QVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKAL 689
           + +R         V    L++++E  + R  E      E  +R ++ +   +  E+ +  
Sbjct: 62  ERKRKEERREGRAV----LQEQIEEREKRRQE------EYEERLQEREQMDEIIERIQEE 111

Query: 690 FQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEAS 749
            + E   ++ K  +L +E+D+    + + +   ++ E+ +E  +++    + ERE+ E  
Sbjct: 112 DEAEAQEKREKQKKLREEIDEFNEERIERKEEEKEREREEELKILEYQREKAEREE-ERE 170

Query: 750 AKSKEDMIKSKAETNLMRYK-DDIHRLEKEISQLRLK 785
           A+ +E   + + E   +R + ++     +E+ +LR  
Sbjct: 171 AERRERKEEKEREVARLRAQQEEAEDEREELDELRAD 207

Trichoplein or mitostatin, was first defined as a meiosis-specific nuclear structural protein. It has since been linked with mitochondrial movement. It is associated with the mitochondrial outer membrane, and over-expression leads to reduction in mitochondrial motility whereas lack of it enhances mitochondrial movement. The activity appears to be mediated through binding the mitochondria to the actin intermediate filaments (IFs). Length = 349

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 43.8 bits (103), Expect = 4e-04
 Identities = 36/211 (17%), Positives = 77/211 (36%), Gaps = 15/211 (7%)

Query: 586 KAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVEN 645
             ELK   Q K+      + K+ LE      L      L +    + +      + E+E+
Sbjct: 198 LQELKLKEQAKKA-LEYYQLKEKLELEEENLLYLDYLKLNEERIDLLQELLRDEQEEIES 256

Query: 646 TALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQ-SWEKQKALFQEELVTEKRKVVQL 704
           +    E E   L              +E++ + K Q    K  A  +EEL +E  K+ + 
Sbjct: 257 SKQELEKEEEILAQ-------VLKENKEEEKEKKLQEEELKLLAKEEEELKSELLKLERR 309

Query: 705 LQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETN 764
             + ++     E+      + +K ++EL  +   I +  ++++     +E   + + +  
Sbjct: 310 KVDDEEKLKESEK------ELKKLEKELKKEKEEIEELEKELKELEIKREAEEEEEEQLE 363

Query: 765 LMRYKDDIHRLEKEISQLRLKTDSSKIAALR 795
            ++ K +    E    +       S  A L+
Sbjct: 364 KLQEKLEQLEEELLAKKKLESERLSSAAKLK 394

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|227278 COG4942, COG4942, Membrane-bound metallopeptidase [Cell division and chromosome partitioning]

 Score = 43.6 bits (103), Expect = 4e-04
 Identities = 23/122 (18%), Positives = 48/122 (39%), Gaps = 7/122 (5%)

Query: 556 RVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMK 615
           R+  L   L    + A  +   AA + ++    L   R ++ ++ +L +E++        
Sbjct: 162 RIDALKATL---KQLAAVRAEIAAEQ-AELTTLLSEQRAQQAKLAQLLEERKKTLAQLNS 217

Query: 616 KLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKK 675
           +LS  +  L +      R  + +   E      R+   AA+   A +A +    +KR  +
Sbjct: 218 ELSADQKKLEELRANESRLKNEIASAEAAAAKAREAAAAAE---AAAARARAAEAKRTGE 274

Query: 676 TQ 677
           T 
Sbjct: 275 TY 276

Length = 420

>gnl|CDD|129705 TIGR00618, sbcc, exonuclease SbcC

 Score = 43.8 bits (103), Expect = 4e-04
 Identities = 35/233 (15%), Positives = 81/233 (34%), Gaps = 27/233 (11%)

Query: 568 TEWANQKVMQAARRLSKDKAELKTLR----QEKEEVERLKKEKQILEENTMKKLSEMENA 623
           T            R    + ELK LR    Q ++    L ++++  EE       + +  
Sbjct: 207 TLCTPCMPDTYHERKQVLEKELKHLREALQQTQQSHAYLTQKREAQEEQ-----LKKQQL 261

Query: 624 LCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKK-TQMKFQS 682
           L +   ++E   +    LE     + +  +AA L AA   A  Q   + ++  T+++ + 
Sbjct: 262 LKQLRARIEELRAQEAVLEETQERINRARKAAPL-AAHIKAVTQIEQQAQRIHTELQSKM 320

Query: 683 WEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIR-- 740
             + K L +     +++  ++  + L Q    QE       +   +  E+  Q  ++   
Sbjct: 321 RSRAKLLMKRAAHVKQQSSIEEQRRLLQTLHSQEIHIRDAHEVATSIREISCQQHTLTQH 380

Query: 741 -----------KEREQIEASAKSKEDMIKSKAETNLMRYKD---DIHRLEKEI 779
                       ++ Q            ++  +T    ++D    +   +K+ 
Sbjct: 381 IHTLQQQKTTLTQKLQSLCKELDILQREQATIDTRTSAFRDLQGQLAHAKKQQ 433

All proteins in this family for which functions are known are part of an exonuclease complex with sbcD homologs. This complex is involved in the initiation of recombination to regulate the levels of palindromic sequences in DNA. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 1042

>gnl|CDD|220369 pfam09731, Mitofilin, Mitochondrial inner membrane protein

 Score = 43.5 bits (103), Expect = 4e-04
 Identities = 44/235 (18%), Positives = 90/235 (38%), Gaps = 32/235 (13%)

Query: 542 PQDKRDEIILKLIPRVRELHNQLH----EWTEWANQKVMQAARRLSKDKAELKTLRQEKE 597
           PQ      + KL    ++   Q+             +    A   +   AE  T +  +E
Sbjct: 60  PQISVVSSVTKLSKGPKDEPKQVKIPRQSGLSEEVAEAEAKA---TSVAAEATTPKSIQE 116

Query: 598 EVERLKKEKQIL-----EENTMKKLSEMENALC---KASGQVERANSAVRRLEVENTALR 649
            VE L++  + L      +  +++L  + N L    K     +   S +   + E   L 
Sbjct: 117 LVEALEELLEELLKETASDPVVQELVSIFNDLIDSIKEDNLKDDLESLIASAKEELDQLS 176

Query: 650 QEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELD 709
           +++   K    E        + +EK+ ++  +  E+  A  + +    ++   QL  E +
Sbjct: 177 KKLAELKAEEEEELER----ALKEKREELLSKLEEELLARLESKEAALEK---QLRLEFE 229

Query: 710 QAKA-LQEQLEARWRQE---------EKAKEELVMQASSIRKEREQIEASAKSKE 754
           + K  L+++ E + RQE         +K K EL +QA  +++E  +       +E
Sbjct: 230 REKEELRKKYEEKLRQELERQAEAHEQKLKNELALQAIELQREFNKEIKEKVEEE 284

Mitofilin controls mitochondrial cristae morphology. Mitofilin is enriched in the narrow space between the inner boundary and the outer membranes, where it forms a homotypic interaction and assembles into a large multimeric protein complex. The first 78 amino acids contain a typical amino-terminal-cleavable mitochondrial presequence rich in positive-charged and hydroxylated residues and a membrane anchor domain. In addition, it has three centrally located coiled coil domains. Length = 493

>gnl|CDD|222447 pfam13904, DUF4207, Domain of unknown function (DUF4207)

 Score = 42.4 bits (100), Expect = 5e-04
 Identities = 38/180 (21%), Positives = 73/180 (40%), Gaps = 31/180 (17%)

Query: 557 VRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKK 616
           V+        +  W + K  Q            K L++  EE ++ ++EK+  E    ++
Sbjct: 79  VKLERQAQEAYENWLSAKQAQ----------RQKKLQKLLEEKQKQEREKEREEAELRQR 128

Query: 617 LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREK-- 674
           L++            E+     R+   +  A +Q     K  AAESA+S    S + +  
Sbjct: 129 LAK------------EKYEEWCRQKAQQ--AAKQRTPKHKKEAAESASSSLSGSAKPERN 174

Query: 675 ----KTQMKFQSWEKQK-ALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAK 729
               + + + Q WE +K    Q++   E+RK  +  QE ++ K   E+   +W +  K +
Sbjct: 175 VSQEEAKKRLQEWELKKLKQQQQKREEERRKQRKKQQEEEERKQKAEEAWQKWMKNVKQR 234

This family is found in eukaryotes; it has several conserved tryptophan residues. The function is not known. Length = 261

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

 Score = 42.4 bits (100), Expect = 6e-04
 Identities = 39/192 (20%), Positives = 74/192 (38%), Gaps = 13/192 (6%)

Query: 615 KKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREK 674
            KL E+E    +   ++E        L  E + L ++ +    +  E     QE+ +   
Sbjct: 6   DKLDELELKRKQLKEEIEELKEKRDELRKEASELAEKRDELNAKVRELREKAQELREERD 65

Query: 675 KTQMKFQSW-EKQKALFQE--ELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEE 731
           +   + Q   EK+  +  +  EL  E R++ +   E +      + LE    + EK ++ 
Sbjct: 66  EINEEVQELKEKRDEINAKLQELRKEYRELKEKRNEFNLGGRSIKSLEREIERLEKKQQT 125

Query: 732 LVMQASSIRKEREQIE-ASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDS-- 788
            V+   +  +ERE ++      KE     KA    +   + +  L+ EI +L+ K     
Sbjct: 126 SVL---TPEEERELVQKIKELRKELEDAKKA----LEENEKLKELKAEIDELKKKAREIH 178

Query: 789 SKIAALRRGIDG 800
            KI  L      
Sbjct: 179 EKIQELANEAQE 190

Length = 294

>gnl|CDD|222279 pfam13639, zf-RING_2, Ring finger domain

 Score = 37.8 bits (88), Expect = 8e-04
 Identities = 18/48 (37%), Positives = 22/48 (45%), Gaps = 5/48 (10%)

Query: 843 RECVMCLSE---EMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSP 887
            EC +CL E      VV LPC H V    C +   +     CP CR+P
Sbjct: 1   DECPICLDEFEPGEEVVVLPCGH-VFHKECLDKWLRSSNT-CPLCRAP 46

Length = 46

>gnl|CDD|235316 PRK04863, mukB, cell division protein MukB; Provisional

 Score = 42.3 bits (100), Expect = 0.001
 Identities = 36/181 (19%), Positives = 75/181 (41%), Gaps = 28/181 (15%)

Query: 594 QEKEEVERLKKEKQI--LEENTMKKLSEM-ENALCKASGQVERANSAVRRLEVENTALRQ 650
           Q ++ V+ L++ KQ+  L + T     +  E    K     E   S  ++L V   A  Q
Sbjct: 415 QYQQAVQALERAKQLCGLPDLTADNAEDWLEEFQAKEQEATEELLSLEQKLSVAQAAHSQ 474

Query: 651 EMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQ------------EELVTEK 698
             +A +L    +    +  +    +     +   +Q+ L +            E+ + ++
Sbjct: 475 FEQAYQLVRKIAGEVSRSEAWDVARE--LLRRLREQRHLAEQLQQLRMRLSELEQRLRQQ 532

Query: 699 RKVVQLLQEL-----------DQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIE 747
           ++  +LL E            D+ + LQE+LEAR     ++  E   +  ++R++ EQ++
Sbjct: 533 QRAERLLAEFCKRLGKNLDDEDELEQLQEELEARLESLSESVSEARERRMALRQQLEQLQ 592

Query: 748 A 748
           A
Sbjct: 593 A 593

Length = 1486

>gnl|CDD|218704 pfam05701, DUF827, Plant protein of unknown function (DUF827)

 Score = 42.3 bits (99), Expect = 0.001
 Identities = 55/237 (23%), Positives = 100/237 (42%), Gaps = 17/237 (7%)

Query: 557 VRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKK 616
           V+E  +      +W      ++ R L K+      L   +EE  +LKKE ++ E+  ++ 
Sbjct: 7   VKEAVSLFGGIADWKAHLPQRSERVLVKET----ELMLAQEEANKLKKELEVAEKEKLQV 62

Query: 617 LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKT 676
           L E+E         VE     + + E E    +Q+ E AKLRA E     QE+      T
Sbjct: 63  LKELE----STKRTVEDLKLKLEKAEKEEQQAKQDSELAKLRAEELEQGIQELEVERYIT 118

Query: 677 QMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQA 736
                   K+      EL   +++   L++E D A    E+     +  EK  EEL  + 
Sbjct: 119 ATAELDSVKE------ELRKIRQEYDALVEERDAALKRAEEAICASKVNEKKVEELTKEI 172

Query: 737 SSIRKEREQIEAS---AKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSK 790
            ++++  E+  A+   A+ +      + + +   Y+ ++   EKE+ +L+   D  K
Sbjct: 173 IAMKESLERAHAAHLEAEEERIGAALEKDQDRETYEKELKEAEKELERLKQDLDPEK 229

This family consists of several plant proteins of unknown function. Several sequences in this family are described as being "myosin heavy chain-like". Length = 484

>gnl|CDD|226809 COG4372, COG4372, Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

 Score = 42.3 bits (99), Expect = 0.001
 Identities = 35/221 (15%), Positives = 77/221 (34%), Gaps = 11/221 (4%)

Query: 550 ILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQIL 609
           I   +  +R            A  +   A   L K + E + +RQE     +   + Q  
Sbjct: 79  IRPQLRALRTELGTAQGEKRAAETEREAARSELQKARQEREAVRQELAAARQNLAKAQQE 138

Query: 610 EENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEV 669
                K+  +++  L   + Q  +  +  + L+     L+      K +  +      ++
Sbjct: 139 LARLTKQAQDLQTRLKTLAEQRRQLEAQAQSLQASQKQLQASATQLKSQVLDLKLRSAQI 198

Query: 670 SKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQ--AKALQEQLEARWRQEEK 727
            +  +    +  + + +     EEL        Q  Q + Q  A+  Q+  +   R E+ 
Sbjct: 199 EQEAQNLATRANAAQAR----TEELARRAAAAQQTAQAIQQRDAQISQKAQQIAARAEQI 254

Query: 728 AKEE-----LVMQASSIRKEREQIEASAKSKEDMIKSKAET 763
            + E     L    + + +E  Q+EA  ++   + +  A T
Sbjct: 255 RERERQLQRLETAQARLEQEVAQLEAYYQAYVRLRQQAAAT 295

Length = 499

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

 Score = 41.7 bits (97), Expect = 0.002
 Identities = 42/219 (19%), Positives = 96/219 (43%), Gaps = 10/219 (4%)

Query: 583  SKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLE 642
            +K   E K   +E ++ +  KK+     E   KK  E + A  +A  + + A  A    +
Sbjct: 1469 AKKADEAKKKAEEAKKADEAKKKA----EEAKKKADEAKKA-AEAKKKADEAKKAEEAKK 1523

Query: 643  VENTALRQEMEAA-KLRAAESAASCQEVSKRE--KKTQMKFQSWEKQKALFQEELVTEKR 699
             +     +E + A + + AE      E+ K E  KK + K ++ E +KA   + +   K 
Sbjct: 1524 ADEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKAEEKKKAEEAKKAEEDKNMALRKA 1583

Query: 700  KVVQLLQELDQAKALQEQLEARWRQEEKAK--EELVMQASSIRKEREQIEASAKSKEDMI 757
            +  +  +E    + ++   E +  + E+AK  EE  ++A  ++K  E+ +   + K+   
Sbjct: 1584 EEAKKAEEARIEEVMKLYEEEKKMKAEEAKKAEEAKIKAEELKKAEEEKKKVEQLKKKEA 1643

Query: 758  KSKAETNLMRYKDDIHRLEKEISQLRLKTDSSKIAALRR 796
            + K +   ++  ++ ++++      + + D  K    ++
Sbjct: 1644 EEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKK 1682

Length = 2084

>gnl|CDD|205692 pfam13514, AAA_27, AAA domain

 Score = 42.1 bits (99), Expect = 0.002
 Identities = 47/237 (19%), Positives = 94/237 (39%), Gaps = 51/237 (21%)

Query: 546 RDEIILKLIPRVRELHNQLHEWT----EW--ANQKVMQAARRLSKDKAELKTLRQEKEEV 599
           R   I   +  ++EL  ++ E       W    + + +A   L+  + EL+ L +EK+ +
Sbjct: 148 RKPEINVALKELKELEAEIREVQLKTRTWKDLVKALDEAEEELANLRKELRQLEKEKQRL 207

Query: 600 ERLKK------EKQILEE-------------NTMKKLSEMENALCKASGQVERANSAVRR 640
           ERL++      E++ LE+             + +++  E    L  A   +E     +  
Sbjct: 208 ERLRRLLPLLAERKALEQQLAALGEVIDLPPDAVERYEEARAELRAARRNLELLTERLEA 267

Query: 641 LEVENTALR---------QEMEAAKLRAAESAASCQEVSKREKK------------TQMK 679
           L+ E   +            +EA   +  E   + Q++  RE +             Q+ 
Sbjct: 268 LQAELDEISLDEELLAQAAAIEALHQQRGEYRNAEQDLPDREGEIANAREAAAALLAQIG 327

Query: 680 FQSWEKQKALFQEELVTEKRKVVQLL---QELDQA-KALQEQLEARWRQEEKAKEEL 732
             + E+     +  L   K  V +L    + LDQA K+ ++ LE R R+ ++ + +L
Sbjct: 328 PDADEEAVESLRPSLAA-KETVTELEKRKEALDQALKSARDALEERERELKQVRAQL 383

This domain is found in a number of double-strand DNA break proteins. This domain contains a P-loop motif. Length = 1118

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

 Score = 41.4 bits (97), Expect = 0.002
 Identities = 82/455 (18%), Positives = 140/455 (30%), Gaps = 55/455 (12%)

Query: 297 SHSSQPEAPTVAGIPNITKSKNSHVGSEISEKDGTNSISDNVDKTFSVAGTSQSPALEEK 356
           S +S     +   +  +  S  +H  S+ S             K    +   Q  ++   
Sbjct: 217 SEASSKGLTSTKELVPVQNSGGNHSLSKSSNSQTPELEYSEKGKDHHHSHNHQHHSIGIN 276

Query: 357 FVGSRKVHSGSSKREYMLRQKSLHLEKHYRTYGSKGSS--RAGKLSGLGGLILDKKLKSV 414
              S+   S     E +      H  K   +  S   S       S      +  K    
Sbjct: 277 NHHSKHADSKLQTIEVIEN----HSNKSRPSSSSTNGSKETTSNSSSAAAGSIGSKSSKS 332

Query: 415 SDTTSVNLKNASSKISKAIEVHQDNGSHNLSTSPGTSSPATFHSQGANAISALPKTSMPS 474
           +  ++ N  N+S K          + S    + P +S       Q         + S  S
Sbjct: 333 AKHSNRNKSNSSPK----------SHSSANGSVPSSSVSDNESKQK--------RASKSS 374

Query: 475 TFPPGGTPAVLPLANTLPVLSAADTELSLSLPTKSNSTQVPAGINSVAPNCGYAGILSDD 534
           +           ++    V      E  +S P  S   ++   I            L  +
Sbjct: 375 SGARDSKKDASGMSANGTV-ENCIPENKISTP--SAIERLEQDIKK----------LQAE 421

Query: 535 TSLEHLVPQDKRDEIILKLIPRVRELHN---QLHEWTEWANQKVMQAARRLSKDKAELKT 591
                    + R++I L L    R L +   QL +  +    K+        KDK  +++
Sbjct: 422 LQQARQNESELRNQISL-LTSLERSLKSDLGQLKKENDMLQTKLNSMVSAKQKDKQSMQS 480

Query: 592 L-RQEKEEVE-RLKKEKQILEENTMKKLSEMENALCKASGQVERA------NSAVRRLEV 643
           + ++ K E + R+  EKQ+ EE   KK  E   A   A     R         A + LE+
Sbjct: 481 MEKRLKSEADSRVNAEKQLAEEKKRKKEEEETAARAAAQAAASREECAESLKQAKQDLEM 540

Query: 644 ENTALRQEMEAAKLRAAESAASCQEV-----SKREKKTQMKFQSWEKQKALFQEE-LVTE 697
           E   L  +++  +          QE+     S++E +  M      + K L  E  L  E
Sbjct: 541 EIKKLEHDLKLKEEECRMLEKEAQELRKYQESEKETEVLMSALQAMQDKNLMLENSLSAE 600

Query: 698 KRKVVQLLQELDQAKALQEQLEARWRQEEKAKEEL 732
            R  + L   L   K   E       + E    +L
Sbjct: 601 TRLKLDLFSALGDVKRQLEIAHGAIYKREAEIVDL 635

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

>gnl|CDD|225638 COG3096, MukB, Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]

 Score = 41.8 bits (98), Expect = 0.002
 Identities = 37/180 (20%), Positives = 72/180 (40%), Gaps = 13/180 (7%)

Query: 577 QAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALC---KASGQVER 633
           QA   L + K          +  E   +  Q  EE   +KL  +E  +     A  Q E+
Sbjct: 418 QAIAALERAKELCHLPDLTADSAEEWLETFQAKEEEATEKLLSLEQKMSMAQAAHSQFEQ 477

Query: 634 ANSAVRRLEVE---NTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALF 690
           A   V  +  E   + A     E   LR        + ++++ +  +M+    E++    
Sbjct: 478 AYQLVVAIAGELARSEAWDVAREL--LREGPDQ---RHLAEQVQPLRMRLSELEQRLRQQ 532

Query: 691 Q--EELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEA 748
           Q  E L+ +  K      + ++ +AL ++LEA       +      Q  ++R+E+EQ+++
Sbjct: 533 QSAERLLADFCKRQGKNLDAEELEALHQELEALIESLSDSVSNAREQRMALRQEQEQLQS 592

Length = 1480

>gnl|CDD|216108 pfam00769, ERM, Ezrin/radixin/moesin family

 Score = 40.5 bits (95), Expect = 0.002
 Identities = 38/211 (18%), Positives = 89/211 (42%), Gaps = 26/211 (12%)

Query: 600 ERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRA 659
           E  ++E+Q L     +++ +ME  + +A  ++E        LE       ++ E      
Sbjct: 1   EEAEREQQEL----EERMEQMEEDMRRAQKELEEYEETALELE----EKLKQEEEEAQLL 52

Query: 660 AESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELD----QAKALQ 715
            + A   +E ++R ++        E+++   + E+     +V +L +E +    + + LQ
Sbjct: 53  EKKADELEEENRRLEEEAAAS---EEERERLEAEVDEATAEVAKLEEEREKKEAETRQLQ 109

Query: 716 EQLEARWRQEEKAKEELVMQASSIRK--------EREQIEASAKSKEDMIKSKAETNLMR 767
           ++L       E+A++EL+  A++             EQ+E     +E     + + ++  
Sbjct: 110 QELREAQEAHERARQELLEAAAAPTAPPHVAAPVNGEQLEPDDNGEEASADLETDPDMKD 169

Query: 768 YKDDIHRLEKEIS---QLRLKTDSSKIAALR 795
             ++      E +   Q +L+   S++AA R
Sbjct: 170 RSEEERVTYAEKNERLQTQLQALKSELAAAR 200

This family of proteins contain a band 4.1 domain (pfam00373), at their amino terminus. This family represents the rest of these proteins. Length = 244

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 41.1 bits (96), Expect = 0.002
 Identities = 44/195 (22%), Positives = 76/195 (38%), Gaps = 29/195 (14%)

Query: 573 QKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEE------NTMKKLSEMENALCK 626
             V+Q   R+   ++  K     K E +R KKE+Q+ EE         ++L ++E    K
Sbjct: 58  GAVVQQYGRIQSQQSSAK-----KGEQQRKKKEEQVAEELKPKQAAEQERLKQLEKERLK 112

Query: 627 ASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQ 686
           A  Q ++A  A ++ ++E    +Q+ E A+  AAE     +    +      K ++  + 
Sbjct: 113 AQEQQKQAEEAEKQAQLEQ---KQQEEQARKAAAEQKKKAEAAKAKAAAEAAKLKAAAEA 169

Query: 687 KALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQI 746
           K   +E              E  +AKA     + +   E KA  E        + E E  
Sbjct: 170 KKKAEEAAKAA---------EEAKAKAEAAAAKKKAEAEAKAAAE------KAKAEAEAK 214

Query: 747 EASAKSKEDMIKSKA 761
             + K  E   + KA
Sbjct: 215 AKAEKKAEAAAEEKA 229

Length = 387

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

 Score = 41.3 bits (96), Expect = 0.003
 Identities = 55/218 (25%), Positives = 100/218 (45%), Gaps = 23/218 (10%)

Query: 543  QDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERL 602
            ++ R E ++KL    +++  +  +  E A  K  +  +   + K   +  ++E EE ++ 
Sbjct: 1590 EEARIEEVMKLYEEEKKMKAEEAKKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKA 1649

Query: 603  KKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAES 662
            ++ K+  EEN +K   E +    KA    ++A  A +  E E  A       A  + AE 
Sbjct: 1650 EELKKAEEENKIKAAEEAK----KAEEDKKKAEEAKKAEEDEKKA-----AEALKKEAEE 1700

Query: 663  AASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARW 722
            A   +E+ K+E + + K +  +K     +EE    K K  +  +E ++ K   E  EA+ 
Sbjct: 1701 AKKAEELKKKEAEEKKKAEELKKA----EEE---NKIKAEEAKKEAEEDKKKAE--EAKK 1751

Query: 723  RQEEKAK-----EELVMQASSIRKEREQIEASAKSKED 755
             +EEK K     +E   +A  IRKE+E +      +ED
Sbjct: 1752 DEEEKKKIAHLKKEEEKKAEEIRKEKEAVIEEELDEED 1789

Length = 2084

>gnl|CDD|144972 pfam01576, Myosin_tail_1, Myosin tail

 Score = 41.2 bits (97), Expect = 0.003
 Identities = 48/224 (21%), Positives = 98/224 (43%), Gaps = 22/224 (9%)

Query: 572 NQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQV 631
             K+ +  R+L+   ++   L+ E  ++ R  +E +    N  K  S++E+ L +A   +
Sbjct: 193 QVKLDELQRQLNDLTSQKSRLQSENSDLTRQLEEAEAQVSNLSKLKSQLESQLEEAKRSL 252

Query: 632 ERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSW----EKQK 687
           E  +     L+ +   L  ++++ + +  E + +  E+ ++  K   + Q W    E + 
Sbjct: 253 EEESRERANLQAQLRQLEHDLDSLREQLEEESEAKAELERQLSKANAEIQQWRSKFESEG 312

Query: 688 ALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIE 747
           AL  EEL   K+K+ Q + EL++A    E   A+    EK K  L  +   ++ E E+  
Sbjct: 313 ALRAEELEELKKKLNQKISELEEA---AEAANAKCDSLEKTKSRLQSELEDLQIELERAN 369

Query: 748 ASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSKI 791
           A+A   E   K+                +K +++ + K D  + 
Sbjct: 370 AAASELEKKQKN---------------FDKILAEWKRKVDELQA 398

The myosin molecule is a multi-subunit complex made up of two heavy chains and four light chains it is a fundamental contractile protein found in all eukaryote cell types. 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 the thick filament. Length = 859

>gnl|CDD|226809 COG4372, COG4372, Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

 Score = 40.8 bits (95), Expect = 0.003
 Identities = 35/192 (18%), Positives = 70/192 (36%), Gaps = 8/192 (4%)

Query: 608 ILEENTMKKLSEMENALCK---ASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAA 664
           +L  N    + ++++   +      ++  A    R  E E  A R E++ A+        
Sbjct: 64  LLNRNLRSGVFQLDDIRPQLRALRTELGTAQGEKRAAETEREAARSELQKARQEREAVRQ 123

Query: 665 SCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQ 724
                 +   K Q +     KQ    Q  L T   +  QL  +    +A Q+QL+A   Q
Sbjct: 124 ELAAARQNLAKAQQELARLTKQAQDLQTRLKTLAEQRRQLEAQAQSLQASQKQLQASATQ 183

Query: 725 EEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRL 784
            +    +L ++++ I    EQ   +  ++ +  +++ E  L R      +  + I Q   
Sbjct: 184 LKSQVLDLKLRSAQI----EQEAQNLATRANAAQARTE-ELARRAAAAQQTAQAIQQRDA 238

Query: 785 KTDSSKIAALRR 796
           +          R
Sbjct: 239 QISQKAQQIAAR 250

Length = 499

>gnl|CDD|221432 pfam12128, DUF3584, Protein of unknown function (DUF3584)

 Score = 40.4 bits (95), Expect = 0.004
 Identities = 40/208 (19%), Positives = 83/208 (39%), Gaps = 31/208 (14%)

Query: 577 QAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKL-------SEMENALCKASG 629
           QA  +L +  A+LK L ++++      K+     E   ++L        E++N L + S 
Sbjct: 682 QAETQLRQLDAQLKQLLEQQQAFLEALKDD--FRELRTERLAKWQVVEGELDNQLAQLSA 739

Query: 630 QVERANSAVRR----LEVENT--------------ALRQEMEAAKLRAAESAASCQEVSK 671
            +E A +  +     L+ +                 L++++E  +      A    EV +
Sbjct: 740 AIEAARTQAKARLKELKKQYDRELASLDVDPNTVKELKRQIEELETTIERIAVRRPEVRE 799

Query: 672 RE---KKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKA 728
                ++T +   S  +++     +L   +    +L QEL +     +    +  QE KA
Sbjct: 800 YRAFMQETWLHRDSLREERPNLAIQLRELESSAEELQQELTRLIKDTKLRRKKLEQERKA 859

Query: 729 KEELVMQAS-SIRKEREQIEASAKSKED 755
            E+ + Q    +R  R+++   A+ KE 
Sbjct: 860 LEKQLDQLDELLRGLRDEMRQLAELKEP 887

This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 943 to 1234 amino acids in length. This family contains a P-loop motif suggesting it is a nucleotide binding protein. It may be involved in replication. Length = 1198

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 40.3 bits (94), Expect = 0.004
 Identities = 43/203 (21%), Positives = 82/203 (40%), Gaps = 14/203 (6%)

Query: 557 VRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEE------VERLKKEKQILE 610
           V + + ++      A +   Q  ++  +   ELK  +  ++E       ERLK ++Q  +
Sbjct: 60  VVQQYGRIQSQQSSAKKGEQQRKKKEEQVAEELKPKQAAEQERLKQLEKERLKAQEQQKQ 119

Query: 611 ENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVS 670
               +K +++E    K   +  R  +A ++ + E    +   EAAKL+AA  A    E  
Sbjct: 120 AEEAEKQAQLEQ---KQQEEQARKAAAEQKKKAEAAKAKAAAEAAKLKAAAEAKKKAE-- 174

Query: 671 KREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKE 730
               K   + ++  +  A  ++     K    +   E  +AKA  E+       EEKA  
Sbjct: 175 -EAAKAAEEAKAKAEAAAAKKKAEAEAKAAAEKAKAE-AEAKAKAEKKAEA-AAEEKAAA 231

Query: 731 ELVMQASSIRKEREQIEASAKSK 753
           E    A+  + ++    A A  +
Sbjct: 232 EKKKAAAKAKADKAAAAAKAAER 254

Length = 387

>gnl|CDD|224212 COG1293, COG1293, Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]

 Score = 40.5 bits (95), Expect = 0.004
 Identities = 32/174 (18%), Positives = 70/174 (40%), Gaps = 28/174 (16%)

Query: 580 RRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVR 639
           + L K + +L+    E EE+E+  +E +   E     L  +E  L              +
Sbjct: 293 KELKKLENKLEKQEDELEELEKAAEELRQKGELLYANLQLIEEGL--------------K 338

Query: 640 RLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKR 699
            + + +    +E++    ++   + + Q   K+ KK +    + ++Q +  +E       
Sbjct: 339 SVRLADFYGNEEIKIELDKSKTPSENAQRYFKKYKKLKGAKVNLDRQLSELKEA------ 392

Query: 700 KVVQLLQELDQAKALQEQLEARWRQEEKAKEELV--MQASSIRKEREQIEASAK 751
                +   + AK   E+ E   +  E+ +EEL+      S +K+R++ E   K
Sbjct: 393 -----IAYYESAKTALEKAE-GKKAIEEIREELIEEGLLKSKKKKRKKKEWFEK 440

Length = 564

>gnl|CDD|129694 TIGR00606, rad50, rad50

 Score = 40.8 bits (95), Expect = 0.004
 Identities = 35/212 (16%), Positives = 92/212 (43%), Gaps = 20/212 (9%)

Query: 588 ELKTLRQEKEEVER-LKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRL--EVE 644
           E+  LR + ++V R +++ K  +EE   + L        +++       + + R   E++
Sbjct: 745 EIPELRNKLQKVNRDIQRLKNDIEEQ--ETLLGTIMPEEESAKVCLTDVTIMERFQMELK 802

Query: 645 NTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKF--------------QSWEKQKALF 690
           +   +   +AAKL+ ++   + Q+V++ +++ Q +               Q  ++Q    
Sbjct: 803 DVERKIAQQAAKLQGSDLDRTVQQVNQEKQEKQHELDTVVSKIELNRKLIQDQQEQIQHL 862

Query: 691 QEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASA 750
           + +    K + +Q+   L + +  +EQL     + +    E+             +E   
Sbjct: 863 KSKTNELKSEKLQIGTNLQRRQQFEEQLVELSTEVQSLIREIKDAKEQDSPLETFLEKDQ 922

Query: 751 KSKEDMIKSKAETNLMRYKDDIHRLEKEISQL 782
           + KE++I SK  +N    +D ++ +++++  +
Sbjct: 923 QEKEELISSKETSNKKA-QDKVNDIKEKVKNI 953

All proteins in this family for which functions are known are involvedin recombination, recombinational repair, and/or non-homologous end joining.They are components of an exonuclease complex with MRE11 homologs. This family is distantly related to the SbcC family of bacterial proteins.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Length = 1311

>gnl|CDD|114011 pfam05262, Borrelia_P83, Borrelia P83/100 protein

 Score = 40.4 bits (94), Expect = 0.004
 Identities = 44/220 (20%), Positives = 88/220 (40%), Gaps = 18/220 (8%)

Query: 582 LSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRL 641
             +D  +LK    E+E  E  K+ +Q+ EE   K++        KA  + + A       
Sbjct: 196 FRRDMTDLK----ERESQEDAKRAQQLKEELDKKQID-----ADKAQQKADFAQDN---A 243

Query: 642 EVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKV 701
           + +   +RQ+ + AK       A      + ++  + + +  EK +   ++      +  
Sbjct: 244 DKQRDEVRQKQQEAK--NLPKPADTSSPKEDKQVAENQKREIEKAQIEIKKNDEEALKAK 301

Query: 702 VQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKS-KEDMIKSK 760
                +L Q     E+      +E +A+++    A  ++K + Q+EA   S  ED I S 
Sbjct: 302 DHKAFDLKQESKASEKEAED--KELEAQKKREPVAEDLQKTKPQVEAQPTSLNEDAIDSS 359

Query: 761 AETNLMRYKDDIHRLEKEISQLRLKTDSSKIAALRRGIDG 800
                ++  D I  L  E+  + LKT+     + ++ I  
Sbjct: 360 NPVYGLKVVDPITNL-SELVLIDLKTEVRLRESAQQTIRR 398

This family consists of several Borrelia P83/P100 antigen proteins. Length = 489

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	899
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	99.78
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	99.29
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	99.05
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.98
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	98.63
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	98.63
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.34
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	98.24
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	98.24
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.2
PHA02929	238	N1R/p28-like protein; Provisional	98.18
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	98.15
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	98.15
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.13
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	98.11
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.06
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	98.02
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	97.98
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	97.98
PHA02926	242	zinc finger-like protein; Provisional	97.94
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	97.92
PRK03918	880	chromosome segregation protein; Provisional	97.9
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	97.89
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	97.85
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	97.83
PRK02224	880	chromosome segregation protein; Provisional	97.82
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	97.8
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	97.77
KOG0971	1243	consensus Microtubule-associated protein dynactin	97.77
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.76
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	97.75
PRK02224	880	chromosome segregation protein; Provisional	97.74
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	97.73
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	97.71
PRK11637	428	AmiB activator; Provisional	97.68
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	97.66
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	97.65
PF14634	44	zf-RING_5: zinc-RING finger domain	97.64
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	97.6
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.6
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.53
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	97.51
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	97.51
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	97.48
PRK03918	880	chromosome segregation protein; Provisional	97.48
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	97.46
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	97.45
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	97.44
PRK11637	428	AmiB activator; Provisional	97.4
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.36
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	97.35
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	97.3
KOG0996	1293	consensus Structural maintenance of chromosome pro	97.29
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	97.28
PHA02562	562	46 endonuclease subunit; Provisional	97.24
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	97.21
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	97.2
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.18
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	97.18
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	97.15
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	97.15
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	97.14
KOG4807	593	consensus F-actin binding protein, regulates actin	97.11
COG4372	499	Uncharacterized protein conserved in bacteria with	97.09
COG4942	420	Membrane-bound metallopeptidase [Cell division and	97.08
KOG0971	1243	consensus Microtubule-associated protein dynactin	97.06
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	97.05
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	97.03
KOG0996	1293	consensus Structural maintenance of chromosome pro	97.03
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	97.02
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	97.01
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	96.93
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	96.93
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	96.88
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	96.86
PF13514	1111	AAA_27: AAA domain	96.86
PRK04863	1486	mukB cell division protein MukB; Provisional	96.86
KOG0963	629	consensus Transcription factor/CCAAT displacement	96.85
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	96.83
PF15254	861	CCDC14: Coiled-coil domain-containing protein 14	96.82
KOG0964	1200	consensus Structural maintenance of chromosome pro	96.81
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.8
KOG0933	1174	consensus Structural maintenance of chromosome pro	96.78
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	96.77
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	96.76
PRK09039	343	hypothetical protein; Validated	96.74
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	96.74
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	96.73
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	96.72
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	96.72
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	96.71
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	96.69
COG4942	420	Membrane-bound metallopeptidase [Cell division and	96.66
KOG0963	629	consensus Transcription factor/CCAAT displacement	96.62
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	96.61
PF08647	96	BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR01395	96.55
PHA02562	562	46 endonuclease subunit; Provisional	96.55
PTZ00121	2084	MAEBL; Provisional	96.55
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	96.51
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	96.48
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	96.48
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	96.45
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	96.43
KOG0933	1174	consensus Structural maintenance of chromosome pro	96.4
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	96.4
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	96.39
PRK04863	1486	mukB cell division protein MukB; Provisional	96.37
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	96.34
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	96.34
KOG0982	502	consensus Centrosomal protein Nuf [Cell cycle cont	96.33
PRK04778	569	septation ring formation regulator EzrA; Provision	96.32
COG0419	908	SbcC ATPase involved in DNA repair [DNA replicatio	96.31
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	96.3
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	96.24
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	96.19
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	96.19
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	96.15
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	96.15
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	96.12
KOG0249	916	consensus LAR-interacting protein and related prot	96.08
COG5236	493	Uncharacterized conserved protein, contains RING Z	96.06
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	96.05
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	96.04
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	96.02
KOG2072	988	consensus Translation initiation factor 3, subunit	95.98
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	95.93
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	95.86
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	95.82
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	95.73
TIGR02977	219	phageshock_pspA phage shock protein A. Members of	95.71
PRK09039	343	hypothetical protein; Validated	95.7
PRK04778	569	septation ring formation regulator EzrA; Provision	95.64
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	95.58
KOG2891	445	consensus Surface glycoprotein [General function p	95.58
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	95.52
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	95.49
PRK10698	222	phage shock protein PspA; Provisional	95.46
PRK10246	1047	exonuclease subunit SbcC; Provisional	95.42
KOG0018	1141	consensus Structural maintenance of chromosome pro	95.41
PF00038	312	Filament: Intermediate filament protein; InterPro:	95.41
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	95.39
PF00038	312	Filament: Intermediate filament protein; InterPro:	95.36
COG5152	259	Uncharacterized conserved protein, contains RING a	95.35
PRK11281	1113	hypothetical protein; Provisional	95.34
KOG0979	1072	consensus Structural maintenance of chromosome pro	95.27
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	95.27
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	95.2
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	95.17
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	95.16
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	95.15
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	95.1
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	95.07
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	95.05
KOG4403	575	consensus Cell surface glycoprotein STIM, contains	95.04
COG5185	622	HEC1 Protein involved in chromosome segregation, i	95.03
PRK00106	535	hypothetical protein; Provisional	94.99
PF10186	302	Atg14: UV radiation resistance protein and autopha	94.99
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	94.94
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	94.88
KOG4673	961	consensus Transcription factor TMF, TATA element m	94.86
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	94.71
KOG0964	1200	consensus Structural maintenance of chromosome pro	94.7
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	94.65
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	94.64
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	94.63
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	94.61
COG4372	499	Uncharacterized protein conserved in bacteria with	94.58
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	94.54
PF15066	527	CAGE1: Cancer-associated gene protein 1 family	94.53
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	94.51
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	94.49
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	94.43
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	94.33
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	94.28
PF13514	1111	AAA_27: AAA domain	94.15
COG2433	652	Uncharacterized conserved protein [Function unknow	94.07
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	94.02
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	93.99
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	93.98
PF04641	260	Rtf2: Rtf2 RING-finger	93.84
PRK12704	520	phosphodiesterase; Provisional	93.82
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	93.82
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	93.79
PF07111	739	HCR: Alpha helical coiled-coil rod protein (HCR);	93.77
KOG0018	1141	consensus Structural maintenance of chromosome pro	93.73
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	93.7
KOG0982	502	consensus Centrosomal protein Nuf [Cell cycle cont	93.56
PF05262	489	Borrelia_P83: Borrelia P83/100 protein; InterPro:	93.48
KOG1003	205	consensus Actin filament-coating protein tropomyos	93.37
TIGR03319	514	YmdA_YtgF conserved hypothetical protein YmdA/YtgF	93.35
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	93.32
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	93.31
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	93.3
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	93.29
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	93.24
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	93.21
KOG0825	1134	consensus PHD Zn-finger protein [General function	93.17
PRK10929	1109	putative mechanosensitive channel protein; Provisi	93.16
KOG3002	299	consensus Zn finger protein [General function pred	93.15
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	93.15
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	93.12
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	93.09
PTZ00266	1021	NIMA-related protein kinase; Provisional	93.08
KOG1103	561	consensus Predicted coiled-coil protein [Function	92.95
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	92.91
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	92.89
PF10186	302	Atg14: UV radiation resistance protein and autopha	92.84
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	92.82
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	92.8
PRK00106	535	hypothetical protein; Provisional	92.73
KOG4593	716	consensus Mitotic checkpoint protein MAD1 [Cell cy	92.73
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	92.54
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	92.54
TIGR00634	563	recN DNA repair protein RecN. All proteins in this	92.41
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	92.26
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	92.21
PRK10361	475	DNA recombination protein RmuC; Provisional	92.2
KOG3039	303	consensus Uncharacterized conserved protein [Funct	92.18
PRK01156	895	chromosome segregation protein; Provisional	92.14
KOG0163	1259	consensus Myosin class VI heavy chain [Cytoskeleto	92.11
KOG2660	331	consensus Locus-specific chromosome binding protei	92.05
KOG1001	674	consensus Helicase-like transcription factor HLTF/	92.02
KOG1002	791	consensus Nucleotide excision repair protein RAD16	91.94
KOG0249	916	consensus LAR-interacting protein and related prot	91.79
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	91.74
PTZ00266	1021	NIMA-related protein kinase; Provisional	91.57
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	91.51
KOG2129	552	consensus Uncharacterized conserved protein H4 [Fu	91.51
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	91.48
KOG1003	205	consensus Actin filament-coating protein tropomyos	91.47
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	91.45
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	91.29
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	91.15
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	91.01
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	90.97
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	90.92
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	90.81
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	90.79
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	90.77
PF15066	527	CAGE1: Cancer-associated gene protein 1 family	90.68
PF14662	193	CCDC155: Coiled-coil region of CCDC155	90.52
PF09738	302	DUF2051: Double stranded RNA binding protein (DUF2	90.52
PF15035	182	Rootletin: Ciliary rootlet component, centrosome c	90.42
KOG0579	1187	consensus Ste20-like serine/threonine protein kina	90.34
KOG1899	861	consensus LAR transmembrane tyrosine phosphatase-i	90.26
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	90.11
KOG0297	391	consensus TNF receptor-associated factor [Signal t	89.89
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	89.86
KOG1937	521	consensus Uncharacterized conserved protein [Funct	89.82
KOG4364	811	consensus Chromatin assembly factor-I [Chromatin s	89.79
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	89.68
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	89.61
KOG2113	394	consensus Predicted RNA binding protein, contains	89.35
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	88.99
KOG2412	591	consensus Nuclear-export-signal (NES)-containing p	88.93
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	88.9
KOG0979	1072	consensus Structural maintenance of chromosome pro	88.84
COG5175	480	MOT2 Transcriptional repressor [Transcription]	88.68
KOG4364	811	consensus Chromatin assembly factor-I [Chromatin s	88.68
KOG4673	961	consensus Transcription factor TMF, TATA element m	88.67
COG2433	652	Uncharacterized conserved protein [Function unknow	88.34
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	88.25
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	88.22
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	88.19
KOG0239	670	consensus Kinesin (KAR3 subfamily) [Cytoskeleton]	88.06
KOG2113	394	consensus Predicted RNA binding protein, contains	88.06
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	87.79
KOG4367	699	consensus Predicted Zn-finger protein [Function un	87.79
PRK11281	1113	hypothetical protein; Provisional	87.78
PF07058	351	Myosin_HC-like: Myosin II heavy chain-like; InterP	87.73
PF05700	221	BCAS2: Breast carcinoma amplified sequence 2 (BCAS	87.56
PF07111	739	HCR: Alpha helical coiled-coil rod protein (HCR);	87.35
PF09728	309	Taxilin: Myosin-like coiled-coil protein; InterPro	87.31
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	87.3
PF08703	185	PLC-beta_C: PLC-beta C terminal; InterPro: IPR0148	87.12
TIGR02977	219	phageshock_pspA phage shock protein A. Members of	87.02
PF02841	297	GBP_C: Guanylate-binding protein, C-terminal domai	86.88
KOG0240	607	consensus Kinesin (SMY1 subfamily) [Cytoskeleton]	86.74
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	86.64
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	86.64
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	86.56
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	86.21
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	86.17
COG4487	438	Uncharacterized protein conserved in bacteria [Fun	86.12
PF09731	582	Mitofilin: Mitochondrial inner membrane protein; I	85.97
cd07627	216	BAR_Vps5p The Bin/Amphiphysin/Rvs (BAR) domain of	85.93
PF09731	582	Mitofilin: Mitochondrial inner membrane protein; I	85.91
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	85.81
COG5222	427	Uncharacterized conserved protein, contains RING Z	85.73
PRK10884	206	SH3 domain-containing protein; Provisional	85.28
PF03148	384	Tektin: Tektin family; InterPro: IPR000435 Tektin	85.14
PF15358	558	TSKS: Testis-specific serine kinase substrate	84.65
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	84.53
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	84.49
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	84.41
COG4026	290	Uncharacterized protein containing TOPRIM domain,	84.35
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	84.32
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	84.16
PF14662	193	CCDC155: Coiled-coil region of CCDC155	84.02
KOG2991	330	consensus Splicing regulator [RNA processing and m	83.91
KOG2129	552	consensus Uncharacterized conserved protein H4 [Fu	83.91
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	83.89
PF05278	269	PEARLI-4: Arabidopsis phospholipase-like protein (	83.68
PF02845	42	CUE: CUE domain; InterPro: IPR003892 This domain m	83.65
KOG4593	716	consensus Mitotic checkpoint protein MAD1 [Cell cy	83.62
smart00546	43	CUE Domain that may be involved in binding ubiquit	83.44
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	83.31
PRK00409	782	recombination and DNA strand exchange inhibitor pr	83.2
TIGR00618	1042	sbcc exonuclease SbcC. This family is based on the	83.18
PRK10476	346	multidrug resistance protein MdtN; Provisional	82.86
PF05276	239	SH3BP5: SH3 domain-binding protein 5 (SH3BP5); Int	82.51
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	82.46
KOG0163	1259	consensus Myosin class VI heavy chain [Cytoskeleto	82.43
PRK00409	782	recombination and DNA strand exchange inhibitor pr	82.36
PF05262	489	Borrelia_P83: Borrelia P83/100 protein; InterPro:	82.35
PF07321	152	YscO: Type III secretion protein YscO; InterPro: I	82.21
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	82.01
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	81.78
PF15290	305	Syntaphilin: Golgi-localised syntaxin-1-binding cl	81.34
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	81.33
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	81.26
PRK10929	1109	putative mechanosensitive channel protein; Provisi	81.25
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	81.22
PF10212	518	TTKRSYEDQ: Predicted coiled-coil domain-containing	81.2
KOG0288	459	consensus WD40 repeat protein TipD [General functi	81.14
PF15556	252	Zwint: ZW10 interactor	81.07
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	81.07
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	80.7
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	80.51
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	80.35
PF15369	328	KIAA1328: Uncharacterised protein KIAA1328	80.27
smart00502	127	BBC B-Box C-terminal domain. Coiled coil region C-	80.21
COG5219	1525	Uncharacterized conserved protein, contains RING Z	80.14
PF09744	158	Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; Inte	80.07
KOG2264	907	consensus Exostosin EXT1L [Signal transduction mec	80.07

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

Probab=99.78  E-value=5.7e-17  Score=190.03  Aligned_cols=294  Identities=17%  Similarity=0.282  Sum_probs=198.0

Q ss_pred             ccCCCCchhHHHHHHhHHHHHHHHHHHHhhHHHhHHHHHHHHHhhhcHHHH--HHHHHhHHHHHHHHHHH-HHhHHHhhh
Q 002627          539 HLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAEL--KTLRQEKEEVERLKKEK-QILEENTMK  615 (899)
Q Consensus       539 ~~vp~D~Kde~il~Lv~r~~el~~~~~~~~dWA~qkvmQaa~rl~~d~~eL--k~LR~EkEe~eRlkk~k-~~lee~t~k  615 (899)
                      .-+|.+.+|++=.++..-+-.+-.++..|.+=...+.-+    ...|..+.  ..+=.++++.++.-++- .++.|..-.
T Consensus       384 k~~~ke~~~~~~~ka~~E~e~l~q~l~~~~k~e~~e~~k----~~~d~~~r~~~~~~~~~e~Lqk~~~~~k~ll~e~~t~  459 (698)
T KOG0978|consen  384 KSLLKEQRDKLQVKARAETESLLQRLKALDKEERSEIRK----QALDDAERQIRQVEELSEELQKKEKNFKCLLSEMETI  459 (698)
T ss_pred             hCCCHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----hhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            557777788777677777777777777776543333221    22222211  01112223333222221 222222111


Q ss_pred             --hHHHHHHHHHHhhhhHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          616 --KLSEMENALCKASGQVERANSAVRR--------------LEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMK  679 (899)
Q Consensus       616 --kL~e~E~al~kas~Q~~ra~~~vr~--------------lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~  679 (899)
                        -..+|+..+.++.-|++.++-..++              |+.+...+..++-..+.++.--...+..+-++++.+...
T Consensus       460 gsA~ed~Qeqn~kL~~el~ekdd~nfklm~e~~~~~q~~k~L~~ek~~l~~~i~~l~~~~~~~~~~i~~leeq~~~lt~~  539 (698)
T KOG0978|consen  460 GSAFEDMQEQNQKLLQELREKDDKNFKLMSERIKANQKHKLLREEKSKLEEQILTLKASVDKLELKIGKLEEQERGLTSN  539 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHh
Confidence              1555666666666666555555554              445555555556666666666667778888899999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhh
Q 002627          680 FQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKS  759 (899)
Q Consensus       680 l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~ErEraE~~~k~keealr~  759 (899)
                      ....+++...++.-|+..+.+..++.+.+.+++...+..++++.+.+....+....++.+++.+.++|+           
T Consensus       540 ~~~l~~el~~~~~~le~~kk~~~e~~~~~~~Lq~~~ek~~~~le~i~~~~~e~~~ele~~~~k~~rleE-----------  608 (698)
T KOG0978|consen  540 ESKLIKELTTLTQSLEMLKKKAQEAKQSLEDLQIELEKSEAKLEQIQEQYAELELELEIEKFKRKRLEE-----------  608 (698)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------
Confidence            999999999999999999999999999999999999999999999888888887777776665555544           


Q ss_pred             HHHHhhhhhHHHHHHHHHHHHHHhhccchhHHHHHHhccCCCCCCccccccccccccCCchhHHHHHHhhccCCCCCCcc
Q 002627          760 KAETNLMRYKDDIHRLEKEISQLRLKTDSSKIAALRRGIDGSYAGRLTDIKSSSVHKESQTPLISEVMKDYHDFSGTGGV  839 (899)
Q Consensus       760 K~E~E~qr~k~dikrLEqElsrLr~k~d~~RrAaL~~g~d~sy~~~~~~q~~~~~~k~~Q~~~iqelL~~ie~~~E~~~l  839 (899)
                                 ++.+|...+++++....                                ....++.|.+     ++..+
T Consensus       609 -----------E~e~L~~kle~~k~~~~--------------------------------~~s~d~~L~E-----Elk~y  640 (698)
T KOG0978|consen  609 -----------ELERLKRKLERLKKEES--------------------------------GASADEVLAE-----ELKEY  640 (698)
T ss_pred             -----------HHHHHHHHHHHhccccc--------------------------------cccccHHHHH-----HHHHH
Confidence                       34444454444432220                                0011222222     34567


Q ss_pred             ccccccccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCccccc--ceEeEEe
Q 002627          840 KRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQ--RRIPVRY  896 (899)
Q Consensus       840 ~~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~--~~irVf~  896 (899)
                      .....|++|.++++++|+..|||+ ||..|+..+...++++||.|+.+|+  ++++||+
T Consensus       641 K~~LkCs~Cn~R~Kd~vI~kC~H~-FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~I~l  698 (698)
T KOG0978|consen  641 KELLKCSVCNTRWKDAVITKCGHV-FCEECVQTRYETRQRKCPKCNAAFGANDVHRIHL  698 (698)
T ss_pred             HhceeCCCccCchhhHHHHhcchH-HHHHHHHHHHHHhcCCCCCCCCCCCcccccccCC
Confidence            788999999999999999999999 9999999999999999999999998  6888874

>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=99.29  E-value=7.4e-13  Score=144.99  Aligned_cols=98  Identities=26%  Similarity=0.474  Sum_probs=75.1

Q ss_pred             ccCCCCCCccccccccccccCCchhHHHHHHhhccCCCC---CCccccccccccccccccceEEecCCCcccChhhHHHh
Q 002627          797 GIDGSYAGRLTDIKSSSVHKESQTPLISEVMKDYHDFSG---TGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELH  873 (899)
Q Consensus       797 g~d~sy~~~~~~q~~~~~~k~~Q~~~iqelL~~ie~~~E---~~~l~~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l  873 (899)
                      ..++++.....+|+.|++.   ..+.++|++..-+...+   .+..++..+||||+++.++++++||+|+|+|..|++.+
T Consensus       245 ~~~G~~~~~~~kQ~~~v~g---~~y~LqEiyGien~~v~~~~~~~~~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~L  321 (349)
T KOG4265|consen  245 DEKGSIKIKVLKQILWVDG---TRYLLQEIYGIENSTVEGTDADESESGKECVICLSESRDTVVLPCRHLCLCSGCAKSL  321 (349)
T ss_pred             CcCCceeeeeeeeEEEEeC---ceeeeehhhccccCCCCCCccccccCCCeeEEEecCCcceEEecchhhehhHhHHHHH
Confidence            3457888888899988875   34556666642111111   11335678999999999999999999999999999998


Q ss_pred             hhcCCCCCCCCcccccceEeEEecC
Q 002627          874 EKQGMKDCPSCRSPIQRRIPVRYAR  898 (899)
Q Consensus       874 ~~~~~~kCPiCR~~I~~~irVf~a~  898 (899)
                      +.+. +.||+||++|...+.|+...
T Consensus       322 r~q~-n~CPICRqpi~~ll~i~~~~  345 (349)
T KOG4265|consen  322 RYQT-NNCPICRQPIEELLEIYVNK  345 (349)
T ss_pred             HHhh-cCCCccccchHhhheecccc
Confidence            7553 68999999999999998754

>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=99.05  E-value=1.1e-11  Score=102.72  Aligned_cols=54  Identities=30%  Similarity=0.671  Sum_probs=50.0

Q ss_pred             cccccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccceEeEEe
Q 002627          843 RECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRY  896 (899)
Q Consensus       843 ~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~irVf~  896 (899)
                      .+|.||++.+.+.|+.-|||+|+|+.|..++.......||+||++|.++|+.|-
T Consensus         8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dvIkTY~   61 (62)
T KOG4172|consen    8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKDVIKTYR   61 (62)
T ss_pred             cceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHHHHHhhc
Confidence            679999999999999999999999999998877667899999999999998874

>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A

Probab=98.98  E-value=2.8e-10  Score=92.86  Aligned_cols=49  Identities=41%  Similarity=0.933  Sum_probs=42.5

Q ss_pred             ccccccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccce
Q 002627          842 ERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRR  891 (899)
Q Consensus       842 ~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~  891 (899)
                      +..|.||++...+++++||||.+||..|+..+.. ...+||+||++|.++
T Consensus         2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~-~~~~CP~Cr~~i~~V   50 (50)
T PF13920_consen    2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLK-RKKKCPICRQPIESV   50 (50)
T ss_dssp             HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHH-TTSBBTTTTBB-SEE
T ss_pred             cCCCccCCccCCceEEeCCCChHHHHHHhHHhcc-cCCCCCcCChhhcCC
Confidence            4679999999999999999999999999999876 457999999999864

...

>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.63  E-value=1.3e-08  Score=112.30  Aligned_cols=55  Identities=35%  Similarity=0.735  Sum_probs=49.1

Q ss_pred             ccccccccccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccceEeEEec
Q 002627          838 GVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRYA  897 (899)
Q Consensus       838 ~l~~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~irVf~a  897 (899)
                      +......|+||.+++.+++|+||||+|+|..|...+     ..||+||..|...+++|.+
T Consensus       301 ~~~~p~lcVVcl~e~~~~~fvpcGh~ccct~cs~~l-----~~CPvCR~rI~~~~k~y~~  355 (355)
T KOG1571|consen  301 ELPQPDLCVVCLDEPKSAVFVPCGHVCCCTLCSKHL-----PQCPVCRQRIRLVRKRYRS  355 (355)
T ss_pred             ccCCCCceEEecCCccceeeecCCcEEEchHHHhhC-----CCCchhHHHHHHHHHHhcC
Confidence            445567899999999999999999999999999975     5799999999999998863

>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.63  E-value=5.5e-09  Score=111.89  Aligned_cols=51  Identities=37%  Similarity=0.865  Sum_probs=47.4

Q ss_pred             cccccccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccceEeEEe
Q 002627          841 RERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRY  896 (899)
Q Consensus       841 ~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~irVf~  896 (899)
                      ...+|.|||+.+++.+|++|||++.|..|-..     +..|||||+.|..+++||.
T Consensus       299 ~~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkr-----m~eCPICRqyi~rvvrif~  349 (350)
T KOG4275|consen  299 TRRLCAICMDAPRDCVFLECGHMVTCTKCGKR-----MNECPICRQYIVRVVRIFR  349 (350)
T ss_pred             HHHHHHHHhcCCcceEEeecCcEEeehhhccc-----cccCchHHHHHHHHHhhhc
Confidence            37899999999999999999999999999985     4699999999999999985

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.34  E-value=3.9e-07  Score=94.03  Aligned_cols=58  Identities=22%  Similarity=0.527  Sum_probs=47.4

Q ss_pred             ccccccccccccccccceEEecCCCcccChhhHHHhhhc---------------CCCCCCCCccccc--ceEeEEe
Q 002627          838 GVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQ---------------GMKDCPSCRSPIQ--RRIPVRY  896 (899)
Q Consensus       838 ~l~~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~---------------~~~kCPiCR~~I~--~~irVf~  896 (899)
                      +......|.||++...+.++++|||. ||..|+..|...               ....||+||.+|.  .++.||.
T Consensus        14 ~~~~~~~CpICld~~~dPVvT~CGH~-FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiyg   88 (193)
T PLN03208         14 DSGGDFDCNICLDQVRDPVVTLCGHL-FCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYG   88 (193)
T ss_pred             cCCCccCCccCCCcCCCcEEcCCCch-hHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeec
Confidence            44566889999999999999999999 999999887531               2358999999997  4677764

>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.24  E-value=4e-07  Score=95.42  Aligned_cols=47  Identities=38%  Similarity=0.957  Sum_probs=43.7

Q ss_pred             cccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccceEeEEe
Q 002627          845 CVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRY  896 (899)
Q Consensus       845 CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~irVf~  896 (899)
                      |..|..+...++++||.|+|+|..|...     ...||+|+.++...+.||+
T Consensus       161 Cr~C~~~~~~VlllPCrHl~lC~~C~~~-----~~~CPiC~~~~~s~~~v~~  207 (207)
T KOG1100|consen  161 CRKCGEREATVLLLPCRHLCLCGICDES-----LRICPICRSPKTSSVEVNF  207 (207)
T ss_pred             ceecCcCCceEEeecccceEeccccccc-----CccCCCCcChhhceeeccC
Confidence            9999999999999999999999999984     3689999999999999885

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=98.24  E-value=0.0027  Score=80.30  Aligned_cols=10  Identities=30%  Similarity=0.664  Sum_probs=3.7

Q ss_pred             HHHHHHHHHh
Q 002627          774 RLEKEISQLR  783 (899)
Q Consensus       774 rLEqElsrLr  783 (899)
                      .++.++..++
T Consensus       466 ~~~~~l~~~~  475 (1164)
T TIGR02169       466 KYEQELYDLK  475 (1164)
T ss_pred             HHHHHHHHHH
Confidence            3333333333

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.

>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.20  E-value=5.5e-07  Score=91.36  Aligned_cols=53  Identities=26%  Similarity=0.597  Sum_probs=43.0

Q ss_pred             ccccccccccccc--eEEecCCCcccChhhHHHhhhcCCCCCCCCccccc--ceEeEEe
Q 002627          842 ERECVMCLSEEMS--VVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQ--RRIPVRY  896 (899)
Q Consensus       842 ~~~CvIC~d~~~~--vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~--~~irVf~  896 (899)
                      -..|+|||+....  .+-..|||+ ||..|+....+. ..+||+||..|+  .+++||+
T Consensus       131 ~~~CPiCl~~~sek~~vsTkCGHv-FC~~Cik~alk~-~~~CP~C~kkIt~k~~~rI~L  187 (187)
T KOG0320|consen  131 TYKCPICLDSVSEKVPVSTKCGHV-FCSQCIKDALKN-TNKCPTCRKKITHKQFHRIYL  187 (187)
T ss_pred             ccCCCceecchhhccccccccchh-HHHHHHHHHHHh-CCCCCCcccccchhhheeccC
Confidence            3679999997544  344799999 999999987764 479999998877  6888885

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.18  E-value=1.3e-06  Score=93.14  Aligned_cols=55  Identities=27%  Similarity=0.829  Sum_probs=44.5

Q ss_pred             ccccccccccccccc--------eEEecCCCcccChhhHHHhhhcCCCCCCCCcccccceEeEEe
Q 002627          840 KRERECVMCLSEEMS--------VVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRY  896 (899)
Q Consensus       840 ~~~~~CvIC~d~~~~--------vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~irVf~  896 (899)
                      .....|.||++...+        .++.+|+|. ||..|...|... ...||+||.+|..+++..+
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~-FC~~CI~~Wl~~-~~tCPlCR~~~~~v~~~r~  234 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHV-FCIECIDIWKKE-KNTCPVCRTPFISVIKSRF  234 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCc-ccHHHHHHHHhc-CCCCCCCCCEeeEEeeeee
Confidence            446789999996432        466789998 999999998764 5799999999998887643

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

Probab=98.15  E-value=0.00067  Score=81.02  Aligned_cols=109  Identities=28%  Similarity=0.253  Sum_probs=51.6

Q ss_pred             HHhHHHHHHHHHHHHHhHHHhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          593 RQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKR  672 (899)
Q Consensus       593 R~EkEe~eRlkk~k~~lee~t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ek  672 (899)
                      ++||||.+|-.++.   -|+.||+-.|+|..|.+       ..-..|..|-|...-+.+|||+|.+-..+     ..+++
T Consensus       349 qkEreE~ekkerer---qEqErk~qlElekqLer-------QReiE~qrEEerkkeie~rEaar~ElEkq-----Rqlew  413 (1118)
T KOG1029|consen  349 QKEREEEEKKERER---QEQERKAQLELEKQLER-------QREIERQREEERKKEIERREAAREELEKQ-----RQLEW  413 (1118)
T ss_pred             HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHH
Confidence            45555544433332   24567777777775544       32222333323333334555555433222     12233


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          673 EKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLE  719 (899)
Q Consensus       673 Ekk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE  719 (899)
                      |+   .|++.+-.|+.+-|+.+-.++.|..+++++|+-+...+.++.
T Consensus       414 Er---ar~qem~~Qk~reqe~iv~~nak~~ql~~eletLn~k~qqls  457 (1118)
T KOG1029|consen  414 ER---ARRQEMLNQKNREQEWIVYLNAKKKQLQQELETLNFKLQQLS  457 (1118)
T ss_pred             HH---HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33   344445555555555555555555555555555544444444

>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]

Probab=98.15  E-value=1.2e-06  Score=94.65  Aligned_cols=50  Identities=28%  Similarity=0.672  Sum_probs=44.0

Q ss_pred             ccccccccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccce
Q 002627          840 KRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRR  891 (899)
Q Consensus       840 ~~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~  891 (899)
                      .....|++|+++..+...+||||. ||..|+..|.... ..||.||.++...
T Consensus       237 ~a~~kC~LCLe~~~~pSaTpCGHi-FCWsCI~~w~~ek-~eCPlCR~~~~ps  286 (293)
T KOG0317|consen  237 EATRKCSLCLENRSNPSATPCGHI-FCWSCILEWCSEK-AECPLCREKFQPS  286 (293)
T ss_pred             CCCCceEEEecCCCCCCcCcCcch-HHHHHHHHHHccc-cCCCcccccCCCc
Confidence            455899999999999999999999 9999999998754 6899999998743

>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A

Probab=98.13  E-value=1.3e-06  Score=68.00  Aligned_cols=38  Identities=37%  Similarity=0.884  Sum_probs=32.9

Q ss_pred             cccccccccce-EEecCCCcccChhhHHHhhhcCCCCCCCC
Q 002627          845 CVMCLSEEMSV-VFLPCAHQVVCTTCNELHEKQGMKDCPSC  884 (899)
Q Consensus       845 CvIC~d~~~~v-vllPCgH~~~C~~Ca~~l~~~~~~kCPiC  884 (899)
                      |+||++...+. ++++|||. ||..|+..+... ..+||+|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~-fC~~C~~~~~~~-~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHS-FCKECIEKYLEK-NPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEE-EEHHHHHHHHHC-TSB-TTT
T ss_pred             CCCCCCcccCcCEECCCCCc-hhHHHHHHHHHC-cCCCcCC
Confidence            89999999888 78999999 999999999877 6899998

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

Probab=98.11  E-value=0.021  Score=69.93  Aligned_cols=163  Identities=23%  Similarity=0.223  Sum_probs=109.8

Q ss_pred             CCcccCcCcccccCCCCchhHHHHHHhHHHHHHHHHHHHhhHHHhHHHHHHHHHhhhcHHHHHHHHHhHHHHHHHHHHHH
Q 002627          528 AGILSDDTSLEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQ  607 (899)
Q Consensus       528 ~~~~~d~~~~~~~vp~D~Kde~il~Lv~r~~el~~~~~~~~dWA~qkvmQaa~rl~~d~~eLk~LR~EkEe~eRlkk~k~  607 (899)
                      .-.|.+ .++     +|.+|..|.-|.+.+..+..++---+.=|+-.+-|...+|.-.--+|.--+.+.++        +
T Consensus       319 ~~~~~~-~sq-----kd~~~~~~~~~~~e~~~~~~~l~~~~~ear~~~~q~~~ql~~le~~~~e~q~~~qe--------~  384 (980)
T KOG0980|consen  319 ASDPPN-ASQ-----KDPRELQIEQLSREVAQLKAQLENLKEEARRRIEQYENQLLALEGELQEQQREAQE--------N  384 (980)
T ss_pred             ccCCcc-ccc-----CChhhHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH--------H
Confidence            334555 555     29999999999999999999998888888888888888776554444444433332        2


Q ss_pred             HhHHHhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          608 ILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQK  687 (899)
Q Consensus       608 ~lee~t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk  687 (899)
                       +||+-  +|-+-.-.+....+|+++|+..|.+.|+.+.....+-+..|-.-.+-..--.++++|-....|++.+-+.-+
T Consensus       385 -~~e~e--qLr~elaql~a~r~q~eka~~~~ee~e~~~l~~e~ry~klkek~t~l~~~h~~lL~K~~di~kQle~~~~s~  461 (980)
T KOG0980|consen  385 -REEQE--QLRNELAQLLASRTQLEKAQVLVEEAENKALAAENRYEKLKEKYTELRQEHADLLRKYDDIQKQLESAEQSI  461 (980)
T ss_pred             -HHHHH--HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence             22222  566666677788899999999999999888888888888777777776666677766666666655544444


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 002627          688 ALFQEELVTEKRKVVQLLQE  707 (899)
Q Consensus       688 ~~LQEEL~~eK~KLa~LeqE  707 (899)
                      ....+++...-+.|.++.++
T Consensus       462 ~~~~~~~~~L~d~le~~~~~  481 (980)
T KOG0980|consen  462 DDVEEENTNLNDQLEELQRA  481 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            43333333333333333333

>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.06  E-value=2.6e-06  Score=89.72  Aligned_cols=57  Identities=23%  Similarity=0.498  Sum_probs=48.3

Q ss_pred             cccccccccccccccceEEecCCCcccChhhHHHhhhc--CCCCCCCCccccc--ceEeEEe
Q 002627          839 VKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQ--GMKDCPSCRSPIQ--RRIPVRY  896 (899)
Q Consensus       839 l~~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~--~~~kCPiCR~~I~--~~irVf~  896 (899)
                      ......|-||++..++.|+..|||+ ||..|.-+|...  ....||+|+..|.  .++.||.
T Consensus        44 ~~~~FdCNICLd~akdPVvTlCGHL-FCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYG  104 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDPVVTLCGHL-FCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYG  104 (230)
T ss_pred             CCCceeeeeeccccCCCEEeecccc-eehHHHHHHHhhcCCCeeCCccccccccceEEeeec
Confidence            4567889999999999999999999 999999888653  2357899998776  6888886

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

Probab=98.02  E-value=0.0023  Score=68.81  Aligned_cols=95  Identities=27%  Similarity=0.354  Sum_probs=54.7

Q ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHH
Q 002627          619 EMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQS--WEKQKALFQEELVT  696 (899)
Q Consensus       619 e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~--~EkQk~~LQEEL~~  696 (899)
                      +...+|.++..+++++|..+-.++.+...++.       +...=+..++++.+|.+....++..  =++|..-|+-|+..
T Consensus        28 ~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~-------qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~  100 (239)
T COG1579          28 EIRKALKKAKAELEALNKALEALEIELEDLEN-------QVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQI  100 (239)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHH
Confidence            67778888888888888888877755544444       3333333444444555544433322  24445555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          697 EKRKVVQLLQELDQAKALQEQLEA  720 (899)
Q Consensus       697 eK~KLa~LeqELeqak~~~kqlE~  720 (899)
                      .++++..++.++.++...++.++.
T Consensus       101 ak~r~~~le~el~~l~~~~~~l~~  124 (239)
T COG1579         101 AKERINSLEDELAELMEEIEKLEK  124 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555555444433

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

Probab=97.98  E-value=0.0046  Score=77.02  Aligned_cols=189  Identities=13%  Similarity=0.152  Sum_probs=96.6

Q ss_pred             CCCCCcccCcCcccccCCCCch--------hHHHHH------HhHHHHHHHHHHHHhhHHHhHHHHHHHHHhh---hcHH
Q 002627          525 CGYAGILSDDTSLEHLVPQDKR--------DEIILK------LIPRVRELHNQLHEWTEWANQKVMQAARRLS---KDKA  587 (899)
Q Consensus       525 ~~~~~~~~d~~~~~~~vp~D~K--------de~il~------Lv~r~~el~~~~~~~~dWA~qkvmQaa~rl~---~d~~  587 (899)
                      .++++|++|  ++--|.-||.=        +....+      ++.++.+.=....+--|=|.+-+-|-+..|.   +...
T Consensus       168 v~~f~I~ve--NP~~~lsQD~aR~FL~~~~p~dkYklfmkaT~L~qi~~~~~~~~~~~~~~~~~i~~~~e~i~~l~k~i~  245 (1074)
T KOG0250|consen  168 VDHFNIQVE--NPMFVLSQDAARSFLANSNPKDKYKLFMKATQLEQITESYSEIMESLDHAKELIDLKEEEIKNLKKKIK  245 (1074)
T ss_pred             HHHhCcCCC--CcchhhcHHHHHHHHhcCChHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            678999999  45588888863        333334      4566666666666777777777777776665   3444


Q ss_pred             HHHHHHHhHHHHHHHHHHHHHhHHH--------hhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHH-------HHH
Q 002627          588 ELKTLRQEKEEVERLKKEKQILEEN--------TMKKLSEMENALCKASGQVERANSAVRRLEVENTALR-------QEM  652 (899)
Q Consensus       588 eLk~LR~EkEe~eRlkk~k~~lee~--------t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr-------~em  652 (899)
                      +++.++...++++-++...+.|...        ..+.|.+.++.+.+....++.....+.+....++.+|       ++.
T Consensus       246 e~~e~~~~~~~~e~~~~~l~~Lk~k~~W~~V~~~~~ql~~~~~~i~~~qek~~~l~~ki~~~~~k~~~~r~k~teiea~i  325 (1074)
T KOG0250|consen  246 EEEEKLDNLEQLEDLKENLEQLKAKMAWAWVNEVERQLNNQEEEIKKKQEKVDTLQEKIEEKQGKIEEARQKLTEIEAKI  325 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHH
Confidence            4445555555555544443333322        1222444444444444444444444444444444433       222


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          653 EAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQ  715 (899)
Q Consensus       653 Eaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~  715 (899)
                      ...+-....+...|.++.+.-+.........+.+....+..|..-|.++..++++++.++...
T Consensus       326 ~~~~~e~~~~d~Ei~~~r~~~~~~~re~~~~~~~~~~~~n~i~~~k~~~d~l~k~I~~~~~~~  388 (1074)
T KOG0250|consen  326 GELKDEVDAQDEEIEEARKDLDDLRREVNDLKEEIREIENSIRKLKKEVDRLEKQIADLEKQT  388 (1074)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            223333333333334443333333334444444555555555555555555555555554444

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=97.98  E-value=0.016  Score=73.42  Aligned_cols=39  Identities=23%  Similarity=0.371  Sum_probs=16.8

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          617 LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAA  655 (899)
Q Consensus       617 L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaa  655 (899)
                      +.+++..+.++..++++....+.+++.+...+..+.+..
T Consensus       310 ~~~~~~~l~~l~~~~~~~~~~~~~l~~~~~~l~~~~~~~  348 (1164)
T TIGR02169       310 IAEKERELEDAEERLAKLEAEIDKLLAEIEELEREIEEE  348 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444444444444333

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.

>PHA02926 zinc finger-like protein; Provisional

Probab=97.94  E-value=4e-06  Score=87.95  Aligned_cols=55  Identities=25%  Similarity=0.624  Sum_probs=42.8

Q ss_pred             cccccccccccccc---------cceEEecCCCcccChhhHHHhhhcC-----CCCCCCCcccccceEeE
Q 002627          839 VKRERECVMCLSEE---------MSVVFLPCAHQVVCTTCNELHEKQG-----MKDCPSCRSPIQRRIPV  894 (899)
Q Consensus       839 l~~~~~CvIC~d~~---------~~vvllPCgH~~~C~~Ca~~l~~~~-----~~kCPiCR~~I~~~irV  894 (899)
                      ...+.+|.||++..         .--++.+|+|. ||..|+..|....     .+.||+||..+..++..
T Consensus       167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHs-FCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~pS  235 (242)
T PHA02926        167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHI-FCITCINIWHRTRRETGASDNCPICRTRFRNITMS  235 (242)
T ss_pred             ccCCCCCccCccccccccccccccccccCCCCch-HHHHHHHHHHHhccccCcCCcCCCCcceeeeeccc
Confidence            45568899999852         22577899999 9999999998642     24599999999876644

>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A

Probab=97.92  E-value=4.3e-06  Score=66.48  Aligned_cols=40  Identities=43%  Similarity=0.876  Sum_probs=34.0

Q ss_pred             ccccccccc---cceEEecCCCcccChhhHHHhhhcCCCCCCCCc
Q 002627          844 ECVMCLSEE---MSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCR  885 (899)
Q Consensus       844 ~CvIC~d~~---~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR  885 (899)
                      .|.||++..   ..++.+||||. ||..|+..|.... ..||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~-fh~~Ci~~~~~~~-~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHV-FHRSCIKEWLKRN-NSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEE-EEHHHHHHHHHHS-SB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCCe-eCHHHHHHHHHhC-CcCCccC
Confidence            699999964   56888899999 9999999998764 6999997

...

>PRK03918 chromosome segregation protein; Provisional

Probab=97.90  E-value=0.029  Score=69.80  Aligned_cols=36  Identities=25%  Similarity=0.427  Sum_probs=16.0

Q ss_pred             hHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHH
Q 002627          616 KLSEMENALCKASGQVERANSAVRRLEVENTALRQE  651 (899)
Q Consensus       616 kL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~e  651 (899)
                      ++.++++++.....++......+.+++.+...+..+
T Consensus       239 ~~~~l~~~~~~l~~~~~~l~~~i~~l~~el~~l~~~  274 (880)
T PRK03918        239 EIEELEKELESLEGSKRKLEEKIRELEERIEELKKE  274 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444444444333

>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)

Probab=97.89  E-value=9.5e-06  Score=62.38  Aligned_cols=44  Identities=48%  Similarity=1.066  Sum_probs=35.5

Q ss_pred             ccccccccccc-eEEecCCCcccChhhHHHhhhcCCCCCCCCcccc
Q 002627          844 ECVMCLSEEMS-VVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPI  888 (899)
Q Consensus       844 ~CvIC~d~~~~-vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I  888 (899)
                      .|.||++.... +.+.||||. ||..|...+.......||.|+..+
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~-~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHV-FCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhCceEecCCCCh-hcHHHHHHHHHhCcCCCCCCCCcC
Confidence            49999998744 455559999 999999988775457899999864

>smart00184 RING Ring finger

Probab=97.85  E-value=1.1e-05  Score=59.92  Aligned_cols=39  Identities=41%  Similarity=0.963  Sum_probs=34.9

Q ss_pred             cccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCC
Q 002627          845 CVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSC  884 (899)
Q Consensus       845 CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiC  884 (899)
                      |.||++.....+++||||. ||..|...+.......||.|
T Consensus         1 C~iC~~~~~~~~~~~C~H~-~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVLPCGHT-FCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEecCCCh-HHHHHHHHHHHhCcCCCCCC
Confidence            7899999999999999999 99999998876455789998

E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)

>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=97.83  E-value=0.057  Score=64.09  Aligned_cols=60  Identities=22%  Similarity=0.348  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          669 VSKREKKTQMKFQSWEKQKALFQEELVTEKR--------------KVVQLLQELDQAKALQEQLEARWRQEEKA  728 (899)
Q Consensus       669 ~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~--------------KLa~LeqELeqak~~~kqlE~kwrQeqka  728 (899)
                      +.+.-+....++++-+.+...|.+||.+...              +.+++..+|+++...++....+|.++.+.
T Consensus       288 LkeqLr~~qe~lqaSqq~~~~L~~EL~~~~~~RDrt~aeLh~aRLe~aql~~qLad~~l~lke~~~q~~qEk~~  361 (546)
T PF07888_consen  288 LKEQLRSAQEQLQASQQEAELLRKELSDAVNVRDRTMAELHQARLEAAQLKLQLADASLELKEGRSQWAQEKQA  361 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444455555555555555555433222              23444444454444555555555555544

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 [].

>PRK02224 chromosome segregation protein; Provisional

Probab=97.82  E-value=0.018  Score=71.73  Aligned_cols=48  Identities=13%  Similarity=0.139  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          679 KFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEE  726 (899)
Q Consensus       679 ~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeq  726 (899)
                      +...+++++..+++++...+.++..+..+...+...+..++....+.+
T Consensus       315 ~~~~l~~k~~el~~~l~~~~~~l~~~~~~~e~~~~~~~~le~~~~~l~  362 (880)
T PRK02224        315 RREELEDRDEELRDRLEECRVAAQAHNEEAESLREDADDLEERAEELR  362 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334455555555555555555555444444444444444444443333

>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A

Probab=97.80  E-value=1.6e-05  Score=63.44  Aligned_cols=39  Identities=38%  Similarity=0.836  Sum_probs=31.0

Q ss_pred             cccccccccceEEecCCCcccChhhHHHhhhcCCC---CCCCC
Q 002627          845 CVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMK---DCPSC  884 (899)
Q Consensus       845 CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~---kCPiC  884 (899)
                      |+||++-..+.|.++|||. ||..|+..+......   .||.|
T Consensus         1 CpiC~~~~~~Pv~l~CGH~-FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSLPCGHS-FCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE-SSSSE-EEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCccccCCcCH-HHHHHHHHHHHccCCcCCCCcCC
Confidence            8999999999999999999 999999998765433   59988

>TIGR00599 rad18 DNA repair protein rad18

Probab=97.77  E-value=1.4e-05  Score=91.05  Aligned_cols=53  Identities=23%  Similarity=0.456  Sum_probs=45.4

Q ss_pred             CCccccccccccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccc
Q 002627          836 TGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR  890 (899)
Q Consensus       836 ~~~l~~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~  890 (899)
                      +..+.....|.||++...+.+++||||. ||..|+..+... ...||.|+.++..
T Consensus        20 l~~Le~~l~C~IC~d~~~~PvitpCgH~-FCs~CI~~~l~~-~~~CP~Cr~~~~~   72 (397)
T TIGR00599        20 LYPLDTSLRCHICKDFFDVPVLTSCSHT-FCSLCIRRCLSN-QPKCPLCRAEDQE   72 (397)
T ss_pred             ccccccccCCCcCchhhhCccCCCCCCc-hhHHHHHHHHhC-CCCCCCCCCcccc
Confidence            3456778899999999999999999999 999999988754 4589999998864

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

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

Probab=97.77  E-value=0.085  Score=64.82  Aligned_cols=147  Identities=23%  Similarity=0.309  Sum_probs=77.4

Q ss_pred             HHHHHHHHhhhcHHHHHHHHHhHHHHHHHHHH-HHHhHHH-------hhhh-HHHHHHHHHHhhhhHHHHHHHHHHHHHH
Q 002627          574 KVMQAARRLSKDKAELKTLRQEKEEVERLKKE-KQILEEN-------TMKK-LSEMENALCKASGQVERANSAVRRLEVE  644 (899)
Q Consensus       574 kvmQaa~rl~~d~~eLk~LR~EkEe~eRlkk~-k~~lee~-------t~kk-L~e~E~al~kas~Q~~ra~~~vr~lE~e  644 (899)
                      |+|+.---|.+   +|+--|.|.+|++.-|.. |+.|.|-       |..| |.  |+....+..+|+.+.-.+-+||.+
T Consensus       273 kim~qqa~Lqr---el~raR~e~keaqe~ke~~k~emad~ad~iEmaTldKEmA--EERaesLQ~eve~lkEr~deletd  347 (1243)
T KOG0971|consen  273 KIMEQQADLQR---ELKRARKEAKEAQEAKERYKEEMADTADAIEMATLDKEMA--EERAESLQQEVEALKERVDELETD  347 (1243)
T ss_pred             HHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH--HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56665555544   344455565555444321 2222221       2211 21  344566777888888899999999


Q ss_pred             HHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          645 NTALRQEMEAA-----KLRAAESAASCQEVSKREKKTQMKF---QSWEKQ-KALFQEELVTEKRKVVQLLQELDQAKALQ  715 (899)
Q Consensus       645 na~lr~emEaa-----kl~a~Es~~~~~e~~ekEkk~~k~l---~~~EkQ-k~~LQEEL~~eK~KLa~LeqELeqak~~~  715 (899)
                      ...||+|||--     ..+ +=...++...-.|-|..+-||   .+-||| .+++++|++.-+.++..+.+..+.+.+.+
T Consensus       348 lEILKaEmeekG~~~~~~s-s~qfkqlEqqN~rLKdalVrLRDlsA~ek~d~qK~~kelE~k~sE~~eL~r~kE~Lsr~~  426 (1243)
T KOG0971|consen  348 LEILKAEMEEKGSDGQAAS-SYQFKQLEQQNARLKDALVRLRDLSASEKQDHQKLQKELEKKNSELEELRRQKERLSREL  426 (1243)
T ss_pred             HHHHHHHHHhcCCCCcccc-hHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            99999999731     011 011122222223333332222   233444 55666666666666666666666666666


Q ss_pred             HHHHHHHHHHH
Q 002627          716 EQLEARWRQEE  726 (899)
Q Consensus       716 kqlE~kwrQeq  726 (899)
                      +++|..+-..+
T Consensus       427 d~aEs~iadlk  437 (1243)
T KOG0971|consen  427 DQAESTIADLK  437 (1243)
T ss_pred             HHHHHHHHHHH
Confidence            66665444333

>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]

Probab=97.76  E-value=9.3e-06  Score=90.49  Aligned_cols=55  Identities=29%  Similarity=0.660  Sum_probs=47.1

Q ss_pred             cccccccccccccceEEecCCCcccChhhHHHhhhcC-CCCCCCCcccccceEeEEe
Q 002627          841 RERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQG-MKDCPSCRSPIQRRIPVRY  896 (899)
Q Consensus       841 ~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~-~~kCPiCR~~I~~~irVf~  896 (899)
                      ....|.||-++.+++-+-||||+ +|..|...|.... ..+||+||..|.+.-+|.+
T Consensus       368 TFeLCKICaendKdvkIEPCGHL-lCt~CLa~WQ~sd~gq~CPFCRcEIKGte~vii  423 (563)
T KOG1785|consen  368 TFELCKICAENDKDVKIEPCGHL-LCTSCLAAWQDSDEGQTCPFCRCEIKGTEPVII  423 (563)
T ss_pred             hHHHHHHhhccCCCcccccccch-HHHHHHHhhcccCCCCCCCceeeEeccccceee
Confidence            34679999999999999999999 9999999887443 5799999999998766643

>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=97.75  E-value=1.7e-05  Score=61.87  Aligned_cols=39  Identities=36%  Similarity=0.887  Sum_probs=34.8

Q ss_pred             cccccccccceE-EecCCCcccChhhHHHhhh-cCCCCCCCC
Q 002627          845 CVMCLSEEMSVV-FLPCAHQVVCTTCNELHEK-QGMKDCPSC  884 (899)
Q Consensus       845 CvIC~d~~~~vv-llPCgH~~~C~~Ca~~l~~-~~~~kCPiC  884 (899)
                      |.||++...+.+ +++|||. ||..|...+.. .....||.|
T Consensus         1 C~iC~~~~~~~~~~~~C~H~-fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHS-FCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEE-EEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCCEEecCCCc-chHHHHHHHHHhcCCccCCcC
Confidence            889999988888 9999999 99999999887 556789998

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. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....

>PRK02224 chromosome segregation protein; Provisional

Probab=97.74  E-value=0.073  Score=66.45  Aligned_cols=22  Identities=23%  Similarity=0.354  Sum_probs=15.6

Q ss_pred             HHHHHHhHHHHHHHHHHHHhhH
Q 002627          548 EIILKLIPRVRELHNQLHEWTE  569 (899)
Q Consensus       548 e~il~Lv~r~~el~~~~~~~~d  569 (899)
                      +.+-++..++.+|+.++.+|+.
T Consensus       475 ~~~~~~~~~~~~le~~l~~~~~  496 (880)
T PRK02224        475 ERVEELEAELEDLEEEVEEVEE  496 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3455666678888888887775

>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.73  E-value=1.6e-05  Score=91.56  Aligned_cols=55  Identities=29%  Similarity=0.534  Sum_probs=47.2

Q ss_pred             ccccccccccccceEEecCCCcccChhhHHHhhhcC----CCCCCCCcccccc--eEeEEec
Q 002627          842 ERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQG----MKDCPSCRSPIQR--RIPVRYA  897 (899)
Q Consensus       842 ~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~----~~kCPiCR~~I~~--~irVf~a  897 (899)
                      ...|+||+..+...+.+.|||. ||..|.-.++..+    ...||+||..|.-  +..|++.
T Consensus       186 ~~~CPICL~~~~~p~~t~CGHi-FC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e  246 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRTNCGHI-FCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIE  246 (513)
T ss_pred             CCcCCcccCCCCcccccccCce-eeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeec
Confidence            6789999999999999999999 9999998876543    4689999999986  7777763

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

Probab=97.71  E-value=0.017  Score=61.89  Aligned_cols=111  Identities=24%  Similarity=0.275  Sum_probs=49.9

Q ss_pred             hHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          616 KLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELV  695 (899)
Q Consensus       616 kL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~  695 (899)
                      ||..+|.+|..+....+.++..+-..++....+..+.+.+.-.+...+..|.++-+.-+.....+.++|-.-.+..+...
T Consensus        93 ri~~lE~~l~ea~~~~ee~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~el~~~~~~lk~lE~~~~~~~~re~  172 (237)
T PF00261_consen   93 RIEELEQQLKEAKRRAEEAERKYEEVERKLKVLEQELERAEERAEAAESKIKELEEELKSVGNNLKSLEASEEKASERED  172 (237)
T ss_dssp             HHHHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHHhhhhhhhhhHHHH
Confidence            44444444444444444444444444444444444444444444444444444444444444444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          696 TEKRKVVQLLQELDQAKALQEQLEARWRQEE  726 (899)
Q Consensus       696 ~eK~KLa~LeqELeqak~~~kqlE~kwrQeq  726 (899)
                      ....+|..|.+.|.++..+.+..+.+....+
T Consensus       173 ~~e~~i~~L~~~lkeaE~Rae~aE~~v~~Le  203 (237)
T PF00261_consen  173 EYEEKIRDLEEKLKEAENRAEFAERRVKKLE  203 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444433333333333

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 ....

>PRK11637 AmiB activator; Provisional

Probab=97.68  E-value=0.032  Score=64.49  Aligned_cols=37  Identities=24%  Similarity=0.415  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          617 LSEMENALCKASGQVERANSAVRRLEVENTALRQEME  653 (899)
Q Consensus       617 L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emE  653 (899)
                      +.+.+.+|..+..+++..+..+..++.+....+.++.
T Consensus        91 i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~  127 (428)
T PRK11637         91 LRETQNTLNQLNKQIDELNASIAKLEQQQAAQERLLA  127 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444443333

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=97.66  E-value=0.039  Score=73.34  Aligned_cols=65  Identities=22%  Similarity=0.377  Sum_probs=32.7

Q ss_pred             ccCCCCchhHHHHHHhHHHHHHHHHHHHhhHHHh----H---HHHHHHHHhhhcHHHHHHHHHhHHHHHHHHH
Q 002627          539 HLVPQDKRDEIILKLIPRVRELHNQLHEWTEWAN----Q---KVMQAARRLSKDKAELKTLRQEKEEVERLKK  604 (899)
Q Consensus       539 ~~vp~D~Kde~il~Lv~r~~el~~~~~~~~dWA~----q---kvmQaa~rl~~d~~eLk~LR~EkEe~eRlkk  604 (899)
                      .+..++.++.-| .+|++-..--..|+.|.=|-=    +   +|..-.-.+.+--.++..|+.+.++.+-.++
T Consensus       791 ~~~kr~~~~~ai-~~iQ~N~r~~~~lr~w~W~~Lf~kvkPLL~~~~~ee~~~~~~~e~~~l~~~l~~~e~~~~  862 (1930)
T KOG0161|consen  791 EFKKRLQQLDAI-KVIQRNIRAYLKLRTWPWWRLFTKVKPLLKVTKTEEEMRAKEEEIQKLKEELQKSESKRK  862 (1930)
T ss_pred             HHHHHHHHHHHH-HHHHHHHHHHHhhccCHHHHHHHHHHHHHHhhhhHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            455555555444 455555555588888876631    1   1222223344444555555555444444333

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=97.65  E-value=0.062  Score=71.60  Aligned_cols=46  Identities=17%  Similarity=0.187  Sum_probs=24.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          677 QMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARW  722 (899)
Q Consensus       677 ~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kw  722 (899)
                      ++.+..++.++..|+++|+.++...+.++++..++...++.+..+.
T Consensus      1096 ~k~i~eL~~~i~el~e~le~er~~r~K~ek~r~dL~~ele~l~~~L 1141 (1930)
T KOG0161|consen 1096 QKQIKELEARIKELEEELEAERASRAKAERQRRDLSEELEELKEEL 1141 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555555555555665555555555555555444444444333

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=97.64  E-value=3.4e-05  Score=61.66  Aligned_cols=41  Identities=24%  Similarity=0.677  Sum_probs=34.0

Q ss_pred             ccccccccc---cceEEecCCCcccChhhHHHhhhcCCCCCCCCcc
Q 002627          844 ECVMCLSEE---MSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRS  886 (899)
Q Consensus       844 ~CvIC~d~~---~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~  886 (899)
                      .|.||+...   ...++++|||. ||..|+..+. .....||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~-~C~~C~~~~~-~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHI-FCEKCLKKLK-GKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCH-HHHHHHHhhc-CCCCCCcCCCC
Confidence            488999865   56888999999 9999999886 33579999985

>smart00504 Ubox Modified RING finger domain

Probab=97.60  E-value=5e-05  Score=63.95  Aligned_cols=45  Identities=18%  Similarity=0.157  Sum_probs=40.5

Q ss_pred             cccccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCccccc
Q 002627          843 RECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQ  889 (899)
Q Consensus       843 ~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~  889 (899)
                      ..|.||.+-..+.|+.||||. ||..|+..+... ...||+|+.++.
T Consensus         2 ~~Cpi~~~~~~~Pv~~~~G~v-~~~~~i~~~~~~-~~~cP~~~~~~~   46 (63)
T smart00504        2 FLCPISLEVMKDPVILPSGQT-YERRAIEKWLLS-HGTDPVTGQPLT   46 (63)
T ss_pred             cCCcCCCCcCCCCEECCCCCE-EeHHHHHHHHHH-CCCCCCCcCCCC
Confidence            469999999999999999999 999999998875 568999999985

Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.

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

Probab=97.60  E-value=0.073  Score=64.76  Aligned_cols=91  Identities=22%  Similarity=0.244  Sum_probs=47.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhHHHHhhhh
Q 002627          688 ALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMR  767 (899)
Q Consensus       688 ~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~ErEraE~~~k~keealr~K~E~E~qr  767 (899)
                      .+|++++.........+.+++....+.++.......+..+..+.+..+++.-....++++..-        ...+.++..
T Consensus       527 ~~leeq~~~lt~~~~~l~~el~~~~~~le~~kk~~~e~~~~~~~Lq~~~ek~~~~le~i~~~~--------~e~~~ele~  598 (698)
T KOG0978|consen  527 GKLEEQERGLTSNESKLIKELTTLTQSLEMLKKKAQEAKQSLEDLQIELEKSEAKLEQIQEQY--------AELELELEI  598 (698)
T ss_pred             HHHHHHHHHhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHH
Confidence            333333333333334444444444444444444444444444444444444444444443322        233444556


Q ss_pred             hHHHHHHHHHHHHHHhhcc
Q 002627          768 YKDDIHRLEKEISQLRLKT  786 (899)
Q Consensus       768 ~k~dikrLEqElsrLr~k~  786 (899)
                      +.+..+|++.|+.+|+.+.
T Consensus       599 ~~~k~~rleEE~e~L~~kl  617 (698)
T KOG0978|consen  599 EKFKRKRLEEELERLKRKL  617 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            6677889999999998766

>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.53  E-value=3e-05  Score=84.32  Aligned_cols=51  Identities=33%  Similarity=0.714  Sum_probs=44.9

Q ss_pred             cccccccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccceE
Q 002627          841 RERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRI  892 (899)
Q Consensus       841 ~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~i  892 (899)
                      ...+|.||+......+.++|+|. ||+.|+.......+.+|++||.+|.+.|
T Consensus         6 ~~~eC~IC~nt~n~Pv~l~C~Hk-FCyiCiKGsy~ndk~~CavCR~pids~i   56 (324)
T KOG0824|consen    6 KKKECLICYNTGNCPVNLYCFHK-FCYICIKGSYKNDKKTCAVCRFPIDSTI   56 (324)
T ss_pred             cCCcceeeeccCCcCccccccch-hhhhhhcchhhcCCCCCceecCCCCcch
Confidence            34679999999888899999999 9999999877777888999999998755

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

Probab=97.51  E-value=0.14  Score=54.90  Aligned_cols=178  Identities=20%  Similarity=0.288  Sum_probs=96.4

Q ss_pred             HHHHHHHHHHhHHH---hhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          599 VERLKKEKQILEEN---TMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKK  675 (899)
Q Consensus       599 ~eRlkk~k~~lee~---t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk  675 (899)
                      +.-|...-+.||+.   +-.||.+....|..+....|-+....+.||......-..++...-+..+....+.++-.+-..
T Consensus        38 ~~~l~rri~~lE~~le~~eerL~~~~~kL~~~e~~~de~er~~k~lE~r~~~~eeri~~lE~~l~ea~~~~ee~e~k~~E  117 (237)
T PF00261_consen   38 VASLQRRIQLLEEELERAEERLEEATEKLEEAEKRADESERARKVLENREQSDEERIEELEQQLKEAKRRAEEAERKYEE  117 (237)
T ss_dssp             HHHHHHHHHHHHCCCHHHHCCCCHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555556654   333466666666666666666666666666655554444444444444444444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Q 002627          676 TQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKED  755 (899)
Q Consensus       676 ~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~ErEraE~~~k~kee  755 (899)
                      ...++...|..+....+-+.....++..|+.+|..+...++.++..-.+..+..+..-.++......+..++...     
T Consensus       118 ~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~el~~~~~~lk~lE~~~~~~~~re~~~e~~i~~L~~~lkeaE~Ra-----  192 (237)
T PF00261_consen  118 VERKLKVLEQELERAEERAEAAESKIKELEEELKSVGNNLKSLEASEEKASEREDEYEEKIRDLEEKLKEAENRA-----  192 (237)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH-----
Confidence            455666667777777777777777777777777777777777666555554444444333333322333222211     


Q ss_pred             HHhhHHHHhhhhhHHHHHHHHHHHHHHhh
Q 002627          756 MIKSKAETNLMRYKDDIHRLEKEISQLRL  784 (899)
Q Consensus       756 alr~K~E~E~qr~k~dikrLEqElsrLr~  784 (899)
                         -.+|....++...|.+|+.+|..++.
T Consensus       193 ---e~aE~~v~~Le~~id~le~eL~~~k~  218 (237)
T PF00261_consen  193 ---EFAERRVKKLEKEIDRLEDELEKEKE  218 (237)
T ss_dssp             ---HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               11223334444455555555554443

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 ....

>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=97.51  E-value=0.41  Score=57.18  Aligned_cols=38  Identities=21%  Similarity=0.275  Sum_probs=22.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          681 QSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQL  718 (899)
Q Consensus       681 ~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kql  718 (899)
                      ..+-.|++.+++.|.+-+.+..-|.++|..+....+..
T Consensus       286 e~LkeqLr~~qe~lqaSqq~~~~L~~EL~~~~~~RDrt  323 (546)
T PF07888_consen  286 EALKEQLRSAQEQLQASQQEAELLRKELSDAVNVRDRT  323 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445556666666666666666666666654444333

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 [].

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

Probab=97.48  E-value=0.0049  Score=75.29  Aligned_cols=89  Identities=16%  Similarity=0.312  Sum_probs=44.0

Q ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          620 MENALCKASGQVERANSAVRRLEVE-------NTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQE  692 (899)
Q Consensus       620 ~E~al~kas~Q~~ra~~~vr~lE~e-------na~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQE  692 (899)
                      ||..|+++.++|..+....++|...       ...+|.|+.+.+..-.+-+..+.++...-++....++.+||+      
T Consensus       423 LE~dvkkLraeLq~~Rq~E~ELRsqis~l~~~Er~lk~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~LEkr------  496 (697)
T PF09726_consen  423 LEADVKKLRAELQSSRQSEQELRSQISSLTNNERSLKSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQLEKR------  496 (697)
T ss_pred             HHHHHHHHHHHHHhhhhhHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------
Confidence            4555555555555554444444433       344455555555555555555555544444444444444444      


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 002627          693 ELVTEKRKVVQLLQELDQAKALQ  715 (899)
Q Consensus       693 EL~~eK~KLa~LeqELeqak~~~  715 (899)
                       |.+|+++...++++|.+.+.+.
T Consensus       497 -L~eE~~~R~~lEkQL~eErk~r  518 (697)
T PF09726_consen  497 -LAEERRQRASLEKQLQEERKAR  518 (697)
T ss_pred             -HHHHHHHHHHHHHHHHHHHHHH
Confidence             3445555555555555444333

; GO: 0016021 integral to membrane

>PRK03918 chromosome segregation protein; Provisional

Probab=97.48  E-value=0.27  Score=61.41  Aligned_cols=23  Identities=17%  Similarity=0.508  Sum_probs=13.5

Q ss_pred             CchhHHHHHHhHHHHHHHHHHHH
Q 002627          544 DKRDEIILKLIPRVRELHNQLHE  566 (899)
Q Consensus       544 D~Kde~il~Lv~r~~el~~~~~~  566 (899)
                      +.+.+++-++-.++.+|++++..
T Consensus       448 ~~~~el~~~~~~ei~~l~~~~~~  470 (880)
T PRK03918        448 EHRKELLEEYTAELKRIEKELKE  470 (880)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHH
Confidence            45666665666666666655543

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

Probab=97.46  E-value=0.24  Score=64.21  Aligned_cols=82  Identities=26%  Similarity=0.351  Sum_probs=46.3

Q ss_pred             hhhcHHHHHHHHHhHHHHHHHHH---HHHHhHHH--------hhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHH
Q 002627          582 LSKDKAELKTLRQEKEEVERLKK---EKQILEEN--------TMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQ  650 (899)
Q Consensus       582 l~~d~~eLk~LR~EkEe~eRlkk---~k~~lee~--------t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~  650 (899)
                      +..=...|+.|+.+++.++|.++   ++..++..        .++++.+.++++..+..+++.....+...+.+...++.
T Consensus       195 ~~el~~~l~~L~~q~~~a~~y~~l~~e~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~i~~~~~  274 (1163)
T COG1196         195 LEELEKQLEKLERQAEKAERYQELKAELRELELALLLAKLKELRKELEELEEELSRLEEELEELQEELEEAEKEIEELKS  274 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334556777777777776654   44444433        34445566666666666666666666666666666665


Q ss_pred             HHHHHHHHHHHHH
Q 002627          651 EMEAAKLRAAESA  663 (899)
Q Consensus       651 emEaakl~a~Es~  663 (899)
                      +++..+....+.+
T Consensus       275 ~~~e~~~~~~~~~  287 (1163)
T COG1196         275 ELEELREELEELQ  287 (1163)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555554444443

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

Probab=97.45  E-value=0.27  Score=63.82  Aligned_cols=19  Identities=32%  Similarity=0.408  Sum_probs=13.0

Q ss_pred             HHHHHHhHHHHHHHHHHHHh
Q 002627          548 EIILKLIPRVRELHNQLHEW  567 (899)
Q Consensus       548 e~il~Lv~r~~el~~~~~~~  567 (899)
                      ++. .|..++.+++.++..-
T Consensus       668 ~l~-~l~~~l~~~~~~~~~~  686 (1163)
T COG1196         668 ELK-ELEEELAELEAQLEKL  686 (1163)
T ss_pred             HHH-HHHHHHHHHHHHHHHH
Confidence            555 7778888887766543

>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.44  E-value=5.1e-05  Score=81.41  Aligned_cols=49  Identities=29%  Similarity=0.703  Sum_probs=41.8

Q ss_pred             ccccccccccccccceEEecCCCcccChhhHHH-hhhcCCCCCCCCccccc
Q 002627          840 KRERECVMCLSEEMSVVFLPCAHQVVCTTCNEL-HEKQGMKDCPSCRSPIQ  889 (899)
Q Consensus       840 ~~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~-l~~~~~~kCPiCR~~I~  889 (899)
                      .....|+||++.+-+.+..||||+ ||..|.-. |.......||.||+...
T Consensus       213 ~~d~kC~lC~e~~~~ps~t~CgHl-FC~~Cl~~~~t~~k~~~CplCRak~~  262 (271)
T COG5574         213 LADYKCFLCLEEPEVPSCTPCGHL-FCLSCLLISWTKKKYEFCPLCRAKVY  262 (271)
T ss_pred             ccccceeeeecccCCcccccccch-hhHHHHHHHHHhhccccCchhhhhcc
Confidence            346789999999999999999999 99999988 65555567999998764

>PRK11637 AmiB activator; Provisional

Probab=97.40  E-value=0.19  Score=58.21  Aligned_cols=36  Identities=17%  Similarity=0.243  Sum_probs=13.8

Q ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          620 MENALCKASGQVERANSAVRRLEVENTALRQEMEAA  655 (899)
Q Consensus       620 ~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaa  655 (899)
                      ++..|..+..+++..+..+.+++.+++.++++.+..
T Consensus        87 ~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~  122 (428)
T PRK11637         87 ASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQ  122 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333333

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.36  E-value=0.00012  Score=80.90  Aligned_cols=48  Identities=27%  Similarity=0.802  Sum_probs=36.8

Q ss_pred             cccccccccc---ccce--EEecCCCcccChhhHHHhhhcCCCCCCCCcccccc
Q 002627          842 ERECVMCLSE---EMSV--VFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR  890 (899)
Q Consensus       842 ~~~CvIC~d~---~~~v--vllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~  890 (899)
                      ...|++|.+.   ..++  .+-+|||. ||..|+..+...+...||.|+.++..
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~-~C~sCv~~l~~~~~~~CP~C~~~lrk   55 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHT-LCESCVDLLFVRGSGSCPECDTPLRK   55 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCc-ccHHHHHHHhcCCCCCCCCCCCccch
Confidence            3579999993   2332  22289999 99999999876666789999998864

All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]

Probab=97.35  E-value=8.5e-05  Score=80.36  Aligned_cols=51  Identities=24%  Similarity=0.468  Sum_probs=44.3

Q ss_pred             CccccccccccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCccccc
Q 002627          837 GGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQ  889 (899)
Q Consensus       837 ~~l~~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~  889 (899)
                      ..+.....|-||.+..+..++.||||. ||.-|+..+.. ....||.||.++.
T Consensus        20 ~~LDs~lrC~IC~~~i~ip~~TtCgHt-FCslCIR~hL~-~qp~CP~Cr~~~~   70 (391)
T COG5432          20 KGLDSMLRCRICDCRISIPCETTCGHT-FCSLCIRRHLG-TQPFCPVCREDPC   70 (391)
T ss_pred             hcchhHHHhhhhhheeecceecccccc-hhHHHHHHHhc-CCCCCccccccHH
Confidence            456677889999999999999999999 99999998765 3579999998765

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

Probab=97.30  E-value=0.53  Score=61.37  Aligned_cols=22  Identities=23%  Similarity=0.309  Sum_probs=11.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 002627          694 LVTEKRKVVQLLQELDQAKALQ  715 (899)
Q Consensus       694 L~~eK~KLa~LeqELeqak~~~  715 (899)
                      |...+.++..+.+++..++...
T Consensus       773 I~~l~~~i~~L~~~l~~ie~~r  794 (1201)
T PF12128_consen  773 IQQLKQEIEQLEKELKRIEERR  794 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhH
Confidence            5555555555555555544433

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

Probab=97.29  E-value=0.3  Score=61.93  Aligned_cols=171  Identities=18%  Similarity=0.251  Sum_probs=86.8

Q ss_pred             hhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHH-HHHH
Q 002627          613 TMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEV----------SKREKKTQ-MKFQ  681 (899)
Q Consensus       613 t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~----------~ekEkk~~-k~l~  681 (899)
                      ..+++.++|.+=-+...++.+..+-+-+||.+....+.+...+.-.-+.....+++.          .+++++.+ +.+.
T Consensus       389 ~k~~~~~~e~~~vk~~E~lK~~~~k~kKleke~ek~~~~~~e~e~~pe~~~~~i~~~~~ei~~L~~~~~~~~~~l~e~~~  468 (1293)
T KOG0996|consen  389 LKKKFQDLEREDVKREEKLKRLTSKIKKLEKEIEKARRKKSELEKAPEKARIEIQKCQTEIEQLEELLEKEERELDEILD  468 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhCchhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455666666666666666666666666666666666555555444433333333332          22222222 2222


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhHH
Q 002627          682 SWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKA  761 (899)
Q Consensus       682 ~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~ErEraE~~~k~keealr~K~  761 (899)
                      ++.++-.-+.+++.....++..+..++.+++...+-.+.+..-..+..+..+..++..+..+.+..+...++-..+. ..
T Consensus       469 ~l~~~t~~~~~e~~~~ekel~~~~~~~n~~~~e~~vaesel~~L~~~~~~~~~~~e~lk~~L~~~~~~~~e~~~~l~-~~  547 (1293)
T KOG0996|consen  469 SLKQETEGIREEIEKLEKELMPLLKQVNEARSELDVAESELDILLSRHETGLKKVEELKGKLLASSESLKEKKTELD-DL  547 (1293)
T ss_pred             HHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HH
Confidence            22233333444455555555555566666666666666666666666666666666666665555444433322221 22


Q ss_pred             HHhhhhhHHHHHHHHHHHHHHhh
Q 002627          762 ETNLMRYKDDIHRLEKEISQLRL  784 (899)
Q Consensus       762 E~E~qr~k~dikrLEqElsrLr~  784 (899)
                      +.++..++.++...++++.+++.
T Consensus       548 k~~l~~~k~e~~~~~k~l~~~~~  570 (1293)
T KOG0996|consen  548 KEELPSLKQELKEKEKELPKLRK  570 (1293)
T ss_pred             HHhhhhHHHHHHHHHHhHHHHHH
Confidence            23334444445555555544444

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

Probab=97.28  E-value=0.23  Score=62.55  Aligned_cols=57  Identities=21%  Similarity=0.230  Sum_probs=45.5

Q ss_pred             hHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          616 KLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKR  672 (899)
Q Consensus       616 kL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ek  672 (899)
                      -|.+-+.|..+|..-+..|+..++-.+.-.+.++.+|+++..-+.-...++.++-.+
T Consensus      1571 aL~~Ad~Aq~~a~~ai~~a~~~~~~a~~~l~kv~~~t~~aE~~~~~a~q~~~eL~~~ 1627 (1758)
T KOG0994|consen 1571 ALEEADVAQGEAQDAIQGADRDIRLAQQLLAKVQEETAAAEKLATSATQQLGELETR 1627 (1758)
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            378888889999999999999999999999999999998887766665555554443

>PHA02562 46 endonuclease subunit; Provisional

Probab=97.24  E-value=0.5  Score=55.91  Aligned_cols=23  Identities=9%  Similarity=0.031  Sum_probs=10.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 002627          680 FQSWEKQKALFQEELVTEKRKVV  702 (899)
Q Consensus       680 l~~~EkQk~~LQEEL~~eK~KLa  702 (899)
                      +...+.++..++.+++....++.
T Consensus       301 ~~~l~d~i~~l~~~l~~l~~~i~  323 (562)
T PHA02562        301 ITKIKDKLKELQHSLEKLDTAID  323 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444445555555444444444

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

Probab=97.21  E-value=0.38  Score=60.74  Aligned_cols=119  Identities=20%  Similarity=0.233  Sum_probs=66.1

Q ss_pred             HhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          612 NTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQ  691 (899)
Q Consensus       612 ~t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQ  691 (899)
                      ..+.+|++.|..+..+..+++..+..+..+-......|.++..++-.--+...++++..+.-...       +||+..++
T Consensus       313 ~~r~k~teiea~i~~~~~e~~~~d~Ei~~~r~~~~~~~re~~~~~~~~~~~~n~i~~~k~~~d~l-------~k~I~~~~  385 (1074)
T KOG0250|consen  313 EARQKLTEIEAKIGELKDEVDAQDEEIEEARKDLDDLRREVNDLKEEIREIENSIRKLKKEVDRL-------EKQIADLE  385 (1074)
T ss_pred             HHhhhhhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHH
Confidence            35667888888888888877777776666666666666666666666666655555555444444       44444444


Q ss_pred             HHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          692 EEL-VTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQAS  737 (899)
Q Consensus       692 EEL-~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE  737 (899)
                      ++. .....++.+++..+.+++++.+.++....+.....++....+.
T Consensus       386 ~~~~~~~~~~~~e~e~k~~~L~~evek~e~~~~~L~~e~~~~~~~~~  432 (1074)
T KOG0250|consen  386 KQTNNELGSELEERENKLEQLKKEVEKLEEQINSLREELNEVKEKAK  432 (1074)
T ss_pred             HHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            443 4444444444444444444444444433333333333333333

>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]

Probab=97.20  E-value=9.7e-05  Score=81.34  Aligned_cols=51  Identities=20%  Similarity=0.518  Sum_probs=43.6

Q ss_pred             ccccccccccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccc
Q 002627          838 GVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR  890 (899)
Q Consensus       838 ~l~~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~  890 (899)
                      .++....|-||++-....+++||+|. ||.-|+..+.. ....||.|+.++..
T Consensus        19 ~lD~lLRC~IC~eyf~ip~itpCsHt-fCSlCIR~~L~-~~p~CP~C~~~~~E   69 (442)
T KOG0287|consen   19 TLDDLLRCGICFEYFNIPMITPCSHT-FCSLCIRKFLS-YKPQCPTCCVTVTE   69 (442)
T ss_pred             hhHHHHHHhHHHHHhcCceeccccch-HHHHHHHHHhc-cCCCCCceecccch
Confidence            34556779999999999999999999 99999998765 35799999998863

>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.18  E-value=0.00013  Score=75.31  Aligned_cols=47  Identities=34%  Similarity=0.763  Sum_probs=40.4

Q ss_pred             ccccccccccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCcc
Q 002627          838 GVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRS  886 (899)
Q Consensus       838 ~l~~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~  886 (899)
                      ...+...|.||++.....+++||||. ||..|+..+.. ..-.||.||.
T Consensus         9 ~~~~~~~C~iC~~~~~~p~~l~C~H~-~c~~C~~~~~~-~~~~Cp~cr~   55 (386)
T KOG2177|consen    9 VLQEELTCPICLEYFREPVLLPCGHN-FCRACLTRSWE-GPLSCPVCRP   55 (386)
T ss_pred             hccccccChhhHHHhhcCccccccch-HhHHHHHHhcC-CCcCCcccCC
Confidence            34567889999999888899999999 99999998765 4469999993

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

Probab=97.18  E-value=0.43  Score=58.22  Aligned_cols=107  Identities=16%  Similarity=0.144  Sum_probs=52.6

Q ss_pred             hhhHHHHHHHH-HHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHH
Q 002627          614 MKKLSEMENAL-CKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKT-------QMKFQSWEK  685 (899)
Q Consensus       614 ~kkL~e~E~al-~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~-------~k~l~~~Ek  685 (899)
                      +-|-.|+|.+- .....|..|-.-.+..+-..+..+..|.++.+-...+-.-.++.+-=+-.+.       .+.+..+-.
T Consensus       407 kqRqlewErar~qem~~Qk~reqe~iv~~nak~~ql~~eletLn~k~qqls~kl~Dvr~~~tt~kt~ie~~~~q~e~~is  486 (1118)
T KOG1029|consen  407 KQRQLEWERARRQEMLNQKNREQEWIVYLNAKKKQLQQELETLNFKLQQLSGKLQDVRVDITTQKTEIEEVTKQRELMIS  486 (1118)
T ss_pred             HHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhheeccchHHHHHHHhhhHHHHHHH
Confidence            34445555442 2344566666666666666666666666666544444333333221111111       122223334


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          686 QKALFQEELVTEKRKVVQLLQELDQAKALQEQLEA  720 (899)
Q Consensus       686 Qk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~  720 (899)
                      ++..||.+|.+.+.++.++-.|.+.+..++++...
T Consensus       487 ei~qlqarikE~q~kl~~l~~Ekq~l~~qlkq~q~  521 (1118)
T KOG1029|consen  487 EIDQLQARIKELQEKLQKLAPEKQELNHQLKQKQS  521 (1118)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhh
Confidence            45555666666666666666555555555555443

>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.15  E-value=0.00025  Score=77.32  Aligned_cols=48  Identities=29%  Similarity=0.659  Sum_probs=39.4

Q ss_pred             cccccccccccc---cceEEecCCCcccChhhHHHhhhcCCCCCCCCccccc
Q 002627          841 RERECVMCLSEE---MSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQ  889 (899)
Q Consensus       841 ~~~~CvIC~d~~---~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~  889 (899)
                      ...+|+|||+..   -.++.+||.|. |-..|.+.|...-..+||+||.+|.
T Consensus       322 ~GveCaICms~fiK~d~~~vlPC~H~-FH~~Cv~kW~~~y~~~CPvCrt~iP  372 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLPCDHR-FHVGCVDKWLLGYSNKCPVCRTAIP  372 (374)
T ss_pred             CCceEEEEhhhhcccceEEEeccCce-echhHHHHHHhhhcccCCccCCCCC
Confidence            347899999964   23778899999 9999999997644569999999874

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

Probab=97.15  E-value=0.49  Score=60.30  Aligned_cols=115  Identities=23%  Similarity=0.264  Sum_probs=54.9

Q ss_pred             HHHhHHHhhhhHHHHHHH---HHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH
Q 002627          606 KQILEENTMKKLSEMENA---LCKASGQVERANSAVRRLEVENTALRQEMEAAKL---RAAESAASCQEVSKREKKTQMK  679 (899)
Q Consensus       606 k~~lee~t~kkL~e~E~a---l~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl---~a~Es~~~~~e~~ekEkk~~k~  679 (899)
                      ++-|+...+..-.+||++   ..++...+++.++.-+.|+..+...++|.+-++.   ...+.-..++...+.-+....+
T Consensus       510 ~~~l~~~~~~~~eele~~q~~~~~~~~~~~kv~~~rk~le~~~~d~~~e~~~~~kl~~~~~e~~~~iq~~~e~~~~~~d~  589 (1317)
T KOG0612|consen  510 KRKLEALVRQLEEELEDAQKKNDNAADSLEKVNSLRKQLEEAELDMRAESEDAGKLRKHSKELSKQIQQELEENRDLEDK  589 (1317)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhhhhhhhHHHHhhHhhhhhhhhHHHHHHhhccccHHHH
Confidence            333344444443334433   3344444667777777777777777776663322   2333333444433322222223


Q ss_pred             HHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          680 FQSW-------EKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEA  720 (899)
Q Consensus       680 l~~~-------EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~  720 (899)
                      +..+       .++...++.+++.+++....+.....+++..+..++.
T Consensus       590 l~~le~~k~~ls~~~~~~~~~~e~~~~~~~~~~e~~~~l~~~i~sL~~  637 (1317)
T KOG0612|consen  590 LSLLEESKSKLSKENKKLRSELEKERRQRTEISEIIAELKEEISSLEE  637 (1317)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence            3333       3333344444555555555555555555555544443

>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A

Probab=97.14  E-value=0.00019  Score=57.75  Aligned_cols=36  Identities=31%  Similarity=0.776  Sum_probs=21.4

Q ss_pred             cccccccccc----eEEecCCCcccChhhHHHhhhcC---CCCCC
Q 002627          845 CVMCLSEEMS----VVFLPCAHQVVCTTCNELHEKQG---MKDCP  882 (899)
Q Consensus       845 CvIC~d~~~~----vvllPCgH~~~C~~Ca~~l~~~~---~~kCP  882 (899)
                      |+||++ ..+    .+++||||. ||..|...+...+   .-+||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~-~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHV-FCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-E-EEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccH-HHHHHHHHHHhcCCCCeeeCc
Confidence            899999 666    788899999 9999999987743   23676

>KOG4807 consensus F-actin binding protein, regulates actin cytoskeletal organization [Cytoskeleton]

Probab=97.11  E-value=0.22  Score=56.65  Aligned_cols=214  Identities=19%  Similarity=0.242  Sum_probs=112.7

Q ss_pred             HHhHHHHHHHHHHHHhhHHHhHHHHHHHHHhhhc--HHHHHHHHHhHHHHHHHHHHHHHhHHHhhhhHHHHH----HHHH
Q 002627          552 KLIPRVRELHNQLHEWTEWANQKVMQAARRLSKD--KAELKTLRQEKEEVERLKKEKQILEENTMKKLSEME----NALC  625 (899)
Q Consensus       552 ~Lv~r~~el~~~~~~~~dWA~qkvmQaa~rl~~d--~~eLk~LR~EkEe~eRlkk~k~~lee~t~kkL~e~E----~al~  625 (899)
                      -|-++|++|+.||..|..=-  +..|.+-|--.|  ..-+.++..-      ....-+.+|+.--|++.++.    +.|.
T Consensus       295 ~L~k~vQ~L~AQle~~R~q~--e~~q~~~~s~~d~~~~~~~~~qat------CERgfAaMEetHQkkiEdLQRqHqRELe  366 (593)
T KOG4807|consen  295 ALEKEVQALRAQLEAWRLQG--EAPQSALRSQEDGHIPPGYISQAT------CERGFAAMEETHQKKIEDLQRQHQRELE  366 (593)
T ss_pred             HHHHHHHHHHHHHHHHHHhc--cCchhhHhhhhhccCCccHHHHHH------HHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46789999999999997643  555544333222  1222222221      22256777777777776654    4555


Q ss_pred             HhhhhHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH
Q 002627          626 KASGQVERAN-----SAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKT-QMKFQSWEKQKALFQEELVTEKR  699 (899)
Q Consensus       626 kas~Q~~ra~-----~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~-~k~l~~~EkQk~~LQEEL~~eK~  699 (899)
                      |+..+.|+--     +++-.+|.-.-+-|.||+.. |+...|   +..-.+--++. +..+++..+++.+|-++-..-=-
T Consensus       367 kLreEKdrLLAEETAATiSAIEAMKnAhrEEmeRE-LeKsqS---vnsdveaLRrQyleelqsvqRELeVLSEQYSQKCL  442 (593)
T KOG4807|consen  367 KLREEKDRLLAEETAATISAIEAMKNAHREEMERE-LEKSQS---VNSDVEALRRQYLEELQSVQRELEVLSEQYSQKCL  442 (593)
T ss_pred             HHHHHHHhhhhhhhhhhhHHHHHHHHHHHHHHHHH-HHhhhc---cccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555532     23444444444555555543 222222   22222222333 45666666666666666443333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----------------hHHHHHhhHHHH
Q 002627          700 KVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAK----------------SKEDMIKSKAET  763 (899)
Q Consensus       700 KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~ErEraE~~~k----------------~keealr~K~E~  763 (899)
                      ++.-|-+.++.-++++.+.+..-++.-.-..|+.-++..   ++.++.....                =+++.+.+-.|.
T Consensus       443 EnahLaqalEaerqaLRqCQrEnQELnaHNQELnnRLaa---EItrLRtlltgdGgGtGsplaqgkdayELEVLLRVKEs  519 (593)
T KOG4807|consen  443 ENAHLAQALEAERQALRQCQRENQELNAHNQELNNRLAA---EITRLRTLLTGDGGGTGSPLAQGKDAYELEVLLRVKES  519 (593)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHH---HHHHHHHHhccCCCCCCCccccCcchhhHHHHHHhhHH
Confidence            444455555544444444443333333333333333322   3344433322                166777777888


Q ss_pred             hhhhhHHHHHHHHHHHH
Q 002627          764 NLMRYKDDIHRLEKEIS  780 (899)
Q Consensus       764 E~qr~k~dikrLEqEls  780 (899)
                      +.|.++.+|.-|..|+.
T Consensus       520 EiQYLKqEissLkDELQ  536 (593)
T KOG4807|consen  520 EIQYLKQEISSLKDELQ  536 (593)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            88888878777777775

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

Probab=97.09  E-value=0.67  Score=52.91  Aligned_cols=34  Identities=21%  Similarity=0.316  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHH
Q 002627          617 LSEMENALCKASGQVERANSAVRRLEVENTALRQ  650 (899)
Q Consensus       617 L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~  650 (899)
                      +.+.-..+-||...+.+....++.|..+...+-+
T Consensus       125 ~~~a~~n~~kAqQ~lar~t~Q~q~lqtrl~~l~~  158 (499)
T COG4372         125 LAAARQNLAKAQQELARLTKQAQDLQTRLKTLAE  158 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444566666666666666666665554443

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

Probab=97.08  E-value=0.9  Score=52.77  Aligned_cols=36  Identities=28%  Similarity=0.323  Sum_probs=17.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          712 KALQEQLEARWRQEEKAKEELVMQASSIRKEREQIE  747 (899)
Q Consensus       712 k~~~kqlE~kwrQeqkakeE~laqaE~ER~ErEraE  747 (899)
                      +....+++..+...++..+++.+.....+.++.+++
T Consensus       209 kk~~~~l~~~l~~~q~~l~eL~~~~~~L~~~Ias~e  244 (420)
T COG4942         209 KKTLAQLNSELSADQKKLEELRANESRLKNEIASAE  244 (420)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            333444444444555555555555555555544444

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

Probab=97.06  E-value=1.5  Score=54.58  Aligned_cols=132  Identities=24%  Similarity=0.353  Sum_probs=71.2

Q ss_pred             cCCCCchhHHHHHHhHHHHHHHHHHHHhhHHHhHHHHHHHHHhhhcHHHHHHH---HHhHHHHHHHHHHHHHhHHHhhhh
Q 002627          540 LVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTL---RQEKEEVERLKKEKQILEENTMKK  616 (899)
Q Consensus       540 ~vp~D~Kde~il~Lv~r~~el~~~~~~~~dWA~qkvmQaa~rl~~d~~eLk~L---R~EkEe~eRlkk~k~~lee~t~kk  616 (899)
                      -+|--.|.|+-  |-.||+||...|+--           -.|=..|++-|+.|   |=+.|+.+.+|.       .-|-+
T Consensus       218 ~l~saskte~e--Lr~QvrdLtEkLetl-----------R~kR~EDk~Kl~ElekmkiqleqlqEfkS-------kim~q  277 (1243)
T KOG0971|consen  218 PLPSASKTEEE--LRAQVRDLTEKLETL-----------RLKRAEDKAKLKELEKMKIQLEQLQEFKS-------KIMEQ  277 (1243)
T ss_pred             CCCccccchHH--HHHHHHHHHHHHHHH-----------HhhhhhhHHHHHHHHHHHHHHHHHHHHHH-------HHHHH
Confidence            34445666665  667777777544321           11222444433333   223333332221       13445


Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          617 LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKL---RAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEE  693 (899)
Q Consensus       617 L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl---~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEE  693 (899)
                      ..++++.|..+..+...|...--+...+.+.+..-||-+-|   .|.|++.+++.-.+   ....|+..+|-.+..|..|
T Consensus       278 qa~Lqrel~raR~e~keaqe~ke~~k~emad~ad~iEmaTldKEmAEERaesLQ~eve---~lkEr~deletdlEILKaE  354 (1243)
T KOG0971|consen  278 QADLQRELKRARKEAKEAQEAKERYKEEMADTADAIEMATLDKEMAEERAESLQQEVE---ALKERVDELETDLEILKAE  354 (1243)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHH
Confidence            67888888888888877777777777777666665555533   45566555543222   2233455555555555555


Q ss_pred             H
Q 002627          694 L  694 (899)
Q Consensus       694 L  694 (899)
                      +
T Consensus       355 m  355 (1243)
T KOG0971|consen  355 M  355 (1243)
T ss_pred             H
Confidence            3

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

Probab=97.05  E-value=0.52  Score=60.09  Aligned_cols=56  Identities=18%  Similarity=0.238  Sum_probs=28.0

Q ss_pred             chhHHHHHHhHHHHHHHHHHHHhhH-----------HHhHHHHHHHHHhhhcHHHHHHHHHhHHHHH
Q 002627          545 KRDEIILKLIPRVRELHNQLHEWTE-----------WANQKVMQAARRLSKDKAELKTLRQEKEEVE  600 (899)
Q Consensus       545 ~Kde~il~Lv~r~~el~~~~~~~~d-----------WA~qkvmQaa~rl~~d~~eLk~LR~EkEe~e  600 (899)
                      .+++|+-.|...+..+..+..+-.+           =+++|+-+...++.+-.+.+..|++|.+.++
T Consensus       462 ~~~~~~keL~e~i~~lk~~~~el~~~q~~l~q~~~ke~~ek~~~~~~~~~~l~~~~~~~~eele~~q  528 (1317)
T KOG0612|consen  462 ELEEMDKELEETIEKLKSEESELQREQKALLQHEQKEVEEKLSEEEAKKRKLEALVRQLEEELEDAQ  528 (1317)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6677777777655555444444432           1223333333344444444555555555543

>TIGR00606 rad50 rad50

Probab=97.03  E-value=0.33  Score=63.76  Aligned_cols=18  Identities=28%  Similarity=0.231  Sum_probs=7.7

Q ss_pred             HHHHHHHHHHhhhhHHHH
Q 002627          617 LSEMENALCKASGQVERA  634 (899)
Q Consensus       617 L~e~E~al~kas~Q~~ra  634 (899)
                      |.+++..|.+....++.+
T Consensus       767 le~~~~~l~~~~~~~~~~  784 (1311)
T TIGR00606       767 IEEQETLLGTIMPEEESA  784 (1311)
T ss_pred             HHHHHHHHHHHHHhHHHH
Confidence            344444444444444333

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

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

Probab=97.03  E-value=0.56  Score=59.63  Aligned_cols=134  Identities=14%  Similarity=0.145  Sum_probs=74.6

Q ss_pred             hhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHH
Q 002627          613 TMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKT----QMKFQSWEKQKA  688 (899)
Q Consensus       613 t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~----~k~l~~~EkQk~  688 (899)
                      ++++.+|+|+++.+++.+++.-+..+-.|+.....++.+.+--+.+.......+++-.++..+.    .+++.....++.
T Consensus       424 ~~~~~~e~e~~pe~~~~~i~~~~~ei~~L~~~~~~~~~~l~e~~~~l~~~t~~~~~e~~~~ekel~~~~~~~n~~~~e~~  503 (1293)
T KOG0996|consen  424 ARRKKSELEKAPEKARIEIQKCQTEIEQLEELLEKEERELDEILDSLKQETEGIREEIEKLEKELMPLLKQVNEARSELD  503 (1293)
T ss_pred             HHhhHHHHHhCchhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6777888898888888887777777777665544444444444333333333333333222222    233333344445


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          689 LFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQI  746 (899)
Q Consensus       689 ~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~ErEra  746 (899)
                      ..+.||.....+-....+.+++++..+.......++.......+...+...+.++.++
T Consensus       504 vaesel~~L~~~~~~~~~~~e~lk~~L~~~~~~~~e~~~~l~~~k~~l~~~k~e~~~~  561 (1293)
T KOG0996|consen  504 VAESELDILLSRHETGLKKVEELKGKLLASSESLKEKKTELDDLKEELPSLKQELKEK  561 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            5555555555555555556666666666666666666666666655555544444443

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=97.02  E-value=0.00028  Score=59.51  Aligned_cols=47  Identities=30%  Similarity=0.721  Sum_probs=39.6

Q ss_pred             ccccccccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccc
Q 002627          840 KRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR  890 (899)
Q Consensus       840 ~~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~  890 (899)
                      .....|+.|......-+++||||+ +|..|....   +...||+|..+|..
T Consensus         5 ~~~~~~~~~~~~~~~~~~~pCgH~-I~~~~f~~~---rYngCPfC~~~~~~   51 (55)
T PF14447_consen    5 QPEQPCVFCGFVGTKGTVLPCGHL-ICDNCFPGE---RYNGCPFCGTPFEF   51 (55)
T ss_pred             ccceeEEEccccccccccccccce-eeccccChh---hccCCCCCCCcccC
Confidence            345679999999888889999999 899998864   45789999999863

>TIGR00606 rad50 rad50

Probab=97.01  E-value=0.79  Score=60.32  Aligned_cols=46  Identities=13%  Similarity=0.102  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          677 QMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARW  722 (899)
Q Consensus       677 ~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kw  722 (899)
                      ..+...||.++..+.+++...+..+..+..++..+...+..++.+.
T Consensus       880 l~~r~~le~~L~el~~el~~l~~~~~~~~~~~~~~~~~~~~~~~~~  925 (1311)
T TIGR00606       880 LQRRQQFEEQLVELSTEVQSLIREIKDAKEQDSPLETFLEKDQQEK  925 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            3455666666666666666666666666555555554444444433

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

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

Probab=96.93  E-value=0.86  Score=54.47  Aligned_cols=102  Identities=20%  Similarity=0.276  Sum_probs=62.8

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          617 LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVT  696 (899)
Q Consensus       617 L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~  696 (899)
                      ...+...|..+..+|+.+...+.+...+...|+..++..+..-...-..+..+.+++......+..++-++.+++.+|..
T Consensus       276 ~~~~~~~l~s~~~ELe~ak~~L~~~k~E~~~L~~~vesL~~ELe~~K~el~~lke~e~~a~~~v~~L~~eL~~~r~eLea  355 (522)
T PF05701_consen  276 SSELQSSLASAKKELEEAKKELEKAKEEASSLRASVESLRSELEKEKEELERLKEREKEASSEVSSLEAELNKTRSELEA  355 (522)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHHHHHH
Confidence            44555556666667777776666666666666666666666665555556666677777777777777777777777765


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 002627          697 EKRKVVQLLQELDQAKALQEQL  718 (899)
Q Consensus       697 eK~KLa~LeqELeqak~~~kql  718 (899)
                      .+.+-.+.......+...++++
T Consensus       356 ~~~~e~~~k~~~~~l~~~Lqql  377 (522)
T PF05701_consen  356 AKAEEEKAKEAMSELPKALQQL  377 (522)
T ss_pred             HHhhhcchhhhHHHHHHHHHHH
Confidence            5544443333333333333333

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

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

Probab=96.93  E-value=0.98  Score=56.71  Aligned_cols=108  Identities=29%  Similarity=0.452  Sum_probs=73.9

Q ss_pred             chhHHHHHHhHHHHHHHHHH----HHhhHHHhHHHHHHHHHhhhcHHHHHHHHHh------------------HHHHHHH
Q 002627          545 KRDEIILKLIPRVRELHNQL----HEWTEWANQKVMQAARRLSKDKAELKTLRQE------------------KEEVERL  602 (899)
Q Consensus       545 ~Kde~il~Lv~r~~el~~~~----~~~~dWA~qkvmQaa~rl~~d~~eLk~LR~E------------------kEe~eRl  602 (899)
                      .|-|..+.|-.-+.+|+.++    |+--||-.     -|+|......||..||+-                  |+.++.|
T Consensus       195 EK~enll~lr~eLddleae~~klrqe~~e~l~-----ea~ra~~yrdeldalre~aer~d~~ykerlmDs~fykdRveel  269 (1195)
T KOG4643|consen  195 EKFENLLRLRNELDDLEAEISKLRQEIEEFLD-----EAHRADRYRDELDALREQAERPDTTYKERLMDSDFYKDRVEEL  269 (1195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHhhhhhhhHHHHHHHhhhcCCCccchhhhhhHHHHHHHHHH
Confidence            34456666666666666655    23344443     356677777777777764                  2334444


Q ss_pred             HH-------HHHHhHHHh-------------------hhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          603 KK-------EKQILEENT-------------------MKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAK  656 (899)
Q Consensus       603 kk-------~k~~lee~t-------------------~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaak  656 (899)
                      |.       +|+.|||+-                   .++|.+|+.....-.+|.+.-......|+++++.|-..|+-.+
T Consensus       270 kedN~vLleekeMLeeQLq~lrarse~~tleseiiqlkqkl~dm~~erdtdr~kteeL~eEnstLq~q~eqL~~~~ellq  349 (1195)
T KOG4643|consen  270 KEDNRVLLEEKEMLEEQLQKLRARSEGATLESEIIQLKQKLDDMRSERDTDRHKTEELHEENSTLQVQKEQLDGQMELLQ  349 (1195)
T ss_pred             HhhhHHHHHHHHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhhHhh
Confidence            43       467777761                   2347888888888888999999999999999999999998887


Q ss_pred             H
Q 002627          657 L  657 (899)
Q Consensus       657 l  657 (899)
                      .
T Consensus       350 ~  350 (1195)
T KOG4643|consen  350 I  350 (1195)
T ss_pred             h
Confidence            7

>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

Probab=96.88  E-value=0.00049  Score=76.74  Aligned_cols=47  Identities=30%  Similarity=0.774  Sum_probs=37.7

Q ss_pred             cccccccccccccc-------------ceEEecCCCcccChhhHHHhhhcCCCCCCCCcccc
Q 002627          840 KRERECVMCLSEEM-------------SVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPI  888 (899)
Q Consensus       840 ~~~~~CvIC~d~~~-------------~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I  888 (899)
                      .++..|.|||++..             ..-=+||||. +--.|...|.+ +..+||+||.|+
T Consensus       285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHi-lHl~CLknW~E-RqQTCPICr~p~  344 (491)
T COG5243         285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHI-LHLHCLKNWLE-RQQTCPICRRPV  344 (491)
T ss_pred             CCCCeEEEecccccCCCCccCcccccCCcccccccce-eeHHHHHHHHH-hccCCCcccCcc
Confidence            45688999999721             1245799999 89999999987 467999999984

>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis

Probab=96.86  E-value=0.00088  Score=59.21  Aligned_cols=50  Identities=22%  Similarity=0.191  Sum_probs=40.3

Q ss_pred             ccccccccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccc
Q 002627          840 KRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR  890 (899)
Q Consensus       840 ~~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~  890 (899)
                      .+...|+||.+-..+.|++||||. ||..|+..+...+...||+|+.++..
T Consensus         2 P~~f~CpIt~~lM~dPVi~~~G~t-yer~~I~~~l~~~~~~~P~t~~~l~~   51 (73)
T PF04564_consen    2 PDEFLCPITGELMRDPVILPSGHT-YERSAIERWLEQNGGTDPFTRQPLSE   51 (73)
T ss_dssp             SGGGB-TTTSSB-SSEEEETTSEE-EEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred             CcccCCcCcCcHhhCceeCCcCCE-EcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence            356789999999999999999988 99999999988767899999998875

Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....

>PF13514 AAA_27: AAA domain

Probab=96.86  E-value=1  Score=58.36  Aligned_cols=172  Identities=22%  Similarity=0.306  Sum_probs=103.8

Q ss_pred             CcccccCCCCchhHHHHHHhHHHHHHHHHHHHhh----HHH--hHHHHHHHHHhhhcHHHHHHHHHhHHHHHHHHHHHHH
Q 002627          535 TSLEHLVPQDKRDEIILKLIPRVRELHNQLHEWT----EWA--NQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQI  608 (899)
Q Consensus       535 ~~~~~~vp~D~Kde~il~Lv~r~~el~~~~~~~~----dWA--~qkvmQaa~rl~~d~~eLk~LR~EkEe~eRlkk~k~~  608 (899)
                      +.-..|.|. .+.-.|-.++.++++++.++++..    +|.  .+.+-++-.++..-..+++.|+.++...+|+...|..
T Consensus       138 ea~~Lfkpr-g~~~~in~~l~~l~e~~~~l~~~~~~~~~y~~l~~~~~~~~~~~~~l~~~~~~l~~~~~~ler~~~~~p~  216 (1111)
T PF13514_consen  138 EADELFKPR-GRKPEINQALKELKELERELREAEVRAAEYQELQQALEEAEEELEELRAELKELRAELRRLERLRRAWPL  216 (1111)
T ss_pred             HHHHhhCCC-CCChHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence            344478888 666678889999999999988764    454  3456677778888888999999999999999887777


Q ss_pred             hHHHhhhh--HH----------HHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          609 LEENTMKK--LS----------EMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKT  676 (899)
Q Consensus       609 lee~t~kk--L~----------e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~  676 (899)
                      +.+-...+  |.          +....+..+..++..+...+..++.+.+.++.+++.......  .-......+.-...
T Consensus       217 ~~~~~~l~~~l~~l~~~~~~p~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~l~~~~~--ll~~~~~I~~L~~~  294 (1111)
T PF13514_consen  217 LAELQQLEAELAELGEVPDFPEDGAERLEQLEEELAEAQAQLERLQEELAQLEEELDALPVDEE--LLAHAAEIEALEEQ  294 (1111)
T ss_pred             HHHHHHHHHHHHhcCCcCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHH--HHhhHHHHHHHHHH
Confidence            66542222  22          334455555555666666666666666666665554322211  11111112222222


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          677 QMKFQSWEKQKALFQEELVTEKRKVVQLLQELD  709 (899)
Q Consensus       677 ~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELe  709 (899)
                      .-.....+.++..++.++...+..+..+.++|.
T Consensus       295 ~~~~~~~~~dl~~~~~e~~~~~~~~~~~~~~lg  327 (1111)
T PF13514_consen  295 RGEYRKARQDLPRLEAELAELEAELRALLAQLG  327 (1111)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            233344555555566666555555555555444

>PRK04863 mukB cell division protein MukB; Provisional

Probab=96.86  E-value=0.46  Score=62.98  Aligned_cols=119  Identities=11%  Similarity=0.096  Sum_probs=56.0

Q ss_pred             hhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          613 TMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQE  692 (899)
Q Consensus       613 t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQE  692 (899)
                      +++|+.+.++.|.++...+.+.+..+..++.....|+.+.+.++..-....... ....+-......+..++.++...++
T Consensus       291 ~r~rk~eA~kkLe~tE~nL~rI~diL~ELe~rL~kLEkQaEkA~kyleL~ee~l-r~q~ei~~l~~~LeELee~Lee~ee  369 (1486)
T PRK04863        291 LRRELYTSRRQLAAEQYRLVEMARELAELNEAESDLEQDYQAASDHLNLVQTAL-RQQEKIERYQADLEELEERLEEQNE  369 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555555555555555555565555555555555555433333211 1122222223344444444444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          693 ELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEEL  732 (899)
Q Consensus       693 EL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~  732 (899)
                      .++..+.++..++.+++++...+..+..+..+.++...++
T Consensus       370 eLeeleeeleeleeEleelEeeLeeLqeqLaelqqel~el  409 (1486)
T PRK04863        370 VVEEADEQQEENEARAEAAEEEVDELKSQLADYQQALDVQ  409 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555555555555555555444444444333333333

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

Probab=96.85  E-value=1.4  Score=53.05  Aligned_cols=187  Identities=18%  Similarity=0.162  Sum_probs=112.7

Q ss_pred             hHHHHHHhHHHHHHHHHHHHhhHHHhHHHHHH-HHHhhhcHHHHHHHHHhHHHHHHHHHHHHHhHHHhhhhHHHHHHHHH
Q 002627          547 DEIILKLIPRVRELHNQLHEWTEWANQKVMQA-ARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALC  625 (899)
Q Consensus       547 de~il~Lv~r~~el~~~~~~~~dWA~qkvmQa-a~rl~~d~~eLk~LR~EkEe~eRlkk~k~~lee~t~kkL~e~E~al~  625 (899)
                      .+-+-+|.+++-++.+++.      .-|=.|+ .++|...+.+++.++.+.=+..-+-+ |.-++.+..++...+-+...
T Consensus       120 ~~e~~~lk~~lee~~~el~------~~k~qq~~v~~l~e~l~k~~~~~~~~ie~~a~~~-e~~~~q~~~e~e~~L~~~~~  192 (629)
T KOG0963|consen  120 SEENEELKEELEEVNNELA------DLKTQQVTVRNLKERLRKLEQLLEIFIENAANET-EEKLEQEWAEREAGLKDEEQ  192 (629)
T ss_pred             hhhHHHHHHHHHHHHHHHh------hhhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence            3445555666666665443      3333443 35666666777766666444222211 22235555666666666667


Q ss_pred             HhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----
Q 002627          626 KASGQVERANSAVRRLEVENTALRQEMEAAKLR----AAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTE----  697 (899)
Q Consensus       626 kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~----a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~e----  697 (899)
                      +...|+..+...|+.+...+.....+....+-.    +.=....+.-+...-...+.++..+|+++..|.+++...    
T Consensus       193 ~~~~q~~~le~ki~~lq~a~~~t~~el~~~~s~~dee~~~k~aev~lim~eLe~aq~ri~~lE~e~e~L~~ql~~~N~~~  272 (629)
T KOG0963|consen  193 NLQEQLEELEKKISSLQSAIEDTQNELFDLKSKYDEEVAAKAAEVSLIMTELEDAQQRIVFLEREVEQLREQLAKANSSK  272 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Confidence            777888888888888888887777777776666    222223344455555666778888888888777775443    


Q ss_pred             -----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          698 -----------KRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIR  740 (899)
Q Consensus       698 -----------K~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER  740 (899)
                                 ...|.+.+.+..++-..++++++...++.......+..++.+-
T Consensus       273 ~~~~~~~i~~~~~~L~~kd~~i~~L~~di~~~~~S~~~e~e~~~~qI~~le~~l  326 (629)
T KOG0963|consen  273 KLAKIDDIDALGSVLNQKDSEIAQLSNDIERLEASLVEEREKHKAQISALEKEL  326 (629)
T ss_pred             hhccCCchHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                       3334445566666666666666666666665555555555543

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

Probab=96.83  E-value=0.36  Score=56.99  Aligned_cols=142  Identities=19%  Similarity=0.234  Sum_probs=94.9

Q ss_pred             HHHHhHHHhhhh------HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          605 EKQILEENTMKK------LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQM  678 (899)
Q Consensus       605 ~k~~lee~t~kk------L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k  678 (899)
                      +-.+|+|+.-|.      +.+||+.|++....|.+..+.--+++..++.++.--++...+--.--.-+.|...||...+.
T Consensus        91 EesLLqESaakE~~yl~kI~eleneLKq~r~el~~~q~E~erl~~~~sd~~e~~~~~E~qR~rlr~elKe~KfRE~Rlls  170 (772)
T KOG0999|consen   91 EESLLQESAAKEEYYLQKILELENELKQLRQELTNVQEENERLEKVHSDLKESNAAVEDQRRRLRDELKEYKFREARLLS  170 (772)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445667766654      89999999999999999999988998888887765555544444444445666667777766


Q ss_pred             HHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          679 KFQSWEKQKALFQEE----------LVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQI  746 (899)
Q Consensus       679 ~l~~~EkQk~~LQEE----------L~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~ErEra  746 (899)
                      .-..+|.+-.-||..          .+..|.++.+++++.+=++.+.+....-..-.++..+|++..+..||-++-.+
T Consensus       171 eYSELEEENIsLQKqVs~LR~sQVEyEglkheikRleEe~elln~q~ee~~~Lk~IAekQlEEALeTlq~EReqk~al  248 (772)
T KOG0999|consen  171 EYSELEEENISLQKQVSNLRQSQVEYEGLKHEIKRLEEETELLNSQLEEAIRLKEIAEKQLEEALETLQQEREQKNAL  248 (772)
T ss_pred             HHHHHHHhcchHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            666666665555554          44556667777777766666666665544445566666666666655554433

>PF15254 CCDC14: Coiled-coil domain-containing protein 14

Probab=96.82  E-value=0.28  Score=59.96  Aligned_cols=158  Identities=23%  Similarity=0.262  Sum_probs=85.4

Q ss_pred             HHHHHHHHHhH--HHHHHHHHHHHHhHHHhhhhHHHHHHHHH-------HhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          586 KAELKTLRQEK--EEVERLKKEKQILEENTMKKLSEMENALC-------KASGQVERANSAVRRLEVENTALRQEMEAAK  656 (899)
Q Consensus       586 ~~eLk~LR~Ek--Ee~eRlkk~k~~lee~t~kkL~e~E~al~-------kas~Q~~ra~~~vr~lE~ena~lr~emEaak  656 (899)
                      +-|||.|=.|.  =|++||              +.|+|.=+.       .+.-|++-|-+ ++-|..||+.||.+.-..+
T Consensus       343 LgELkaLVaeq~DsE~qRL--------------itEvE~cislLPav~g~tniq~EIALA-~QplrsENaqLrRrLriln  407 (861)
T PF15254_consen  343 LGELKALVAEQEDSEVQRL--------------ITEVEACISLLPAVSGSTNIQVEIALA-MQPLRSENAQLRRRLRILN  407 (861)
T ss_pred             HHHHHHHHhccchHHHHHH--------------HHHHHHHHHhhhhhhccccchhhhHhh-hhhhhhhhHHHHHHHHHHH
Confidence            34555555543  355666              455555443       44557777765 8999999999999888777


Q ss_pred             HHHHHHHHHH----------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHH
Q 002627          657 LRAAESAASC----------------------QEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELD-QAKA  713 (899)
Q Consensus       657 l~a~Es~~~~----------------------~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELe-qak~  713 (899)
                      -+-.|++++-                      +..++.-.+.+.-++.--.++.+.-+..+.|..++..+.++.+ ++..
T Consensus       408 qqlreqe~~~k~~~~~~~n~El~sLqSlN~~Lq~ql~es~k~~e~lq~kneellk~~e~q~~Enk~~~~~~~ekd~~l~~  487 (861)
T PF15254_consen  408 QQLREQEKAEKTSGSQDCNLELFSLQSLNMSLQNQLQESLKSQELLQSKNEELLKVIENQKEENKRLRKMFQEKDQELLE  487 (861)
T ss_pred             HHHHHHHhhcccCCCcccchhhHHHHHHHHHHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            6655554322                      1111222222222222222223333333344444444444433 3444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHh
Q 002627          714 LQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIK  758 (899)
Q Consensus       714 ~~kqlE~kwrQeqkakeE~laqaE~ER~ErEraE~~~k~keealr  758 (899)
                      -..+++.+.-..+..+++++..++.-+..+|.+|..++--...+|
T Consensus       488 ~kq~~d~e~~rik~ev~eal~~~k~~q~kLe~sekEN~iL~itlr  532 (861)
T PF15254_consen  488 NKQQFDIETTRIKIEVEEALVNVKSLQFKLEASEKENQILGITLR  532 (861)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhhhHhhhHHH
Confidence            455555556666666677777777777777776665554333333

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

Probab=96.81  E-value=0.67  Score=57.94  Aligned_cols=97  Identities=16%  Similarity=0.211  Sum_probs=60.9

Q ss_pred             cHHHHHHHHHhHHHHHHHHHHHHHhHHHhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          585 DKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAA  664 (899)
Q Consensus       585 d~~eLk~LR~EkEe~eRlkk~k~~lee~t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~  664 (899)
                      -...|..||.|||++++.       +-.-+|+..-+|-.+...+.|++.-...-......+..+..+++--+-.-++-.-
T Consensus       277 le~~l~~l~~ekeq~~a~-------~t~~~k~kt~lel~~kdlq~~i~~n~q~r~~~l~~l~~~~~ki~e~~~EL~~I~P  349 (1200)
T KOG0964|consen  277 LENKLTNLREEKEQLKAR-------ETKISKKKTKLELKIKDLQDQITGNEQQRNLALHVLQKVKDKIEEKKDELSKIEP  349 (1200)
T ss_pred             HHHHHHHHHHHHHHHHHH-------HHHHHHHhhhhhhhhHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            334566788888886665       3334566666666667777666654444444444555555555555555556666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          665 SCQEVSKREKKTQMKFQSWEKQKA  688 (899)
Q Consensus       665 ~~~e~~ekEkk~~k~l~~~EkQk~  688 (899)
                      .+..+.++|....+++..++.+..
T Consensus       350 ky~~l~~ee~~~~~rl~~l~~~~~  373 (1200)
T KOG0964|consen  350 KYNSLVDEEKRLKKRLAKLEQKQR  373 (1200)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHH
Confidence            677777777777777777776543

>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.80  E-value=0.00046  Score=76.46  Aligned_cols=50  Identities=26%  Similarity=0.688  Sum_probs=43.2

Q ss_pred             ccccccccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccce
Q 002627          840 KRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRR  891 (899)
Q Consensus       840 ~~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~  891 (899)
                      .++..|+||+-.+.++||.||+|. -|..|+.++.-. .+.|-+|.+.|...
T Consensus       420 sEd~lCpICyA~pi~Avf~PC~H~-SC~~CI~qHlmN-~k~CFfCktTv~~~  469 (489)
T KOG4692|consen  420 SEDNLCPICYAGPINAVFAPCSHR-SCYGCITQHLMN-CKRCFFCKTTVIDV  469 (489)
T ss_pred             cccccCcceecccchhhccCCCCc-hHHHHHHHHHhc-CCeeeEecceeeeh
Confidence            356889999999999999999999 899999987653 47899999888754

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

Probab=96.78  E-value=2.1  Score=53.98  Aligned_cols=90  Identities=21%  Similarity=0.287  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          644 ENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWR  723 (899)
Q Consensus       644 ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwr  723 (899)
                      +..++.++.+.++..+.++...+.       +-....+.+.-+...++.++...+..+.++..+...++..+..++.++.
T Consensus       788 rlkdl~keik~~k~~~e~~~~~~e-------k~~~e~e~l~lE~e~l~~e~~~~k~~l~~~~~~~~~l~~e~~~l~~kv~  860 (1174)
T KOG0933|consen  788 RLKDLEKEIKTAKQRAEESSKELE-------KRENEYERLQLEHEELEKEISSLKQQLEQLEKQISSLKSELGNLEAKVD  860 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334455555555555555543221       1111222233344445555555555555555555555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 002627          724 QEEKAKEELVMQASSIR  740 (899)
Q Consensus       724 QeqkakeE~laqaE~ER  740 (899)
                      -.+....+.++++..++
T Consensus       861 ~~~~~~~~~~~el~~~k  877 (1174)
T KOG0933|consen  861 KVEKDVKKAQAELKDQK  877 (1174)
T ss_pred             hHHhHHHHHHHHHHHHH
Confidence            55555555555554443

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

Probab=96.77  E-value=0.26  Score=59.61  Aligned_cols=170  Identities=22%  Similarity=0.304  Sum_probs=84.5

Q ss_pred             hhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          615 KKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEEL  694 (899)
Q Consensus       615 kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL  694 (899)
                      +.|.++...|..+..+++.....+..+..+...+..+.+..+....+-+    +..+-.++...-+..-|..+.+|+.-+
T Consensus       328 ~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le----~~~~l~~k~~~lL~d~e~ni~kL~~~v  403 (594)
T PF05667_consen  328 QELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELE----EELKLKKKTVELLPDAEENIAKLQALV  403 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            3355566666666666666666666555555555555544444333332    111222222233444566677777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHhhHHHH--------------
Q 002627          695 VTEKRKVVQLLQELDQAKALQEQLEARWRQEEK----AKEELVMQASSIRKEREQIEASAKSKEDM--------------  756 (899)
Q Consensus       695 ~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqk----akeE~laqaE~ER~ErEraE~~~k~keea--------------  756 (899)
                      ..-..++..|.++++..+.-+..--.+++....    .....+.++...|.+.+.++...+.+++.              
T Consensus       404 ~~s~~rl~~L~~qWe~~R~pL~~e~r~lk~~~~~~~~e~~~~~~~ik~~r~~~k~~~~e~~~Kee~~~qL~~e~e~~~k~  483 (594)
T PF05667_consen  404 EASEQRLVELAQQWEKHRAPLIEEYRRLKEKASNRESESKQKLQEIKELREEIKEIEEEIRQKEELYKQLVKELEKLPKD  483 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence            777777777777666654433332222222111    11111222222233333333322222221              


Q ss_pred             ---------------HhhHHHHhhhhhHHHHHHHHHHHHHHhhccch
Q 002627          757 ---------------IKSKAETNLMRYKDDIHRLEKEISQLRLKTDS  788 (899)
Q Consensus       757 ---------------lr~K~E~E~qr~k~dikrLEqElsrLr~k~d~  788 (899)
                                     ..+|...|..+...|.+.|++||..+.-+.+.
T Consensus       484 ~~Rs~Yt~RIlEIv~NI~KQk~eI~KIl~DTr~lQkeiN~l~gkL~R  530 (594)
T PF05667_consen  484 VNRSAYTRRILEIVKNIRKQKEEIEKILSDTRELQKEINSLTGKLDR  530 (594)
T ss_pred             CCHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence                           13455666666777888888888877665533

>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=96.76  E-value=2.2  Score=53.28  Aligned_cols=22  Identities=23%  Similarity=0.437  Sum_probs=16.5

Q ss_pred             CchhHHHHHHhHHHHHHHHHHH
Q 002627          544 DKRDEIILKLIPRVRELHNQLH  565 (899)
Q Consensus       544 D~Kde~il~Lv~r~~el~~~~~  565 (899)
                      |.||.-|..|-.-+++||+++.
T Consensus       234 e~Kd~ki~~lEr~l~~le~Ei~  255 (775)
T PF10174_consen  234 EEKDTKIASLERMLRDLEDEIY  255 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            4577788888787888777764

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 [].

>PRK09039 hypothetical protein; Validated

Probab=96.74  E-value=0.21  Score=56.56  Aligned_cols=36  Identities=14%  Similarity=0.231  Sum_probs=14.3

Q ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          620 MENALCKASGQVERANSAVRRLEVENTALRQEMEAA  655 (899)
Q Consensus       620 ~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaa  655 (899)
                      ++.+|..++..+.--++.-..++.+.+.++++.+++
T Consensus        58 L~~qIa~L~e~L~le~~~~~~l~~~l~~l~~~l~~a   93 (343)
T PRK09039         58 LNSQIAELADLLSLERQGNQDLQDSVANLRASLSAA   93 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            333333333333333333344444444444444433

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

Probab=96.74  E-value=1.7  Score=53.42  Aligned_cols=147  Identities=18%  Similarity=0.185  Sum_probs=84.7

Q ss_pred             HHHHHHhHHHHHHHHHHHHhhHHHhHHHHHHHHHhhhcHHHHHHH-HHhHHHHHHHHHHH-HHhHHHh-hhhHHHHHHHH
Q 002627          548 EIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTL-RQEKEEVERLKKEK-QILEENT-MKKLSEMENAL  624 (899)
Q Consensus       548 e~il~Lv~r~~el~~~~~~~~dWA~qkvmQaa~rl~~d~~eLk~L-R~EkEe~eRlkk~k-~~lee~t-~kkL~e~E~al  624 (899)
                      |...+|---.++++..+.+|+-|-.        +|+.++.+..-| |+-.|+.+-+|+-. +++-+.+ --+..++|+  
T Consensus       256 E~d~~lq~sak~ieE~m~qlk~kns--------~L~~ElSqkeelVk~~qeeLd~lkqt~t~a~gdseqatkylh~en--  325 (1265)
T KOG0976|consen  256 EQDMDLQASAKEIEEKMRQLKAKNS--------VLGDELSQKEELVKELQEELDTLKQTRTRADGDSEQATKYLHLEN--  325 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH--------HHhhhhhHHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHH--
Confidence            4445555566778888888888853        577666554433 33344444444321 1222222 123555555  


Q ss_pred             HHhhhhHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          625 CKASGQVERANSAVRRLEV---ENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKV  701 (899)
Q Consensus       625 ~kas~Q~~ra~~~vr~lE~---ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KL  701 (899)
                      .+...|+........+..+   --...+.|.|-..-.+..-+++++++.+-++..+.+|..   .-+++|++|...|.++
T Consensus       326 mkltrqkadirc~LlEarrk~egfddk~~eLEKkrd~al~dvr~i~e~k~nve~elqsL~~---l~aerqeQidelKn~i  402 (1265)
T KOG0976|consen  326 MKLTRQKADIRCALLEARRKAEGFDDKLNELEKKRDMALMDVRSIQEKKENVEEELQSLLE---LQAERQEQIDELKNHI  402 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHhh
Confidence            5555555444443332222   134556677777777778888888888777776655543   4456777777777777


Q ss_pred             HHHHHH
Q 002627          702 VQLLQE  707 (899)
Q Consensus       702 a~LeqE  707 (899)
                      .++++-
T Consensus       403 f~~e~~  408 (1265)
T KOG0976|consen  403 FRLEQG  408 (1265)
T ss_pred             hhhhhc
Confidence            766643

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

Probab=96.73  E-value=0.42  Score=51.81  Aligned_cols=10  Identities=30%  Similarity=0.766  Sum_probs=6.5

Q ss_pred             CCCCCCCCcc
Q 002627          877 GMKDCPSCRS  886 (899)
Q Consensus       877 ~~~kCPiCR~  886 (899)
                      ....||.|..
T Consensus       220 ~iv~CP~CgR  229 (239)
T COG1579         220 EIVFCPYCGR  229 (239)
T ss_pred             CCccCCccch
Confidence            3457888864

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

Probab=96.72  E-value=0.35  Score=48.45  Aligned_cols=56  Identities=18%  Similarity=0.306  Sum_probs=32.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          682 SWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQAS  737 (899)
Q Consensus       682 ~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE  737 (899)
                      .+.+-+..|+++|.....+|......|.++.....+++.+.+..+.....|-...+
T Consensus        77 ~l~rriq~LEeele~ae~~L~e~~ekl~e~d~~ae~~eRkv~~le~~~~~~E~k~e  132 (143)
T PF12718_consen   77 QLNRRIQLLEEELEEAEKKLKETTEKLREADVKAEHFERKVKALEQERDQWEEKYE  132 (143)
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhHHHHHHHHH
Confidence            45555666666666666666666666666666666666665555555554444443

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 [].

>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=96.72  E-value=2.7  Score=52.58  Aligned_cols=176  Identities=20%  Similarity=0.243  Sum_probs=79.7

Q ss_pred             CchhHHHHHHhHHHHHHHHHHHHhhHHHhHHHHHHHHHhhhcHHHHHHHHHhHHHHHHHHHHHHHhHHHhhhhHHHHHHH
Q 002627          544 DKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENA  623 (899)
Q Consensus       544 D~Kde~il~Lv~r~~el~~~~~~~~dWA~qkvmQaa~rl~~d~~eLk~LR~EkEe~eRlkk~k~~lee~t~kkL~e~E~a  623 (899)
                      -+||.-|+.|-.++.++.++..+...           ++..=+..|.....+.   +.|..+-    |.-|-||.+-+..
T Consensus       297 ~rk~~E~~~~qt~l~~~~~~~~d~r~-----------hi~~lkesl~~ke~~~---~~Lqsdv----e~Lr~rle~k~~~  358 (775)
T PF10174_consen  297 SRKKSELEALQTRLETLEEQDSDMRQ-----------HIEVLKESLRAKEQEA---EMLQSDV----EALRFRLEEKNSQ  358 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHH-----------HHHHHHHHHHHHHHHH---HHHHHhH----HHHHHHHHHHHHH
Confidence            35777777888888888777666421           1222222222222111   1111111    1123344444444


Q ss_pred             HHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHH---------HHHHHH
Q 002627          624 LCKASGQVERANSAVRRLEVENTALRQEMEAAK--------------LRAAESAASCQEVSKREK---------KTQMKF  680 (899)
Q Consensus       624 l~kas~Q~~ra~~~vr~lE~ena~lr~emEaak--------------l~a~Es~~~~~e~~ekEk---------k~~k~l  680 (899)
                      +.|+..|+++++...-.+-.|...++..++...              -.-.+......+..+|-.         ..+.++
T Consensus       359 l~kk~~~~~~~qeE~~~~~~Ei~~l~d~~d~~e~ki~~Lq~kie~Lee~l~ekd~ql~~~k~Rl~~~~d~~~~~~~~~~l  438 (775)
T PF10174_consen  359 LEKKQAQIEKLQEEKSRLQGEIEDLRDMLDKKERKINVLQKKIENLEEQLREKDRQLDEEKERLSSQADSSNEDEALETL  438 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccchHHHHHHH
Confidence            444444444444444444444444444333332              222333333333333333         334555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          681 QSWEKQKALFQEELVTEKRKVV-QLLQELDQAKALQEQLEARWRQEEKAKEELVMQAS  737 (899)
Q Consensus       681 ~~~EkQk~~LQEEL~~eK~KLa-~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE  737 (899)
                      ..+..++.++++.|...+.... ....+++..+..++.+..+....+....+...+++
T Consensus       439 Eea~~eker~~e~l~e~r~~~e~e~~Eele~~~~e~~~lk~~~~~LQ~eLsEk~~~l~  496 (775)
T PF10174_consen  439 EEALREKERLQERLEEQRERAEKERQEELETYQKELKELKAKLESLQKELSEKELQLE  496 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            6667777777777665543332 12234444444444444444444444444443333

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 [].

>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=96.71  E-value=0.25  Score=60.79  Aligned_cols=142  Identities=21%  Similarity=0.239  Sum_probs=106.4

Q ss_pred             HHHHHHHHhHHHhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          601 RLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKF  680 (899)
Q Consensus       601 Rlkk~k~~lee~t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l  680 (899)
                      -|=.+=+..|..-+-|+.++|..|+.+..+++++.+..-+|...+..++.+-+....+...=-.-+.|...||...+.-.
T Consensus        20 ~Ll~esa~~E~~~~~~i~~l~~elk~~~~~~~~~~~e~~rl~~~~~~~~~~~~~~e~~~~~lr~e~ke~K~rE~rll~dy   99 (717)
T PF09730_consen   20 SLLQESASKEAYLQQRILELENELKQLRQELSNVQAENERLSQLNQELRKECEDLELERKRLREEIKEYKFREARLLQDY   99 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            34445566677778889999999999999999999999999999999999988888887777777888889999888888


Q ss_pred             HHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          681 QSWEKQKALFQEELV----------TEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKE  742 (899)
Q Consensus       681 ~~~EkQk~~LQEEL~----------~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~E  742 (899)
                      ..+|.+-.-||..+.          ..|.+|.+++.+.+-++.+++.+..-.+-.++..+|++.-+..||-+
T Consensus       100 selEeENislQKqvs~Lk~sQvefE~~Khei~rl~Ee~~~l~~qlee~~rLk~iae~qleEALesl~~EReq  171 (717)
T PF09730_consen  100 SELEEENISLQKQVSVLKQSQVEFEGLKHEIKRLEEEIELLNSQLEEAARLKEIAEKQLEEALESLKSEREQ  171 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888777777644          44555666666666666666555554444455555555555444433

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

>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=96.69  E-value=0.0012  Score=58.50  Aligned_cols=40  Identities=33%  Similarity=0.753  Sum_probs=31.7

Q ss_pred             ccccccccc-------------cceEEecCCCcccChhhHHHhhhcCCCCCCCCc
Q 002627          844 ECVMCLSEE-------------MSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCR  885 (899)
Q Consensus       844 ~CvIC~d~~-------------~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR  885 (899)
                      .|.||++..             ..+++.+|||. |...|+..|.... ..||+||
T Consensus        21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~-FH~~Ci~~Wl~~~-~~CP~CR   73 (73)
T PF12678_consen   21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHI-FHFHCISQWLKQN-NTCPLCR   73 (73)
T ss_dssp             BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEE-EEHHHHHHHHTTS-SB-TTSS
T ss_pred             cccccChhhhChhhhhcCCccccceEecccCCC-EEHHHHHHHHhcC-CcCCCCC
Confidence            399999865             33566799999 9999999998754 5999998

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 domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....

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

Probab=96.66  E-value=2  Score=50.00  Aligned_cols=27  Identities=33%  Similarity=0.373  Sum_probs=11.6

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHH
Q 002627          617 LSEMENALCKASGQVERANSAVRRLEV  643 (899)
Q Consensus       617 L~e~E~al~kas~Q~~ra~~~vr~lE~  643 (899)
                      |.+.+..+.+...+++..+..+-.|+.
T Consensus        82 l~~s~~~l~~~~~~I~~~~~~l~~l~~  108 (420)
T COG4942          82 LIETADDLKKLRKQIADLNARLNALEV  108 (420)
T ss_pred             HHHHHhHHHHHHhhHHHHHHHHHHHHH
Confidence            333444444444444444444444443

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

Probab=96.62  E-value=1.1  Score=53.85  Aligned_cols=182  Identities=21%  Similarity=0.259  Sum_probs=111.8

Q ss_pred             cCCCCchhHHHHHHhHHHHHHHHHHHHhhHHHhHHHHHHHHHhhhcHHHHHH-HHHh----HHHHHHHHHHHH---HhHH
Q 002627          540 LVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKT-LRQE----KEEVERLKKEKQ---ILEE  611 (899)
Q Consensus       540 ~vp~D~Kde~il~Lv~r~~el~~~~~~~~dWA~qkvmQaa~rl~~d~~eLk~-LR~E----kEe~eRlkk~k~---~lee  611 (899)
                      +--...++.-|.+|.+++++++.++.+..+=   .|--.=..++.+..+-.. |-.+    .+.++.+.+--.   ..=+
T Consensus       137 l~~~k~qq~~v~~l~e~l~k~~~~~~~~ie~---~a~~~e~~~~q~~~e~e~~L~~~~~~~~~q~~~le~ki~~lq~a~~  213 (629)
T KOG0963|consen  137 LADLKTQQVTVRNLKERLRKLEQLLEIFIEN---AANETEEKLEQEWAEREAGLKDEEQNLQEQLEELEKKISSLQSAIE  213 (629)
T ss_pred             HhhhhhhHHHHHhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444567888999999999999888776550   011111112222111111 1111    111111111111   1112


Q ss_pred             HhhhhHHHHHHH-----------HHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHH
Q 002627          612 NTMKKLSEMENA-----------LCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAES-----AASCQEVSKREKK  675 (899)
Q Consensus       612 ~t~kkL~e~E~a-----------l~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es-----~~~~~e~~ekEkk  675 (899)
                      -|...+.+++..           |.=....+++||..|.-||+|++.+|.+..-++=...--     ...-+-+-.+++.
T Consensus       214 ~t~~el~~~~s~~dee~~~k~aev~lim~eLe~aq~ri~~lE~e~e~L~~ql~~~N~~~~~~~~~~i~~~~~~L~~kd~~  293 (629)
T KOG0963|consen  214 DTQNELFDLKSKYDEEVAAKAAEVSLIMTELEDAQQRIVFLEREVEQLREQLAKANSSKKLAKIDDIDALGSVLNQKDSE  293 (629)
T ss_pred             hhhhHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccCCchHHHHHHHhHHHHH
Confidence            255556666665           344567899999999999999999999887766443322     1122222336666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          676 TQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQ  724 (899)
Q Consensus       676 ~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQ  724 (899)
                      ...-....++...-++++++.++..|..+++++......+++++.+.+.
T Consensus       294 i~~L~~di~~~~~S~~~e~e~~~~qI~~le~~l~~~~~~leel~~kL~~  342 (629)
T KOG0963|consen  294 IAQLSNDIERLEASLVEEREKHKAQISALEKELKAKISELEELKEKLNS  342 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            6666677788888888999999999999999999888888888766543

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

Probab=96.61  E-value=2.2  Score=53.17  Aligned_cols=158  Identities=22%  Similarity=0.274  Sum_probs=87.1

Q ss_pred             hHHHHHHhHHHHHHHHHHHHhhHHHhHHHHHHHHHhhhcHHHHHHHHHhHHHHHHHHH---HHHHhHHH---hhh-hHHH
Q 002627          547 DEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKK---EKQILEEN---TMK-KLSE  619 (899)
Q Consensus       547 de~il~Lv~r~~el~~~~~~~~dWA~qkvmQaa~rl~~d~~eLk~LR~EkEe~eRlkk---~k~~lee~---t~k-kL~e  619 (899)
                      ..+|..+-.|+.+||-++++-.-- .|+.|--..+|..+++.|..-|.+-|..+++-.   .+++--++   .+| ++++
T Consensus       357 r~~~~q~~~ql~~le~~~~e~q~~-~qe~~~e~eqLr~elaql~a~r~q~eka~~~~ee~e~~~l~~e~ry~klkek~t~  435 (980)
T KOG0980|consen  357 RRRIEQYENQLLALEGELQEQQRE-AQENREEQEQLRNELAQLLASRTQLEKAQVLVEEAENKALAAENRYEKLKEKYTE  435 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            457777778888888777664433 344444455777777777777776666653311   11111111   111 1222


Q ss_pred             HH-------HHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          620 ME-------NALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQE  692 (899)
Q Consensus       620 ~E-------~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQE  692 (899)
                      +.       .+......|++-+...+...+++|..+....|.......+-.       .|-+...+.+.+++.|+..++.
T Consensus       436 l~~~h~~lL~K~~di~kQle~~~~s~~~~~~~~~~L~d~le~~~~~~~~~~-------~K~e~~~~~le~l~~El~~l~~  508 (980)
T KOG0980|consen  436 LRQEHADLLRKYDDIQKQLESAEQSIDDVEEENTNLNDQLEELQRAAGRAE-------TKTESQAKALESLRQELALLLI  508 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH-------HhhHHHHHHHHHHHHHHHHHHH
Confidence            22       222233445555555555666666666555555554444332       2333345666777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 002627          693 ELVTEKRKVVQLLQELDQAK  712 (899)
Q Consensus       693 EL~~eK~KLa~LeqELeqak  712 (899)
                      +++..+.++..+.+......
T Consensus       509 e~~~lq~~~~~~~qs~~~~~  528 (980)
T KOG0980|consen  509 ELEELQRTLSNLAQSHNNQL  528 (980)
T ss_pred             HHHHHHHHhhhHHHHHHHHH
Confidence            77777777766666554433

>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=96.55  E-value=0.048  Score=51.00  Aligned_cols=89  Identities=20%  Similarity=0.240  Sum_probs=77.2

Q ss_pred             HHHHHHHHHHHhHHHhhhh---HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          598 EVERLKKEKQILEENTMKK---LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREK  674 (899)
Q Consensus       598 e~eRlkk~k~~lee~t~kk---L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEk  674 (899)
                      |+.++.++|.-+.+.+.++   +..||..+.++..++.+|+..|+.+|+....+..||-..+.....+...+..+.+-|+
T Consensus         4 EL~~~~~a~~~~~~~~~~k~~~~~~lE~k~~rl~~Ek~kadqkyfa~mr~~d~l~~e~k~L~~~~~Ks~~~i~~L~~~E~   83 (96)
T PF08647_consen    4 ELVSMEQAFKELSEQADKKVKELTILEQKKLRLEAEKAKADQKYFAAMRSKDALDNEMKKLNTQLSKSSELIEQLKETEK   83 (96)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            4455666666666666665   7789999999999999999999999999999999999999999999999999999888


Q ss_pred             HHHHHHHHHHHH
Q 002627          675 KTQMKFQSWEKQ  686 (899)
Q Consensus       675 k~~k~l~~~EkQ  686 (899)
                      ....++...|+|
T Consensus        84 ~~~~~l~~~Eke   95 (96)
T PF08647_consen   84 EFVRKLKNLEKE   95 (96)
T ss_pred             HHHHHHHHhhcc
Confidence            888888888876

>PHA02562 46 endonuclease subunit; Provisional

Probab=96.55  E-value=1.7  Score=51.46  Aligned_cols=25  Identities=16%  Similarity=0.181  Sum_probs=10.5

Q ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHH
Q 002627          620 MENALCKASGQVERANSAVRRLEVE  644 (899)
Q Consensus       620 ~E~al~kas~Q~~ra~~~vr~lE~e  644 (899)
                      ++.+|.++..++..+...+..++..
T Consensus       253 ~~~~L~~l~~~~~~~~~~l~~~~~~  277 (562)
T PHA02562        253 PSAALNKLNTAAAKIKSKIEQFQKV  277 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444433

>PTZ00121 MAEBL; Provisional

Probab=96.55  E-value=1.8  Score=56.25  Aligned_cols=9  Identities=22%  Similarity=0.139  Sum_probs=4.8

Q ss_pred             CCCCCcccC
Q 002627          525 CGYAGILSD  533 (899)
Q Consensus       525 ~~~~~~~~d  533 (899)
                      .+|..+.||
T Consensus      1074 ~s~~~~~~~ 1082 (2084)
T PTZ00121       1074 PSYKDFDFD 1082 (2084)
T ss_pred             cccccccch
Confidence            444555565

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

Probab=96.51  E-value=0.6  Score=52.75  Aligned_cols=7  Identities=14%  Similarity=0.577  Sum_probs=3.4

Q ss_pred             chhHHHH
Q 002627          545 KRDEIIL  551 (899)
Q Consensus       545 ~Kde~il  551 (899)
                      +|++.++
T Consensus        66 ~kG~~L~   72 (423)
T TIGR01843        66 KAGQVLV   72 (423)
T ss_pred             cCCCeEE
Confidence            4455553

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.

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

Probab=96.48  E-value=4.3  Score=51.65  Aligned_cols=9  Identities=22%  Similarity=0.689  Sum_probs=7.0

Q ss_pred             ccccccccc
Q 002627          841 RERECVMCL  849 (899)
Q Consensus       841 ~~~~CvIC~  849 (899)
                      ....|+||-
T Consensus       456 ~~~~CPvCg  464 (908)
T COG0419         456 AGEKCPVCG  464 (908)
T ss_pred             CCCCCCCCC
Confidence            356799998

>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.48  E-value=0.0016  Score=73.15  Aligned_cols=47  Identities=28%  Similarity=0.689  Sum_probs=38.9

Q ss_pred             ccccccccccc---ceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccc
Q 002627          843 RECVMCLSEEM---SVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR  890 (899)
Q Consensus       843 ~~CvIC~d~~~---~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~  890 (899)
                      ..|.||++...   .+.++||.|. |-..|++.|..+....||+|+..|..
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~-FH~~CIDpWL~~~r~~CPvCK~di~~  279 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHK-FHVNCIDPWLTQTRTFCPVCKRDIRT  279 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCc-hhhccchhhHhhcCccCCCCCCcCCC
Confidence            68999999643   3667899999 88899999988765569999998764

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

Probab=96.45  E-value=4.9  Score=53.99  Aligned_cols=68  Identities=26%  Similarity=0.288  Sum_probs=53.5

Q ss_pred             HHhHHHHHHHHHHHHHhHHHhhhh---HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          593 RQEKEEVERLKKEKQILEENTMKK---LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAA  660 (899)
Q Consensus       593 R~EkEe~eRlkk~k~~lee~t~kk---L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~  660 (899)
                      ++-.+.++.+|.+...|++.+-.=   +...+..+..++.++=.||.-+.+++++...+|.|.+..+..-.
T Consensus       692 e~L~~~ie~~K~e~~tL~er~~~l~~~i~~~~q~~~~~s~eL~~a~~k~~~le~ev~~LKqE~~ll~~t~~  762 (1822)
T KOG4674|consen  692 ENLEKNLELTKEEVETLEERNKNLQSTISKQEQTVHTLSQELLSANEKLEKLEAELSNLKQEKLLLKETEE  762 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333566777888888888654332   77888889999999999999999999999999999887665433

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

Probab=96.43  E-value=0.23  Score=60.42  Aligned_cols=64  Identities=23%  Similarity=0.392  Sum_probs=46.4

Q ss_pred             HHHHHHhHHH-HHHHHHHHHHhHHHhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          589 LKTLRQEKEE-VERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAK  656 (899)
Q Consensus       589 Lk~LR~EkEe-~eRlkk~k~~lee~t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaak  656 (899)
                      |+-|..||++ ++.||.+.+.+.    .|+.+|-..+..+..+++.....|..||+..+.|+.+|....
T Consensus         6 l~qlq~Erd~ya~~lk~e~a~~q----qr~~qmseev~~L~eEk~~~~~~V~eLE~sL~eLk~q~~~~~   70 (617)
T PF15070_consen    6 LKQLQAERDQYAQQLKEESAQWQ----QRMQQMSEEVRTLKEEKEHDISRVQELERSLSELKNQMAEPP   70 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC
Confidence            4555566655 455555555443    367788888888888999999999999999988888776433

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

Probab=96.40  E-value=3.5  Score=52.14  Aligned_cols=143  Identities=20%  Similarity=0.267  Sum_probs=96.9

Q ss_pred             HHHHhHHHHHHHHHHHHhhHHHhHHHHHHHHHhhhcHHHHHHHHHh--HHHHHHHHHHHHHhHHHhhh--h---------
Q 002627          550 ILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQE--KEEVERLKKEKQILEENTMK--K---------  616 (899)
Q Consensus       550 il~Lv~r~~el~~~~~~~~dWA~qkvmQaa~rl~~d~~eLk~LR~E--kEe~eRlkk~k~~lee~t~k--k---------  616 (899)
                      +-.+...+.|++.|+++ ++-+..++++....|.++..+-+.=|+-  +|-...++..++-+|++...  +         
T Consensus       743 ~~~~~e~v~e~~~~Ike-~~~~~k~~~~~i~~lE~~~~d~~~~re~rlkdl~keik~~k~~~e~~~~~~ek~~~e~e~l~  821 (1174)
T KOG0933|consen  743 LKELLEEVEESEQQIKE-KERALKKCEDKISTLEKKMKDAKANRERRLKDLEKEIKTAKQRAEESSKELEKRENEYERLQ  821 (1174)
T ss_pred             HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHhHhhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33556778888888877 5678889999999999888877766543  44455566667777766321  1         


Q ss_pred             --HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          617 --LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEE  693 (899)
Q Consensus       617 --L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEE  693 (899)
                        ..+|+.++.....|+..-...+..|+.++..+++....+.....+.++.+-+...+-+.+-..+........+...+
T Consensus       822 lE~e~l~~e~~~~k~~l~~~~~~~~~l~~e~~~l~~kv~~~~~~~~~~~~el~~~k~k~~~~dt~i~~~~~~~e~~~~e  900 (1174)
T KOG0933|consen  822 LEHEELEKEISSLKQQLEQLEKQISSLKSELGNLEAKVDKVEKDVKKAQAELKDQKAKQRDIDTEISGLLTSQEKCLSE  900 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHHHHhhhHHHhhhhhHHHHHHHH
Confidence              56777788888888888888888888888888887777777777776666665555555544443333333333333

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

Probab=96.40  E-value=0.74  Score=51.71  Aligned_cols=90  Identities=21%  Similarity=0.308  Sum_probs=46.4

Q ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          618 SEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTE  697 (899)
Q Consensus       618 ~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~e  697 (899)
                      ..|+.....+...++..+..+-++....+.|+.|....+-.+.|-          +.-....+..+-.++..+..+|+..
T Consensus       159 ~~L~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~Lk~~~~e~----------~~~D~~eL~~lr~eL~~~~~~i~~~  228 (325)
T PF08317_consen  159 ELLQEDYAKLDKQLEQLDELLPKLRERKAELEEELENLKQLVEEI----------ESCDQEELEALRQELAEQKEEIEAK  228 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----------hhcCHHHHHHHHHHHHHHHHHHHHH
Confidence            334445555555666666677777777777766665544444331          1111233444444555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 002627          698 KRKVVQLLQELDQAKALQEQ  717 (899)
Q Consensus       698 K~KLa~LeqELeqak~~~kq  717 (899)
                      |.++.+++.++++++..++.
T Consensus       229 k~~l~el~~el~~l~~~i~~  248 (325)
T PF08317_consen  229 KKELAELQEELEELEEKIEE  248 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            55555555555544444433

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

Probab=96.39  E-value=3.4  Score=49.53  Aligned_cols=24  Identities=21%  Similarity=0.281  Sum_probs=10.2

Q ss_pred             hhhHHHHHHHHHHhhhhHHHHHHH
Q 002627          614 MKKLSEMENALCKASGQVERANSA  637 (899)
Q Consensus       614 ~kkL~e~E~al~kas~Q~~ra~~~  637 (899)
                      .+++.+|-..|..+..-++.++..
T Consensus       171 ~~kve~L~~Ei~~lke~l~~~~~a  194 (522)
T PF05701_consen  171 EEKVEELSKEIIALKESLESAKLA  194 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444333

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

>PRK04863 mukB cell division protein MukB; Provisional

Probab=96.37  E-value=4.8  Score=53.83  Aligned_cols=22  Identities=9%  Similarity=0.143  Sum_probs=12.4

Q ss_pred             HHHHhHHHHHHHHHHHHhhHHH
Q 002627          550 ILKLIPRVRELHNQLHEWTEWA  571 (899)
Q Consensus       550 il~Lv~r~~el~~~~~~~~dWA  571 (899)
                      +-.|.+|++.|+.|.+.=.+|-
T Consensus       316 L~ELe~rL~kLEkQaEkA~kyl  337 (1486)
T PRK04863        316 LAELNEAESDLEQDYQAASDHL  337 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3455556666666665555553

>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.34  E-value=0.00052  Score=76.31  Aligned_cols=52  Identities=25%  Similarity=0.594  Sum_probs=41.9

Q ss_pred             cccccccccccccccceEEe-cCCCcccChhhHHHhhhcCCCCCCCCcccccce
Q 002627          839 VKRERECVMCLSEEMSVVFL-PCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRR  891 (899)
Q Consensus       839 l~~~~~CvIC~d~~~~vvll-PCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~  891 (899)
                      +.....|.||++--..+... -|.|. ||..|++.-...+...||.||+...+.
T Consensus        40 ~~~~v~c~icl~llk~tmttkeClhr-fc~~ci~~a~r~gn~ecptcRk~l~Sk   92 (381)
T KOG0311|consen   40 FDIQVICPICLSLLKKTMTTKECLHR-FCFDCIWKALRSGNNECPTCRKKLVSK   92 (381)
T ss_pred             hhhhhccHHHHHHHHhhcccHHHHHH-HHHHHHHHHHHhcCCCCchHHhhcccc
Confidence            44567899999976555444 59999 999999987777788999999887653

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

Probab=96.34  E-value=6.1  Score=51.90  Aligned_cols=92  Identities=22%  Similarity=0.305  Sum_probs=44.4

Q ss_pred             HHHHHHhHHHHHHHHHHHHhhHHHhHHHHHHHHHhhhcHHHHHHHHHhHHHHHHHHHHHHHhHHHhhhhHHHHHHHHHHh
Q 002627          548 EIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKA  627 (899)
Q Consensus       548 e~il~Lv~r~~el~~~~~~~~dWA~qkvmQaa~rl~~d~~eLk~LR~EkEe~eRlkk~k~~lee~t~kkL~e~E~al~ka  627 (899)
                      +.+...+.++..++++|..-.-=.+--+.++..++..-..++..+   +++.+++..++..+-+.-.++++.+...|...
T Consensus       249 ~~l~~~~~~l~~~~~~L~~l~~~l~~~~~~~~~~~~~~~~~~~~~---~~~~~~l~~~~~e~~~~~~~~~~~~~~~l~~~  325 (1201)
T PF12128_consen  249 DKLQQQYRQLQALEQQLCHLHAELNADEQQLEQEQPELKEELNEL---NEELEKLEDEIKELRDELNKELSALNADLARI  325 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444455555566665322222222333333333223333333   33344455555555555556666666666666


Q ss_pred             hhhHHHHHHHHHHHH
Q 002627          628 SGQVERANSAVRRLE  642 (899)
Q Consensus       628 s~Q~~ra~~~vr~lE  642 (899)
                      .++|+.+.......+
T Consensus       326 ~~~L~~i~~~~~~ye  340 (1201)
T PF12128_consen  326 KSELDEIEQQKKDYE  340 (1201)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            666666665555544

>KOG0982 consensus Centrosomal protein Nuf [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=96.33  E-value=1.3  Score=51.14  Aligned_cols=110  Identities=25%  Similarity=0.254  Sum_probs=65.0

Q ss_pred             chhHHHHHHhHHHHHHHHHHHHhhHHHhHHHHHHHHHhhhcHHHHHHHHHhHHHHHHHHHHHHHhHHHhhhh--HHHHHH
Q 002627          545 KRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKK--LSEMEN  622 (899)
Q Consensus       545 ~Kde~il~Lv~r~~el~~~~~~~~dWA~qkvmQaa~rl~~d~~eLk~LR~EkEe~eRlkk~k~~lee~t~kk--L~e~E~  622 (899)
                      .=++-+..|-.+|.||++--- -+.=-.-|.||----|-.---.|+.+|+|-|    +.++-.+.||.-|-|  |--+|+
T Consensus       219 di~~kv~flerkv~eledd~~-~~gd~~SrlkqEnlqLvhR~h~LEEq~reqE----lraeE~l~Ee~rrhrEil~k~eR  293 (502)
T KOG0982|consen  219 DIERKVRFLERKVQELEDDQN-IAGDRSSRLKQENLQLVHRYHMLEEQRREQE----LRAEESLSEEERRHREILIKKER  293 (502)
T ss_pred             hHHHHHHHHHHHHHHhhcchh-ccccchhHHHHHHHHHHHHHHHHHHHHHhhh----hhHHHHHHHHHHHHHHHHHHHHH
Confidence            334445555666666654100 0001123344433334444455666666654    455666667766655  444443


Q ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          623 ALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAES  662 (899)
Q Consensus       623 al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es  662 (899)
                         -++-|++.-+..+|-|+.||.++|......|-.+.+.
T Consensus       294 ---easle~Enlqmr~qqleeentelRs~~arlksl~dkl  330 (502)
T KOG0982|consen  294 ---EASLEKENLQMRDQQLEEENTELRSLIARLKSLADKL  330 (502)
T ss_pred             ---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               5677888999999999999999998777666665554

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=96.32  E-value=3.9  Score=49.43  Aligned_cols=181  Identities=19%  Similarity=0.232  Sum_probs=89.2

Q ss_pred             HHhHHHHHHHHHHHHhhHHHhH-HHHHHHHHhhhcHHHHHHHHHhHHHH---------------HHHHHHHHHhHHH---
Q 002627          552 KLIPRVRELHNQLHEWTEWANQ-KVMQAARRLSKDKAELKTLRQEKEEV---------------ERLKKEKQILEEN---  612 (899)
Q Consensus       552 ~Lv~r~~el~~~~~~~~dWA~q-kvmQaa~rl~~d~~eLk~LR~EkEe~---------------eRlkk~k~~lee~---  612 (899)
                      .|-.++.+++.++....+|... --.+|..-|.+=..++..|..-.+++               +.|+.+-+-|.++   
T Consensus       169 ~le~~l~~~e~~f~~f~~l~~~Gd~~~A~e~l~~l~~~~~~l~~~~~~iP~l~~~~~~~~P~ql~el~~gy~~m~~~gy~  248 (569)
T PRK04778        169 ELEKQLENLEEEFSQFVELTESGDYVEAREILDQLEEELAALEQIMEEIPELLKELQTELPDQLQELKAGYRELVEEGYH  248 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHcCCC
Confidence            4678899999999999999653 33333333333334444444444444               4444443333322   


Q ss_pred             -----hhhhHHHHHHHHHH-----hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          613 -----TMKKLSEMENALCK-----ASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQS  682 (899)
Q Consensus       613 -----t~kkL~e~E~al~k-----as~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~  682 (899)
                           --+++..+.++|..     ...+++.+...+..++..+..+-.-||....--.+-       -+.-.+....+..
T Consensus       249 ~~~~~i~~~i~~l~~~i~~~~~~l~~l~l~~~~~~~~~i~~~Id~Lyd~lekE~~A~~~v-------ek~~~~l~~~l~~  321 (569)
T PRK04778        249 LDHLDIEKEIQDLKEQIDENLALLEELDLDEAEEKNEEIQERIDQLYDILEREVKARKYV-------EKNSDTLPDFLEH  321 (569)
T ss_pred             CCCCChHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHhhHHHHHHHHH
Confidence                 23335555555555     234455566666666655555555444433222222       2222333344444


Q ss_pred             HHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          683 WEKQKALFQEELVTEKRK----------VVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSI  739 (899)
Q Consensus       683 ~EkQk~~LQEEL~~eK~K----------La~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~E  739 (899)
                      .+.+...|..||..-+..          +..+.+++..+....+.+...+........+...+.+..
T Consensus       322 ~~e~~~~l~~Ei~~l~~sY~l~~~e~~~~~~lekeL~~Le~~~~~~~~~i~~~~~~ysel~e~leel  388 (569)
T PRK04778        322 AKEQNKELKEEIDRVKQSYTLNESELESVRQLEKQLESLEKQYDEITERIAEQEIAYSELQEELEEI  388 (569)
T ss_pred             HHHHHHHHHHHHHHHHHccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            444544555554444444          445555555555555544444443333333333333333

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

Probab=96.31  E-value=5.3  Score=50.85  Aligned_cols=45  Identities=20%  Similarity=0.273  Sum_probs=31.3

Q ss_pred             hHHHHHHhH-HHHHHHHHHHHhhHHHhHHHHHHHHHhhhcHHHHHHHH
Q 002627          547 DEIILKLIP-RVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLR  593 (899)
Q Consensus       547 de~il~Lv~-r~~el~~~~~~~~dWA~qkvmQaa~rl~~d~~eLk~LR  593 (899)
                      ++-+.++.. ++..|+.++.. ..|+..= .+....|-+.+.++...+
T Consensus       472 ~~~~~~~~~~el~~l~~~i~~-~~~~~~l-~~e~~~l~~~l~~~~~~~  517 (908)
T COG0419         472 EKELLELYELELEELEEELSR-EKEEAEL-REEIEELEKELRELEEEL  517 (908)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH-HHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence            556666666 88888888884 6666554 666666766666666666

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

Probab=96.30  E-value=4.7  Score=50.10  Aligned_cols=39  Identities=15%  Similarity=0.266  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          676 TQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKAL  714 (899)
Q Consensus       676 ~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~  714 (899)
                      +..|.+.||.|+.+|+-||..-.+.+..+++++++++..
T Consensus       543 ~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~~~lr~~  581 (697)
T PF09726_consen  543 CRQRRRQLESELKKLRRELKQKEEQIRELESELQELRKY  581 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455667788888888888888888888888877665544

; GO: 0016021 integral to membrane

>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=96.24  E-value=1.8  Score=48.49  Aligned_cols=71  Identities=18%  Similarity=0.252  Sum_probs=37.3

Q ss_pred             hhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          615 KKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQ  691 (899)
Q Consensus       615 kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQ  691 (899)
                      +++..++..-..+..+++.-+..+.-|..+|..||..--..-..|..-+.-+.      ....|+|+.+.+++..|.
T Consensus        27 ~~~~sL~qen~~Lk~El~~ek~~~~~L~~e~~~lr~~sv~~~~~aEqEEE~is------N~LlKkl~~l~keKe~L~   97 (310)
T PF09755_consen   27 KRIESLQQENRVLKRELETEKARCKHLQEENRALREASVRIQAKAEQEEEFIS------NTLLKKLQQLKKEKETLA   97 (310)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHH
Confidence            33444444444444555555556666777777777654444333332221111      233567777777776664

>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.19  E-value=0.0017  Score=77.14  Aligned_cols=48  Identities=29%  Similarity=0.672  Sum_probs=40.9

Q ss_pred             ccccccccccccccc-----eEEecCCCcccChhhHHHhhhcCCCCCCCCccccc
Q 002627          840 KRERECVMCLSEEMS-----VVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQ  889 (899)
Q Consensus       840 ~~~~~CvIC~d~~~~-----vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~  889 (899)
                      .....|.||++....     ...+||+|. ||..|...|... ...||+||..+.
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hi-fh~~CL~~W~er-~qtCP~CR~~~~  341 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLPCGHI-FHDSCLRSWFER-QQTCPTCRTVLY  341 (543)
T ss_pred             hcCCeeeeechhhccccccccceeecccc-hHHHHHHHHHHH-hCcCCcchhhhh
Confidence            446789999998766     788999999 999999999875 579999999443

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

Probab=96.19  E-value=5.1  Score=49.60  Aligned_cols=126  Identities=14%  Similarity=0.191  Sum_probs=60.3

Q ss_pred             HHHHhHHHHHHHHHHHHhhHHHhHHHHHHHH-Hhhhc----HHHHHHHHHhHHHHHHHHHHH----HHhHHHhhh---hH
Q 002627          550 ILKLIPRVRELHNQLHEWTEWANQKVMQAAR-RLSKD----KAELKTLRQEKEEVERLKKEK----QILEENTMK---KL  617 (899)
Q Consensus       550 il~Lv~r~~el~~~~~~~~dWA~qkvmQaa~-rl~~d----~~eLk~LR~EkEe~eRlkk~k----~~lee~t~k---kL  617 (899)
                      .+.+-.|+++||+.++++--  +.-.||+|+ ++..|    .+||+.++.+.++.+..=.+|    +..-+.-+.   +|
T Consensus       101 lk~~~sQiriLQn~c~~lE~--ekq~lQ~ti~~~q~d~ke~etelE~~~srlh~le~eLsAk~~eIf~~~~~L~nk~~~l  178 (1265)
T KOG0976|consen  101 LKHHESQIRILQNKCLRLEM--EKQKLQDTIQGAQDDKKENEIEIENLNSRLHKLEDELSAKAHDIFMIGEDLHDKNEEL  178 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHH
Confidence            34566788888888776532  223455554 44444    456777776654433222211    111111222   27


Q ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          618 SEMENALCKASGQVERANSAVRRLEVENTALRQEMEA---AKLRAAESAASCQEVSKREKKTQMKF  680 (899)
Q Consensus       618 ~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEa---akl~a~Es~~~~~e~~ekEkk~~k~l  680 (899)
                      .+++.++.....+..+-|....   .....++.+|-+   --+...+-+..-+++.++++....++
T Consensus       179 t~~~~q~~tkl~e~~~en~~le---~k~~k~~e~~~~nD~~sle~~~~q~~tq~vl~ev~QLss~~  241 (1265)
T KOG0976|consen  179 NEFNMEFQTKLAEANREKKALE---EKLEKFKEDLIEKDQKSLELHKDQENTQKVLKEVMQLSSQK  241 (1265)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            7777777666655555444332   222233333321   12223333344455555555544333

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

Probab=96.15  E-value=4.2  Score=49.79  Aligned_cols=129  Identities=19%  Similarity=0.334  Sum_probs=62.1

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHhHHHhhhhHHHHHHHHHHhhhhHHHH--------HHH-HHHHHHHHHHHHHHHHHHHH
Q 002627          587 AELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERA--------NSA-VRRLEVENTALRQEMEAAKL  657 (899)
Q Consensus       587 ~eLk~LR~EkEe~eRlkk~k~~lee~t~kkL~e~E~al~kas~Q~~ra--------~~~-vr~lE~ena~lr~emEaakl  657 (899)
                      .++.+|++||+.              .+.++.++|+.|.++..|+...        .+. ...|..+.+.|+.|.+...-
T Consensus        36 eev~~L~eEk~~--------------~~~~V~eLE~sL~eLk~q~~~~~~~~~pa~pse~E~~Lq~E~~~L~kElE~L~~  101 (617)
T PF15070_consen   36 EEVRTLKEEKEH--------------DISRVQELERSLSELKNQMAEPPPPEPPAGPSEVEQQLQAEAEHLRKELESLEE  101 (617)
T ss_pred             HHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHhhcccCCccccccchHHHHHHHHHHHHHHHHHHHHHH
Confidence            455566666665              3555777777777777666521        112 23455555666666655443


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          658 RAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEEL----------VTEKRKVVQLLQELDQAKALQEQLEARWRQEEK  727 (899)
Q Consensus       658 ~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL----------~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqk  727 (899)
                      +-......-..+...-...-.+|..+|+.+..++++.          ...|.-+++...+..++|..+..++...-....
T Consensus       102 qlqaqv~~ne~Ls~L~~EqEerL~ELE~~le~~~e~~~D~~kLLe~lqsdk~t~SRAlsQN~eLK~QL~Elq~~Fv~ltn  181 (617)
T PF15070_consen  102 QLQAQVENNEQLSRLNQEQEERLAELEEELERLQEQQEDRQKLLEQLQSDKATASRALSQNRELKEQLAELQDAFVKLTN  181 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccchHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence            2222222222222221122234445555555555443          333444444444555555555555543333333


Q ss_pred             HH
Q 002627          728 AK  729 (899)
Q Consensus       728 ak  729 (899)
                      .+
T Consensus       182 e~  183 (617)
T PF15070_consen  182 EN  183 (617)
T ss_pred             hh
Confidence            33

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

Probab=96.15  E-value=2.3  Score=50.59  Aligned_cols=174  Identities=20%  Similarity=0.186  Sum_probs=93.1

Q ss_pred             HHHHhHHH--hhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHH
Q 002627          605 EKQILEEN--TMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAA-SCQEVSKREKKTQMKFQ  681 (899)
Q Consensus       605 ~k~~lee~--t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~-~~~e~~ekEkk~~k~l~  681 (899)
                      +..+|||-  -.+++.|||-....+.+++|..+.++-..-..-.       .......|.+. -++|-+-||.-...++.
T Consensus        38 GL~lLeeK~~Lkqq~eEleaeyd~~R~Eldqtkeal~q~~s~hk-------k~~~~g~e~EesLLqESaakE~~yl~kI~  110 (772)
T KOG0999|consen   38 GLELLEEKEDLKQQLEELEAEYDLARTELDQTKEALGQYRSQHK-------KVARDGEEREESLLQESAAKEEYYLQKIL  110 (772)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HhhccchhhHHHHHHHHHHhHHHHHHHHH
Confidence            44455543  3344777777777777777766655443332111       11111112222 23445567777788888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHh
Q 002627          682 SWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEA---RWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIK  758 (899)
Q Consensus       682 ~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~---kwrQeqkakeE~laqaE~ER~ErEraE~~~k~keealr  758 (899)
                      .+|.++-.+..+|..-+.+..++.+...+.+......|.   +++.+-+.....-+++-.+=.++|.--...+.-. ..-
T Consensus       111 eleneLKq~r~el~~~q~E~erl~~~~sd~~e~~~~~E~qR~rlr~elKe~KfRE~RllseYSELEEENIsLQKqV-s~L  189 (772)
T KOG0999|consen  111 ELENELKQLRQELTNVQEENERLEKVHSDLKESNAAVEDQRRRLRDELKEYKFREARLLSEYSELEEENISLQKQV-SNL  189 (772)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHH-HHH
Confidence            899999999999988888888888877777665555554   3333333333333333332223222111111111 112


Q ss_pred             hHHHHhhhhhHHHHHHHHHHHHHHhhcc
Q 002627          759 SKAETNLMRYKDDIHRLEKEISQLRLKT  786 (899)
Q Consensus       759 ~K~E~E~qr~k~dikrLEqElsrLr~k~  786 (899)
                      +.--.+...++.+|+||+.+++=|+...
T Consensus       190 R~sQVEyEglkheikRleEe~elln~q~  217 (772)
T KOG0999|consen  190 RQSQVEYEGLKHEIKRLEEETELLNSQL  217 (772)
T ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            2334455666667777777666554433

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=96.12  E-value=1.7  Score=45.77  Aligned_cols=99  Identities=13%  Similarity=0.163  Sum_probs=67.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          631 VERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQ  710 (899)
Q Consensus       631 ~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeq  710 (899)
                      +-.-.+.+..+.+++++++.|....|..--.+...+...-..+.....-+.....++..|++.|...+.+...+.+.+.+
T Consensus        14 i~~L~n~l~elq~~l~~l~~ENk~Lk~lq~Rq~kAL~k~e~~e~~Lpqll~~h~eEvr~Lr~~LR~~q~~~r~~~~klk~   93 (194)
T PF15619_consen   14 IKELQNELAELQRKLQELRKENKTLKQLQKRQEKALQKYEDTEAELPQLLQRHNEEVRVLRERLRKSQEQERELERKLKD   93 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344456666666666666666666666666666666666666677788888888888888888888888777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 002627          711 AKALQEQLEARWRQEEKAK  729 (899)
Q Consensus       711 ak~~~kqlE~kwrQeqkak  729 (899)
                      ....+.......+...+..
T Consensus        94 ~~~el~k~~~~l~~L~~L~  112 (194)
T PF15619_consen   94 KDEELLKTKDELKHLKKLS  112 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            7666666666665555433

>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]

Probab=96.08  E-value=0.47  Score=57.57  Aligned_cols=158  Identities=17%  Similarity=0.208  Sum_probs=80.7

Q ss_pred             HHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHH
Q 002627          625 CKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKAL---FQEELVTEKRKV  701 (899)
Q Consensus       625 ~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~---LQEEL~~eK~KL  701 (899)
                      .|+.++|++-++.++-.|..|+.+-..||-+.-+-..+.+ ...+.+-|-+.+.++...-++...   ..+-+......+
T Consensus        94 dklE~~Lankda~lrq~eekn~slqerLelaE~~l~qs~r-ae~lpeveael~qr~~al~~aee~~~~~eer~~kl~~~~  172 (916)
T KOG0249|consen   94 DKLENELANKDADLRQNEEKNRSLQERLELAEPKLQQSLR-AETLPEVEAELAQRNAALTKAEEHSGNIEERTRKLEEQL  172 (916)
T ss_pred             HHHHHHHhCcchhhchhHHhhhhhhHHHHHhhHhhHhHHh-hhhhhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHH
Confidence            4566788888889999999999998888877655555544 333444444444444444333222   222233333444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhhHHHHHh-hH--HHHhhhhhHHHHHHHHH
Q 002627          702 VQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKE-REQIEASAKSKEDMIK-SK--AETNLMRYKDDIHRLEK  777 (899)
Q Consensus       702 a~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~E-rEraE~~~k~keealr-~K--~E~E~qr~k~dikrLEq  777 (899)
                      .++..+|..+++..+.-++..+..-.-.+|++..+..|+.+ +++++.+.. +++..+ +-  .+.+..++..++.+|.+
T Consensus       173 qe~naeL~rarqreemneeh~~rlsdtvdErlqlhlkermaAle~kn~L~~-e~~s~kk~l~~~~~~k~rl~~d~E~Lr~  251 (916)
T KOG0249|consen  173 EELNAELQRARQREKMNEEHNKRLSDTVDERLQLHLKERMAALEDKNRLEQ-ELESVKKQLEEMRHDKDKLRTDIEDLRG  251 (916)
T ss_pred             HHHHHHHHHHHHHHHhhhhhccccccccHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence            44555555555555444432222222223443333333322 222222211 111111 11  11223566777888888


Q ss_pred             HHHHHhh
Q 002627          778 EISQLRL  784 (899)
Q Consensus       778 ElsrLr~  784 (899)
                      ++.+|+.
T Consensus       252 e~~qL~~  258 (916)
T KOG0249|consen  252 ELDQLRR  258 (916)
T ss_pred             HHHHHHH
Confidence            8888874

>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=96.06  E-value=0.0047  Score=68.59  Aligned_cols=54  Identities=24%  Similarity=0.573  Sum_probs=42.7

Q ss_pred             CccccccccccccccccceEEecCCCcccChhhHHHhhh-cCCCCCCCCcccccce
Q 002627          837 GGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEK-QGMKDCPSCRSPIQRR  891 (899)
Q Consensus       837 ~~l~~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~-~~~~kCPiCR~~I~~~  891 (899)
                      +..++...|+||-....-+.++||+|. +|..|+.++.. -..+.||+||+.-..+
T Consensus        56 dtDEen~~C~ICA~~~TYs~~~PC~H~-~CH~Ca~RlRALY~~K~C~~CrTE~e~V  110 (493)
T COG5236          56 DTDEENMNCQICAGSTTYSARYPCGHQ-ICHACAVRLRALYMQKGCPLCRTETEAV  110 (493)
T ss_pred             ccccccceeEEecCCceEEEeccCCch-HHHHHHHHHHHHHhccCCCccccccceE
Confidence            344567889999999988999999999 99999987642 1246899999866544

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

Probab=96.05  E-value=2.8  Score=50.33  Aligned_cols=12  Identities=42%  Similarity=0.432  Sum_probs=8.2

Q ss_pred             HHhHHHHHHHHH
Q 002627          552 KLIPRVRELHNQ  563 (899)
Q Consensus       552 ~Lv~r~~el~~~  563 (899)
                      .-|.+|+-||.|
T Consensus        53 ~YIekVR~LEaq   64 (546)
T KOG0977|consen   53 VYIEKVRFLEAQ   64 (546)
T ss_pred             HHHHHHHHHHHH
Confidence            457778877743

>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.04  E-value=0.0029  Score=71.29  Aligned_cols=53  Identities=30%  Similarity=0.672  Sum_probs=42.2

Q ss_pred             ccccccccccccccceE-----E---ecCCCcccChhhHHHhhhcC------CCCCCCCcccccceEe
Q 002627          840 KRERECVMCLSEEMSVV-----F---LPCAHQVVCTTCNELHEKQG------MKDCPSCRSPIQRRIP  893 (899)
Q Consensus       840 ~~~~~CvIC~d~~~~vv-----l---lPCgH~~~C~~Ca~~l~~~~------~~kCPiCR~~I~~~ir  893 (899)
                      ..+..|.|||+.....+     |   .+|.|. ||..|+..|....      .+.||+||.+...++.
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~-~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~p  225 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHS-FCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNP  225 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchh-hhhcHhHhhhhhhccccccccCCCcccCccccccc
Confidence            45789999999766555     4   679999 9999999997322      3789999999886654

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=96.02  E-value=7.8  Score=51.59  Aligned_cols=41  Identities=22%  Similarity=0.384  Sum_probs=20.4

Q ss_pred             HHHHHHHHHhhHHHhHHHHHHHHHhhhcHHHHHHHHHhHHH
Q 002627          558 RELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEE  598 (899)
Q Consensus       558 ~el~~~~~~~~dWA~qkvmQaa~rl~~d~~eLk~LR~EkEe  598 (899)
                      ..|+.=+..+..|+....-+.+..+-.....+..++.+.++
T Consensus       247 ~~l~~i~~~y~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~  287 (1353)
T TIGR02680       247 RALRNFLQRYRRYARTMLRRRATRLRSAQTQYDQLSRDLGR  287 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333344555555555555555555555555555444433

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.

>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]

Probab=95.98  E-value=4.9  Score=50.03  Aligned_cols=44  Identities=30%  Similarity=0.437  Sum_probs=25.8

Q ss_pred             hcHHHHHHHHHh---HHHHHHHHHHHHHhHH---HhhhhHHHHHHHHHHh
Q 002627          584 KDKAELKTLRQE---KEEVERLKKEKQILEE---NTMKKLSEMENALCKA  627 (899)
Q Consensus       584 ~d~~eLk~LR~E---kEe~eRlkk~k~~lee---~t~kkL~e~E~al~ka  627 (899)
                      +|+..++.|=.+   ..+++++.|+++-|++   ..+|++..+|+|++.-
T Consensus       654 ~d~ed~e~lD~d~i~~~q~eel~Ke~kElq~rL~~q~KkiDh~ERA~R~E  703 (988)
T KOG2072|consen  654 KDLEDLEKLDADQIKARQIEELEKERKELQSRLQYQEKKIDHLERAKRLE  703 (988)
T ss_pred             CChHHhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            455555544333   2344445555555554   4788899999887763

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=95.93  E-value=10  Score=50.64  Aligned_cols=108  Identities=19%  Similarity=0.261  Sum_probs=50.1

Q ss_pred             cccccCCCCchhHHHHHHhHHHHHHHHHHHHhhHHHhHHHHHHHHHhhhcHHHHHHHHHhHHHHHHHHHHHHHhH-----
Q 002627          536 SLEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILE-----  610 (899)
Q Consensus       536 ~~~~~vp~D~Kde~il~Lv~r~~el~~~~~~~~dWA~qkvmQaa~rl~~d~~eLk~LR~EkEe~eRlkk~k~~le-----  610 (899)
                      -+..|+|+ ..+..|-.|-.-+..|+.            +-.-...|......|+.+...-....+......+-+     
T Consensus       209 ~l~~~l~~-l~~~~i~~l~e~~~~~~~------------~~~~le~l~~~~~~l~~i~~~y~~y~~~~~~~~~~~~~~~~  275 (1353)
T TIGR02680       209 ALTEALPP-LDDDELTDVADALEQLDE------------YRDELERLEALERALRNFLQRYRRYARTMLRRRATRLRSAQ  275 (1353)
T ss_pred             HHHHhCCC-CCHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44456776 445557777666666651            111222333334444444443333333222222111     


Q ss_pred             ---HHhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          611 ---ENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAK  656 (899)
Q Consensus       611 ---e~t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaak  656 (899)
                         +..+.++.+.+..+..+..++++++.....++.+...++++.++.+
T Consensus       276 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~le~~~~~l~~~~~~l~  324 (1353)
T TIGR02680       276 TQYDQLSRDLGRARDELETAREEERELDARTEALEREADALRTRLEALQ  324 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence               1123334555555555555555555555555555555555555544

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.

>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B

Probab=95.86  E-value=0.0023  Score=55.77  Aligned_cols=46  Identities=24%  Similarity=0.639  Sum_probs=25.3

Q ss_pred             cccccccccccccccceE-EecCCCcccChhhHHHhhhcCCCCCCCCcccc
Q 002627          839 VKRERECVMCLSEEMSVV-FLPCAHQVVCTTCNELHEKQGMKDCPSCRSPI  888 (899)
Q Consensus       839 l~~~~~CvIC~d~~~~vv-llPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I  888 (899)
                      ++....|.+|.+-.+..| +.-|.|. ||..|+.....   ..||+|+.|-
T Consensus         4 le~lLrCs~C~~~l~~pv~l~~CeH~-fCs~Ci~~~~~---~~CPvC~~Pa   50 (65)
T PF14835_consen    4 LEELLRCSICFDILKEPVCLGGCEHI-FCSSCIRDCIG---SECPVCHTPA   50 (65)
T ss_dssp             HHHTTS-SSS-S--SS-B---SSS---B-TTTGGGGTT---TB-SSS--B-
T ss_pred             HHHhcCCcHHHHHhcCCceeccCccH-HHHHHhHHhcC---CCCCCcCChH
Confidence            345678999999887775 5789999 99999987543   4799999875

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

Probab=95.82  E-value=2.4  Score=50.91  Aligned_cols=44  Identities=18%  Similarity=0.274  Sum_probs=33.3

Q ss_pred             hhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          613 TMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAK  656 (899)
Q Consensus       613 t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaak  656 (899)
                      .++++.+.+..|..+.+++.-++..+..+|.++..|++|.....
T Consensus       139 ~re~~~~~~~~l~~leAe~~~~krr~~~le~e~~~Lk~en~rl~  182 (546)
T KOG0977|consen  139 AREKLDDYLSRLSELEAEINTLKRRIKALEDELKRLKAENSRLR  182 (546)
T ss_pred             hHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhH
Confidence            67778888888888888888888888888877777777665443

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

Probab=95.73  E-value=6.8  Score=47.15  Aligned_cols=85  Identities=20%  Similarity=0.283  Sum_probs=56.1

Q ss_pred             hcHHHHHHHHHhHHHHHHHHHHHHHhHHHhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          584 KDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESA  663 (899)
Q Consensus       584 ~d~~eLk~LR~EkEe~eRlkk~k~~lee~t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~  663 (899)
                      ++.--.++||+.+...++=-.--+.-..+...+..+|+.+|.....++++-...+.+|..+|..|+...|-.++++++=.
T Consensus       256 k~~~~~eslre~~~~L~~D~nK~~~y~~~~~~k~~~~~~~l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~Q~iS~~dve  335 (581)
T KOG0995|consen  256 KDPGKEESLREKKARLQDDVNKFQAYVSQMKSKKQHMEKKLEMLKSEIEEKEEEIEKLQKENDELKKQIELQGISGEDVE  335 (581)
T ss_pred             cCcchHHHHHHHHHHHHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHH
Confidence            34444455555554333222222233344555688899999999999999999999999999999988887777766654


Q ss_pred             HHHHH
Q 002627          664 ASCQE  668 (899)
Q Consensus       664 ~~~~e  668 (899)
                      +--+|
T Consensus       336 ~mn~E  340 (581)
T KOG0995|consen  336 RMNLE  340 (581)
T ss_pred             HHHHH
Confidence            44433

>TIGR02977 phageshock_pspA phage shock protein A

Probab=95.71  E-value=1.7  Score=46.31  Aligned_cols=111  Identities=20%  Similarity=0.253  Sum_probs=72.9

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          617 LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAA-----SCQEVSKREKKTQMKFQSWEKQKALFQ  691 (899)
Q Consensus       617 L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~-----~~~e~~ekEkk~~k~l~~~EkQk~~LQ  691 (899)
                      +.||+..|.++...|.++-+...+++++...+....+--.-.|.--..     --.+++.+-+.....+..++.|...++
T Consensus        33 irem~~~l~~ar~~lA~~~a~~k~~e~~~~~~~~~~~~~~~~A~~Al~~G~EdLAr~Al~~k~~~~~~~~~l~~~~~~~~  112 (219)
T TIGR02977        33 IQEMEDTLVEVRTTSARTIADKKELERRVSRLEAQVADWQEKAELALSKGREDLARAALIEKQKAQELAEALERELAAVE  112 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            556888888888888888888888887776666554433333222111     123444444445666777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          692 EELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEK  727 (899)
Q Consensus       692 EEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqk  727 (899)
                      ..+...+.+|..|++.+++++.....+-.+.+..+.
T Consensus       113 ~~v~~l~~~l~~L~~ki~~~k~k~~~l~ar~~~A~a  148 (219)
T TIGR02977       113 ETLAKLQEDIAKLQAKLAEARARQKALAIRHQAASS  148 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777777777777777777777777766666655444

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.

>PRK09039 hypothetical protein; Validated

Probab=95.70  E-value=2.2  Score=48.48  Aligned_cols=29  Identities=10%  Similarity=0.264  Sum_probs=14.6

Q ss_pred             hhhHHHHHHHHHHhhhhHHHHHHHHHHHH
Q 002627          614 MKKLSEMENALCKASGQVERANSAVRRLE  642 (899)
Q Consensus       614 ~kkL~e~E~al~kas~Q~~ra~~~vr~lE  642 (899)
                      +.+..+++..|.....|++.+...--+|+
T Consensus        73 ~~~~~~l~~~l~~l~~~l~~a~~~r~~Le  101 (343)
T PRK09039         73 RQGNQDLQDSVANLRASLSAAEAERSRLQ  101 (343)
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33445566666666665554444333333

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=95.64  E-value=6.5  Score=47.59  Aligned_cols=120  Identities=17%  Similarity=0.254  Sum_probs=94.7

Q ss_pred             HHHHHHHHhHHH---hhhhHHHHHHHHHHhhhhHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          601 RLKKEKQILEEN---TMKKLSEMENALCKASGQVERANSA----------VRRLEVENTALRQEMEAAKLRAAESAASCQ  667 (899)
Q Consensus       601 Rlkk~k~~lee~---t~kkL~e~E~al~kas~Q~~ra~~~----------vr~lE~ena~lr~emEaakl~a~Es~~~~~  667 (899)
                      +...+++.++.+   ..+.|.+++.....+..++++-+..          ++.++.+...+..+++...-...+....+.
T Consensus       300 kE~~A~~~vek~~~~l~~~l~~~~e~~~~l~~Ei~~l~~sY~l~~~e~~~~~~lekeL~~Le~~~~~~~~~i~~~~~~ys  379 (569)
T PRK04778        300 REVKARKYVEKNSDTLPDFLEHAKEQNKELKEEIDRVKQSYTLNESELESVRQLEKQLESLEKQYDEITERIAEQEIAYS  379 (569)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHH
Confidence            333444444443   2334788888888899999998888          889999999999999988888888888899


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          668 EVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEA  720 (899)
Q Consensus       668 e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~  720 (899)
                      ++.++-....+++...+++...+++.|...+..-.+++..+.+++..+..+..
T Consensus       380 el~e~leel~e~leeie~eq~ei~e~l~~Lrk~E~eAr~kL~~~~~~L~~ikr  432 (569)
T PRK04778        380 ELQEELEEILKQLEEIEKEQEKLSEMLQGLRKDELEAREKLERYRNKLHEIKR  432 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999998888888888777777777777777666655543

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

Probab=95.58  E-value=8.4  Score=49.55  Aligned_cols=42  Identities=21%  Similarity=0.228  Sum_probs=20.7

Q ss_pred             HHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          622 NALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESA  663 (899)
Q Consensus       622 ~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~  663 (899)
                      +-|.+.....+.|...+...-...++|..-||..|+.+..-.
T Consensus      1598 ~~l~kv~~~t~~aE~~~~~a~q~~~eL~~~~e~lk~~~~qns 1639 (1758)
T KOG0994|consen 1598 QLLAKVQEETAAAEKLATSATQQLGELETRMEELKHKAAQNS 1639 (1758)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            334444444444444444444444455566666666655443

>KOG2891 consensus Surface glycoprotein [General function prediction only]

Probab=95.58  E-value=2  Score=47.32  Aligned_cols=55  Identities=31%  Similarity=0.335  Sum_probs=25.3

Q ss_pred             cHHHHHHHHHhHHHHHHHH----HHHHHhHHHhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Q 002627          585 DKAELKTLRQEKEEVERLK----KEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVE  644 (899)
Q Consensus       585 d~~eLk~LR~EkEe~eRlk----k~k~~lee~t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~e  644 (899)
                      -..|-..||+|-||.---+    +-||.+++.++ +|.+-|.    ..-||+|..-...+.++|
T Consensus       283 rqieterlrqeeeelnikk~e~~kikqe~ddkdk-~~ed~e~----kkrqlerqekqeleqmae  341 (445)
T KOG2891|consen  283 RQIETERLRQEEEELNIKKAEACKIKQEFDDKDK-HLEDAEI----KKRQLERQEKQELEQMAE  341 (445)
T ss_pred             hhhhHHHHhhhHhhhhhhHHHhhchhhhcCcccc-hhhHHHH----HHHHHHHHHHHHHHHHHH
Confidence            3445556666666532222    23555665443 3444333    234566654443333333

>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=95.52  E-value=2.8  Score=42.25  Aligned_cols=99  Identities=20%  Similarity=0.226  Sum_probs=64.7

Q ss_pred             hhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          615 KKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEEL  694 (899)
Q Consensus       615 kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL  694 (899)
                      +|..++++.|+......|--...|..||++......+.+.+.+.+.-+.+-|..+.       ..+..+-..+..|+.+|
T Consensus         3 ~K~l~v~~kLK~~~~e~dsle~~v~~LEreLe~~q~~~e~~~~daEn~k~eie~L~-------~el~~lt~el~~L~~EL   75 (140)
T PF10473_consen    3 EKFLHVEEKLKESESEKDSLEDHVESLERELEMSQENKECLILDAENSKAEIETLE-------EELEELTSELNQLELEL   75 (140)
T ss_pred             HHHHHHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHH
Confidence            57788999999999999999999999999998888888888887776643333221       12333344444455555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          695 VTEKRKVVQLLQELDQAKALQEQLEA  720 (899)
Q Consensus       695 ~~eK~KLa~LeqELeqak~~~kqlE~  720 (899)
                      .+.+.+...|.+++++.+..+..++.
T Consensus        76 ~~l~sEk~~L~k~lq~~q~kv~eLE~  101 (140)
T PF10473_consen   76 DTLRSEKENLDKELQKKQEKVSELES  101 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555555555444444443

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

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

Probab=95.49  E-value=3  Score=47.13  Aligned_cols=8  Identities=13%  Similarity=0.468  Sum_probs=3.0

Q ss_pred             HHHHHHHH
Q 002627          772 IHRLEKEI  779 (899)
Q Consensus       772 ikrLEqEl  779 (899)
                      +..++..+
T Consensus       255 l~~~~~~l  262 (423)
T TIGR01843       255 LAELRERL  262 (423)
T ss_pred             HHHHHHHH
Confidence            33333333

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.

>PRK10698 phage shock protein PspA; Provisional

Probab=95.46  E-value=2.1  Score=45.86  Aligned_cols=110  Identities=18%  Similarity=0.206  Sum_probs=68.1

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          617 LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAA-----SCQEVSKREKKTQMKFQSWEKQKALFQ  691 (899)
Q Consensus       617 L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~-----~~~e~~ekEkk~~k~l~~~EkQk~~LQ  691 (899)
                      +.||+..|.++...+.++-+...+++++...+..+.+--.-.|.--..     =-.+++.+.+....++..++.|....+
T Consensus        33 i~em~~~l~~~r~alA~~~A~~k~~er~~~~~~~~~~~~e~kA~~Al~~G~EdLAr~AL~~K~~~~~~~~~l~~~~~~~~  112 (222)
T PRK10698         33 IQEMEDTLVEVRSTSARALAEKKQLTRRIEQAEAQQVEWQEKAELALRKEKEDLARAALIEKQKLTDLIATLEHEVTLVD  112 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            556888888887777777777777777666655544333332222211     113344444445566666777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          692 EELVTEKRKVVQLLQELDQAKALQEQLEARWRQEE  726 (899)
Q Consensus       692 EEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeq  726 (899)
                      ..+...+..+.+|+..+.+++.....+-.+.+-.+
T Consensus       113 ~~~~~L~~~l~~L~~ki~eak~k~~~L~aR~~~A~  147 (222)
T PRK10698        113 ETLARMKKEIGELENKLSETRARQQALMLRHQAAS  147 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777777777777777766666555444

>PRK10246 exonuclease subunit SbcC; Provisional

Probab=95.42  E-value=13  Score=48.32  Aligned_cols=14  Identities=21%  Similarity=0.562  Sum_probs=10.3

Q ss_pred             cccccccccccccc
Q 002627          838 GVKRERECVMCLSE  851 (899)
Q Consensus       838 ~l~~~~~CvIC~d~  851 (899)
                      .+.+..-|+||-..
T Consensus       499 ~L~~GePCPVCGS~  512 (1047)
T PRK10246        499 QLQAGQPCPLCGST  512 (1047)
T ss_pred             hCCCCCCcCCCCcc
Confidence            45566779999874

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

Probab=95.41  E-value=6.9  Score=50.00  Aligned_cols=149  Identities=23%  Similarity=0.246  Sum_probs=69.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHH
Q 002627          637 AVRRLEVENTALRQEMEAAKLRAAESA--------ASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKR-----KVVQ  703 (899)
Q Consensus       637 ~vr~lE~ena~lr~emEaakl~a~Es~--------~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~-----KLa~  703 (899)
                      .++.+|.+..+|..+|+.+.=..=..-        +.+.|... -+...+++..+++|+.+|.-+|.-++.     ++.+
T Consensus       733 ~l~~~e~~~~~L~~~~n~ved~if~~f~~~igv~ir~Yee~~~-~~~~a~k~~ef~~q~~~l~~~l~fe~~~d~~~~ve~  811 (1141)
T KOG0018|consen  733 KLQNREGEMKELEERMNKVEDRIFKGFCRRIGVRIREYEEREL-QQEFAKKRLEFENQKAKLENQLDFEKQKDTQRRVER  811 (1141)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCeeeehHHHHHH-HHHHHHHHHHHHHHHHHHhhhhhheecccHHHHHHH
Confidence            455556666666666665543332221        11112212 222346677788888888777765554     3444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH---hhHHHHhhhhhHHHHHHHHHHHH
Q 002627          704 LLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMI---KSKAETNLMRYKDDIHRLEKEIS  780 (899)
Q Consensus       704 LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~ErEraE~~~k~keeal---r~K~E~E~qr~k~dikrLEqEls  780 (899)
                      |++.++++...++.++....-..+...+. +       +++.   ..+.+.+..   -......++++..++.+|.+++.
T Consensus       812 ~~~~v~~~~~~~~~~~~~e~~~~k~i~e~-~-------~~e~---k~k~~~~~~~~e~~e~~k~~~~~~~~~tkl~~~i~  880 (1141)
T KOG0018|consen  812 WERSVEDLEKEIEGLKKDEEAAEKIIAEI-E-------ELEK---KNKSKFEKKEDEINEVKKILRRLVKELTKLDKEIT  880 (1141)
T ss_pred             HHHHHHHHHHhHHhhHHHHHHHHHHHhhH-H-------HHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence            44444444444433333222222222222 1       1111   111111111   11223334556667777777776


Q ss_pred             HHhhcc---chhHHHHHHhc
Q 002627          781 QLRLKT---DSSKIAALRRG  797 (899)
Q Consensus       781 rLr~k~---d~~RrAaL~~g  797 (899)
                      .+..+.   +..+.++|..+
T Consensus       881 ~~es~ie~~~~er~~lL~~c  900 (1141)
T KOG0018|consen  881 SIESKIERKESERHNLLSKC  900 (1141)
T ss_pred             hhhhHHHHHHHHHHHHHHHh
Confidence            665544   44666777766

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

Probab=95.41  E-value=5.4  Score=43.96  Aligned_cols=89  Identities=20%  Similarity=0.216  Sum_probs=43.3

Q ss_pred             HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          640 RLEVENTALRQEMEAA-KLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQL  718 (899)
Q Consensus       640 ~lE~ena~lr~emEaa-kl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kql  718 (899)
                      .|......||++.+.. ...-.+....+....+.   ..............+.+|+...+.++..+..+++.++.....+
T Consensus       166 dL~~~L~eiR~~ye~~~~~~~~e~e~~y~~k~~~---l~~~~~~~~~~~~~~~~E~~~~r~~~~~l~~el~~l~~~~~~L  242 (312)
T PF00038_consen  166 DLSAALREIRAQYEEIAQKNREELEEWYQSKLEE---LRQQSEKSSEELESAKEELKELRRQIQSLQAELESLRAKNASL  242 (312)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhhhhhHHHHHHHHHhhhhhhhhhhccccccc---ccccccccccccchhHhHHHHHHhhhhHhhhhhhccccchhhh
Confidence            3555566677766522 22222322222222211   1222223444455566666666666666666666666666666


Q ss_pred             HHHHHHHHHHHHH
Q 002627          719 EARWRQEEKAKEE  731 (899)
Q Consensus       719 E~kwrQeqkakeE  731 (899)
                      +..+.+.+.....
T Consensus       243 e~~l~~le~~~~~  255 (312)
T PF00038_consen  243 ERQLRELEQRLDE  255 (312)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHH
Confidence            6555554444433

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 ....

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=95.39  E-value=9.8  Score=46.72  Aligned_cols=15  Identities=27%  Similarity=0.388  Sum_probs=10.9

Q ss_pred             CCCcccChhhHHHhh
Q 002627          860 CAHQVVCTTCNELHE  874 (899)
Q Consensus       860 CgH~~~C~~Ca~~l~  874 (899)
                      +.|.+++..|...|.
T Consensus       603 ~~~QvIils~d~e~~  617 (650)
T TIGR03185       603 ASHQVLLLSTDEEVD  617 (650)
T ss_pred             cCCeEEEEechHhhC
Confidence            578888888877653

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.

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

Probab=95.36  E-value=5.7  Score=43.83  Aligned_cols=169  Identities=18%  Similarity=0.250  Sum_probs=87.2

Q ss_pred             hhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HH----HHHHHHH---
Q 002627          614 MKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSK------RE----KKTQMKF---  680 (899)
Q Consensus       614 ~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~e------kE----kk~~k~l---  680 (899)
                      ......+|..+.++..++|.+...--.|+.+...++.|++..+....+....++....      -.    -....-+   
T Consensus        95 ~~~~~~le~el~~lrk~ld~~~~~r~~le~~i~~L~eEl~fl~~~heeEi~~L~~~~~~~~~~e~~~~~~~dL~~~L~ei  174 (312)
T PF00038_consen   95 LAERKDLEEELESLRKDLDEETLARVDLENQIQSLKEELEFLKQNHEEEIEELREQIQSSVTVEVDQFRSSDLSAALREI  174 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSTT----------------HHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHHHHHHHHHHHHHhhhhhhhhhhhhccccccceeecccccccchhhhhhH
Confidence            3446678888888899999999999999999999999999888776665544433221      00    0000011   


Q ss_pred             -HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHh
Q 002627          681 -QSWEKQKALFQEEL-VTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIK  758 (899)
Q Consensus       681 -~~~EkQk~~LQEEL-~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~ErEraE~~~k~keealr  758 (899)
                       ..++....+..+++ ...+.++..+...........................+..+++..+.....++.    .+..+.
T Consensus       175 R~~ye~~~~~~~~e~e~~y~~k~~~l~~~~~~~~~~~~~~~~E~~~~r~~~~~l~~el~~l~~~~~~Le~----~l~~le  250 (312)
T PF00038_consen  175 RAQYEEIAQKNREELEEWYQSKLEELRQQSEKSSEELESAKEELKELRRQIQSLQAELESLRAKNASLER----QLRELE  250 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHH
T ss_pred             HHHHHHHHhhhhhhhhhhcccccccccccccccccccchhHhHHHHHHhhhhHhhhhhhccccchhhhhh----hHHHHH
Confidence             11222222222221 122333333333333333333333333333333333333333333333332222    233334


Q ss_pred             hHHHHhhhhhHHHHHHHHHHHHHHhhcc
Q 002627          759 SKAETNLMRYKDDIHRLEKEISQLRLKT  786 (899)
Q Consensus       759 ~K~E~E~qr~k~dikrLEqElsrLr~k~  786 (899)
                      ..-..+.+.|...|..++.++..++...
T Consensus       251 ~~~~~~~~~~~~~i~~le~el~~l~~~~  278 (312)
T PF00038_consen  251 QRLDEEREEYQAEIAELEEELAELREEM  278 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhccchhHHHHHHHH
Confidence            4455566777777888888887777655

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 ....

>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]

Probab=95.35  E-value=0.0053  Score=63.85  Aligned_cols=49  Identities=22%  Similarity=0.466  Sum_probs=41.0

Q ss_pred             cccccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccceEe
Q 002627          843 RECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIP  893 (899)
Q Consensus       843 ~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~ir  893 (899)
                      ..|.||.......|+..|||. ||..|+..-... ..+|-+|.....+...
T Consensus       197 F~C~iCKkdy~spvvt~CGH~-FC~~Cai~~y~k-g~~C~~Cgk~t~G~f~  245 (259)
T COG5152         197 FLCGICKKDYESPVVTECGHS-FCSLCAIRKYQK-GDECGVCGKATYGRFW  245 (259)
T ss_pred             eeehhchhhccchhhhhcchh-HHHHHHHHHhcc-CCcceecchhhcccee
Confidence            579999999999999999999 999999876543 4699999987766543

>PRK11281 hypothetical protein; Provisional

Probab=95.34  E-value=2.8  Score=54.39  Aligned_cols=24  Identities=33%  Similarity=0.533  Sum_probs=14.4

Q ss_pred             HhHHHHHHHHHhhhcHHHHHHHHH
Q 002627          571 ANQKVMQAARRLSKDKAELKTLRQ  594 (899)
Q Consensus       571 A~qkvmQaa~rl~~d~~eLk~LR~  594 (899)
                      -++++-+|.+++..-..+|..|++
T Consensus        85 L~k~l~~Ap~~l~~a~~~Le~Lk~  108 (1113)
T PRK11281         85 LKQQLAQAPAKLRQAQAELEALKD  108 (1113)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHhhc
Confidence            345666666666666665655554

>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=95.27  E-value=10  Score=48.23  Aligned_cols=64  Identities=13%  Similarity=0.147  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          660 AESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWR  723 (899)
Q Consensus       660 ~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwr  723 (899)
                      ++-...|.+...+-+....++...+++...+..+++..|.+....+..+..++.-+.+++...+
T Consensus       293 s~~~~~~~e~~~k~~~~~ek~~~~~~~v~~~~~~le~lk~~~~~rq~~i~~~~k~i~~~q~el~  356 (1072)
T KOG0979|consen  293 SQKQRELNEALAKVQEKFEKLKEIEDEVEEKKNKLESLKKAAEKRQKRIEKAKKMILDAQAELQ  356 (1072)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            3344455555555555556666666677777777777666666666666666666665554443

>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.27  E-value=0.0075  Score=69.62  Aligned_cols=51  Identities=27%  Similarity=0.670  Sum_probs=40.6

Q ss_pred             ccccccccccccc-----------------ccceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccc
Q 002627          839 VKRERECVMCLSE-----------------EMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR  890 (899)
Q Consensus       839 l~~~~~CvIC~d~-----------------~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~  890 (899)
                      .+....|+|||..                 .++..+.||.|. |-..|...|+....-.||.||.++..
T Consensus       568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~Hi-fH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHI-FHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             hhccccceEeccccceeeccCcchhhhhhhhccccccchHHH-HHHHHHHHHHhhhcccCCccCCCCCC
Confidence            4567889999973                 134667899999 99999999987554589999998753

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

Probab=95.20  E-value=3.4  Score=43.74  Aligned_cols=51  Identities=16%  Similarity=0.274  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          646 TALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVT  696 (899)
Q Consensus       646 a~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~  696 (899)
                      ..++.|++..|...........++...-+....-|...+.++..|+.+|..
T Consensus        30 ksLKeei~emkk~e~~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~L~~   80 (201)
T PF13851_consen   30 KSLKEEIAEMKKKEERNEKLMAEISQENKRLSEPLKKAEEEVEELRKQLKN   80 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555555555566666666666666666666666544

>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.17  E-value=0.0064  Score=66.62  Aligned_cols=49  Identities=18%  Similarity=0.419  Sum_probs=41.6

Q ss_pred             cccccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccceEe
Q 002627          843 RECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIP  893 (899)
Q Consensus       843 ~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~ir  893 (899)
                      ..|.||.....+.|+..|+|+ ||..|+..-.. ...+|++|.+.+.++..
T Consensus       242 f~c~icr~~f~~pVvt~c~h~-fc~~ca~~~~q-k~~~c~vC~~~t~g~~~  290 (313)
T KOG1813|consen  242 FKCFICRKYFYRPVVTKCGHY-FCEVCALKPYQ-KGEKCYVCSQQTHGSFN  290 (313)
T ss_pred             ccccccccccccchhhcCCce-eehhhhccccc-cCCcceecccccccccc
Confidence            459999999999999999999 99999987544 34699999999887654

>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=95.16  E-value=3.6  Score=40.47  Aligned_cols=106  Identities=20%  Similarity=0.272  Sum_probs=65.1

Q ss_pred             HhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          626 KASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLL  705 (899)
Q Consensus       626 kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~Le  705 (899)
                      .+..++.++...+...+.....++.+++...-.+.+.+..+..-.-+.-..       -+++..+.+++...+.++..+.
T Consensus         7 ~l~~e~~~~~~~~~~~~~~~~~~~~dl~~q~~~a~~Aq~~YE~El~~Ha~~-------~~~L~~lr~e~~~~~~~~~~l~   79 (132)
T PF07926_consen    7 SLQSELQRLKEQEEDAEEQLQSLREDLESQAKIAQEAQQKYERELVKHAED-------IKELQQLREELQELQQEINELK   79 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH-------HHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444445555555555555666555555555544433322333333       4455666666677777777788


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          706 QELDQAKALQEQLEARWRQEEKAKEELVMQASS  738 (899)
Q Consensus       706 qELeqak~~~kqlE~kwrQeqkakeE~laqaE~  738 (899)
                      .+.+.++..+...+..|.+.+...+.-+..++.
T Consensus        80 ~~~~~a~~~l~~~e~sw~~qk~~le~e~~~~~~  112 (132)
T PF07926_consen   80 AEAESAKAELEESEASWEEQKEQLEKELSELEQ  112 (132)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            888888888888889999888777776666544

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

>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=95.15  E-value=2.5  Score=46.63  Aligned_cols=124  Identities=27%  Similarity=0.433  Sum_probs=82.8

Q ss_pred             HHHhhHHHhHHHHHHHHHhhhcHHHHHHHHHhHHHHHHHHHHHHHhHHHhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHH
Q 002627          564 LHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEV  643 (899)
Q Consensus       564 ~~~~~dWA~qkvmQaa~rl~~d~~eLk~LR~EkEe~eRlkk~k~~lee~t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~  643 (899)
                      +.||+|=-.-||.|-+.-|...+.   .|++|+.+       +|.       .|.-+|-||.|....++-..+.+--|.+
T Consensus         5 ~eEWKeGL~~~aLqKIqelE~Qld---kLkKE~qQ-------rQf-------QleSlEAaLqKQKqK~e~ek~e~s~LkR   67 (307)
T PF10481_consen    5 VEEWKEGLPTRALQKIQELEQQLD---KLKKERQQ-------RQF-------QLESLEAALQKQKQKVEEEKNEYSALKR   67 (307)
T ss_pred             HhHHhccCCHHHHHHHHHHHHHHH---HHHHHHHH-------HHH-------hHHHHHHHHHHHHHHHHHHhhhhhhhhh
Confidence            346777667777776666654333   23333332       111       2555788888877777777777777777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          644 ENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQL  718 (899)
Q Consensus       644 ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kql  718 (899)
                      ||.-|..              .|..+-+.-.+..-.++.-|-|+.-|.-.|...|..|..+++++...+..++..
T Consensus        68 Enq~l~e--------------~c~~lek~rqKlshdlq~Ke~qv~~lEgQl~s~Kkqie~Leqelkr~KsELErs  128 (307)
T PF10481_consen   68 ENQSLME--------------SCENLEKTRQKLSHDLQVKESQVNFLEGQLNSCKKQIEKLEQELKRCKSELERS  128 (307)
T ss_pred             hhhhHHH--------------HHHHHHHHHHHhhHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7766544              456666666777777888888888888888888888888888877777666433

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 [].

>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []

Probab=95.10  E-value=1.6  Score=47.54  Aligned_cols=111  Identities=18%  Similarity=0.311  Sum_probs=59.9

Q ss_pred             hhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          614 MKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEE  693 (899)
Q Consensus       614 ~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEE  693 (899)
                      +.||..||....++...|.++...++.|+.+......+.+.....+.+-.       .--.........-++++..|..+
T Consensus        11 e~rL~q~eee~~~a~~~L~e~e~~a~~Leek~k~aeeea~~Le~k~~eae-------e~~~rL~~~~~~~~eEk~~Le~e   83 (246)
T PF00769_consen   11 EERLRQMEEEMRRAQEALEESEETAEELEEKLKQAEEEAEELEQKRQEAE-------EEKQRLEEEAEMQEEEKEQLEQE   83 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHH------------HHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHH
Confidence            45788888888888888888888888888655544443333222222221       11111222222335556667777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          694 LVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEE  731 (899)
Q Consensus       694 L~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE  731 (899)
                      +.....++.++..+...-......|..++...+....+
T Consensus        84 ~~e~~~~i~~l~ee~~~ke~Ea~~lq~el~~ar~~~~~  121 (246)
T PF00769_consen   84 LREAEAEIARLEEESERKEEEAEELQEELEEAREDEEE  121 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777776666666666666555555444433

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.

>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=95.07  E-value=6.7  Score=44.14  Aligned_cols=110  Identities=22%  Similarity=0.251  Sum_probs=80.1

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          629 GQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKK----TQMKFQSWEKQKALFQEELVTEKRKVVQL  704 (899)
Q Consensus       629 ~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk----~~k~l~~~EkQk~~LQEEL~~eK~KLa~L  704 (899)
                      -+++.-+-.++.||.||..||.|-...+-....-+       ++|+.    +-+.+...-.|+..|+++|........+.
T Consensus       160 ~~le~Lq~Klk~LEeEN~~LR~Ea~~L~~et~~~E-------ekEqqLv~dcv~QL~~An~qia~LseELa~k~Ee~~rQ  232 (306)
T PF04849_consen  160 IQLEALQEKLKSLEEENEQLRSEASQLKTETDTYE-------EKEQQLVLDCVKQLSEANQQIASLSEELARKTEENRRQ  232 (306)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhcc-------HHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHH
Confidence            34677778999999999999985544443333222       22322    34677777788889999999988888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          705 LQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQ  745 (899)
Q Consensus       705 eqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~ErEr  745 (899)
                      ++++.++-.++-.++.+.++.....+++...+...+....+
T Consensus       233 QEEIt~LlsqivdlQ~r~k~~~~EnEeL~q~L~~ske~Q~~  273 (306)
T PF04849_consen  233 QEEITSLLSQIVDLQQRCKQLAAENEELQQHLQASKESQRQ  273 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence            88888888888888888888888888877766654433333

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 [].

>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=95.05  E-value=12  Score=45.92  Aligned_cols=152  Identities=22%  Similarity=0.268  Sum_probs=95.0

Q ss_pred             HhhHHHhHHHHHHHHHhhhcHHHHHHHHHhHHHHHHHHHHHHHhHHHhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Q 002627          566 EWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVEN  645 (899)
Q Consensus       566 ~~~dWA~qkvmQaa~rl~~d~~eLk~LR~EkEe~eRlkk~k~~lee~t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~en  645 (899)
                      +-|.--|.|=|| ..-|.+++.+=..|-.|+...++...+-+.-|..--.-|.-.|..+.-+..||-.+-..-+..-..+
T Consensus       395 Emtk~k~~ke~e-leeL~~~L~e~qkll~ekk~~eki~E~lq~~eqel~~llq~~ekev~dLe~~l~~~~~~eq~yskQV  473 (786)
T PF05483_consen  395 EMTKQKNNKEVE-LEELKKILAEKQKLLDEKKQFEKIAEELQGTEQELTGLLQIREKEVHDLEIQLTTIKESEQHYSKQV  473 (786)
T ss_pred             HHHHHhhhhHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhhHHHHHHH
Confidence            444444444444 3334444444444444444444444444443433333455566666666666666666667777778


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          646 TALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQL  718 (899)
Q Consensus       646 a~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kql  718 (899)
                      ..++.|.+..++.-.|-...|..++-.-+........+--++-++|+.|..-+.+-.++-++.+.+.....++
T Consensus       474 eeLKtELE~EkLKN~ELt~~~nkLslEkk~laQE~~~~~~elKk~qedi~~~k~qee~~~kqie~Lee~~~~L  546 (786)
T PF05483_consen  474 EELKTELEQEKLKNTELTVNCNKLSLEKKQLAQETSDMALELKKQQEDINNSKKQEEKMLKQIENLEETNTQL  546 (786)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8899999999999888888888877665555667777777777788888877777666666655554444443

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

>KOG4403 consensus Cell surface glycoprotein STIM, contains SAM domain [General function prediction only]

Probab=95.04  E-value=2.5  Score=49.04  Aligned_cols=62  Identities=21%  Similarity=0.267  Sum_probs=38.4

Q ss_pred             CCcccCcCcccccCCCCchhHHHHHHhHHHHHHHHHHHHhhHH-HhHHHHHHHHHhhhcHHHHHHHHHhHHHHH
Q 002627          528 AGILSDDTSLEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEW-ANQKVMQAARRLSKDKAELKTLRQEKEEVE  600 (899)
Q Consensus       528 ~~~~~d~~~~~~~vp~D~Kde~il~Lv~r~~el~~~~~~~~dW-A~qkvmQaa~rl~~d~~eLk~LR~EkEe~e  600 (899)
                      +|-||-  .-..|    -||=|+.-||==..-     --|--. .|+++.|--+|+.+|++.|+..-++.++++
T Consensus       203 FGpp~~--~~~n~----~KD~iLv~lili~v~-----gcw~ay~Qnk~akehv~km~kdle~Lq~aEqsl~dlQ  265 (575)
T KOG4403|consen  203 FGPPYK--TNHNW----TKDFILVVLILIGVG-----GCWFAYRQNKKAKEHVNKMMKDLEGLQRAEQSLEDLQ  265 (575)
T ss_pred             ecCCcC--CCcch----hhhHHHHHHHHHHhh-----hhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777776  22245    367665544321111     112222 367888999999999999998777776654

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

Probab=95.03  E-value=9.9  Score=44.84  Aligned_cols=37  Identities=32%  Similarity=0.492  Sum_probs=28.9

Q ss_pred             hHHHHHhhHHHHhhhhhHHHHHHHHHHHHHHhhccch
Q 002627          752 SKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDS  788 (899)
Q Consensus       752 ~keealr~K~E~E~qr~k~dikrLEqElsrLr~k~d~  788 (899)
                      .+.+..+...|.+....+.++.+||+|+..|++.+.+
T Consensus       515 s~~~~~ke~~e~e~~a~~~E~eklE~el~~lnL~s~t  551 (622)
T COG5185         515 SKFELSKEENERELVAQRIEIEKLEKELNDLNLLSKT  551 (622)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhhhccc
Confidence            3555667777777788888999999999999887644

>PRK00106 hypothetical protein; Provisional

Probab=94.99  E-value=8.9  Score=46.32  Aligned_cols=12  Identities=25%  Similarity=0.221  Sum_probs=5.7

Q ss_pred             ccccceEEecCC
Q 002627          850 SEEMSVVFLPCA  861 (899)
Q Consensus       850 d~~~~vvllPCg  861 (899)
                      |....+|++.|+
T Consensus       262 ddtp~~v~lS~f  273 (535)
T PRK00106        262 DDTPEVVVLSGF  273 (535)
T ss_pred             cCCCCeEEEeCC
Confidence            344445555444

>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=94.99  E-value=3.2  Score=44.92  Aligned_cols=18  Identities=44%  Similarity=0.680  Sum_probs=10.4

Q ss_pred             HhhhcHHHHHHHHHhHHH
Q 002627          581 RLSKDKAELKTLRQEKEE  598 (899)
Q Consensus       581 rl~~d~~eLk~LR~EkEe  598 (899)
                      ||..-+.+|..++.+++.
T Consensus        21 ~L~~~~~~l~~~~~~~~~   38 (302)
T PF10186_consen   21 RLLELRSELQQLKEENEE   38 (302)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            455555666666666555

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

>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []

Probab=94.94  E-value=1.8  Score=47.14  Aligned_cols=46  Identities=17%  Similarity=0.198  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          617 LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAES  662 (899)
Q Consensus       617 L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es  662 (899)
                      |.+-+.....+-.++.++...-..|+....++..++...+.++..+
T Consensus        28 L~e~e~~a~~Leek~k~aeeea~~Le~k~~eaee~~~rL~~~~~~~   73 (246)
T PF00769_consen   28 LEESEETAEELEEKLKQAEEEAEELEQKRQEAEEEKQRLEEEAEMQ   73 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444445555555555555555555555555555555444

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.

>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=94.88  E-value=0.013  Score=67.18  Aligned_cols=51  Identities=29%  Similarity=0.718  Sum_probs=43.0

Q ss_pred             ccccccccccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccc
Q 002627          838 GVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR  890 (899)
Q Consensus       838 ~l~~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~  890 (899)
                      .......|.||+...-..|.+||||. +|..|..+.... ...||.||.++..
T Consensus        80 ~~~sef~c~vc~~~l~~pv~tpcghs-~c~~Cl~r~ld~-~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   80 EIRSEFECCVCSRALYPPVVTPCGHS-FCLECLDRSLDQ-ETECPLCRDELVE  130 (398)
T ss_pred             cccchhhhhhhHhhcCCCcccccccc-ccHHHHHHHhcc-CCCCccccccccc
Confidence            44778899999999888888899999 999998875553 4699999998875

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

Probab=94.86  E-value=14  Score=45.51  Aligned_cols=78  Identities=21%  Similarity=0.223  Sum_probs=38.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhHHHHhhhh
Q 002627          690 FQEELVTEKRKVVQLLQELDQAKALQEQLEARWR--QEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMR  767 (899)
Q Consensus       690 LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwr--QeqkakeE~laqaE~ER~ErEraE~~~k~keealr~K~E~E~qr  767 (899)
                      ++-.+.+...++.-++.-++.++..+ +.+-+.+  +..+....+..+++..|..+.+.|..+.+++..+|-.++.=.++
T Consensus       542 sr~~~~~le~~~~a~qat~d~a~~Dl-qk~nrlkQdear~~~~~lvqqv~dLR~~L~~~Eq~aarrEd~~R~Ei~~LqrR  620 (961)
T KOG4673|consen  542 SRALAAALEAQALAEQATNDEARSDL-QKENRLKQDEARERESMLVQQVEDLRQTLSKKEQQAARREDMFRGEIEDLQRR  620 (961)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhhhhH-HHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444444421 1222233  33334445566777777777777776666666665444433333


Q ss_pred             h
Q 002627          768 Y  768 (899)
Q Consensus       768 ~  768 (899)
                      |
T Consensus       621 l  621 (961)
T KOG4673|consen  621 L  621 (961)
T ss_pred             H
Confidence            3

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=94.71  E-value=6.9  Score=50.08  Aligned_cols=21  Identities=38%  Similarity=0.547  Sum_probs=14.1

Q ss_pred             HHHhHHHHHHHHHHHHHhHHH
Q 002627          592 LRQEKEEVERLKKEKQILEEN  612 (899)
Q Consensus       592 LR~EkEe~eRlkk~k~~lee~  612 (899)
                      |...-+|+||||.+-.+..|-
T Consensus       406 lKd~~~EIerLK~dl~AaReK  426 (1041)
T KOG0243|consen  406 LKDLYEEIERLKRDLAAAREK  426 (1041)
T ss_pred             HHHHHHHHHHHHHHHHHhHhh
Confidence            344457888888887775443

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

Probab=94.70  E-value=18  Score=46.15  Aligned_cols=41  Identities=32%  Similarity=0.377  Sum_probs=31.1

Q ss_pred             HHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          622 NALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAES  662 (899)
Q Consensus       622 ~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es  662 (899)
                      .++.++....++-...+.+||.....++.|.|.++.+-.+-
T Consensus       258 ~~~~~~~d~~~~~~~~i~ele~~l~~l~~ekeq~~a~~t~~  298 (1200)
T KOG0964|consen  258 DALDKVEDESEDLKCEIKELENKLTNLREEKEQLKARETKI  298 (1200)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35566677777788889999999999999888777664443

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

Probab=94.65  E-value=21  Score=46.98  Aligned_cols=103  Identities=16%  Similarity=0.153  Sum_probs=54.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHhh
Q 002627          679 KFQSWEKQKALFQEELVTEKRKVVQLL--QELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKE----REQIEASAKS  752 (899)
Q Consensus       679 ~l~~~EkQk~~LQEEL~~eK~KLa~Le--qELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~E----rEraE~~~k~  752 (899)
                      .+...+.++..++.++...++++....  +.+.+.......++.+.++..........|.-.....    +...-...+.
T Consensus       972 ~l~~~~e~l~~~~~~~~~~~~~l~~~~~~er~l~dnl~~~~l~~q~~e~~re~~~ld~Qi~~~~~~~~~ee~~~L~~~~~ 1051 (1294)
T KOG0962|consen  972 QLSESEEHLEERDNEVNEIKQKIRNQYQRERNLKDNLTLRNLERKLKELERELSELDKQILEADIKSVKEERVKLEEERE 1051 (1294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            455566667777777777777665543  3444555555566666666655555554443332211    1111111222


Q ss_pred             HHHHHhhHHHHhhhhhHHHHHHHHHHHHH
Q 002627          753 KEDMIKSKAETNLMRYKDDIHRLEKEISQ  781 (899)
Q Consensus       753 keealr~K~E~E~qr~k~dikrLEqElsr  781 (899)
                      ++....-...-+.+.|...+.+++++|.+
T Consensus      1052 ~l~se~~~~lg~~ke~e~~i~~~k~eL~~ 1080 (1294)
T KOG0962|consen 1052 KLSSEKNLLLGEMKQYESQIKKLKQELRE 1080 (1294)
T ss_pred             HhhhHhhHHHHHHHHHHHHHHHHHHHhhh
Confidence            33333344455556677777777777653

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=94.64  E-value=6.3  Score=41.55  Aligned_cols=111  Identities=21%  Similarity=0.236  Sum_probs=57.9

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          617 LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVT  696 (899)
Q Consensus       617 L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~  696 (899)
                      +-||+..|.++...+.++-+....++++...+..+.+.       -......+++..+..+-+  .+-.++..+++.+..
T Consensus        32 ird~e~~l~~a~~~~a~~~a~~~~le~~~~~~~~~~~~-------~~~~A~~Al~~g~edLAr--~al~~k~~~e~~~~~  102 (221)
T PF04012_consen   32 IRDMEEQLRKARQALARVMANQKRLERKLDEAEEEAEK-------WEKQAELALAAGREDLAR--EALQRKADLEEQAER  102 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHcCCHHHHH--HHHHHHHHHHHHHHH
Confidence            44588888888888877777777777766666554443       333334444444333211  122223333333444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          697 EKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQA  736 (899)
Q Consensus       697 eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqa  736 (899)
                      .+..+..+....++++..+..++.++.+.+.....+.++.
T Consensus       103 l~~~~~~~~~~~~~l~~~l~~l~~kl~e~k~k~~~l~ar~  142 (221)
T PF04012_consen  103 LEQQLDQAEAQVEKLKEQLEELEAKLEELKSKREELKARE  142 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444445555555555555555555555554444

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 [].

>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=94.63  E-value=1.8  Score=53.68  Aligned_cols=61  Identities=16%  Similarity=0.208  Sum_probs=35.3

Q ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          619 EMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQ  686 (899)
Q Consensus       619 e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQ  686 (899)
                      +++..+.-+..|+++....+..++.+...|+...       ..-+..+.++.++.++..+|++.+-+.
T Consensus       562 ei~~rv~~Lk~~~e~Ql~~L~~l~e~~~~l~~~a-------e~LaeR~e~a~d~Qe~L~~R~~~vl~~  622 (717)
T PF10168_consen  562 EIQRRVKLLKQQKEQQLKELQELQEERKSLRESA-------EKLAERYEEAKDKQEKLMKRVDRVLQL  622 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3566666666677766666666666655554332       222334566666666666665555443

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 [].

>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=94.61  E-value=2.2  Score=42.58  Aligned_cols=103  Identities=14%  Similarity=0.250  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 002627          672 REKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAK  751 (899)
Q Consensus       672 kEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~ErEraE~~~k  751 (899)
                      ...........++.+...+..++...+..+.++..+++++++.+..++.+.++.+............++.+..++...  
T Consensus        46 ~~~r~~~~~e~l~~~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k~~kee~~klk~~--  123 (151)
T PF11559_consen   46 QRDRDMEQREDLSDKLRRLRSDIERLQNDVERLKEQLEELERELASAEEKERQLQKQLKSLEAKLKQEKEELQKLKNQ--  123 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--
Confidence            333344444555555555555555555555555555555555555555555555554444444444433333333221  


Q ss_pred             hHHHHHhhHHHHhhhhhHHHHHHHHHHHHHHhhc
Q 002627          752 SKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLK  785 (899)
Q Consensus       752 ~keealr~K~E~E~qr~k~dikrLEqElsrLr~k  785 (899)
                               ...-...|..++++.+.|+.+|+..
T Consensus       124 ---------~~~~~tq~~~e~rkke~E~~kLk~r  148 (151)
T PF11559_consen  124 ---------LQQRKTQYEHELRKKEREIEKLKER  148 (151)
T ss_pred             ---------HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                     1111245667788888888887754

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.

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

Probab=94.58  E-value=11  Score=43.41  Aligned_cols=41  Identities=12%  Similarity=0.062  Sum_probs=19.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          684 EKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQ  724 (899)
Q Consensus       684 EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQ  724 (899)
                      ++.....++.+..-..++++....+++.-+.+.+....+.+
T Consensus       202 ~~~la~r~~a~q~r~~ela~r~aa~Qq~~q~i~qrd~~i~q  242 (499)
T COG4372         202 AQNLATRANAAQARTEELARRAAAAQQTAQAIQQRDAQISQ  242 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444555555555555555555544444333

>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]

Probab=94.54  E-value=0.011  Score=63.20  Aligned_cols=46  Identities=28%  Similarity=0.812  Sum_probs=36.2

Q ss_pred             ccccccccccc---ccc--eEEec-CCCcccChhhHHHhhhcCCCCCC--CCccc
Q 002627          841 RERECVMCLSE---EMS--VVFLP-CAHQVVCTTCNELHEKQGMKDCP--SCRSP  887 (899)
Q Consensus       841 ~~~~CvIC~d~---~~~--vvllP-CgH~~~C~~Ca~~l~~~~~~kCP--iCR~~  887 (899)
                      ....|+||...   ..+  +++-| |.|. +|..|..++...+...||  .|..-
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHr-mCESCvdRIFs~GpAqCP~~gC~kI   62 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHR-MCESCVDRIFSRGPAQCPYKGCGKI   62 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHH-HHHHHHHHHhcCCCCCCCCccHHHH
Confidence            34579999974   233  44447 9999 999999999988889999  78753

>PF15066 CAGE1: Cancer-associated gene protein 1 family

Probab=94.53  E-value=13  Score=43.85  Aligned_cols=138  Identities=18%  Similarity=0.218  Sum_probs=93.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          637 AVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQE  716 (899)
Q Consensus       637 ~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~k  716 (899)
                      .+.+|+.-..+|=.+.=...|+.-+-...++.+.+---..+|.|+.-.+++.-||=+++.-|..-..|+++.--.-++..
T Consensus       363 iinkLk~niEeLIedKY~viLEKnd~~k~lqnLqe~la~tqk~LqEsr~eKetLqlelkK~k~nyv~LQEry~~eiQqKn  442 (527)
T PF15066_consen  363 IINKLKENIEELIEDKYRVILEKNDIEKTLQNLQEALANTQKHLQESRNEKETLQLELKKIKANYVHLQERYMTEIQQKN  442 (527)
T ss_pred             HHHHHHHHHHHHHHhHhHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhhHHHHHHHHHHHHHHhh
Confidence            56788888888888888889999999999999999999999999999999999999999988888888876554444444


Q ss_pred             HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHhhHHHHHhhH---HHHhhhhhHHHHHHHHH
Q 002627          717 QLEARWRQEEKAKE---ELVMQASSIRKEREQIEASAKSKEDMIKSK---AETNLMRYKDDIHRLEK  777 (899)
Q Consensus       717 qlE~kwrQeqkake---E~laqaE~ER~ErEraE~~~k~keealr~K---~E~E~qr~k~dikrLEq  777 (899)
                      ..-..+-+..+..-   +-+.++...|.+.|.+-   ...++.+++.   .|.++..+..+.++-++
T Consensus       443 ksvsqclEmdk~LskKeeeverLQ~lkgelEkat---~SALdlLkrEKe~~EqefLslqeEfQk~ek  506 (527)
T PF15066_consen  443 KSVSQCLEMDKTLSKKEEEVERLQQLKGELEKAT---TSALDLLKREKETREQEFLSLQEEFQKHEK  506 (527)
T ss_pred             hHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555555443   33444444444544443   3334444333   33333344444444433

>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=94.51  E-value=5.5  Score=49.48  Aligned_cols=52  Identities=17%  Similarity=0.138  Sum_probs=25.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          680 FQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASS  738 (899)
Q Consensus       680 l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~  738 (899)
                      ......|+..|+.+|...+.++..       ......+-..+|+.+.+...+.+...+.
T Consensus       361 y~vav~Ev~~Lk~ELk~Lk~k~~~-------~~~~~~~ek~~~~~e~q~L~ekl~~lek  412 (717)
T PF09730_consen  361 YKVAVSEVIQLKAELKALKSKYNE-------LEERYKQEKDRLESEVQNLKEKLMSLEK  412 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444455555555444444444       3334444445566555555555555544

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

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

Probab=94.49  E-value=20  Score=45.83  Aligned_cols=121  Identities=18%  Similarity=0.180  Sum_probs=53.2

Q ss_pred             HHHHHHHHHhHHH---hhhhHHHHHHHHHHhhhhHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          600 ERLKKEKQILEEN---TMKKLSEMENALCKASGQVER---ANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKRE  673 (899)
Q Consensus       600 eRlkk~k~~lee~---t~kkL~e~E~al~kas~Q~~r---a~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekE  673 (899)
                      .+|.+.-..|||.   --+.+.++|+--+++.-+.++   +...+++...++...+.+.....-.+..-.....++.-+-
T Consensus       411 KnLs~k~e~Leeri~ql~qq~~eled~~K~L~~E~ekl~~e~~t~~~s~~rq~~e~e~~~q~ls~~~Q~~~et~el~~~i  490 (1195)
T KOG4643|consen  411 KNLSKKHEILEERINQLLQQLAELEDLEKKLQFELEKLLEETSTVTRSLSRQSLENEELDQLLSLQDQLEAETEELLNQI  490 (1195)
T ss_pred             HhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3454555555554   122244444444444433333   3333444444444444443333322333333333333333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          674 KKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEA  720 (899)
Q Consensus       674 kk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~  720 (899)
                      +++-+.|..--.+...++.....+++.+.....++......++.++.
T Consensus       491 knlnk~L~~r~~elsrl~a~~~elkeQ~kt~~~qye~~~~k~eeLe~  537 (1195)
T KOG4643|consen  491 KNLNKSLNNRDLELSRLHALKNELKEQYKTCDIQYELLSNKLEELEE  537 (1195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444555445555555555555555555555544444444444443

>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=94.43  E-value=5.6  Score=39.18  Aligned_cols=31  Identities=26%  Similarity=0.437  Sum_probs=16.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          681 QSWEKQKALFQEELVTEKRKVVQLLQELDQA  711 (899)
Q Consensus       681 ~~~EkQk~~LQEEL~~eK~KLa~LeqELeqa  711 (899)
                      .+|+.|+..|+.+|...+.++..|..+..=+
T Consensus        94 ~sw~~qk~~le~e~~~~~~r~~dL~~QN~lL  124 (132)
T PF07926_consen   94 ASWEEQKEQLEKELSELEQRIEDLNEQNKLL  124 (132)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455555555555555555555554444433

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

>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger

Probab=94.33  E-value=0.032  Score=51.34  Aligned_cols=34  Identities=26%  Similarity=0.603  Sum_probs=28.5

Q ss_pred             eEEecCCCcccChhhHHHhhhc--CCCCCCCCccccc
Q 002627          855 VVFLPCAHQVVCTTCNELHEKQ--GMKDCPSCRSPIQ  889 (899)
Q Consensus       855 vvllPCgH~~~C~~Ca~~l~~~--~~~kCPiCR~~I~  889 (899)
                      +|+-.|+|. |-..|+..+..+  ....||+||+++.
T Consensus        47 lv~g~C~H~-FH~hCI~kWl~~~~~~~~CPmCR~~w~   82 (85)
T PF12861_consen   47 LVWGKCSHN-FHMHCILKWLSTQSSKGQCPMCRQPWK   82 (85)
T ss_pred             eeeccCccH-HHHHHHHHHHccccCCCCCCCcCCeee
Confidence            567789999 999999998864  3579999999874

>smart00787 Spc7 Spc7 kinetochore protein

Probab=94.28  E-value=12  Score=42.34  Aligned_cols=92  Identities=18%  Similarity=0.210  Sum_probs=49.7

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          617 LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVT  696 (899)
Q Consensus       617 L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~  696 (899)
                      +..|.+....+..+++.++..+-.+....+.|+.|..-.+-...|-.          .-....+...-.++..+..+|..
T Consensus       153 ~~~l~~D~~~L~~~~~~l~~~~~~l~~~~~~L~~e~~~L~~~~~e~~----------~~d~~eL~~lk~~l~~~~~ei~~  222 (312)
T smart00787      153 LEGLKEDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQLEDELE----------DCDPTELDRAKEKLKKLLQEIMI  222 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH----------hCCHHHHHHHHHHHHHHHHHHHH
Confidence            33455555556677777888888888888888777665444433321          11111222222344444455555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 002627          697 EKRKVVQLLQELDQAKALQEQL  718 (899)
Q Consensus       697 eK~KLa~LeqELeqak~~~kql  718 (899)
                      .+.++.++++++++++..++..
T Consensus       223 ~~~~l~e~~~~l~~l~~~I~~~  244 (312)
T smart00787      223 KVKKLEELEEELQELESKIEDL  244 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555444433

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

>PF13514 AAA_27: AAA domain

Probab=94.15  E-value=26  Score=45.81  Aligned_cols=31  Identities=29%  Similarity=0.362  Sum_probs=13.7

Q ss_pred             CCCchhHHHHHHhHHHHHHHHHHHHhhHHHh
Q 002627          542 PQDKRDEIILKLIPRVRELHNQLHEWTEWAN  572 (899)
Q Consensus       542 p~D~Kde~il~Lv~r~~el~~~~~~~~dWA~  572 (899)
                      |.+--.+.+...+..+.++...++.+.+|..
T Consensus       720 ~~~~~~~~~~~~l~~l~~l~~~~~~~~~~~~  750 (1111)
T PF13514_consen  720 PADASPEEALEALELLEELREALAEIRELRR  750 (1111)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4443344444444444444444444444433

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=94.07  E-value=3.8  Score=49.48  Aligned_cols=40  Identities=13%  Similarity=0.049  Sum_probs=33.0

Q ss_pred             HHHHhHHHHHHhhCCCCChHHHHHHHHHhCCchHhHhhcc
Q 002627          209 YILAELVCVLREVRPFFSTGDAMWCLLICDMNVSHACAMD  248 (899)
Q Consensus       209 rSL~GLVafL~~~~P~LS~~dAm~yLL~ad~dL~~A~a~~  248 (899)
                      -|+.-|+-|...+.|+.=.-|-|.-|...+=||..-..+.
T Consensus        37 ~s~~rllrli~~~kpDIvAvDnvyEL~~~~~~li~il~~l   76 (652)
T COG2433          37 VSLRRLLRLIWSYKPDIVAVDNVYELGADKRDLIRILKRL   76 (652)
T ss_pred             hhHHHHHHHHHhcCCCEEEeccHHHHhcChhHHHHHHHhC
Confidence            6888888999999999888888888888777887766665

>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=94.02  E-value=2  Score=47.36  Aligned_cols=120  Identities=21%  Similarity=0.335  Sum_probs=88.2

Q ss_pred             cCCCCchhHHHHHHhHHHHHHHHHHHHhhHHHhHHHHHH----------HHHhhhcHHHHHHHHHhHHHHHHHHHHHHHh
Q 002627          540 LVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQA----------ARRLSKDKAELKTLRQEKEEVERLKKEKQIL  609 (899)
Q Consensus       540 ~vp~D~Kde~il~Lv~r~~el~~~~~~~~dWA~qkvmQa----------a~rl~~d~~eLk~LR~EkEe~eRlkk~k~~l  609 (899)
                      |+-.+=||=+--+-+..|+|||.||.--+-=-+||-+|.          -++...++.+.-.|.+|.   ++|-..-.-|
T Consensus         3 Wa~eEWKeGL~~~aLqKIqelE~QldkLkKE~qQrQfQleSlEAaLqKQKqK~e~ek~e~s~LkREn---q~l~e~c~~l   79 (307)
T PF10481_consen    3 WAVEEWKEGLPTRALQKIQELEQQLDKLKKERQQRQFQLESLEAALQKQKQKVEEEKNEYSALKREN---QSLMESCENL   79 (307)
T ss_pred             chHhHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhhhhhhhh---hhHHHHHHHH
Confidence            666666787888889999999999998888888887763          245566666666666552   2222211221


Q ss_pred             HHHhhhh----HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          610 EENTMKK----LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESA  663 (899)
Q Consensus       610 ee~t~kk----L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~  663 (899)
                       |.+|.|    |.--|..|.-..|||..+.-.+.+|+.++..++.|+|.+...+....
T Consensus        80 -ek~rqKlshdlq~Ke~qv~~lEgQl~s~Kkqie~Leqelkr~KsELErsQ~~~~~~~  136 (307)
T PF10481_consen   80 -EKTRQKLSHDLQVKESQVNFLEGQLNSCKKQIEKLEQELKRCKSELERSQQAASSGD  136 (307)
T ss_pred             -HHHHHHhhHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCC
Confidence             234555    44468888899999999999999999999999999998888777544

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 [].

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=93.99  E-value=12  Score=41.18  Aligned_cols=29  Identities=31%  Similarity=0.410  Sum_probs=19.9

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          628 SGQVERANSAVRRLEVENTALRQEMEAAK  656 (899)
Q Consensus       628 s~Q~~ra~~~vr~lE~ena~lr~emEaak  656 (899)
                      .+||+.+....|.|+.+|..++-|.|+-|
T Consensus        51 esqL~q~etrnrdl~t~nqrl~~E~e~~K   79 (333)
T KOG1853|consen   51 ESQLDQLETRNRDLETRNQRLTTEQERNK   79 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34666667777777777777777666654

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=93.98  E-value=6.2  Score=49.00  Aligned_cols=31  Identities=16%  Similarity=0.278  Sum_probs=24.0

Q ss_pred             hhHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Q 002627          615 KKLSEMENALCKASGQVERANSAVRRLEVEN  645 (899)
Q Consensus       615 kkL~e~E~al~kas~Q~~ra~~~vr~lE~en  645 (899)
                      .+|.+++.+|..+..+...+.+.+..++...
T Consensus       237 ~~L~~l~~ql~~a~~~~~~a~a~~~~l~~~l  267 (754)
T TIGR01005       237 QQLAELNTELSRARANRAAAEGTADSVKKAL  267 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5688888888888888888888777776543

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.

>PF04641 Rtf2: Rtf2 RING-finger

Probab=93.84  E-value=0.059  Score=58.61  Aligned_cols=49  Identities=20%  Similarity=0.334  Sum_probs=39.4

Q ss_pred             cccccccccccccc----cceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccc
Q 002627          839 VKRERECVMCLSEE----MSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR  890 (899)
Q Consensus       839 l~~~~~CvIC~d~~----~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~  890 (899)
                      ......|+|+....    .-++|.||||+ ||..|...+.  ....||+|..+|..
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V-~s~~alke~k--~~~~Cp~c~~~f~~  162 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCV-FSEKALKELK--KSKKCPVCGKPFTE  162 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCE-eeHHHHHhhc--ccccccccCCcccc
Confidence            35567899998754    55788899999 9999999884  23579999999984

>PRK12704 phosphodiesterase; Provisional

Probab=93.82  E-value=11  Score=45.39  Aligned_cols=8  Identities=25%  Similarity=0.198  Sum_probs=3.1

Q ss_pred             cceEEecC
Q 002627          853 MSVVFLPC  860 (899)
Q Consensus       853 ~~vvllPC  860 (899)
                      ..+|++.|
T Consensus       250 p~~v~ls~  257 (520)
T PRK12704        250 PEAVILSG  257 (520)
T ss_pred             CCeEEEec
Confidence            33344433

>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B

Probab=93.82  E-value=0.033  Score=46.19  Aligned_cols=43  Identities=35%  Similarity=0.811  Sum_probs=22.2

Q ss_pred             ccccccc--ccceEEec--CCCcccChhhHHHhhhcCCCCCCCCcccc
Q 002627          845 CVMCLSE--EMSVVFLP--CAHQVVCTTCNELHEKQGMKDCPSCRSPI  888 (899)
Q Consensus       845 CvIC~d~--~~~vvllP--CgH~~~C~~Ca~~l~~~~~~kCPiCR~~I  888 (899)
                      |++|.+.  ..+.-|.|  ||+. +|..|...+.......||.||.+.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~-IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQ-ICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS-----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCc-HHHHHHHHHHhccCCCCCCCCCCC
Confidence            5677764  34444555  8888 999999998765567999999875

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

Probab=93.79  E-value=22  Score=43.64  Aligned_cols=43  Identities=16%  Similarity=0.159  Sum_probs=30.5

Q ss_pred             hhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          615 KKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKL  657 (899)
Q Consensus       615 kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl  657 (899)
                      .=|.+-|+.|.|+.+.++.+.+.+..|..+=...|..+.....
T Consensus       387 ~lL~d~e~ni~kL~~~v~~s~~rl~~L~~qWe~~R~pL~~e~r  429 (594)
T PF05667_consen  387 ELLPDAEENIAKLQALVEASEQRLVELAQQWEKHRAPLIEEYR  429 (594)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence            3366677888888888888888888887776666665554433

>PF07111 HCR: Alpha helical coiled-coil rod protein (HCR); InterPro: IPR009800 This family consists of several mammalian alpha helical coiled-coil rod HCR proteins

Probab=93.77  E-value=21  Score=44.06  Aligned_cols=46  Identities=26%  Similarity=0.424  Sum_probs=31.2

Q ss_pred             CCchhHHHHHHhHHHHHHHHHHHHhhHH-HhHHHHHHHHHhhhcHHHHHHHH
Q 002627          543 QDKRDEIILKLIPRVRELHNQLHEWTEW-ANQKVMQAARRLSKDKAELKTLR  593 (899)
Q Consensus       543 ~D~Kde~il~Lv~r~~el~~~~~~~~dW-A~qkvmQaa~rl~~d~~eLk~LR  593 (899)
                      .-+--|||--=++-++-|+.+++.-.+| .+||.     ||...-.||..|+
T Consensus        61 lsqqaelis~qlqE~rrle~e~~~lre~sl~qkm-----rLe~qa~Ele~l~  107 (739)
T PF07111_consen   61 LSQQAELISRQLQELRRLEEEVRALRETSLQQKM-----RLEAQAEELEALA  107 (739)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-----HHHHHHHHHHHHH
Confidence            3455688866677788889999988888 44544     4554445666664

The function of HCR is unknown but it has been implicated in psoriasis in humans and is thought to affect keratinocyte proliferation [].; GO: 0030154 cell differentiation, 0005634 nucleus, 0005737 cytoplasm

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

Probab=93.73  E-value=28  Score=44.87  Aligned_cols=109  Identities=20%  Similarity=0.310  Sum_probs=62.4

Q ss_pred             hHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHH------------
Q 002627          616 KLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSK-------REKKT------------  676 (899)
Q Consensus       616 kL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~e-------kEkk~------------  676 (899)
                      +|-+.|..+.++...|.+-++.+.+++.....--.+.++-|   .|.....+++++       ++.+.            
T Consensus       221 qLfhvE~~i~k~~~els~~~~ei~~~~~~~d~~e~ei~~~k---~e~~ki~re~~~~Dk~i~~ke~~l~erp~li~~ke~  297 (1141)
T KOG0018|consen  221 ELFHVEACIEKANDELSRLNAEIPKLKERMDKKEREIRVRK---KERGKIRRELQKVDKKISEKEEKLAERPELIKVKEN  297 (1141)
T ss_pred             HHhhhhhhHhhhhHHHHHHhhhhHHHHhhhhHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhhcchh
Confidence            46777777777777777777777776654333333333322   111112222222       22221            


Q ss_pred             ----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          677 ----QMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEK  727 (899)
Q Consensus       677 ----~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqk  727 (899)
                          -+++...++.+.-.+......+..+.+++.++..+....+.++.++++..+
T Consensus       298 ~~~~k~rl~~~~k~i~~~kk~~~~~~~~ie~~ek~l~av~~~~~~fekei~~~~q  352 (1141)
T KOG0018|consen  298 ASHLKKRLEEIEKDIETAKKDYRALKETIERLEKELKAVEGAKEEFEKEIEERSQ  352 (1141)
T ss_pred             hccchhHHHHhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence                245666666666666667777777777777777777666666666666555

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=93.70  E-value=13  Score=40.81  Aligned_cols=46  Identities=15%  Similarity=0.231  Sum_probs=38.3

Q ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          618 SEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESA  663 (899)
Q Consensus       618 ~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~  663 (899)
                      .+||.+|..+..++-.+.+.+++|.+|...++...|....+-..++
T Consensus        48 aelesqL~q~etrnrdl~t~nqrl~~E~e~~Kek~e~q~~q~y~q~   93 (333)
T KOG1853|consen   48 AELESQLDQLETRNRDLETRNQRLTTEQERNKEKQEDQRVQFYQQE   93 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3688889999999999999999999999999999987766554443

>KOG0982 consensus Centrosomal protein Nuf [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=93.56  E-value=19  Score=42.20  Aligned_cols=35  Identities=26%  Similarity=0.245  Sum_probs=29.7

Q ss_pred             HHHHHhHHHHHHHHHHHHhhHHHhHHHHHHHHHhh
Q 002627          549 IILKLIPRVRELHNQLHEWTEWANQKVMQAARRLS  583 (899)
Q Consensus       549 ~il~Lv~r~~el~~~~~~~~dWA~qkvmQaa~rl~  583 (899)
                      -.+-||+|+-.||.|+++--=-|-+.+-.-++|=.
T Consensus       251 EnlqLvhR~h~LEEq~reqElraeE~l~Ee~rrhr  285 (502)
T KOG0982|consen  251 ENLQLVHRYHMLEEQRREQELRAEESLSEEERRHR  285 (502)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHH
Confidence            35789999999999999998888888887777643

>PF05262 Borrelia_P83: Borrelia P83/100 protein; InterPro: IPR007926 This family consists of several Borrelia P83/P100 antigen proteins

Probab=93.48  E-value=6.1  Score=47.12  Aligned_cols=11  Identities=18%  Similarity=-0.121  Sum_probs=5.0

Q ss_pred             ccccccccccc
Q 002627          840 KRERECVMCLS  850 (899)
Q Consensus       840 ~~~~~CvIC~d  850 (899)
                      .....=.||..
T Consensus       389 ~~S~~~~Ir~r  399 (489)
T PF05262_consen  389 KRSPVNGIRGR  399 (489)
T ss_pred             cccccceeccc
Confidence            33444455553

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

Probab=93.37  E-value=13  Score=39.57  Aligned_cols=111  Identities=15%  Similarity=0.178  Sum_probs=66.1

Q ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          620 MENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKR  699 (899)
Q Consensus       620 ~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~  699 (899)
                      +-.+|.-+..-.+-.....--++..+..+...|++...+-.|....-.+.-.|-.....+|...|.++....+-.+..-.
T Consensus        30 a~~KL~Eaeq~~dE~er~~Kv~enr~~kdEE~~e~~e~qLkEAk~iaE~adrK~eEVarkL~iiE~dLE~~eeraE~~Es  109 (205)
T KOG1003|consen   30 ALQKLEEAEQAADESERGMKVIENRAQKLEEKMEAQEAQLKEAKHIAEKADRKYEEVARKLVIIEGELERAEERAEAAES  109 (205)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            33333333333444444445555555556666666655555554444444444444456777778888888877778888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          700 KVVQLLQELDQAKALQEQLEARWRQEEKAKE  730 (899)
Q Consensus       700 KLa~LeqELeqak~~~kqlE~kwrQeqkake  730 (899)
                      ++.+|..++..+..-++.++..-....+..+
T Consensus       110 ~~~eLeEe~~~~~~nlk~l~~~ee~~~q~~d  140 (205)
T KOG1003|consen  110 QSEELEEDLRILDSNLKSLSAKEEKLEQKEE  140 (205)
T ss_pred             HHHHHHHHHHHhHhHHHHHHHHHHHHhhhHH
Confidence            8888888877777777776655444443333

>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF

Probab=93.35  E-value=15  Score=44.09  Aligned_cols=13  Identities=15%  Similarity=0.153  Sum_probs=5.9

Q ss_pred             ccccceEEecCCC
Q 002627          850 SEEMSVVFLPCAH  862 (899)
Q Consensus       850 d~~~~vvllPCgH  862 (899)
                      |....+|++.|+.
T Consensus       241 ddtp~~v~ls~fd  253 (514)
T TIGR03319       241 DDTPEAVILSGFD  253 (514)
T ss_pred             cCCCCeEEecCCc
Confidence            3344445555543

>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=93.32  E-value=3.7  Score=40.29  Aligned_cols=27  Identities=41%  Similarity=0.497  Sum_probs=19.5

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          629 GQVERANSAVRRLEVENTALRQEMEAA  655 (899)
Q Consensus       629 ~Q~~ra~~~vr~lE~ena~lr~emEaa  655 (899)
                      .-+++-.+.+|++|.|.+.++.+.++.
T Consensus        16 ~~ve~L~s~lr~~E~E~~~l~~el~~l   42 (120)
T PF12325_consen   16 QLVERLQSQLRRLEGELASLQEELARL   42 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            346777778888888888887755443

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 [].

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

Probab=93.31  E-value=9.9  Score=38.24  Aligned_cols=10  Identities=20%  Similarity=0.561  Sum_probs=6.2

Q ss_pred             HHHHHHhHHH
Q 002627          589 LKTLRQEKEE  598 (899)
Q Consensus       589 Lk~LR~EkEe  598 (899)
                      |.+||.|++.
T Consensus         2 m~~lk~E~d~   11 (143)
T PF12718_consen    2 MQALKLEADN   11 (143)
T ss_pred             hHHHHHhHHH
Confidence            4566666665

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 [].

>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=93.30  E-value=25  Score=42.73  Aligned_cols=193  Identities=20%  Similarity=0.263  Sum_probs=91.8

Q ss_pred             HHhHHHHHHHHHHHHhhHHHhH-HHHHHHHHhhhcHHHHHHHHHhHHH---------------HHHHHHHHHHhHHH---
Q 002627          552 KLIPRVRELHNQLHEWTEWANQ-KVMQAARRLSKDKAELKTLRQEKEE---------------VERLKKEKQILEEN---  612 (899)
Q Consensus       552 ~Lv~r~~el~~~~~~~~dWA~q-kvmQaa~rl~~d~~eLk~LR~EkEe---------------~eRlkk~k~~lee~---  612 (899)
                      .|-.++.+++.++.+..+|... --.+|..=|.+=..++..|....+.               ++.|+.+-+-|.++   
T Consensus       165 ~Le~~L~~ie~~F~~f~~lt~~GD~~~A~eil~~l~~~~~~l~~~~e~IP~l~~~l~~~~P~ql~eL~~gy~~m~~~gy~  244 (560)
T PF06160_consen  165 ELEKQLENIEEEFSEFEELTENGDYLEAREILEKLKEETDELEEIMEDIPKLYKELQKEFPDQLEELKEGYREMEEEGYY  244 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhHHHHHHHHHHHHHHHHCCCC
Confidence            4577888889888888888766 4444444444444444444444333               33444444443333   


Q ss_pred             -----hhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          613 -----TMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQK  687 (899)
Q Consensus       613 -----t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk  687 (899)
                           --+++.++++.+..+...|+.  ..+-..+..+..|..+.+..--.-..-..+-..+.+.-......+....++-
T Consensus       245 l~~~~i~~~i~~i~~~l~~~~~~L~~--l~l~~~~~~~~~i~~~Id~lYd~le~E~~Ak~~V~~~~~~l~~~l~~~~~~~  322 (560)
T PF06160_consen  245 LEHLDIEEEIEQIEEQLEEALALLKN--LELDEVEEENEEIEERIDQLYDILEKEVEAKKYVEKNLKELYEYLEHAKEQN  322 (560)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHc--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence                 233355555555554443321  1222233333333333333333333333333444445555556666666666


Q ss_pred             HHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          688 ALFQEELVTEK----------RKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQI  746 (899)
Q Consensus       688 ~~LQEEL~~eK----------~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~ErEra  746 (899)
                      ..|..|+..-+          .....+.+++..+......+...+.+....--.+...++.....++.+
T Consensus       323 ~~l~~e~~~v~~sY~L~~~e~~~~~~l~~~l~~l~~~~~~~~~~i~~~~~~yS~i~~~l~~~~~~l~~i  391 (560)
T PF06160_consen  323 KELKEELERVSQSYTLNHNELEIVRELEKQLKELEKRYEDLEERIEEQQVPYSEIQEELEEIEEQLEEI  391 (560)
T ss_pred             HHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHHHHHHH
Confidence            66666644322          223344445555555444444444443333333333333333333333

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

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=93.29  E-value=13  Score=39.34  Aligned_cols=41  Identities=20%  Similarity=0.265  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          679 KFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLE  719 (899)
Q Consensus       679 ~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE  719 (899)
                      .+..++.++..+...+...+..+..++..+.+++.....+.
T Consensus        99 ~~~~l~~~~~~~~~~~~~l~~~l~~l~~kl~e~k~k~~~l~  139 (221)
T PF04012_consen   99 QAERLEQQLDQAEAQVEKLKEQLEELEAKLEELKSKREELK  139 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333344444444444444444444444444444433333

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 [].

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

Probab=93.24  E-value=45  Score=45.56  Aligned_cols=165  Identities=19%  Similarity=0.214  Sum_probs=100.0

Q ss_pred             HHHHHHHHHhhHHHh---HHHHHHHHHhhhcHHHHHHHHHhHHHHHHHHHHHHHhHHHhhhhHHHHHHHHHHhhhhHHHH
Q 002627          558 RELHNQLHEWTEWAN---QKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERA  634 (899)
Q Consensus       558 ~el~~~~~~~~dWA~---qkvmQaa~rl~~d~~eLk~LR~EkEe~eRlkk~k~~lee~t~kkL~e~E~al~kas~Q~~ra  634 (899)
                      +.+++++-+..+--.   ..-+++-..+..-+.++..||.++.+++.-|....-+.+.-..+|..++..+.....|+-.+
T Consensus        76 ~~~~~e~s~l~~~L~~~~~~~~~l~~~~~~~~~~~~~l~~~~se~~~qkr~l~~~le~~~~ele~l~~~n~~l~~ql~ss  155 (1822)
T KOG4674|consen   76 KLLRNELSDLRNELEQLSSERSNLSWEIDALKLENSQLRRAKSELQEQKRQLMELLERQKAELEALESENKDLNDQLKSS  155 (1822)
T ss_pred             HHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444433333   33455666677777888889999999997777777777777778999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH
Q 002627          635 NSAVRRLEVENTALRQEMEAAK--LRAAESAASCQE-----VSKREKKTQMKFQSWEKQ----KALFQEELVTEKRKVVQ  703 (899)
Q Consensus       635 ~~~vr~lE~ena~lr~emEaak--l~a~Es~~~~~e-----~~ekEkk~~k~l~~~EkQ----k~~LQEEL~~eK~KLa~  703 (899)
                      +..+-.++.-.+++..+--..+  +.-.+++.+..+     +.+...+--.++...+++    +..|+..|..-+..+..
T Consensus       156 ~~~~~e~e~r~~e~~s~~vs~q~k~~rl~QEksll~s~~~wL~~eL~~~~ekll~~~re~s~~~~~L~~~L~~~~~~~~~  235 (1822)
T KOG4674|consen  156 TKTLSELEARLQETQSEDVSSQLKEERLEQEKSLLESENKWLSRELSKVNEKLLSLRREHSIEVEQLEEKLSDLKESLAE  235 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHH
Confidence            9999998877766655443322  222222222211     111122223445555555    55555555555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 002627          704 LLQELDQAKALQEQLEARW  722 (899)
Q Consensus       704 LeqELeqak~~~kqlE~kw  722 (899)
                      ++.....+++...++..++
T Consensus       236 ~q~~~~~l~q~~~eLs~~i  254 (1822)
T KOG4674|consen  236 LQEKNKSLKQQNEELSKKI  254 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555433

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

Probab=93.21  E-value=18  Score=40.87  Aligned_cols=16  Identities=19%  Similarity=0.542  Sum_probs=9.0

Q ss_pred             HHHHHHHHHHHHHHhh
Q 002627          769 KDDIHRLEKEISQLRL  784 (899)
Q Consensus       769 k~dikrLEqElsrLr~  784 (899)
                      ..++.+|..++..|..
T Consensus       275 ~~Ev~~Lk~~~~~Le~  290 (325)
T PF08317_consen  275 RSEVKRLKAKVDALEK  290 (325)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            4456666666655543

>KOG0825 consensus PHD Zn-finger protein [General function prediction only]

Probab=93.17  E-value=0.022  Score=68.77  Aligned_cols=51  Identities=22%  Similarity=0.335  Sum_probs=38.2

Q ss_pred             cccccccccccccce---EEecCCCcccChhhHHHhhhcCCCCCCCCcccccceEe
Q 002627          841 RERECVMCLSEEMSV---VFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIP  893 (899)
Q Consensus       841 ~~~~CvIC~d~~~~v---vllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~ir  893 (899)
                      ....|.+|+....+-   .=.+|+|+ ||..|+..|... ..+||+||..|..++.
T Consensus       122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~-FC~~Ci~sWsR~-aqTCPiDR~EF~~v~V  175 (1134)
T KOG0825|consen  122 VENQCPNCLKSCNDQLEESEKHTAHY-FCEECVGSWSRC-AQTCPVDRGEFGEVKV  175 (1134)
T ss_pred             hhhhhhHHHHHHHHHhhccccccccc-cHHHHhhhhhhh-cccCchhhhhhheeee
Confidence            445688887654432   22589999 999999998753 4699999999987653

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=93.16  E-value=22  Score=46.52  Aligned_cols=89  Identities=18%  Similarity=0.280  Sum_probs=45.5

Q ss_pred             HHhhhhHHHHHHHHHHhh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Q 002627          611 ENTMKKLSEMENALCKAS-GQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKT-QMKFQSWEKQKA  688 (899)
Q Consensus       611 e~t~kkL~e~E~al~kas-~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~-~k~l~~~EkQk~  688 (899)
                      ..++.+|.+.++.|.... ..-.-..+..-.|+.|.+.+..+.+..++.-. +...-+++.+..+.. .++++..|.+.+
T Consensus       147 ~~~~~~l~~i~~~L~~~~~~~~~l~~a~~~~lqae~~~l~~~~~~l~~~l~-s~~~~~~L~~~q~dl~~~~~~~l~~~~~  225 (1109)
T PRK10929        147 TEARRQLNEIERRLQTLGTPNTPLAQAQLTALQAESAALKALVDELELAQL-SANNRQELARLRSELAKKRSQQLDAYLQ  225 (1109)
T ss_pred             HHHHHHHHHHHHHHhCCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHh-ccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345666666666554411 00111122223334444444444444333332 444555666555555 567777788888


Q ss_pred             HHHHHHHHHHHH
Q 002627          689 LFQEELVTEKRK  700 (899)
Q Consensus       689 ~LQEEL~~eK~K  700 (899)
                      .||+.|+.-+.+
T Consensus       226 ~Lq~~in~kR~~  237 (1109)
T PRK10929        226 ALRNQLNSQRQR  237 (1109)
T ss_pred             HHHHHHHHHHHH
Confidence            888887765554

>KOG3002 consensus Zn finger protein [General function prediction only]

Probab=93.15  E-value=0.046  Score=60.79  Aligned_cols=47  Identities=28%  Similarity=0.735  Sum_probs=38.5

Q ss_pred             cccccccccccccccceEEecC--CCcccChhhHHHhhhcCCCCCCCCcccccce
Q 002627          839 VKRERECVMCLSEEMSVVFLPC--AHQVVCTTCNELHEKQGMKDCPSCRSPIQRR  891 (899)
Q Consensus       839 l~~~~~CvIC~d~~~~vvllPC--gH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~  891 (899)
                      ..+..+|+||.+.-.-.++ -|  ||+ .|..|...+    ..+||.||.+|+.+
T Consensus        45 ~~~lleCPvC~~~l~~Pi~-QC~nGHl-aCssC~~~~----~~~CP~Cr~~~g~~   93 (299)
T KOG3002|consen   45 DLDLLDCPVCFNPLSPPIF-QCDNGHL-ACSSCRTKV----SNKCPTCRLPIGNI   93 (299)
T ss_pred             chhhccCchhhccCcccce-ecCCCcE-ehhhhhhhh----cccCCccccccccH
Confidence            4567889999998877776 56  799 999999764    36999999999854

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

Probab=93.15  E-value=15  Score=39.79  Aligned_cols=45  Identities=22%  Similarity=0.262  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          617 LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAE  661 (899)
Q Consensus       617 L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~E  661 (899)
                      +-+|+..|.++...+.++-+..+.+|++...+..+++--.-.|..
T Consensus        33 ird~~~~l~~ar~~~A~~~a~~k~~e~~~~~~~~~~~k~e~~A~~   77 (225)
T COG1842          33 IRDMESELAKARQALAQAIARQKQLERKLEEAQARAEKLEEKAEL   77 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            556889999999999999999999998888888777655544443

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

Probab=93.12  E-value=1.9  Score=48.46  Aligned_cols=16  Identities=13%  Similarity=0.293  Sum_probs=9.1

Q ss_pred             HHHHHHHHHHHHHhhc
Q 002627          770 DDIHRLEKEISQLRLK  785 (899)
Q Consensus       770 ~dikrLEqElsrLr~k  785 (899)
                      ..+..+.+++.+|+..
T Consensus       120 ~q~~~~~~~L~~L~kt  135 (314)
T PF04111_consen  120 NQYEYASNQLDRLRKT  135 (314)
T ss_dssp             HHHHHHHHHHHCHHT-
T ss_pred             HHHHHHHHHHHHHHhc
Confidence            3455666666666654

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.

>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=93.09  E-value=0.058  Score=58.86  Aligned_cols=50  Identities=22%  Similarity=0.469  Sum_probs=37.4

Q ss_pred             ccccccccccccccc-eEEecCCCcccChhhHHHhhhcC-CCCCCCCcccccc
Q 002627          840 KRERECVMCLSEEMS-VVFLPCAHQVVCTTCNELHEKQG-MKDCPSCRSPIQR  890 (899)
Q Consensus       840 ~~~~~CvIC~d~~~~-vvllPCgH~~~C~~Ca~~l~~~~-~~kCPiCR~~I~~  890 (899)
                      ....+|++|-+.+.. .++.||||. +|+.|+..-.... .-.||.|..+...
T Consensus       237 t~~~~C~~Cg~~PtiP~~~~~C~Hi-yCY~Ci~ts~~~~asf~Cp~Cg~~~~~  288 (298)
T KOG2879|consen  237 TSDTECPVCGEPPTIPHVIGKCGHI-YCYYCIATSRLWDASFTCPLCGENVEP  288 (298)
T ss_pred             cCCceeeccCCCCCCCeeeccccce-eehhhhhhhhcchhhcccCccCCCCcc
Confidence            456789999998754 566689998 9999998643211 1289999988764

>PTZ00266 NIMA-related protein kinase; Provisional

Probab=93.08  E-value=1.6  Score=56.01  Aligned_cols=11  Identities=18%  Similarity=0.220  Sum_probs=5.8

Q ss_pred             cccCCCCchhH
Q 002627          538 EHLVPQDKRDE  548 (899)
Q Consensus       538 ~~~vp~D~Kde  548 (899)
                      +.|-+...|++
T Consensus       424 g~~g~r~eke~  434 (1021)
T PTZ00266        424 GHYGGRVDKDH  434 (1021)
T ss_pred             CccccccchhH
Confidence            34555555544

>KOG1103 consensus Predicted coiled-coil protein [Function unknown]

Probab=92.95  E-value=21  Score=40.87  Aligned_cols=40  Identities=20%  Similarity=0.272  Sum_probs=24.8

Q ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          619 EMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLR  658 (899)
Q Consensus       619 e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~  658 (899)
                      .+|..-..+..|++=--..+++.|.+...+..+.|-.|.+
T Consensus       143 ~LEKEReqL~QQiEFe~~e~kK~E~~k~Kl~~qLeeEk~R  182 (561)
T KOG1103|consen  143 HLEKEREQLQQQIEFEIEEKKKAEIAKDKLEMQLEEEKKR  182 (561)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444446677777777777777776666666555554433

>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=92.91  E-value=4.5  Score=50.40  Aligned_cols=30  Identities=13%  Similarity=0.210  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          671 KREKKTQMKFQSWEKQKALFQEELVTEKRK  700 (899)
Q Consensus       671 ekEkk~~k~l~~~EkQk~~LQEEL~~eK~K  700 (899)
                      +-|++-.+.++.+..++..++.-|+..|.|
T Consensus       632 ~AEr~~~~EL~~~~~~l~~l~~si~~lk~k  661 (717)
T PF10168_consen  632 EAEREFKKELERMKDQLQDLKASIEQLKKK  661 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444443

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 [].

>PF05911 DUF869: Plant protein of unknown function (DUF869); InterPro: IPR008587 This family consists of a number of sequences found in plants

Probab=92.89  E-value=6  Score=49.60  Aligned_cols=101  Identities=26%  Similarity=0.354  Sum_probs=70.8

Q ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          619 EMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEK  698 (899)
Q Consensus       619 e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK  698 (899)
                      ++|-.|.++..|++...+.++++|...+.++.+++.++-+....++.+.-..       .....++.+...++.|+....
T Consensus       607 ~Le~~L~~~~d~lE~~~~qL~E~E~~L~eLq~eL~~~keS~s~~E~ql~~~~-------e~~e~le~~~~~~e~E~~~l~  679 (769)
T PF05911_consen  607 ELEMELASCQDQLESLKNQLKESEQKLEELQSELESAKESNSLAETQLKAMK-------ESYESLETRLKDLEAEAEELQ  679 (769)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHhhhhhHHHHHHHHHH
Confidence            4666777788888888888888888888888888877766555544333222       233445666667777777778


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          699 RKVVQLLQELDQAKALQEQLEARWRQEE  726 (899)
Q Consensus       699 ~KLa~LeqELeqak~~~kqlE~kwrQeq  726 (899)
                      .|+..|+.+++.-+.....+..+.+..+
T Consensus       680 ~Ki~~Le~Ele~er~~~~e~~~kc~~Le  707 (769)
T PF05911_consen  680 SKISSLEEELEKERALSEELEAKCRELE  707 (769)
T ss_pred             HHHHHHHHHHHHHHhcchhhhhHHHHHH
Confidence            8888888888877777766666666544

The function of this family is unknown.

>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=92.84  E-value=15  Score=39.77  Aligned_cols=30  Identities=10%  Similarity=0.312  Sum_probs=12.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          683 WEKQKALFQEELVTEKRKVVQLLQELDQAK  712 (899)
Q Consensus       683 ~EkQk~~LQEEL~~eK~KLa~LeqELeqak  712 (899)
                      ...++..++++|+..+.++..+.+.++..+
T Consensus        75 l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~  104 (302)
T PF10186_consen   75 LRERIERLRKRIEQKRERLEELRESLEQRR  104 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444444444444444444333

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

>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=92.82  E-value=0.033  Score=63.57  Aligned_cols=36  Identities=33%  Similarity=0.739  Sum_probs=29.5

Q ss_pred             cccccccccccccccc---ceEEecCCCcccChhhHHHhh
Q 002627          838 GVKRERECVMCLSEEM---SVVFLPCAHQVVCTTCNELHE  874 (899)
Q Consensus       838 ~l~~~~~CvIC~d~~~---~vvllPCgH~~~C~~Ca~~l~  874 (899)
                      .......|.||++...   .++++||+|+ ||..|...+.
T Consensus       180 F~~slf~C~ICf~e~~G~~c~~~lpC~Hv-~Ck~C~kdY~  218 (445)
T KOG1814|consen  180 FVNSLFDCCICFEEQMGQHCFKFLPCSHV-FCKSCLKDYF  218 (445)
T ss_pred             HHhhcccceeeehhhcCcceeeecccchH-HHHHHHHHHH
Confidence            3456678999999754   5899999999 9999988754

>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=92.80  E-value=16  Score=41.44  Aligned_cols=143  Identities=22%  Similarity=0.219  Sum_probs=66.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHHHH
Q 002627          637 AVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQ---------------------MKFQSWEKQKALFQEELV  695 (899)
Q Consensus       637 ~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~---------------------k~l~~~EkQk~~LQEEL~  695 (899)
                      ++.-|-.+.+.++.|++.=|++|..=...++.+.++.+...                     ..+.....+...|+.|+.
T Consensus        10 AL~IL~~eLe~cq~ErDqyKlMAEqLqer~q~LKkk~~el~~~~~~~~d~~~~~~~~~~~La~lL~~sre~Nk~L~~Ev~   89 (319)
T PF09789_consen   10 ALLILSQELEKCQSERDQYKLMAEQLQERYQALKKKYRELIQEAAGFGDPSIPPEKENKNLAQLLSESREQNKKLKEEVE   89 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccCCccCCcccchhhHHHHHHHHHHHHHHHHHHHH
Confidence            34445555556677777777775544444444444333222                     112222233334444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhHHHHhhhhhHH
Q 002627          696 TEKRKVVQLLQELDQAKALQEQLEA-----RWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKD  770 (899)
Q Consensus       696 ~eK~KLa~LeqELeqak~~~kqlE~-----kwrQeqkakeE~laqaE~ER~ErEraE~~~k~keealr~K~E~E~qr~k~  770 (899)
                      ..+.++.+++-+..=++..+...+.     ..+..-...+.++.++|..+.+.++++...+.-+++. .....|.-.|+.
T Consensus        90 ~Lrqkl~E~qGD~KlLR~~la~~r~~~~~~~~~~~~~ere~lV~qLEk~~~q~~qLe~d~qs~lDEk-eEl~~ERD~yk~  168 (319)
T PF09789_consen   90 ELRQKLNEAQGDIKLLREKLARQRVGDEGIGARHFPHEREDLVEQLEKLREQIEQLERDLQSLLDEK-EELVTERDAYKC  168 (319)
T ss_pred             HHHHHHHHHhchHHHHHHHHHhhhhhhccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Confidence            4444444433332222222222211     0011113455667777777777777777665433322 223334445556


Q ss_pred             HHHHHHHHHH
Q 002627          771 DIHRLEKEIS  780 (899)
Q Consensus       771 dikrLEqEls  780 (899)
                      .+.||..|++
T Consensus       169 K~~RLN~ELn  178 (319)
T PF09789_consen  169 KAHRLNHELN  178 (319)
T ss_pred             HHHHHHHHHH
Confidence            6666666665

>PRK00106 hypothetical protein; Provisional

Probab=92.73  E-value=29  Score=42.07  Aligned_cols=11  Identities=45%  Similarity=0.558  Sum_probs=4.8

Q ss_pred             hcHHHHHHHHH
Q 002627          584 KDKAELKTLRQ  594 (899)
Q Consensus       584 ~d~~eLk~LR~  594 (899)
                      ++-+||-.|..
T Consensus        30 ~~~~~~~~~~A   40 (535)
T PRK00106         30 KEAAELTLLNA   40 (535)
T ss_pred             HHHHHHHHHHH
Confidence            33444444443

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

Probab=92.73  E-value=32  Score=42.54  Aligned_cols=11  Identities=36%  Similarity=0.456  Sum_probs=4.6

Q ss_pred             HHHhHHHHHHH
Q 002627          592 LRQEKEEVERL  602 (899)
Q Consensus       592 LR~EkEe~eRl  602 (899)
                      .|...++++|.
T Consensus        93 ~r~~~~~~dr~  103 (716)
T KOG4593|consen   93 ARNYEAEVDRK  103 (716)
T ss_pred             HHHHHHHHHHH
Confidence            34444444443

>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=92.54  E-value=2.3  Score=44.43  Aligned_cols=52  Identities=19%  Similarity=0.342  Sum_probs=38.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          679 KFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKE  730 (899)
Q Consensus       679 ~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkake  730 (899)
                      .+...++-...+++|+.+.+..+.-++..+..++....++-.+|-+....-.
T Consensus       138 ~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~l~~En~~Lv~Rwm~~k~~eA  189 (194)
T PF08614_consen  138 ELKEKNKANEILQDELQALQLQLNMLEEKLRKLEEENRELVERWMQRKAQEA  189 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444566777888888888888888888888888888888888876554433

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.

>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]

Probab=92.54  E-value=0.073  Score=58.50  Aligned_cols=31  Identities=26%  Similarity=0.725  Sum_probs=27.3

Q ss_pred             ecCCCcccChhhHHHhhhcCCCCCCCCccccc
Q 002627          858 LPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQ  889 (899)
Q Consensus       858 lPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~  889 (899)
                      -||||. +|..|.+.+...+...||.|.....
T Consensus        21 n~C~H~-lCEsCvd~iF~~g~~~CpeC~~iLR   51 (300)
T KOG3800|consen   21 NECGHR-LCESCVDRIFSLGPAQCPECMVILR   51 (300)
T ss_pred             ccccch-HHHHHHHHHHhcCCCCCCcccchhh
Confidence            399999 9999999998888889999987653

>TIGR00634 recN DNA repair protein RecN

Probab=92.41  E-value=31  Score=41.79  Aligned_cols=8  Identities=38%  Similarity=0.314  Sum_probs=2.9

Q ss_pred             HHHHhHHH
Q 002627          591 TLRQEKEE  598 (899)
Q Consensus       591 ~LR~EkEe  598 (899)
                      .|+-+.+|
T Consensus       193 ~L~~ql~E  200 (563)
T TIGR00634       193 FLQFQLEE  200 (563)
T ss_pred             HHHHHHHH
Confidence            33333333

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

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

Probab=92.26  E-value=50  Score=43.68  Aligned_cols=48  Identities=19%  Similarity=0.258  Sum_probs=24.1

Q ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          623 ALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVS  670 (899)
Q Consensus       623 al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~  670 (899)
                      .+.....++..+-+.++.+|.+...+..+.-.......+....++-+.
T Consensus       865 e~k~~~~~~~~~l~~~~qle~~~~~l~e~~~~~~s~~~e~~~~~~~~~  912 (1294)
T KOG0962|consen  865 ELKEEKQKIERSLARLQQLEEDIEELSEEITRLDSKVKELLERIQPLK  912 (1294)
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHhhhcchh
Confidence            333334444444445555555555555555555555555554444333

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

Probab=92.21  E-value=2.4  Score=47.76  Aligned_cols=39  Identities=31%  Similarity=0.372  Sum_probs=18.8

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          617 LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAA  655 (899)
Q Consensus       617 L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaa  655 (899)
                      +.+.+..+.++..+.++....+.+||.+.+.+.+|++..
T Consensus        45 ~~~~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el~~l   83 (314)
T PF04111_consen   45 IEELEEELEKLEQEEEELLQELEELEKEREELDQELEEL   83 (314)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444455555555555555555554443

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.

>PRK10361 DNA recombination protein RmuC; Provisional

Probab=92.20  E-value=31  Score=41.20  Aligned_cols=61  Identities=16%  Similarity=0.135  Sum_probs=46.6

Q ss_pred             hHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          616 KLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKT  676 (899)
Q Consensus       616 kL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~  676 (899)
                      .+.+.+..+.....++.........++.+++++..+.|+.+..+.|..+.+.+..++-+..
T Consensus        54 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~le~~~~~~~ek~~~l~~~~~~L~~~  114 (475)
T PRK10361         54 QSEHWRAECELLNNEVRSLQSINTSLEADLREVTTRMEAAQQHADDKIRQMINSEQRLSEQ  114 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3556667777777888888888889999999999999988888888776666555554444

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.18  E-value=0.1  Score=56.14  Aligned_cols=48  Identities=19%  Similarity=0.311  Sum_probs=39.8

Q ss_pred             ccccccccccc----ccceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccc
Q 002627          841 RERECVMCLSE----EMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR  890 (899)
Q Consensus       841 ~~~~CvIC~d~----~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~  890 (899)
                      ..-.|+||.+.    ...+++-||||+ +|..|+..++... ..||+|..+...
T Consensus       220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~V-v~~ecvEklir~D-~v~pv~d~plkd  271 (303)
T KOG3039|consen  220 KRYICPVTRDTLTNTTPCAVLRPSGHV-VTKECVEKLIRKD-MVDPVTDKPLKD  271 (303)
T ss_pred             cceecccchhhhcCccceEEeccCCcE-eeHHHHHHhcccc-ccccCCCCcCcc
Confidence            45789999985    345788899999 9999999987654 489999998864

>PRK01156 chromosome segregation protein; Provisional

Probab=92.14  E-value=43  Score=42.60  Aligned_cols=25  Identities=20%  Similarity=0.341  Sum_probs=14.7

Q ss_pred             CCchhHHHHHHhHHHHHHHHHHHHh
Q 002627          543 QDKRDEIILKLIPRVRELHNQLHEW  567 (899)
Q Consensus       543 ~D~Kde~il~Lv~r~~el~~~~~~~  567 (899)
                      ++.++++|-.+-.++.++++++.+-
T Consensus       464 ~e~~~e~i~~~~~~i~~l~~~i~~l  488 (895)
T PRK01156        464 EEKSNHIINHYNEKKSRLEEKIREI  488 (895)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556666666666666666555543

>KOG0163 consensus Myosin class VI heavy chain [Cytoskeleton]

Probab=92.11  E-value=27  Score=43.56  Aligned_cols=19  Identities=21%  Similarity=0.312  Sum_probs=13.9

Q ss_pred             HHHHHHHhHHHHHHhhCCC
Q 002627          206 LEKYILAELVCVLREVRPF  224 (899)
Q Consensus       206 l~~rSL~GLVafL~~~~P~  224 (899)
                      |=.+=++=||+.+...+||
T Consensus       428 iYSkLFD~lV~~iNqsiPF  446 (1259)
T KOG0163|consen  428 IYSKLFDWLVGRINQSIPF  446 (1259)
T ss_pred             HHHHHHHHHHHHhhccccc
Confidence            4455577888888888886

>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]

Probab=92.05  E-value=0.043  Score=61.12  Aligned_cols=54  Identities=22%  Similarity=0.548  Sum_probs=44.8

Q ss_pred             ccccccccccccccccceEEe-cCCCcccChhhHHHhhhcCCCCCCCCcccccceEe
Q 002627          838 GVKRERECVMCLSEEMSVVFL-PCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIP  893 (899)
Q Consensus       838 ~l~~~~~CvIC~d~~~~vvll-PCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~ir  893 (899)
                      .+.....|.+|..-..++..+ -|-|. ||..|+...... ...||.|...|.+...
T Consensus        11 ~~n~~itC~LC~GYliDATTI~eCLHT-FCkSCivk~l~~-~~~CP~C~i~ih~t~p   65 (331)
T KOG2660|consen   11 ELNPHITCRLCGGYLIDATTITECLHT-FCKSCIVKYLEE-SKYCPTCDIVIHKTHP   65 (331)
T ss_pred             hcccceehhhccceeecchhHHHHHHH-HHHHHHHHHHHH-hccCCccceeccCccc
Confidence            456678899999988886655 49999 999999988765 5799999999988763

>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]

Probab=92.02  E-value=0.057  Score=66.03  Aligned_cols=45  Identities=27%  Similarity=0.646  Sum_probs=37.6

Q ss_pred             cccccccccccceEEecCCCcccChhhHHHhhhcC-CCCCCCCccccc
Q 002627          843 RECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQG-MKDCPSCRSPIQ  889 (899)
Q Consensus       843 ~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~-~~kCPiCR~~I~  889 (899)
                      ..|.+|.+ ....++.+|+|. +|..|........ ...||+||..+.
T Consensus       455 ~~c~ic~~-~~~~~it~c~h~-~c~~c~~~~i~~~~~~~~~~cr~~l~  500 (674)
T KOG1001|consen  455 HWCHICCD-LDSFFITRCGHD-FCVECLKKSIQQSENAPCPLCRNVLK  500 (674)
T ss_pred             cccccccc-cccceeecccch-HHHHHHHhccccccCCCCcHHHHHHH
Confidence            78999999 888899999999 9999998765443 346999998765

>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]

Probab=91.94  E-value=0.057  Score=63.07  Aligned_cols=49  Identities=24%  Similarity=0.545  Sum_probs=40.2

Q ss_pred             cccccccccccccccceEEecCCCcccChhhHHHhh----hcCCCCCCCCcccc
Q 002627          839 VKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHE----KQGMKDCPSCRSPI  888 (899)
Q Consensus       839 l~~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~----~~~~~kCPiCR~~I  888 (899)
                      ......|.+|.+...+.+...|.|. ||.-|...+.    .....+||.|-.+.
T Consensus       533 nk~~~~C~lc~d~aed~i~s~ChH~-FCrlCi~eyv~~f~~~~nvtCP~C~i~L  585 (791)
T KOG1002|consen  533 NKGEVECGLCHDPAEDYIESSCHHK-FCRLCIKEYVESFMENNNVTCPVCHIGL  585 (791)
T ss_pred             ccCceeecccCChhhhhHhhhhhHH-HHHHHHHHHHHhhhcccCCCCccccccc
Confidence            3456789999999999999999999 9999996543    33446999998665

>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]

Probab=91.79  E-value=35  Score=42.41  Aligned_cols=30  Identities=27%  Similarity=0.303  Sum_probs=23.8

Q ss_pred             hHHHHHHHHHHHHhhHHHhHHHHHHHHHhhh
Q 002627          554 IPRVRELHNQLHEWTEWANQKVMQAARRLSK  584 (899)
Q Consensus       554 v~r~~el~~~~~~~~dWA~qkvmQaa~rl~~  584 (899)
                      |+|..|--.+|+++-+-|-++.-|+.+ +++
T Consensus       107 lrq~eekn~slqerLelaE~~l~qs~r-ae~  136 (916)
T KOG0249|consen  107 LRQNEEKNRSLQERLELAEPKLQQSLR-AET  136 (916)
T ss_pred             hchhHHhhhhhhHHHHHhhHhhHhHHh-hhh
Confidence            566667777888888999999999998 544

>PF05911 DUF869: Plant protein of unknown function (DUF869); InterPro: IPR008587 This family consists of a number of sequences found in plants

Probab=91.74  E-value=46  Score=42.11  Aligned_cols=122  Identities=19%  Similarity=0.238  Sum_probs=95.2

Q ss_pred             HhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          626 KASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLL  705 (899)
Q Consensus       626 kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~Le  705 (899)
                      ....+++...+.-..+|+..+.+..+.|..+.+-.|.+..+.++..+.....+.-...|.|+.-..+-.+....++..++
T Consensus       593 el~eelE~le~eK~~Le~~L~~~~d~lE~~~~qL~E~E~~L~eLq~eL~~~keS~s~~E~ql~~~~e~~e~le~~~~~~e  672 (769)
T PF05911_consen  593 ELEEELEKLESEKEELEMELASCQDQLESLKNQLKESEQKLEELQSELESAKESNSLAETQLKAMKESYESLETRLKDLE  672 (769)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHH
Confidence            34456777777888888888888888888888888888888888888777777777778887777777777777777788


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          706 QELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIE  747 (899)
Q Consensus       706 qELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~ErEraE  747 (899)
                      -++.++...+..++..+..+....++..+.-.+...++++..
T Consensus       673 ~E~~~l~~Ki~~Le~Ele~er~~~~e~~~kc~~Le~el~r~~  714 (769)
T PF05911_consen  673 AEAEELQSKISSLEEELEKERALSEELEAKCRELEEELERMK  714 (769)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcchhhhhHHHHHHHHHHhhh
Confidence            888888888888888888888888887777666555555543

The function of this family is unknown.

>PTZ00266 NIMA-related protein kinase; Provisional

Probab=91.57  E-value=7  Score=50.45  Aligned_cols=6  Identities=33%  Similarity=0.977  Sum_probs=2.9

Q ss_pred             EecCCC
Q 002627          857 FLPCAH  862 (899)
Q Consensus       857 llPCgH  862 (899)
                      ++|-.|
T Consensus       711 ~~~~~~  716 (1021)
T PTZ00266        711 IVPSSH  716 (1021)
T ss_pred             cccCcc
Confidence            345555

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

Probab=91.51  E-value=0.055  Score=67.96  Aligned_cols=168  Identities=26%  Similarity=0.345  Sum_probs=0.0

Q ss_pred             HHHHhHHHHHHHHHHHHhh----HHHhHHHHHHHHHhhhcHHHHHHHHHhHHHHHHHHHHHHHhHHHhhhhHHHHHHHHH
Q 002627          550 ILKLIPRVRELHNQLHEWT----EWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALC  625 (899)
Q Consensus       550 il~Lv~r~~el~~~~~~~~----dWA~qkvmQaa~rl~~d~~eLk~LR~EkEe~eRlkk~k~~lee~t~kkL~e~E~al~  625 (899)
                      |-++-.+++||+.++.+-.    ++. ..+.-+=+|+..=..||.-++.+.+.++|.++.-..       .+.|+...|.
T Consensus       576 ~kk~q~qlkdlq~~lee~~~~~~~~~-~~~~~~e~r~~~l~~elee~~~~~~~a~r~rk~aE~-------el~e~~~~~~  647 (859)
T PF01576_consen  576 LKKLQAQLKDLQRELEEAQRAREELR-EQLAVSERRLRALQAELEELREALEQAERARKQAES-------ELDELQERLN  647 (859)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHH
Confidence            3445566666666665522    222 222223345555667777778888887777553322       3555666666


Q ss_pred             HhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          626 KASGQVERANSAVRRLEVENTALRQEMEAAKLRA-------AESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEK  698 (899)
Q Consensus       626 kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a-------~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK  698 (899)
                      .++.+........++||.++..|..+.|-+.-.+       -........+...-...+-....+|+.+.-|+..+...+
T Consensus       648 ~l~~~~~~l~~~kr~le~~i~~l~~eleE~~~~~~~~~ek~kka~~~~~~l~~eL~~Eq~~~~~le~~k~~LE~q~keLq  727 (859)
T PF01576_consen  648 ELTSQNSSLSEEKRKLEAEIQQLEEELEEEQSEAEAAEEKAKKAQAQAAQLAEELRQEQDHNQHLEKEKKALERQVKELQ  727 (859)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666777777777777776665433222       222222222333333334455556666666666666666


Q ss_pred             HHHHHHHHHHH-HHHHHHHHHHHHHHHH
Q 002627          699 RKVVQLLQELD-QAKALQEQLEARWRQE  725 (899)
Q Consensus       699 ~KLa~LeqELe-qak~~~kqlE~kwrQe  725 (899)
                      .+|..++...- ..+..+..++.++++.
T Consensus       728 ~rl~e~E~~~~~~~k~~i~kLE~ri~eL  755 (859)
T PF01576_consen  728 ARLEEAEQSALKGGKKQIAKLEARIREL  755 (859)
T ss_dssp             ----------------------------
T ss_pred             HHHHHHHHhhhcccccHHHHHhHHHHHH
Confidence            66666665322 2344455555554443

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.

>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]

Probab=91.51  E-value=34  Score=40.10  Aligned_cols=21  Identities=19%  Similarity=0.328  Sum_probs=16.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 002627          674 KKTQMKFQSWEKQKALFQEEL  694 (899)
Q Consensus       674 kk~~k~l~~~EkQk~~LQEEL  694 (899)
                      .+..||+..+|.++.-||+.|
T Consensus       204 N~LwKrmdkLe~ekr~Lq~Kl  224 (552)
T KOG2129|consen  204 NSLWKRMDKLEQEKRYLQKKL  224 (552)
T ss_pred             HHHHHHHHHHHHHHHHHHHHh
Confidence            345789999999999999873

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=91.48  E-value=28  Score=39.17  Aligned_cols=185  Identities=21%  Similarity=0.279  Sum_probs=111.8

Q ss_pred             HHHHHHHHHHHHHhHHHhhhhHHHHHHHHHHhh-------hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          596 KEEVERLKKEKQILEENTMKKLSEMENALCKAS-------GQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQE  668 (899)
Q Consensus       596 kEe~eRlkk~k~~lee~t~kkL~e~E~al~kas-------~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e  668 (899)
                      ||.++.|.+.-.+=||.-.|.+...-..|.-+.       ..|+.-.-.-.+||+|..-.|....+|--...+++++-+.
T Consensus        37 Kekn~~Lqk~lKLneE~ltkTi~qy~~QLn~L~aENt~L~SkLe~EKq~kerLEtEiES~rsRLaaAi~d~dqsq~skrd  116 (305)
T PF14915_consen   37 KEKNDDLQKSLKLNEETLTKTIFQYNGQLNVLKAENTMLNSKLEKEKQNKERLETEIESYRSRLAAAIQDHDQSQTSKRD  116 (305)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHHHHHhHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhHHH
Confidence            444555555555555544444444433333333       3333333344677777777777777777777766654332


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          669 VSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEA  748 (899)
Q Consensus       669 ~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~ErEraE~  748 (899)
                      +   |...+.-.-.|-.=..++.-++...+.+..-|.++|..+......++.++....-+..|...-+|.-.+.+.+++-
T Consensus       117 l---elafqr~rdEw~~lqdkmn~d~S~lkd~ne~LsQqLskaesK~nsLe~elh~trdaLrEKtL~lE~~QrdL~Qtq~  193 (305)
T PF14915_consen  117 L---ELAFQRARDEWVRLQDKMNSDVSNLKDNNEILSQQLSKAESKFNSLEIELHHTRDALREKTLALESVQRDLSQTQC  193 (305)
T ss_pred             H---HHHHHHHhhHHHHHHHHhcchHHhHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2   1112222333444445555567888888888999999999999999999999998888888777777777776655


Q ss_pred             HHhhHHHHHhhHHHHhhhhhHHHHHHHHHHHHHHhh
Q 002627          749 SAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRL  784 (899)
Q Consensus       749 ~~k~keealr~K~E~E~qr~k~dikrLEqElsrLr~  784 (899)
                      ..+ +++..-..++..+.+|...-.-++..+.+|+.
T Consensus       194 q~K-E~e~m~qne~~kv~k~~~Kqes~eERL~Qlqs  228 (305)
T PF14915_consen  194 QIK-EIEHMYQNEQDKVNKYIGKQESLEERLSQLQS  228 (305)
T ss_pred             HHH-HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            443 33333334444445555555555555555543

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

Probab=91.47  E-value=22  Score=37.86  Aligned_cols=86  Identities=15%  Similarity=0.201  Sum_probs=37.2

Q ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          619 EMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEK  698 (899)
Q Consensus       619 e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK  698 (899)
                      -.|..|+-|.+=-+.|+..+-+..+...-+-.+.|.+--.|.=.+..|.++.+--+.....+.+++.--.++.+.+...+
T Consensus        64 ~~e~qLkEAk~iaE~adrK~eEVarkL~iiE~dLE~~eeraE~~Es~~~eLeEe~~~~~~nlk~l~~~ee~~~q~~d~~e  143 (205)
T KOG1003|consen   64 AQEAQLKEAKHIAEKADRKYEEVARKLVIIEGELERAEERAEAAESQSEELEEDLRILDSNLKSLSAKEEKLEQKEEKYE  143 (205)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhhhHHHHH
Confidence            33444444444444444444444444444444444444444433444444444444444444444444444444444333


Q ss_pred             HHHHHH
Q 002627          699 RKVVQL  704 (899)
Q Consensus       699 ~KLa~L  704 (899)
                      .+|..+
T Consensus       144 ~~ik~l  149 (205)
T KOG1003|consen  144 EELKEL  149 (205)
T ss_pred             HHHHHH
Confidence            333333

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=91.45  E-value=0.056  Score=66.53  Aligned_cols=101  Identities=27%  Similarity=0.393  Sum_probs=0.0

Q ss_pred             HHhHHHHHHHHHhhhcHHHHHHHHHhHHH-HHHHHHHHHHhHHHhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHH
Q 002627          570 WANQKVMQAARRLSKDKAELKTLRQEKEE-VERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTAL  648 (899)
Q Consensus       570 WA~qkvmQaa~rl~~d~~eLk~LR~EkEe-~eRlkk~k~~lee~t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~l  648 (899)
                      +..++.-.+...|..-..++..++...|+ ..+|+.++..+..........+.+.+.....+++.+...+..++.+...+
T Consensus       118 ~l~~~~~~le~el~~~~e~~~~~k~~le~~~~~L~~E~~~~~~e~~~~~~~l~~~~~~l~~~~~~~e~~~~~l~~e~~~l  197 (722)
T PF05557_consen  118 QLEEREEELEEELEEAEEELEQLKRKLEEEKRRLQREKEQLLEEAREEISSLKNELSELERQAENAESQIQSLESELEEL  197 (722)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444332 23344444444444555556666777777777777777888888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 002627          649 RQEMEAAKLRAAESAASCQEVS  670 (899)
Q Consensus       649 r~emEaakl~a~Es~~~~~e~~  670 (899)
                      +.+.+..+....+....+.++.
T Consensus       198 ~~~le~~~~~~~e~e~~~~~L~  219 (722)
T PF05557_consen  198 KEQLEELQSELQEAEQQLQELQ  219 (722)
T ss_dssp             ----------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            8887777776666665555543

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.

>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=91.29  E-value=46  Score=41.25  Aligned_cols=99  Identities=21%  Similarity=0.247  Sum_probs=68.6

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          617 LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVT  696 (899)
Q Consensus       617 L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~  696 (899)
                      |-.+...+.....|.+|.--.|..||..+..+|.+++..+..+.+.-.   ++.-+..+.-....+.+-+..+....|..
T Consensus       515 lKk~qedi~~~k~qee~~~kqie~Lee~~~~Lrneles~~eel~~k~~---Ev~~kl~ksEen~r~~e~e~~~k~kq~k~  591 (786)
T PF05483_consen  515 LKKQQEDINNSKKQEEKMLKQIENLEETNTQLRNELESVKEELKQKGE---EVKCKLDKSEENARSIECEILKKEKQMKI  591 (786)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHhhhHHHhhHHHHHHHhhhHHHHHH
Confidence            445566666677788888889999999999999999998887776643   45455555545555566666666666677


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 002627          697 EKRKVVQLLQELDQAKALQEQL  718 (899)
Q Consensus       697 eK~KLa~LeqELeqak~~~kql  718 (899)
                      ...|+..++++.+.-...++.+
T Consensus       592 lenk~~~LrKqvEnk~K~ieeL  613 (786)
T PF05483_consen  592 LENKCNNLRKQVENKNKNIEEL  613 (786)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHH
Confidence            7777766666666544444443

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

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

Probab=91.15  E-value=41  Score=40.41  Aligned_cols=18  Identities=11%  Similarity=-0.020  Sum_probs=8.1

Q ss_pred             hhHHHHHHHHHHhhhhHH
Q 002627          615 KKLSEMENALCKASGQVE  632 (899)
Q Consensus       615 kkL~e~E~al~kas~Q~~  632 (899)
                      +|.+++|.....+..++.
T Consensus       187 ~rtl~~e~~~~~L~~~~~  204 (511)
T PF09787_consen  187 KRTLKKEIERQELEERPK  204 (511)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            444455544444444444

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 [].

>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=91.01  E-value=7.2  Score=37.66  Aligned_cols=64  Identities=20%  Similarity=0.239  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          682 SWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQ  745 (899)
Q Consensus       682 ~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~ErEr  745 (899)
                      .++.++.-|+..|+.+|.-..+|.++.++++..+.+++..-....+.+.++.+++.+.++.++.
T Consensus        13 el~n~La~Le~slE~~K~S~~eL~kqkd~L~~~l~~L~~q~~s~~qr~~eLqaki~ea~~~le~   76 (107)
T PF09304_consen   13 ELQNRLASLERSLEDEKTSQGELAKQKDQLRNALQSLQAQNASRNQRIAELQAKIDEARRNLED   76 (107)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3566777788888888888888888888888888888877777777777777777666555554

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.

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

Probab=90.97  E-value=13  Score=38.12  Aligned_cols=18  Identities=11%  Similarity=0.383  Sum_probs=7.2

Q ss_pred             HHHHHHHHHHhhhhHHHH
Q 002627          617 LSEMENALCKASGQVERA  634 (899)
Q Consensus       617 L~e~E~al~kas~Q~~ra  634 (899)
                      +.++++.+....++++..
T Consensus        97 l~~l~~~~~~~~~~l~~~  114 (191)
T PF04156_consen   97 LDQLQERIQELESELEKL  114 (191)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            334444444433333333

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 [].

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

Probab=90.92  E-value=38  Score=39.90  Aligned_cols=29  Identities=21%  Similarity=0.132  Sum_probs=13.3

Q ss_pred             hHHHhHHHHHHHHHhhhcHHHHHHHHHhHHHH
Q 002627          568 TEWANQKVMQAARRLSKDKAELKTLRQEKEEV  599 (899)
Q Consensus       568 ~dWA~qkvmQaa~rl~~d~~eLk~LR~EkEe~  599 (899)
                      .+..++..-++..=|...+   +.++.+.+++
T Consensus       152 ~~~~~~~~~~~~~fl~~ql---~~~~~~L~~a  180 (498)
T TIGR03007       152 LGSKRQDSDSAQRFIDEQI---KTYEKKLEAA  180 (498)
T ss_pred             cccchhhhHHHHHHHHHHH---HHHHHHHHHH
Confidence            3334444444444444443   4445555443

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.

>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=44  Score=40.16  Aligned_cols=13  Identities=23%  Similarity=0.368  Sum_probs=5.1

Q ss_pred             HHHHHHhHHHHHH
Q 002627          548 EIILKLIPRVREL  560 (899)
Q Consensus       548 e~il~Lv~r~~el  560 (899)
                      +.+-.|-.++.++
T Consensus       123 ~El~~l~~~l~~l  135 (511)
T PF09787_consen  123 QELRRLRRQLEEL  135 (511)
T ss_pred             HHHHHHHHHHHHH
Confidence            3333334444444

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=90.79  E-value=0.063  Score=67.42  Aligned_cols=174  Identities=26%  Similarity=0.337  Sum_probs=8.9

Q ss_pred             HHhHHHHHHHHHHHHhhHHHhHHHHHHHHHhhhcHHHHHHHHHhHHHHHHHHHHHHHhHHHhh---hhHHHHHHHHHHhh
Q 002627          552 KLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTM---KKLSEMENALCKAS  628 (899)
Q Consensus       552 ~Lv~r~~el~~~~~~~~dWA~qkvmQaa~rl~~d~~eLk~LR~EkEe~eRlkk~k~~lee~t~---kkL~e~E~al~kas  628 (899)
                      .|-..+-|.++.+..+.|=+..=++|++ +|.      .-|+.|++.+..+-+.|..||.++.   -||.|+|....+- 
T Consensus       669 ~l~~eleE~~~~~~~~~ek~kka~~~~~-~l~------~eL~~Eq~~~~~le~~k~~LE~q~keLq~rl~e~E~~~~~~-  740 (859)
T PF01576_consen  669 QLEEELEEEQSEAEAAEEKAKKAQAQAA-QLA------EELRQEQDHNQHLEKEKKALERQVKELQARLEEAEQSALKG-  740 (859)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHhHHH-HHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc-
Confidence            3333444444444444444433333333 233      3467888999999999999999865   4689999855442 


Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          629 GQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQEL  708 (899)
Q Consensus       629 ~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqEL  708 (899)
                           ....|.+||..+.+|-.+.+.......+...+++.+-++-+.....+..=-++...+++.+...+.||..+.+++
T Consensus       741 -----~k~~i~kLE~ri~eLE~~Le~E~r~~~~~~k~~rk~er~~kEl~~q~ee~~k~~~~~~d~~~kl~~k~k~~krq~  815 (859)
T PF01576_consen  741 -----GKKQIAKLEARIRELEEELESEQRRRAEAQKQLRKLERRVKELQFQVEEERKNAERLQDLVDKLQLKLKQLKRQL  815 (859)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             -----cccHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence                 223555555555555566777777777776666666565555544444444445667777777777777777778


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          709 DQAKALQEQLEARWRQEEKAKEELVMQASS  738 (899)
Q Consensus       709 eqak~~~kqlE~kwrQeqkakeE~laqaE~  738 (899)
                      +++.........++|..+...++....++.
T Consensus       816 eeaEe~~~~~~~k~Rk~q~elee~~e~~~~  845 (859)
T PF01576_consen  816 EEAEEEASRNLAKYRKLQRELEEAEERAEA  845 (859)
T ss_dssp             ---------------SSSSHHHHHTCCHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            877777777777777777666665544443

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.

>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=90.77  E-value=13  Score=37.23  Aligned_cols=33  Identities=21%  Similarity=0.404  Sum_probs=21.7

Q ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHH
Q 002627          618 SEMENALCKASGQVERANSAVRRLEVENTALRQ  650 (899)
Q Consensus       618 ~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~  650 (899)
                      .+++..+.+...++++.+..+.+|+..++.+..
T Consensus        55 e~l~~~~~~l~~d~~~l~~~~~rL~~~~~~~er   87 (151)
T PF11559_consen   55 EDLSDKLRRLRSDIERLQNDVERLKEQLEELER   87 (151)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            346666677777777777777777755554444

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.

>PF15066 CAGE1: Cancer-associated gene protein 1 family

Probab=90.68  E-value=43  Score=39.81  Aligned_cols=22  Identities=23%  Similarity=0.472  Sum_probs=10.5

Q ss_pred             HhhhcHHHHHHHHHhHHHHHHH
Q 002627          581 RLSKDKAELKTLRQEKEEVERL  602 (899)
Q Consensus       581 rl~~d~~eLk~LR~EkEe~eRl  602 (899)
                      +..+..-...++++-|+-+|.|
T Consensus       353 k~~kQqvfvDiinkLk~niEeL  374 (527)
T PF15066_consen  353 KITKQQVFVDIINKLKENIEEL  374 (527)
T ss_pred             HhhhhhHHHHHHHHHHHHHHHH
Confidence            3344444444455555555554

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=90.52  E-value=26  Score=37.15  Aligned_cols=11  Identities=27%  Similarity=0.431  Sum_probs=9.0

Q ss_pred             HHhHHHHHHHH
Q 002627          552 KLIPRVRELHN  562 (899)
Q Consensus       552 ~Lv~r~~el~~  562 (899)
                      +|+..|.||+.
T Consensus         5 dL~~~v~dL~~   15 (193)
T PF14662_consen    5 DLLSCVEDLQL   15 (193)
T ss_pred             HHHHHHHHHHH
Confidence            68888999984

>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=90.52  E-value=12  Score=42.17  Aligned_cols=61  Identities=23%  Similarity=0.344  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----hH-----------------HHHHhhHHHHhhhhhHHHHHHHHHH
Q 002627          720 ARWRQEEKAKEELVMQASSIRKEREQIEASAK----SK-----------------EDMIKSKAETNLMRYKDDIHRLEKE  778 (899)
Q Consensus       720 ~kwrQeqkakeE~laqaE~ER~ErEraE~~~k----~k-----------------eealr~K~E~E~qr~k~dikrLEqE  778 (899)
                      .+++.....+++++.++...+.++++.....+    ..                 +..+++-+....-.|||.+.+.|+|
T Consensus       219 vRLkKl~~eke~L~~qv~klk~qLee~~~~~~~~~~~~~~~~l~~~~~~En~d~~~~d~qrdanrqisd~KfKl~KaEQe  298 (302)
T PF09738_consen  219 VRLKKLADEKEELLEQVRKLKLQLEERQSEGRRQKSSSENGVLGDDEDLENTDLHFIDLQRDANRQISDYKFKLQKAEQE  298 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccccCCCcccccccccccccccHHHhhhHHHHHHHHHHHHHHHHHHh
Confidence            35666666667777777666655554333222    00                 1134555566667888888888888


Q ss_pred             HH
Q 002627          779 IS  780 (899)
Q Consensus       779 ls  780 (899)
                      +.
T Consensus       299 it  300 (302)
T PF09738_consen  299 IT  300 (302)
T ss_pred             hc
Confidence            75

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.

>PF15035 Rootletin: Ciliary rootlet component, centrosome cohesion

Probab=90.42  E-value=19  Score=37.79  Aligned_cols=106  Identities=20%  Similarity=0.280  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          666 CQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELD-------QAKALQEQLEARWRQEEKAKEELVMQASS  738 (899)
Q Consensus       666 ~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELe-------qak~~~kqlE~kwrQeqkakeE~laqaE~  738 (899)
                      +.+++-+-.....+-..++.--..|.+.|+..+.....|..++.       .+...+..-+..|+.+++.....+.   .
T Consensus        62 Le~~l~rLeEEqqR~~~L~qvN~lLReQLEq~~~~N~~L~~dl~klt~~~~~l~~eL~~ke~~~~~ee~~~~~y~~---~  138 (182)
T PF15035_consen   62 LEEALIRLEEEQQRSEELAQVNALLREQLEQARKANEALQEDLQKLTQDWERLRDELEQKEAEWREEEENFNQYLS---S  138 (182)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc---c
Confidence            33344444444445555555555555554444444444444433       3444555555677766666554422   2


Q ss_pred             HHHHHHH---HHHHHhhHHHHHhhHHHHhhhhhHHHHHH
Q 002627          739 IRKEREQ---IEASAKSKEDMIKSKAETNLMRYKDDIHR  774 (899)
Q Consensus       739 ER~ErEr---aE~~~k~keealr~K~E~E~qr~k~dikr  774 (899)
                      |...+-.   .=...++-+..++-..|.++...+.|+-+
T Consensus       139 eh~rll~LWr~v~~lRr~f~elr~~TerdL~~~r~e~~r  177 (182)
T PF15035_consen  139 EHSRLLSLWREVVALRRQFAELRTATERDLSDMRAEFAR  177 (182)
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            2211111   11223444555555555555444444433

>KOG0579 consensus Ste20-like serine/threonine protein kinase [Signal transduction mechanisms]

Probab=90.34  E-value=56  Score=40.63  Aligned_cols=30  Identities=30%  Similarity=0.365  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          648 LRQEMEAAKLRAAESAASCQEVSKREKKTQ  677 (899)
Q Consensus       648 lr~emEaakl~a~Es~~~~~e~~ekEkk~~  677 (899)
                      +|.|..+.+++...-.+.+++.++.++|.-
T Consensus       865 lR~eakRir~EQekd~~~Fqe~LK~~kKe~  894 (1187)
T KOG0579|consen  865 LRNEAKRIRIEQEKDMRAFQERLKQEKKEF  894 (1187)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHHHHHHHH
Confidence            344444444444455566666666666653

>KOG1899 consensus LAR transmembrane tyrosine phosphatase-interacting protein liprin [General function prediction only]

Probab=90.26  E-value=10  Score=46.09  Aligned_cols=92  Identities=23%  Similarity=0.184  Sum_probs=64.1

Q ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          621 ENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRK  700 (899)
Q Consensus       621 E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~K  700 (899)
                      .-++.=++.||+..--.||.||.=+++-|.     ||-+.|-         -.+..+-.++++|.||..|-.|+.+.|-|
T Consensus       124 ~LQvsvLteqVeaQgEKIrDLE~cie~kr~-----kLnatEE---------mLQqellsrtsLETqKlDLmaevSeLKLk  189 (861)
T KOG1899|consen  124 QLQVSVLTEQVEAQGEKIRDLETCIEEKRN-----KLNATEE---------MLQQELLSRTSLETQKLDLMAEVSELKLK  189 (861)
T ss_pred             eehHHHHHHHHHHhhhhHHHHHHHHHHHHh-----hhchHHH---------HHHHHHHhhhhHHHHHhHHHHHHHHhHHH
Confidence            335577788899999999999987655544     4444432         22333456689999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          701 VVQLLQELDQAKALQEQLEARWRQEE  726 (899)
Q Consensus       701 La~LeqELeqak~~~kqlE~kwrQeq  726 (899)
                      ++-++++..+.+..+...|..+++..
T Consensus       190 ltalEkeq~e~E~K~R~se~l~qevn  215 (861)
T KOG1899|consen  190 LTALEKEQNETEKKLRLSENLMQEVN  215 (861)
T ss_pred             HHHHHHHhhhHHHHHHhHHHHHHHHH
Confidence            99999877665555555544444433

>smart00787 Spc7 Spc7 kinetochore protein

Probab=90.11  E-value=38  Score=38.36  Aligned_cols=38  Identities=34%  Similarity=0.323  Sum_probs=18.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          693 ELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKE  730 (899)
Q Consensus       693 EL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkake  730 (899)
                      +|...|.+|.....++...+..+.+++.+..+.....+
T Consensus       205 eL~~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~~~I~  242 (312)
T smart00787      205 ELDRAKEKLKKLLQEIMIKVKKLEELEEELQELESKIE  242 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555555555555555555444444444444333333

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

>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]

Probab=89.89  E-value=0.14  Score=58.96  Aligned_cols=54  Identities=22%  Similarity=0.541  Sum_probs=44.6

Q ss_pred             cccccccccccccccceEE-ecCCCcccChhhHHHhhhcCCCCCCCCcccccceEeE
Q 002627          839 VKRERECVMCLSEEMSVVF-LPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPV  894 (899)
Q Consensus       839 l~~~~~CvIC~d~~~~vvl-lPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~irV  894 (899)
                      +.....|.+|+.-..+.+. ..|||. ||..|...+... ...||.|+..+.....+
T Consensus        18 ~~~~l~C~~C~~vl~~p~~~~~cgh~-fC~~C~~~~~~~-~~~cp~~~~~~~~~~~~   72 (391)
T KOG0297|consen   18 LDENLLCPICMSVLRDPVQTTTCGHR-FCAGCLLESLSN-HQKCPVCRQELTQAEEL   72 (391)
T ss_pred             CcccccCccccccccCCCCCCCCCCc-ccccccchhhcc-CcCCcccccccchhhcc
Confidence            5667899999999888888 499999 999999988664 57999999887654433

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

Probab=89.86  E-value=39  Score=38.08  Aligned_cols=89  Identities=16%  Similarity=0.264  Sum_probs=41.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhHHHHhhhhhH
Q 002627          690 FQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYK  769 (899)
Q Consensus       690 LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~ErEraE~~~k~keealr~K~E~E~qr~k  769 (899)
                      |..++...+.+...+...++++-.....+...+-+.-+..++....+...+.+...+......        ...++....
T Consensus       163 l~aei~~lk~~~~e~~eki~~la~eaqe~he~m~k~~~~~De~Rkeade~he~~ve~~~~~~e--------~~ee~~~~~  234 (294)
T COG1340         163 LKAEIDELKKKAREIHEKIQELANEAQEYHEEMIKLFEEADELRKEADELHEEFVELSKKIDE--------LHEEFRNLQ  234 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH--------HHHHHHHHH
Confidence            335555555555555555555555554444454444445555555555444443333221111        111223334


Q ss_pred             HHHHHHHHHHHHHhhcc
Q 002627          770 DDIHRLEKEISQLRLKT  786 (899)
Q Consensus       770 ~dikrLEqElsrLr~k~  786 (899)
                      .+|..+++.|..|+...
T Consensus       235 ~elre~~k~ik~l~~~~  251 (294)
T COG1340         235 NELRELEKKIKALRAKE  251 (294)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            45666666665555433

>KOG1937 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.82  E-value=49  Score=39.20  Aligned_cols=33  Identities=15%  Similarity=0.141  Sum_probs=22.1

Q ss_pred             HHHHhhHHHHhhhhhHHHHHHHHHHHHHHhhcc
Q 002627          754 EDMIKSKAETNLMRYKDDIHRLEKEISQLRLKT  786 (899)
Q Consensus       754 eealr~K~E~E~qr~k~dikrLEqElsrLr~k~  786 (899)
                      .....+|.+.|..+...|-+.|++++..+....
T Consensus       394 i~gniRKq~~DI~Kil~etreLqkq~ns~se~L  426 (521)
T KOG1937|consen  394 IDGNIRKQEQDIVKILEETRELQKQENSESEAL  426 (521)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444466777777777777777777776555443

>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]

Probab=89.79  E-value=16  Score=44.78  Aligned_cols=11  Identities=0%  Similarity=-0.472  Sum_probs=6.6

Q ss_pred             ccChhhHHHhh
Q 002627          864 VVCTTCNELHE  874 (899)
Q Consensus       864 ~~C~~Ca~~l~  874 (899)
                      .||..|-..++
T Consensus       485 qF~~NrRP~Yy  495 (811)
T KOG4364|consen  485 QFDKNRRPGYY  495 (811)
T ss_pred             hhccccCCccc
Confidence            36777765544

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

Probab=89.68  E-value=31  Score=36.64  Aligned_cols=45  Identities=31%  Similarity=0.369  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          694 LVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASS  738 (899)
Q Consensus       694 L~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~  738 (899)
                      |...+.++..+++++..++-..+.++.+..+.++..+++...++.
T Consensus        88 L~~~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~ErdeL~~kf~~  132 (201)
T PF13851_consen   88 LQNLKARLKELEKELKDLKWEHEVLEQRFEKLEQERDELYRKFES  132 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            446666777777777777777777777777766666666665554

>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=89.61  E-value=24  Score=39.89  Aligned_cols=121  Identities=22%  Similarity=0.224  Sum_probs=64.2

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHhHHHhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          587 AELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASC  666 (899)
Q Consensus       587 ~eLk~LR~EkEe~eRlkk~k~~lee~t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~  666 (899)
                      .|-..||.   |+.+|+++...+|+.-..=+.+-=.       |+.-||..|-.|.-+.+.-..                
T Consensus       174 eEN~~LR~---Ea~~L~~et~~~EekEqqLv~dcv~-------QL~~An~qia~LseELa~k~E----------------  227 (306)
T PF04849_consen  174 EENEQLRS---EASQLKTETDTYEEKEQQLVLDCVK-------QLSEANQQIASLSEELARKTE----------------  227 (306)
T ss_pred             HHHHHHHH---HHHHhhHHHhhccHHHHHHHHHHHH-------HhhhcchhHHHHHHHHHHHHH----------------
Confidence            45566665   4666777777777754443444433       455555555555533321111                


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          667 QEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASS  738 (899)
Q Consensus       667 ~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~  738 (899)
                           .-...+..+..+-.|+..+|..+...-.+-..+.+.|..++..+.++....++.+....|....+.+
T Consensus       228 -----e~~rQQEEIt~LlsqivdlQ~r~k~~~~EnEeL~q~L~~ske~Q~~L~aEL~elqdkY~E~~~mL~E  294 (306)
T PF04849_consen  228 -----ENRRQQEEITSLLSQIVDLQQRCKQLAAENEELQQHLQASKESQRQLQAELQELQDKYAECMAMLHE  294 (306)
T ss_pred             -----HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                 1111223333444455555544444444445566666666777777777777776666666555544

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 [].

>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]

Probab=89.35  E-value=0.3  Score=54.33  Aligned_cols=55  Identities=7%  Similarity=0.077  Sum_probs=46.5

Q ss_pred             CccccccccccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccceEeE
Q 002627          837 GGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPV  894 (899)
Q Consensus       837 ~~l~~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~irV  894 (899)
                      +.+...++|.+|-.....+++.||+|..+|.+|+..-   -...||.|..-....++|
T Consensus       338 ~~~~s~~~~~~~~~~~~st~~~~~~~n~~~~~~a~~s---~~~~~~~c~~~~~~~~~i  392 (394)
T KOG2113|consen  338 NGLMSSLKGTSAGFGLLSTIWSGGNMNLSPGSLASAS---ASPTSSTCDHNDHTLVPI  392 (394)
T ss_pred             ccchhhcccccccCceeeeEeecCCcccChhhhhhcc---cCCccccccccceeeeec
Confidence            3556778999999999999999999999999999832   346999999887777766

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=88.99  E-value=17  Score=42.87  Aligned_cols=31  Identities=19%  Similarity=0.302  Sum_probs=13.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          681 QSWEKQKALFQEELVTEKRKVVQLLQELDQA  711 (899)
Q Consensus       681 ~~~EkQk~~LQEEL~~eK~KLa~LeqELeqa  711 (899)
                      ..+|+.+...+.-+...+.|+.++.+|+...
T Consensus       371 ~~~e~~kk~~e~k~~q~q~k~~k~~kel~~~  401 (493)
T KOG0804|consen  371 SDLEAEKKIVERKLQQLQTKLKKCQKELKEE  401 (493)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444444433

>KOG2412 consensus Nuclear-export-signal (NES)-containing protein/polyadenylated-RNA export factor [RNA processing and modification]

Probab=88.93  E-value=19  Score=43.37  Aligned_cols=57  Identities=16%  Similarity=0.200  Sum_probs=25.9

Q ss_pred             hhhHHHHHHHHHHhhh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          614 MKKLSEMENALCKASG-QVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSK  671 (899)
Q Consensus       614 ~kkL~e~E~al~kas~-Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~e  671 (899)
                      .+++.||.+.|.-.-. .+++....-++.| +++..+..-|..++.|.++.+.-+|...
T Consensus       181 ~~r~~e~Q~qv~qsl~~el~~i~~~~q~~e-qi~~~~~~~e~kr~Eaerk~~~~qEe~R  238 (591)
T KOG2412|consen  181 KRRLLEEQNQVLQSLDTELQAIQREKQRKE-QIRERKERSEEKREEAERKRRAHQEELR  238 (591)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence            3446677776544332 4444333333333 2333344444445555555444444333

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=88.90  E-value=14  Score=45.87  Aligned_cols=11  Identities=9%  Similarity=-0.088  Sum_probs=5.7

Q ss_pred             CCCCcccCcCc
Q 002627          526 GYAGILSDDTS  536 (899)
Q Consensus       526 ~~~~~~~d~~~  536 (899)
                      ....|.|...+
T Consensus       155 ~ii~Is~~~~d  165 (754)
T TIGR01005       155 RIIAIEFRSED  165 (754)
T ss_pred             EEEEEEEecCC
Confidence            34566666333

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.

>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=88.84  E-value=85  Score=40.61  Aligned_cols=73  Identities=22%  Similarity=0.276  Sum_probs=40.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          639 RRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKK-------TQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQA  711 (899)
Q Consensus       639 r~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk-------~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqa  711 (899)
                      -.||.+.++.+.++......--|.-+.|+++.++.+.       ....+..+-++..++|..|...+.-|.+++.+|+++
T Consensus       279 eeLe~~~~et~~~~s~~~~~~~e~~~k~~~~~ek~~~~~~~v~~~~~~le~lk~~~~~rq~~i~~~~k~i~~~q~el~~~  358 (1072)
T KOG0979|consen  279 EELESEKKETRSKISQKQRELNEALAKVQEKFEKLKEIEDEVEEKKNKLESLKKAAEKRQKRIEKAKKMILDAQAELQET  358 (1072)
T ss_pred             hhHHhHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Confidence            3344444555555555555555555555555555322       234555555666666666777777777777666654

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=88.68  E-value=0.28  Score=54.92  Aligned_cols=49  Identities=24%  Similarity=0.601  Sum_probs=37.0

Q ss_pred             ccccccccccc----cceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccce
Q 002627          842 ERECVMCLSEE----MSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRR  891 (899)
Q Consensus       842 ~~~CvIC~d~~----~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~  891 (899)
                      +..|+.|++..    ++..-.|||-. +|..|...+...-..+||-||...+.-
T Consensus        14 ed~cplcie~mditdknf~pc~cgy~-ic~fc~~~irq~lngrcpacrr~y~de   66 (480)
T COG5175          14 EDYCPLCIEPMDITDKNFFPCPCGYQ-ICQFCYNNIRQNLNGRCPACRRKYDDE   66 (480)
T ss_pred             cccCcccccccccccCCcccCCcccH-HHHHHHHHHHhhccCCChHhhhhcccc
Confidence            34499999863    34444567877 899999988776677999999877643

>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]

Probab=88.68  E-value=19  Score=44.18  Aligned_cols=11  Identities=9%  Similarity=-0.285  Sum_probs=5.9

Q ss_pred             CCCCCcccccc
Q 002627          880 DCPSCRSPIQR  890 (899)
Q Consensus       880 kCPiCR~~I~~  890 (899)
                      -|-.||-++.+
T Consensus       486 F~~NrRP~YyG  496 (811)
T KOG4364|consen  486 FDKNRRPGYYG  496 (811)
T ss_pred             hccccCCcccc
Confidence            45556655543

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

Probab=88.67  E-value=73  Score=39.63  Aligned_cols=80  Identities=18%  Similarity=0.280  Sum_probs=52.4

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHH-HHHHHHHHHHHHHH
Q 002627          617 LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASC-------QEVSKREK-KTQMKFQSWEKQKA  688 (899)
Q Consensus       617 L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~-------~e~~ekEk-k~~k~l~~~EkQk~  688 (899)
                      +.++-.+|+++..|..|-.-.   +..||..|-...++|.+++.|...++       ....+--+ ...++..+||++-.
T Consensus       589 v~dLR~~L~~~Eq~aarrEd~---~R~Ei~~LqrRlqaaE~R~eel~q~v~~TTrPLlRQIE~lQ~tl~~~~tawereE~  665 (961)
T KOG4673|consen  589 VEDLRQTLSKKEQQAARREDM---FRGEIEDLQRRLQAAERRCEELIQQVPETTRPLLRQIEALQETLSKAATAWEREER  665 (961)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHhhccccccHHHHHHHHHHHHHhhhhhHHHHHHH
Confidence            666777777777766664433   34678888888889988888876554       22333333 33577888999766


Q ss_pred             HHHHHHHHHHH
Q 002627          689 LFQEELVTEKR  699 (899)
Q Consensus       689 ~LQEEL~~eK~  699 (899)
                      -|-+.|..-+.
T Consensus       666 ~l~~rL~dSQt  676 (961)
T KOG4673|consen  666 SLNERLSDSQT  676 (961)
T ss_pred             HHHHhhhhHHH
Confidence            66666654443

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=88.34  E-value=12  Score=45.62  Aligned_cols=47  Identities=19%  Similarity=0.290  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          677 QMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWR  723 (899)
Q Consensus       677 ~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwr  723 (899)
                      .+++..+++....|++|+...+.++.++++++..++..++++..+.+
T Consensus       421 ~~~i~~~~~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~r~~~  467 (652)
T COG2433         421 EKRIKKLEETVERLEEENSELKRELEELKREIEKLESELERFRREVR  467 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45666666666666666666666666666666666666655555444

>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function

Probab=88.25  E-value=53  Score=37.58  Aligned_cols=130  Identities=18%  Similarity=0.277  Sum_probs=74.9

Q ss_pred             HHHhhhcHHHHHHHHHhHHHHHHHHHHHHHhHHHhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          579 ARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLR  658 (899)
Q Consensus       579 a~rl~~d~~eLk~LR~EkEe~eRlkk~k~~lee~t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~  658 (899)
                      .||+-..-.-|+..|+-.||-+...+.-++--+.-.-.|.....-+-|+.+..++-...+++++-||+.+..+.++.+.+
T Consensus        77 irk~~e~~eglr~i~es~~e~q~e~~qL~~qnqkL~nqL~~~~~vf~k~k~~~q~LE~li~~~~EEn~~lqlqL~~l~~e  156 (401)
T PF06785_consen   77 IRKITEKDEGLRKIRESVEERQQESEQLQSQNQKLKNQLFHVREVFMKTKGDIQHLEGLIRHLREENQCLQLQLDALQQE  156 (401)
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence            45555444445555555554443333333322223334666666777888888888888999999999888888888888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH--H---------HHHHHHHHHHHHHHHHHHHHHH
Q 002627          659 AAESAASCQEVSKREKKTQMKFQSWEK--Q---------KALFQEELVTEKRKVVQLLQEL  708 (899)
Q Consensus       659 a~Es~~~~~e~~ekEkk~~k~l~~~Ek--Q---------k~~LQEEL~~eK~KLa~LeqEL  708 (899)
                      .-|.+..-+++.+.-....-..+.+-.  |         +.+.|..|....+|+..|-.|+
T Consensus       157 ~~Ekeeesq~LnrELaE~layqq~L~~eyQatf~eq~~ml~kRQ~yI~~LEsKVqDLm~Ei  217 (401)
T PF06785_consen  157 CGEKEEESQTLNRELAEALAYQQELNDEYQATFVEQHSMLDKRQAYIGKLESKVQDLMYEI  217 (401)
T ss_pred             HhHhHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            776665555554443333322222222  2         3344555555555555544443

>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=88.22  E-value=53  Score=37.49  Aligned_cols=88  Identities=20%  Similarity=0.265  Sum_probs=41.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------hh---HHHHHhhHHHHhhhhhHHHH
Q 002627          703 QLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASA-------KS---KEDMIKSKAETNLMRYKDDI  772 (899)
Q Consensus       703 ~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~ErEraE~~~-------k~---keealr~K~E~E~qr~k~di  772 (899)
                      .+-.+|+.++..+.+++...+...-.++|+..+-+.-+....|+-...       ..   ..+++.    .|.+.+++.+
T Consensus       130 ~lV~qLEk~~~q~~qLe~d~qs~lDEkeEl~~ERD~yk~K~~RLN~ELn~~L~g~~~rivDIDaLi----~ENRyL~erl  205 (319)
T PF09789_consen  130 DLVEQLEKLREQIEQLERDLQSLLDEKEELVTERDAYKCKAHRLNHELNYILNGDENRIVDIDALI----MENRYLKERL  205 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcccHHHHH----HHHHHHHHHH
Confidence            344455555555555555555444444444444443333333331110       01   122221    2335566677


Q ss_pred             HHHHHHHHHHhhccchhHHHHH
Q 002627          773 HRLEKEISQLRLKTDSSKIAAL  794 (899)
Q Consensus       773 krLEqElsrLr~k~d~~RrAaL  794 (899)
                      ..++.|..-++.....=|.++-
T Consensus       206 ~q~qeE~~l~k~~i~KYK~~le  227 (319)
T PF09789_consen  206 KQLQEEKELLKQTINKYKSALE  227 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777766655544343333

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=88.19  E-value=61  Score=38.14  Aligned_cols=14  Identities=14%  Similarity=0.192  Sum_probs=6.2

Q ss_pred             HHHHHHHHHHHHHh
Q 002627          770 DDIHRLEKEISQLR  783 (899)
Q Consensus       770 ~dikrLEqElsrLr  783 (899)
                      ..+..++..+.+..
T Consensus       305 ~~l~~a~~~l~~~~  318 (457)
T TIGR01000       305 SKIKSLKEDSQKGV  318 (457)
T ss_pred             HHHHHHHHHHhCCE
Confidence            34444445444333

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

>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]

Probab=88.06  E-value=33  Score=42.67  Aligned_cols=57  Identities=19%  Similarity=0.206  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          682 SWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASS  738 (899)
Q Consensus       682 ~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~  738 (899)
                      .++....-++......+.++..+++++..++.....+........+..++.+...-.
T Consensus       224 ~~~~~~~~l~~~~~~~~~~i~~l~~~l~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~  280 (670)
T KOG0239|consen  224 DLRRNIKPLEGLESTIKKKIQALQQELEELKAELKELNDQVSLLTREVQEALKESNT  280 (670)
T ss_pred             hHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444455555555555555666666666555555555555555555544444433

>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]

Probab=88.06  E-value=0.17  Score=56.12  Aligned_cols=57  Identities=11%  Similarity=0.178  Sum_probs=47.0

Q ss_pred             ccccccccccccccccceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccceEeE
Q 002627          838 GVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPV  894 (899)
Q Consensus       838 ~l~~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~irV  894 (899)
                      .......|++|+.+..-+.+.+|+|-+||..|......++.+.||+|...+.....|
T Consensus       132 ~~~~ti~~iqq~tnt~I~T~v~~~~~Vf~Vtg~~~nC~kra~s~eie~ta~~ra~~i  188 (394)
T KOG2113|consen  132 PKGATIKRIQQFTNTYIATPVRCGEPVFCVTGAPKNCVKRARSCEIEQTAVTRAGQI  188 (394)
T ss_pred             cccCccchheecccceEeeeccCCCceEEEecCCcchhhhccccchhhhhhhhhhcc
Confidence            445677899999999999999999999999998776555667799999877765544

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.79  E-value=0.7  Score=57.16  Aligned_cols=44  Identities=23%  Similarity=0.607  Sum_probs=34.1

Q ss_pred             ccccccccc-ccceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccce
Q 002627          843 RECVMCLSE-EMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRR  891 (899)
Q Consensus       843 ~~CvIC~d~-~~~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~  891 (899)
                      ..|..|-.. ..-+|..-|||. +-..|...    +..+||-|+....++
T Consensus       841 skCs~C~~~LdlP~VhF~CgHs-yHqhC~e~----~~~~CP~C~~e~~~~  885 (933)
T KOG2114|consen  841 SKCSACEGTLDLPFVHFLCGHS-YHQHCLED----KEDKCPKCLPELRGV  885 (933)
T ss_pred             eeecccCCccccceeeeecccH-HHHHhhcc----CcccCCccchhhhhh
Confidence            579999875 567788899999 77888873    347999999855443

>KOG4367 consensus Predicted Zn-finger protein [Function unknown]

Probab=87.79  E-value=0.24  Score=56.82  Aligned_cols=34  Identities=29%  Similarity=0.661  Sum_probs=30.6

Q ss_pred             ccccccccccccccceEEecCCCcccChhhHHHhh
Q 002627          840 KRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHE  874 (899)
Q Consensus       840 ~~~~~CvIC~d~~~~vvllPCgH~~~C~~Ca~~l~  874 (899)
                      +++..|+||..-..+.+++||+|. +|..|+..+.
T Consensus         2 eeelkc~vc~~f~~epiil~c~h~-lc~~ca~~~~   35 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREPIILPCSHN-LCQACARNIL   35 (699)
T ss_pred             cccccCceehhhccCceEeecccH-HHHHHHHhhc
Confidence            457889999999999999999999 9999998764

>PRK11281 hypothetical protein; Provisional

Probab=87.78  E-value=1.1e+02  Score=40.55  Aligned_cols=40  Identities=23%  Similarity=0.251  Sum_probs=24.4

Q ss_pred             hhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          614 MKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEME  653 (899)
Q Consensus       614 ~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emE  653 (899)
                      ...|++.+..+-.+.++.+||.+..-+......+|+.+..
T Consensus       141 Q~~La~~NsqLi~~qT~PERAQ~~lsea~~RlqeI~~~L~  180 (1113)
T PRK11281        141 QNDLAEYNSQLVSLQTQPERAQAALYANSQRLQQIRNLLK  180 (1113)
T ss_pred             HHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHh
Confidence            3446666666666666666666666555555555555443

>PF07058 Myosin_HC-like: Myosin II heavy chain-like; InterPro: IPR009768 This family represents a conserved region within a number of myosin II heavy chain-like proteins that seem to be specific to Arabidopsis thaliana

Probab=87.73  E-value=16  Score=41.11  Aligned_cols=70  Identities=23%  Similarity=0.336  Sum_probs=48.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          637 AVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQ  706 (899)
Q Consensus       637 ~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~Leq  706 (899)
                      .+.+|.-|...|..|..++|..|-.=++-+..-=+-+---.+=..-|-.+++.||-||...+.||+-.++
T Consensus        67 q~~elneEkrtLeRELARaKV~aNRVA~vvANEWKD~nDkvMPVKqWLEERR~lQgEmQ~LrDKLAiaER  136 (351)
T PF07058_consen   67 QVQELNEEKRTLERELARAKVSANRVATVVANEWKDENDKVMPVKQWLEERRFLQGEMQQLRDKLAIAER  136 (351)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhhhhhhhcccccccCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566667777778888888888877666544422222223566777999999999999998888765544

>PF05700 BCAS2: Breast carcinoma amplified sequence 2 (BCAS2); InterPro: IPR008409 This family consists of several eukaryotic sequences of unknown function

Probab=87.56  E-value=34  Score=36.68  Aligned_cols=103  Identities=20%  Similarity=0.273  Sum_probs=62.9

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          617 LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVT  696 (899)
Q Consensus       617 L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~  696 (899)
                      +...+.+|.++..|++=...++..||-    +.+                    =...........+|..+..++.+|..
T Consensus        99 ~~~w~~al~na~a~lehq~~R~~NLeL----l~~--------------------~g~naW~~~n~~Le~~~~~le~~l~~  154 (221)
T PF05700_consen   99 VEAWKEALDNAYAQLEHQRLRLENLEL----LSK--------------------YGENAWLIHNEQLEAMLKRLEKELAK  154 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH----HHH--------------------HhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            566788999999999888888877762    110                    01112234455566667777777777


Q ss_pred             HHHHHHHHHHH--H--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          697 EKRKVVQLLQE--L--DQAKALQEQLEARWRQEEKAKEELVMQASSIRKER  743 (899)
Q Consensus       697 eK~KLa~LeqE--L--eqak~~~kqlE~kwrQeqkakeE~laqaE~ER~Er  743 (899)
                      .|.++..+.++  .  .++...+..++.+|++.-...-++.......+.++
T Consensus       155 ~k~~ie~vN~~RK~~Q~~~~~~L~~Le~~W~~~v~kn~eie~a~~~Le~ei  205 (221)
T PF05700_consen  155 LKKEIEEVNRERKRRQEEAGEELRYLEQRWKELVSKNLEIEVACEELEQEI  205 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77766655432  1  23566677888888877666655544444433333

The mammalian members of this family are annotated as breast carcinoma amplified sequence 2 (BCAS2) proteins []. BCAS2 is a putative spliceosome associated protein [].

>PF07111 HCR: Alpha helical coiled-coil rod protein (HCR); InterPro: IPR009800 This family consists of several mammalian alpha helical coiled-coil rod HCR proteins

Probab=87.35  E-value=88  Score=39.06  Aligned_cols=12  Identities=42%  Similarity=0.769  Sum_probs=9.3

Q ss_pred             HHHHHHHHhHHH
Q 002627          587 AELKTLRQEKEE  598 (899)
Q Consensus       587 ~eLk~LR~EkEe  598 (899)
                      .||+.||.||+.
T Consensus       478 ~ELqqLReERdR  489 (739)
T PF07111_consen  478 LELQQLREERDR  489 (739)
T ss_pred             HHHHHHHHHHHH
Confidence            678888888765

The function of HCR is unknown but it has been implicated in psoriasis in humans and is thought to affect keratinocyte proliferation [].; GO: 0030154 cell differentiation, 0005634 nucleus, 0005737 cytoplasm

>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=87.31  E-value=57  Score=36.88  Aligned_cols=54  Identities=17%  Similarity=0.185  Sum_probs=36.6

Q ss_pred             hhhh-HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          613 TMKK-LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASC  666 (899)
Q Consensus       613 t~kk-L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~  666 (899)
                      .|+. -..|...|...+.+++.-+..-.++..+|..|+..+...--+-..++..+
T Consensus       104 kR~el~~kFq~~L~dIq~~~ee~~~~~~k~~~eN~~L~eKlK~l~eQye~rE~~~  158 (309)
T PF09728_consen  104 KRKELSEKFQATLKDIQAQMEEQSERNIKLREENEELREKLKSLIEQYELREEHF  158 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444 34578888888888888888888888888888876665444444333333

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 [].

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

Probab=87.30  E-value=48  Score=35.97  Aligned_cols=110  Identities=15%  Similarity=0.180  Sum_probs=42.6

Q ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          621 ENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRK  700 (899)
Q Consensus       621 E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~K  700 (899)
                      +-.|+.+..++.++...+-.+......+..+.+.+...+.+-+..-+.++.+....+-+-  .-.++..|++.+..++..
T Consensus        30 ~Q~ird~~~~l~~ar~~~A~~~a~~k~~e~~~~~~~~~~~k~e~~A~~Al~~g~E~LAr~--al~~~~~le~~~~~~~~~  107 (225)
T COG1842          30 EQAIRDMESELAKARQALAQAIARQKQLERKLEEAQARAEKLEEKAELALQAGNEDLARE--ALEEKQSLEDLAKALEAE  107 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH--HHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444444444433333333332221110  111122333333333333


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          701 VVQLLQELDQAKALQEQLEARWRQEEKAKEEL  732 (899)
Q Consensus       701 La~LeqELeqak~~~kqlE~kwrQeqkakeE~  732 (899)
                      +.++....++++..+..++.+|.+..+.+..+
T Consensus       108 ~~~~~~~~~~l~~~~~~Le~Ki~e~~~~~~~l  139 (225)
T COG1842         108 LQQAEEQVEKLKKQLAALEQKIAELRAKKEAL  139 (225)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444444433

>PF08703 PLC-beta_C: PLC-beta C terminal; InterPro: IPR014815 This domain corresponds to the alpha helical C-terminal domain of phospholipase C beta

Probab=87.12  E-value=44  Score=35.35  Aligned_cols=22  Identities=41%  Similarity=0.519  Sum_probs=17.0

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHH
Q 002627          587 AELKTLRQEKEEVERLKKEKQI  608 (899)
Q Consensus       587 ~eLk~LR~EkEe~eRlkk~k~~  608 (899)
                      .+|-.||++.-+.++..++.++
T Consensus        18 ~eL~~l~~eq~~~e~e~ke~H~   39 (185)
T PF08703_consen   18 QELLKLREEQYESEKELKEEHL   39 (185)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            4677888888888887777776

; GO: 0004435 phosphatidylinositol phospholipase C activity, 0005509 calcium ion binding, 0016042 lipid catabolic process; PDB: 1JAD_A.

>TIGR02977 phageshock_pspA phage shock protein A

Probab=87.02  E-value=46  Score=35.50  Aligned_cols=116  Identities=9%  Similarity=0.124  Sum_probs=68.5

Q ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          620 MENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKR  699 (899)
Q Consensus       620 ~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~  699 (899)
                      ++-.++....+|..+...+-.+......+..+.+.....+.+-......++++.+..+-+.-.  .++...++.+...+.
T Consensus        29 l~q~irem~~~l~~ar~~lA~~~a~~k~~e~~~~~~~~~~~~~~~~A~~Al~~G~EdLAr~Al--~~k~~~~~~~~~l~~  106 (219)
T TIGR02977        29 IRLIIQEMEDTLVEVRTTSARTIADKKELERRVSRLEAQVADWQEKAELALSKGREDLARAAL--IEKQKAQELAEALER  106 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH--HHHHHHHHHHHHHHH
Confidence            444445555566666666667776666777777777777777776666666666555433211  134444555555555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          700 KVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQAS  737 (899)
Q Consensus       700 KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE  737 (899)
                      .+..+....++++..+..++.++.+.+.....+.+++.
T Consensus       107 ~~~~~~~~v~~l~~~l~~L~~ki~~~k~k~~~l~ar~~  144 (219)
T TIGR02977       107 ELAAVEETLAKLQEDIAKLQAKLAEARARQKALAIRHQ  144 (219)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55556666666666666666666665555555554443

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.

>PF02841 GBP_C: Guanylate-binding protein, C-terminal domain; InterPro: IPR003191 Guanylate-binding protein is a GTPase that is induced by interferon (IFN)-gamma

Probab=86.88  E-value=56  Score=36.34  Aligned_cols=101  Identities=23%  Similarity=0.247  Sum_probs=47.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhhHHHHHhhH
Q 002627          682 SWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSI-RKEREQIEASAKSKEDMIKSK  760 (899)
Q Consensus       682 ~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~E-R~ErEraE~~~k~keealr~K  760 (899)
                      ...+++..-+.+++.++.+...++++...+....++.+..+++..+..++.+.++.+. ..+++++.... .+....+++
T Consensus       194 q~d~~L~~~ek~~~~~~~k~e~~e~e~~~l~e~~~~~~~~le~~~~~~ee~~~~L~ekme~e~~~~~~e~-e~~l~~k~~  272 (297)
T PF02841_consen  194 QADQQLTEKEKEIEEEQAKAEAAEKEKEKLEEKQKEQEQMLEQQERSYEEHIKQLKEKMEEEREQLLQEQ-ERLLEQKLQ  272 (297)
T ss_dssp             HH-TTS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHH
Confidence            3344444445555555566555666666555555555555555555555554443321 11111111111 111111222


Q ss_pred             H--HHhhhhhHHHHHHHHHHHHHHh
Q 002627          761 A--ETNLMRYKDDIHRLEKEISQLR  783 (899)
Q Consensus       761 ~--E~E~qr~k~dikrLEqElsrLr  783 (899)
                      .  +.-.+.+...+..+++||..|+
T Consensus       273 eq~~~l~e~~~~~~~~l~~ei~~L~  297 (297)
T PF02841_consen  273 EQEELLKEGFQEEAEKLQKEIQDLQ  297 (297)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            2  2223667778888999888764

GTPases induced by IFN-gamma are key to the protective immunity against microbial and viral pathogens. These GTPases are classified into three groups: the small 47-kd GTPases, the Mx proteins, and the large 65- to 67-kd GTPases. Guanylate-binding proteins (GBP) fall into the last class. In humans, there are seven GBPs (hGBP1-7) []. Structurally, hGBP1 consists of two domains: a compact globular N-terminal domain harbouring the GTPase function (IPR015894 from INTERPRO), and an alpha-helical finger-like C-terminal domain. Human GBP1 is secreted from cells without the need of a leader peptide, and has been shown to exhibit antiviral activity against Vesicular stomatitis virus and Encephalomyocarditis virus, as well as being able to regulate the inhibition of proliferation and invasion of endothelial cells in response to IFN-gamma [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1DG3_A 2D4H_A 2B8W_B 2B92_A 2BC9_A 1F5N_A.

>KOG0240 consensus Kinesin (SMY1 subfamily) [Cytoskeleton]

Probab=86.74  E-value=86  Score=38.31  Aligned_cols=12  Identities=25%  Similarity=0.437  Sum_probs=6.2

Q ss_pred             HHHHHHHHhhcc
Q 002627          775 LEKEISQLRLKT  786 (899)
Q Consensus       775 LEqElsrLr~k~  786 (899)
                      ++.++..|+...
T Consensus       515 ~~sel~sl~~~~  526 (607)
T KOG0240|consen  515 LKSELQSLQEPS  526 (607)
T ss_pred             hHHHHHhhhhcc
Confidence            445555555544

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

Probab=86.64  E-value=0.2  Score=61.67  Aligned_cols=21  Identities=10%  Similarity=0.235  Sum_probs=10.9

Q ss_pred             HHHHHHHHhHHHHHHHHHHhh
Q 002627          128 QLEELVLSNLDAIFKSAIKKI  148 (899)
Q Consensus       128 ~Lr~~LL~~Ih~~Y~~Al~rL  148 (899)
                      +.=..|+..|-.||.+-|...
T Consensus        70 ~NLk~l~~~i~~yy~e~L~~~   90 (713)
T PF05622_consen   70 SNLKKLLRNIKSYYQEELGQQ   90 (713)
T ss_dssp             HHHHHHHHHHHHHHHTTT---
T ss_pred             HHHHHHHHHHHHHHHHHcCCC
Confidence            334456677777776655543

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.

>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=86.64  E-value=41  Score=36.43  Aligned_cols=52  Identities=15%  Similarity=0.233  Sum_probs=32.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          670 SKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEAR  721 (899)
Q Consensus       670 ~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~k  721 (899)
                      ....+..+++...|..|+..|.+++...+.++..++...+++...+...+.+
T Consensus        34 ~~~~~~sQ~~id~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~e   85 (251)
T PF11932_consen   34 VQAAQQSQKRIDQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQE   85 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455556777777888888777777776666666666555555444444333

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.

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=86.56  E-value=35  Score=40.34  Aligned_cols=15  Identities=20%  Similarity=0.153  Sum_probs=6.9

Q ss_pred             HHHHHHHHHHHHHHH
Q 002627          677 QMKFQSWEKQKALFQ  691 (899)
Q Consensus       677 ~k~l~~~EkQk~~LQ  691 (899)
                      +.++..|.+|+..++
T Consensus       388 q~k~~k~~kel~~~~  402 (493)
T KOG0804|consen  388 QTKLKKCQKELKEER  402 (493)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            344444555544444

>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=86.21  E-value=0.41  Score=52.52  Aligned_cols=46  Identities=28%  Similarity=0.596  Sum_probs=36.7

Q ss_pred             ccccccccccccc------eEEecCCCcccChhhHHHhhhcCCCCCCCCcccc
Q 002627          842 ERECVMCLSEEMS------VVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPI  888 (899)
Q Consensus       842 ~~~CvIC~d~~~~------vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I  888 (899)
                      ...|.||-+...+      .-++.|||. +|..|+..+.......||.||.+.
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~-~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHT-ICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCce-ehHhHHHHHhcCceeeccCCCCcc
Confidence            3579999885433      344569999 999999998877777999999985

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=86.17  E-value=24  Score=40.79  Aligned_cols=26  Identities=15%  Similarity=0.243  Sum_probs=13.8

Q ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHH
Q 002627          620 MENALCKASGQVERANSAVRRLEVEN  645 (899)
Q Consensus       620 ~E~al~kas~Q~~ra~~~vr~lE~en  645 (899)
                      +++.|..+..+++.+...+.....++
T Consensus       176 l~~ql~~~~~~l~~ae~~l~~fr~~~  201 (444)
T TIGR03017       176 FVQQIAALREDLARAQSKLSAYQQEK  201 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            44555555555555555555555444

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.

>COG4487 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=86.12  E-value=81  Score=37.41  Aligned_cols=25  Identities=28%  Similarity=0.255  Sum_probs=17.9

Q ss_pred             HHHHHHHHhhHHHhHHHHHHHHHhh
Q 002627          559 ELHNQLHEWTEWANQKVMQAARRLS  583 (899)
Q Consensus       559 el~~~~~~~~dWA~qkvmQaa~rl~  583 (899)
                      .+-+++.+--+||++|--|-+-+..
T Consensus        39 ~~l~~~ee~e~~~~~~~A~~~~~~k   63 (438)
T COG4487          39 RILNTLEEFEKEANEKRAQYRSAKK   63 (438)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3556777777899998777666655

>PF09731 Mitofilin: Mitochondrial inner membrane protein; InterPro: IPR019133 Mitofilin controls mitochondrial cristae morphology

Probab=85.97  E-value=90  Score=37.81  Aligned_cols=42  Identities=17%  Similarity=0.253  Sum_probs=35.8

Q ss_pred             CCCchhHHHHHHhHHHHHHHHHHHHhhHHHhHHHHHHHHHhh
Q 002627          542 PQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLS  583 (899)
Q Consensus       542 p~D~Kde~il~Lv~r~~el~~~~~~~~dWA~qkvmQaa~rl~  583 (899)
                      ..+.-+.+|.....++..|+.+|.+-+.++.+++.++-..-.
T Consensus       245 ~~~~~~~~i~~a~~~i~~L~~~l~~l~~~~~~~l~~~L~~q~  286 (582)
T PF09731_consen  245 SESDLNSLIAHAKERIDALQKELAELKEEEEEELERALEEQR  286 (582)
T ss_pred             cccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456778999999999999999999999999998887655444

Mitofilin is enriched in the narrow space between the inner boundary and the outer membranes, where it forms a homotypic interaction and assembles into a large multimeric protein complex []. The first 78 amino acids contain a typical amino-terminal-cleavable mitochondrial presequence (residues 1-43) rich in positive-charged and hydroxylated residues and a membrane anchor domain (residues 47-66). In addition, it has three centrally located coiled coil domains (residues 200-240,280-310 and 400-420) []. ; GO: 0031305 integral to mitochondrial inner membrane

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

Probab=85.93  E-value=51  Score=34.99  Aligned_cols=120  Identities=16%  Similarity=0.168  Sum_probs=71.7

Q ss_pred             hhHHHHH--HHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          615 KKLSEME--NALCKASGQVERANSAVRRLEVENTALRQEMEAAKLR-----AAESAASCQEVSKREKKTQMKFQSWEKQK  687 (899)
Q Consensus       615 kkL~e~E--~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~-----a~Es~~~~~e~~ekEkk~~k~l~~~EkQk  687 (899)
                      ..|...|  ..|.++-.++....-.+..+...    -+..+..+|.     -..-..++..+..+--+.....+.+++++
T Consensus        49 ~~L~~~E~~~~l~~~l~~~a~~~~~~~~~~~~----~a~~e~~~l~~~L~ey~r~~~Svk~~~~~R~~~~~~~~~~~~~L  124 (216)
T cd07627          49 EALSSLELSKSLSDLLAALAEVQKRIKESLER----QALQDVLTLGVTLDEYIRSIGSVRAAFAQRQKLWQYWQSAESEL  124 (216)
T ss_pred             HHHHHhhcchHhHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444  44444444444444444444432    1222222222     22334556677777777778888888888


Q ss_pred             HHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          688 ALFQEELVTE-------KRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASS  738 (899)
Q Consensus       688 ~~LQEEL~~e-------K~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~  738 (899)
                      .+.+..+...       ..|+..++.++.++..+..+...+|....+....-+...+.
T Consensus       125 ~k~~~~~~Kl~~~~~s~~~K~~~~~~ei~~~e~~~~~a~~~~e~is~~~k~El~rF~~  182 (216)
T cd07627         125 SKKKAQLEKLKRQGKTQQEKLNSLLSELEEAERRASELKKEFEEVSELIKSELERFER  182 (216)
T ss_pred             HHHHHHHHHHhccCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888776665       35777777777777777777777777766665555555544

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

>PF09731 Mitofilin: Mitochondrial inner membrane protein; InterPro: IPR019133 Mitofilin controls mitochondrial cristae morphology

Probab=85.91  E-value=89  Score=37.86  Aligned_cols=22  Identities=9%  Similarity=-0.005  Sum_probs=12.8

Q ss_pred             HHHHhhCCCCChHHHHHHHHHhCC
Q 002627          216 CVLREVRPFFSTGDAMWCLLICDM  239 (899)
Q Consensus       216 afL~~~~P~LS~~dAm~yLL~ad~  239 (899)
                      -|+..+.||-  .+++-|+.--+.
T Consensus        34 d~f~~~vP~~--e~lv~~~e~~~~   55 (582)
T PF09731_consen   34 DFFEEYVPYG--EELVDYIEEEES   55 (582)
T ss_pred             HHHHHhCCcH--HHHHHHHhhhcc
Confidence            3666677764  556666655443

Mitofilin is enriched in the narrow space between the inner boundary and the outer membranes, where it forms a homotypic interaction and assembles into a large multimeric protein complex []. The first 78 amino acids contain a typical amino-terminal-cleavable mitochondrial presequence (residues 1-43) rich in positive-charged and hydroxylated residues and a membrane anchor domain (residues 47-66). In addition, it has three centrally located coiled coil domains (residues 200-240,280-310 and 400-420) []. ; GO: 0031305 integral to mitochondrial inner membrane

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=85.81  E-value=99  Score=38.17  Aligned_cols=30  Identities=17%  Similarity=0.233  Sum_probs=15.7

Q ss_pred             CCcccCcCcccccCCCCchhHHHHHHhHHH
Q 002627          528 AGILSDDTSLEHLVPQDKRDEIILKLIPRV  557 (899)
Q Consensus       528 ~~~~~d~~~~~~~vp~D~Kde~il~Lv~r~  557 (899)
                      .-|=||-+-.....-++...+.|.+-|..+
T Consensus       149 ~~FfFDGE~I~~la~~~~~~~~l~~Ai~~L  178 (650)
T TIGR03185       149 DLFFFDGEKIEALANPDRLASLLKEAIEVL  178 (650)
T ss_pred             HHhcccHHHHHHHhccccchHHHHHHHHHH
Confidence            445566222323445577777666554443

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.

>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=85.73  E-value=0.34  Score=53.46  Aligned_cols=43  Identities=23%  Similarity=0.579  Sum_probs=34.3

Q ss_pred             cccccccccccceEEec-CCCcccChhhHHHhhhcCCCCCCCCcc
Q 002627          843 RECVMCLSEEMSVVFLP-CAHQVVCTTCNELHEKQGMKDCPSCRS  886 (899)
Q Consensus       843 ~~CvIC~d~~~~vvllP-CgH~~~C~~Ca~~l~~~~~~kCPiCR~  886 (899)
                      +.|+.|..-.++.+-.| |+|. ||.+|+..-.-...-.||.|..
T Consensus       275 LkCplc~~Llrnp~kT~cC~~~-fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNPMKTPCCGHT-FCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCcccCccccch-HHHHHHhhhhhhccccCCCccc
Confidence            78999999887777776 7888 9999998654434569999976

>PRK10884 SH3 domain-containing protein; Provisional

Probab=85.28  E-value=15  Score=39.32  Aligned_cols=23  Identities=9%  Similarity=0.293  Sum_probs=13.2

Q ss_pred             hhhhHHHHHHHHHHhhhhHHHHH
Q 002627          613 TMKKLSEMENALCKASGQVERAN  635 (899)
Q Consensus       613 t~kkL~e~E~al~kas~Q~~ra~  635 (899)
                      .+.+|-++|.+|.++..+++.++
T Consensus        91 ~~~rlp~le~el~~l~~~l~~~~  113 (206)
T PRK10884         91 LRTRVPDLENQVKTLTDKLNNID  113 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            44556666666666665555544

>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []

Probab=85.14  E-value=82  Score=36.59  Aligned_cols=72  Identities=15%  Similarity=0.241  Sum_probs=50.6

Q ss_pred             HHHHHHHHhhhcHHHHHHHHHhHHHHHHHHHHHHHhHHHhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHH
Q 002627          574 KVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQ  650 (899)
Q Consensus       574 kvmQaa~rl~~d~~eLk~LR~EkEe~eRlkk~k~~lee~t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~  650 (899)
                      +.++++..|..+..   .++  ..-...+...+...+..-++|+.|++.+..++.-|+.+....+..+|..+..|+.
T Consensus       215 ~e~~~S~~LR~~i~---~~l--~~~~~dl~~Q~~~vn~al~~Ri~et~~ak~~Le~ql~~~~~ei~~~e~~i~~L~~  286 (384)
T PF03148_consen  215 KERQSSAQLREDID---SIL--EQTANDLRAQADAVNAALRKRIHETQEAKNELEWQLKKTLQEIAEMEKNIEDLEK  286 (384)
T ss_pred             HHHHHHHHHHHHHH---HHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            44555555554433   111  2334566777788888889999999999999888888888888888877766655

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

>PF15358 TSKS: Testis-specific serine kinase substrate

Probab=84.65  E-value=90  Score=36.69  Aligned_cols=62  Identities=31%  Similarity=0.329  Sum_probs=36.9

Q ss_pred             ccCCCCchhHHHHH-----HhHHHHHHHHHHHHhhHHHhHHHHHHHHHhhhcHHHHHHHHHhHHHHHH
Q 002627          539 HLVPQDKRDEIILK-----LIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVER  601 (899)
Q Consensus       539 ~~vp~D~Kde~il~-----Lv~r~~el~~~~~~~~dWA~qkvmQaa~rl~~d~~eLk~LR~EkEe~eR  601 (899)
                      .|.|+|.----||.     || |.+|-=--||++|+|-||-|.-.--.-+--..-|+.=|+|-||.|-
T Consensus       101 ~w~~ddpDi~~~l~gvnSGLv-rAKDSItSlKekt~~vnQHVq~LQseCsvlsEnLErrrQEaeELEg  167 (558)
T PF15358_consen  101 PWAPDDPDITELLEGVNSGLV-RAKDSITSLKEKTSRVNQHVQTLQSECSVLSENLERRRQEAEELEG  167 (558)
T ss_pred             CCCCCCccHHHHHhhhcccce-ecccchhhHHHhhHHHHHHHHHHHHHhHHHHHHHHhhhhHHHHHHH
Confidence            46666654433443     44 7777778899999999998753322222223334445666666543

>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins

Probab=84.53  E-value=0.78  Score=38.01  Aligned_cols=41  Identities=27%  Similarity=0.600  Sum_probs=31.3

Q ss_pred             ccccccc--cccceEEecCC-----CcccChhhHHHhhhcC-CCCCCCCc
Q 002627          844 ECVMCLS--EEMSVVFLPCA-----HQVVCTTCNELHEKQG-MKDCPSCR  885 (899)
Q Consensus       844 ~CvIC~d--~~~~vvllPCg-----H~~~C~~Ca~~l~~~~-~~kCPiCR  885 (899)
                      .|.||++  ...+.++.||.     |+ +=..|...|.... ...||+|+
T Consensus         1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~-vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHDEGDEGDPLVSPCRCKGSLKY-VHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCCCCCCCCeeEeccccCCchhH-HHHHHHHHHHHHcCCCcCCCCC
Confidence            4899997  56677889995     55 5679999987543 45899995

Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class

>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function

Probab=84.49  E-value=83  Score=36.13  Aligned_cols=31  Identities=29%  Similarity=0.469  Sum_probs=15.0

Q ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          621 ENALCKASGQVERANSAVRRLEVENTALRQEME  653 (899)
Q Consensus       621 E~al~kas~Q~~ra~~~vr~lE~ena~lr~emE  653 (899)
                      |++|+.|.+|+=.+  .+|++-..+.-+|.=.|
T Consensus        62 e~qlk~aa~~llq~--kirk~~e~~eglr~i~e   92 (401)
T PF06785_consen   62 EKQLKTAAGQLLQT--KIRKITEKDEGLRKIRE   92 (401)
T ss_pred             HHHHHHHHHHHHHH--HHHHHHhccHHHHHHHH
Confidence            44455555555332  45555544444444333

>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=84.41  E-value=63  Score=34.72  Aligned_cols=114  Identities=19%  Similarity=0.268  Sum_probs=56.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          663 AASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKE  742 (899)
Q Consensus       663 ~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~E  742 (899)
                      .+.+..+...--..+.-+.++|+--.-|....+..|.-+..+.+-=+-++..+..+..++++.++....+.+-++.   .
T Consensus        68 ~~~i~~~~~erdq~~~dL~s~E~sfsdl~~ryek~K~vi~~~k~NEE~Lkk~~~ey~~~l~~~eqry~aLK~hAee---k  144 (207)
T PF05010_consen   68 EAEIQKLLKERDQAYADLNSLEKSFSDLHKRYEKQKEVIEGYKKNEETLKKCIEEYEERLKKEEQRYQALKAHAEE---K  144 (207)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---H
Confidence            3444444433333355566666665555555555555555444444445555555555666555555555444432   1


Q ss_pred             HHHHHHHHhhHHHHHhhHHHHhhhhhHHHHHHHHHHHHHHh
Q 002627          743 REQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLR  783 (899)
Q Consensus       743 rEraE~~~k~keealr~K~E~E~qr~k~dikrLEqElsrLr  783 (899)
                      ++.    +-.+...++.+.+.+...+...+++.+-.+..|.
T Consensus       145 L~~----ANeei~~v~~~~~~e~~aLqa~lkk~e~~~~SLe  181 (207)
T PF05010_consen  145 LEK----ANEEIAQVRSKHQAELLALQASLKKEEMKVQSLE  181 (207)
T ss_pred             HHH----HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            111    1123444455555555555555555555554443

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

>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

Probab=84.35  E-value=22  Score=38.47  Aligned_cols=80  Identities=15%  Similarity=0.244  Sum_probs=40.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          634 ANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKA  713 (899)
Q Consensus       634 a~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~  713 (899)
                      .+-.+-+-|-+||.+|+     -|+.......++++.+.-..+..+++...+++..|-++++....++..++.++..++.
T Consensus       103 iD~elvrkEl~nAlvRA-----GLktL~~v~~~~d~ke~~ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~  177 (290)
T COG4026         103 IDVELVRKELKNALVRA-----GLKTLQRVPEYMDLKEDYEELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEV  177 (290)
T ss_pred             cCHHHHHHHHHHHHHHH-----HHHHHhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555666666665     3334444445555555544455555555555555555555555554444444444444


Q ss_pred             HHHHH
Q 002627          714 LQEQL  718 (899)
Q Consensus       714 ~~kql  718 (899)
                      ...++
T Consensus       178 E~s~L  182 (290)
T COG4026         178 ENSRL  182 (290)
T ss_pred             HHHHH
Confidence            44333

>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]

Probab=84.32  E-value=0.25  Score=54.84  Aligned_cols=47  Identities=28%  Similarity=0.517  Sum_probs=31.7

Q ss_pred             cccccccccccc-ceEEecCCCcccChhhHHHhhhcCCCCCCCCcccccceE
Q 002627          842 ERECVMCLSEEM-SVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRI  892 (899)
Q Consensus       842 ~~~CvIC~d~~~-~vvllPCgH~~~C~~Ca~~l~~~~~~kCPiCR~~I~~~i  892 (899)
                      .-.|.-|--... ---++||.|+ ||.+|+..-.   .+-||.|--.|..+.
T Consensus        90 VHfCd~Cd~PI~IYGRmIPCkHv-FCl~CAr~~~---dK~Cp~C~d~VqrIe  137 (389)
T KOG2932|consen   90 VHFCDRCDFPIAIYGRMIPCKHV-FCLECARSDS---DKICPLCDDRVQRIE  137 (389)
T ss_pred             eEeecccCCcceeeecccccchh-hhhhhhhcCc---cccCcCcccHHHHHH
Confidence            344666644321 1235799999 9999998642   468999997776543

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=84.16  E-value=10  Score=45.00  Aligned_cols=50  Identities=22%  Similarity=0.238  Sum_probs=32.4

Q ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          623 ALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKR  672 (899)
Q Consensus       623 al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ek  672 (899)
                      -|+.+.+|+-.-...+..|+.+|..+++|.|..+.+..--..+++....-
T Consensus        60 TlrTlva~~k~~r~~~~~l~~~N~~l~~eN~~L~~r~~~id~~i~~av~~  109 (472)
T TIGR03752        60 TLRTLVAEVKELRKRLAKLISENEALKAENERLQKREQSIDQQIQQAVQS  109 (472)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh
Confidence            35666677777777888888888888888886654444333344444333

Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=84.02  E-value=63  Score=34.40  Aligned_cols=42  Identities=24%  Similarity=0.230  Sum_probs=18.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          677 QMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQL  718 (899)
Q Consensus       677 ~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kql  718 (899)
                      +....-.|++...|-.+|.+.+.+...+.-+.+-++...+++
T Consensus        87 ~aq~rqlEkE~q~L~~~i~~Lqeen~kl~~e~~~lk~~~~eL  128 (193)
T PF14662_consen   87 LAQARQLEKEQQSLVAEIETLQEENGKLLAERDGLKKRSKEL  128 (193)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhHHHHHHHH
Confidence            344444455555555444444444444444444444333333

>KOG2991 consensus Splicing regulator [RNA processing and modification]

Probab=83.91  E-value=36  Score=37.61  Aligned_cols=124  Identities=19%  Similarity=0.263  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          664 ASCQEVSKREKKTQMKFQSWEKQ-----------KALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEEL  732 (899)
Q Consensus       664 ~~~~e~~ekEkk~~k~l~~~EkQ-----------k~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~  732 (899)
                      .+|+....--+..+...++|-.+           -..|.++|...|..-..|.++++.+.+...-+..++.-.++...+.
T Consensus        69 ~seq~~~~~a~~elq~~ks~~Q~e~~v~a~e~~~~rll~d~i~nLk~se~~lkqQ~~~a~RrE~ilv~rlA~kEQEmqe~  148 (330)
T KOG2991|consen   69 LSEQDFKVMARDELQLRKSWKQYEAYVQALEGKYTRLLSDDITNLKESEEKLKQQQQEAARRENILVMRLATKEQEMQEC  148 (330)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH


Q ss_pred             HHHHHHHHHHHHHHHHHHhh-------HHHHHhhHHHHhhhhhHHHHHHHHHHHHHHhhccchh
Q 002627          733 VMQASSIRKEREQIEASAKS-------KEDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSS  789 (899)
Q Consensus       733 laqaE~ER~ErEraE~~~k~-------keealr~K~E~E~qr~k~dikrLEqElsrLr~k~d~~  789 (899)
                      ..++...+....=.-...|+       .+.-+|+|.|.+..  ++.|+.++.+|+.|+...|+.
T Consensus       149 ~sqi~~lK~qq~Ps~~qlR~~llDPAinl~F~rlK~ele~t--k~Klee~QnelsAwkFTPdS~  210 (330)
T KOG2991|consen  149 TSQIQYLKQQQQPSVAQLRSTLLDPAINLFFLRLKGELEQT--KDKLEEAQNELSAWKFTPDSK  210 (330)
T ss_pred             HHHHHHHHHhhCcHHHHHHHHhhChHHHHHHHHHHHHHHHH--HHHHHHHHhhhheeeecCCCc

>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]

Probab=83.91  E-value=98  Score=36.50  Aligned_cols=67  Identities=25%  Similarity=0.414  Sum_probs=41.5

Q ss_pred             HHHHHHHHHHhhHHHhHHHHHHHHHhhhc----HHHHHHHHHhHHHHHH-HHHHHHHhHHHhhhhHHHHHHH
Q 002627          557 VRELHNQLHEWTEWANQKVMQAARRLSKD----KAELKTLRQEKEEVER-LKKEKQILEENTMKKLSEMENA  623 (899)
Q Consensus       557 ~~el~~~~~~~~dWA~qkvmQaa~rl~~d----~~eLk~LR~EkEe~eR-lkk~k~~lee~t~kkL~e~E~a  623 (899)
                      --.||-.+.--.|+--+|.|--.+||..|    ..-|+-||.|+=+.+- |..+...|-..--||+..+|-.
T Consensus       145 k~~lEq~leqeqef~vnKlm~ki~Klen~t~~kq~~leQLRre~V~lentlEQEqEalvN~LwKrmdkLe~e  216 (552)
T KOG2129|consen  145 KLPLEQLLEQEQEFFVNKLMNKIRKLENKTLLKQNTLEQLRREAVQLENTLEQEQEALVNSLWKRMDKLEQE  216 (552)
T ss_pred             hccHHHHHHHHHHHHHHHHHHHHHHhhhhhHHhhhhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33566666666778889999999999854    3456888888655432 2333444444445555555543

>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=83.89  E-value=16  Score=39.71  Aligned_cols=25  Identities=20%  Similarity=0.656  Sum_probs=18.8

Q ss_pred             cccChhhHHHhhhcCCCCCCCCcccc
Q 002627          863 QVVCTTCNELHEKQGMKDCPSCRSPI  888 (899)
Q Consensus       863 ~~~C~~Ca~~l~~~~~~kCPiCR~~I  888 (899)
                      +-.|..|-..|-. ....||.|.+.=
T Consensus       194 MK~C~sC~qqIHR-NAPiCPlCK~Ks  218 (230)
T PF10146_consen  194 MKTCQSCHQQIHR-NAPICPLCKAKS  218 (230)
T ss_pred             cchhHhHHHHHhc-CCCCCccccccc
Confidence            4469999998865 346999997653

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.

>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=83.68  E-value=72  Score=35.63  Aligned_cols=36  Identities=14%  Similarity=0.237  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          665 SCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRK  700 (899)
Q Consensus       665 ~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~K  700 (899)
                      .+.++.++......++..||-+..++.+.+...+.|
T Consensus       222 e~~e~~~~i~e~~~rl~~l~~~~~~l~k~~~~~~sK  257 (269)
T PF05278_consen  222 EVKEIKERITEMKGRLGELEMESTRLSKTIKSIKSK  257 (269)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333344444444444444444444444444444

>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs)

Probab=83.65  E-value=2  Score=34.11  Aligned_cols=35  Identities=23%  Similarity=0.121  Sum_probs=31.2

Q ss_pred             hHHHHHHhhCCCCChHHHHHHHHHhCCchHhHhhc
Q 002627          213 ELVCVLREVRPFFSTGDAMWCLLICDMNVSHACAM  247 (899)
Q Consensus       213 GLVafL~~~~P~LS~~dAm~yLL~ad~dL~~A~a~  247 (899)
                      .+|..|++.||.++.....++|..++.|+..|+.+
T Consensus         3 ~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~   37 (42)
T PF02845_consen    3 EMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDA   37 (42)
T ss_dssp             HHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHH
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            57889999999999999999999999999998864

CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.

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

Probab=83.62  E-value=1.3e+02  Score=37.64  Aligned_cols=24  Identities=25%  Similarity=0.303  Sum_probs=9.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          694 LVTEKRKVVQLLQELDQAKALQEQ  717 (899)
Q Consensus       694 L~~eK~KLa~LeqELeqak~~~kq  717 (899)
                      ++...-++..--+++.++.+.+.+
T Consensus       239 le~i~~~~~dqlqel~~l~~a~~q  262 (716)
T KOG4593|consen  239 LEAINKNMKDQLQELEELERALSQ  262 (716)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333444444444433

>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs)

Probab=83.44  E-value=2.1  Score=34.08  Aligned_cols=37  Identities=16%  Similarity=0.019  Sum_probs=33.4

Q ss_pred             HhHHHHHHhhCCCCChHHHHHHHHHhCCchHhHhhcc
Q 002627          212 AELVCVLREVRPFFSTGDAMWCLLICDMNVSHACAMD  248 (899)
Q Consensus       212 ~GLVafL~~~~P~LS~~dAm~yLL~ad~dL~~A~a~~  248 (899)
                      ...|..|+..||.++...+.++|..++.|+..||..-
T Consensus         3 ~~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~L   39 (43)
T smart00546        3 DEALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNL   39 (43)
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            4678899999999999999999999999999998643

CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)

>TIGR01069 mutS2 MutS2 family protein

Probab=83.31  E-value=30  Score=43.69  Aligned_cols=19  Identities=21%  Similarity=-0.031  Sum_probs=10.5

Q ss_pred             hHHHHHHHhHHHHHHhhCC
Q 002627          205 QLEKYILAELVCVLREVRP  223 (899)
Q Consensus       205 ~l~~rSL~GLVafL~~~~P  223 (899)
                      +...+.|..|...+..+.+
T Consensus       240 ~e~~~il~~L~~~i~~~~~  258 (771)
T TIGR01069       240 CEIEKILRTLSEKVQEYLL  258 (771)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3445566666666655544

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=83.20  E-value=37  Score=42.99  Aligned_cols=39  Identities=21%  Similarity=0.152  Sum_probs=19.7

Q ss_pred             hHHHHHHHhHHHHHHhhCCCCChHHHHHHHHHhCCchHhHhhc
Q 002627          205 QLEKYILAELVCVLREVRPFFSTGDAMWCLLICDMNVSHACAM  247 (899)
Q Consensus       205 ~l~~rSL~GLVafL~~~~P~LS~~dAm~yLL~ad~dL~~A~a~  247 (899)
                      +.+.+.|..|...+..+.+.|-.   +.. .++.+|+..|.+.
T Consensus       245 ~~~~~il~~l~~~i~~~~~~l~~---~~~-~l~~lD~l~a~a~  283 (782)
T PRK00409        245 QEIERILKELSAKVAKNLDFLKF---LNK-IFDELDFIFARAR  283 (782)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH---HHH-HHHHHHHHHHHHH
Confidence            44556666666666665554321   111 2345566555543

>TIGR00618 sbcc exonuclease SbcC

Probab=83.18  E-value=1.6e+02  Score=38.45  Aligned_cols=13  Identities=31%  Similarity=0.508  Sum_probs=9.4

Q ss_pred             ccccccccccccc
Q 002627          839 VKRERECVMCLSE  851 (899)
Q Consensus       839 l~~~~~CvIC~d~  851 (899)
                      +.....|++|-..
T Consensus       498 l~~~~~cplcgs~  510 (1042)
T TIGR00618       498 ELQEEPCPLCGSC  510 (1042)
T ss_pred             cCCCCCCCCCCCC
Confidence            4456779999874

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

>PRK10476 multidrug resistance protein MdtN; Provisional

Probab=82.86  E-value=53  Score=36.92  Aligned_cols=14  Identities=7%  Similarity=0.060  Sum_probs=6.6

Q ss_pred             CCcccCcCcccccCCCC
Q 002627          528 AGILSDDTSLEHLVPQD  544 (899)
Q Consensus       528 ~~~~~d~~~~~~~vp~D  544 (899)
                      ..|..+   .|.+|.+.
T Consensus        60 ~~v~V~---~G~~VkkG   73 (346)
T PRK10476         60 VELAVT---ENQAVKKG   73 (346)
T ss_pred             EEEEeC---CCCEEcCC
Confidence            445555   23455443

>PF05276 SH3BP5: SH3 domain-binding protein 5 (SH3BP5); InterPro: IPR007940 The SH3 domain-binding protein inhibits the auto and transphophorylation of BTK and acts as a negative regulator of BTK-related signalling in B cells

Probab=82.51  E-value=82  Score=34.59  Aligned_cols=145  Identities=23%  Similarity=0.253  Sum_probs=82.9

Q ss_pred             hHHHHHHHHHhhhc----HHHHHHHHHhHHHHHHHHHHHHHhH------HHhhhhHHHHHHHHHHhhh-hH--------H
Q 002627          572 NQKVMQAARRLSKD----KAELKTLRQEKEEVERLKKEKQILE------ENTMKKLSEMENALCKASG-QV--------E  632 (899)
Q Consensus       572 ~qkvmQaa~rl~~d----~~eLk~LR~EkEe~eRlkk~k~~le------e~t~kkL~e~E~al~kas~-Q~--------~  632 (899)
                      .+|+-+.++|||+=    .+-....+..++=-.+..++-...|      +-.+..+.-.|..|..-.+ ++        .
T Consensus        45 ~~kL~~~~kkLg~~I~karPYyea~~~a~~aq~e~q~Aa~~yerA~~~h~aAKe~v~laEq~l~~~~~~~~D~~wqEmLn  124 (239)
T PF05276_consen   45 TKKLNELAKKLGSCIEKARPYYEARRKAKEAQQEAQKAALQYERANSMHAAAKEMVALAEQSLMSDSNWTFDPAWQEMLN  124 (239)
T ss_pred             HHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccccHHHHHHHH
Confidence            35677778888743    2233333333332222222111111      1133335566666655442 32        2


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          633 RANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAK  712 (899)
Q Consensus       633 ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak  712 (899)
                      .|...|...|.+......+-...-....+.+..++.+.++.++..++-.-|-..+..+++.|+..|.++..|++++.++|
T Consensus       125 ~A~~kVneAE~ek~~ae~eH~~~~~~~~~ae~~v~~Lek~lkr~I~KSrPYfe~K~~~~~~l~~~k~~v~~Le~~v~~aK  204 (239)
T PF05276_consen  125 HATQKVNEAEQEKTRAEREHQRRARIYNEAEQRVQQLEKKLKRAIKKSRPYFELKAKFNQQLEEQKEKVEELEAKVKQAK  204 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444444444556666777777788888888888888888888888888888888888888777


Q ss_pred             HHHH
Q 002627          713 ALQE  716 (899)
Q Consensus       713 ~~~k  716 (899)
                      ..-.
T Consensus       205 ~~Y~  208 (239)
T PF05276_consen  205 SRYS  208 (239)
T ss_pred             HHHH
Confidence            5543

>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast)

Probab=82.46  E-value=21  Score=37.46  Aligned_cols=57  Identities=21%  Similarity=0.296  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          632 ERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVT  696 (899)
Q Consensus       632 ~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~  696 (899)
                      ++.+..+.+++.+.+.++.+.+.++..-.++        +.....+.++..+++++..|+.+|..
T Consensus        72 ~~l~~~~~~~~~~i~~l~~~i~~~~~~r~~~--------~eR~~~l~~l~~l~~~~~~l~~el~~  128 (188)
T PF03962_consen   72 EKLQKEIEELEKKIEELEEKIEEAKKGREES--------EEREELLEELEELKKELKELKKELEK  128 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccccc--------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333344444444444445444444333333        22222355666666777777766663

The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].

>KOG0163 consensus Myosin class VI heavy chain [Cytoskeleton]

Probab=82.43  E-value=1.5e+02  Score=37.54  Aligned_cols=12  Identities=33%  Similarity=0.714  Sum_probs=9.0

Q ss_pred             HHHHHHhHHHHH
Q 002627          548 EIILKLIPRVRE  559 (899)
Q Consensus       548 e~il~Lv~r~~e  559 (899)
                      |-++.||.+|.+
T Consensus       774 e~m~~lv~kVn~  785 (1259)
T KOG0163|consen  774 ETMLELVAKVNK  785 (1259)
T ss_pred             HHHHHHHHHHHH
Confidence            567788888875

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=82.36  E-value=43  Score=42.43  Aligned_cols=21  Identities=14%  Similarity=0.260  Sum_probs=14.7

Q ss_pred             HHHHHHHhhhcHHHHHHHHHh
Q 002627          575 VMQAARRLSKDKAELKTLRQE  595 (899)
Q Consensus       575 vmQaa~rl~~d~~eLk~LR~E  595 (899)
                      +...|++++-+...+..-++-
T Consensus       490 a~~iA~~~Glp~~ii~~A~~~  510 (782)
T PRK00409        490 AFEIAKRLGLPENIIEEAKKL  510 (782)
T ss_pred             HHHHHHHhCcCHHHHHHHHHH
Confidence            567888888888776554443

>PF05262 Borrelia_P83: Borrelia P83/100 protein; InterPro: IPR007926 This family consists of several Borrelia P83/P100 antigen proteins

Probab=82.35  E-value=38  Score=40.71  Aligned_cols=14  Identities=29%  Similarity=0.643  Sum_probs=7.6

Q ss_pred             cHHHHHHHHHhHHH
Q 002627          585 DKAELKTLRQEKEE  598 (899)
Q Consensus       585 d~~eLk~LR~EkEe  598 (899)
                      |..+...||.+++.
T Consensus       179 ~~~vv~~l~~~~dk  192 (489)
T PF05262_consen  179 DEKVVQELREDKDK  192 (489)
T ss_pred             cHHHHHHHhhcccc
Confidence            44555566665543

>PF07321 YscO: Type III secretion protein YscO; InterPro: IPR009929 This family contains the bacterial type III secretion protein YscO, which is approximately 150 residues long

Probab=82.21  E-value=64  Score=33.10  Aligned_cols=39  Identities=18%  Similarity=0.246  Sum_probs=17.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          693 ELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEE  731 (899)
Q Consensus       693 EL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE  731 (899)
                      ++...+.+-.++++.++++....++-...+++..+....
T Consensus        75 qv~~Lr~~e~~le~~~~~a~~~~~~e~~~l~~a~~~~~~  113 (152)
T PF07321_consen   75 QVASLREREAELEQQLAEAEEQLEQERQALEEARKQLQQ  113 (152)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444445554444444444444444433333

YscO has been shown to be required for high-level expression and secretion of the anti-host proteins V antigen and Yops in Yersinia pestis [].

>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=82.01  E-value=81  Score=34.20  Aligned_cols=30  Identities=10%  Similarity=0.322  Sum_probs=11.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          686 QKALFQEELVTEKRKVVQLLQELDQAKALQ  715 (899)
Q Consensus       686 Qk~~LQEEL~~eK~KLa~LeqELeqak~~~  715 (899)
                      +...++..+...+.++.+++++++++....
T Consensus        71 ~~~~l~~~v~~q~~el~~L~~qi~~~~~~~  100 (251)
T PF11932_consen   71 YNEQLERQVASQEQELASLEQQIEQIEETR  100 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333344444444444444333333

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.

>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans

Probab=81.78  E-value=1.2  Score=50.86  Aligned_cols=48  Identities=21%  Similarity=0.523  Sum_probs=31.9

Q ss_pred             ccccccccccccceEEe-cC----------------CCc---c-cChhhHHHhhhcCC------------CCCCCCcccc
Q 002627          842 ERECVMCLSEEMSVVFL-PC----------------AHQ---V-VCTTCNELHEKQGM------------KDCPSCRSPI  888 (899)
Q Consensus       842 ~~~CvIC~d~~~~vvll-PC----------------gH~---~-~C~~Ca~~l~~~~~------------~kCPiCR~~I  888 (899)
                      ...|.-|+....++.+. -|                ..-   - -|..|..+|..++.            ..||.||+.|
T Consensus       271 ~e~CigC~~~~~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F  350 (358)
T PF10272_consen  271 LEPCIGCMQAQPNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF  350 (358)
T ss_pred             cCCccccccCCCCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence            44588888888777765 23                221   1 28889887754332            4799999987


Q ss_pred             c
Q 002627          889 Q  889 (899)
Q Consensus       889 ~  889 (899)
                      -
T Consensus       351 C  351 (358)
T PF10272_consen  351 C  351 (358)
T ss_pred             e
Confidence            4

They are purported to be transmembrane protein-precursors but their function is unknown.

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

Probab=81.34  E-value=38  Score=37.85  Aligned_cols=98  Identities=17%  Similarity=0.291  Sum_probs=42.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhHHHHhhhh
Q 002627          688 ALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMR  767 (899)
Q Consensus       688 ~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE~ER~ErEraE~~~k~keealr~K~E~E~qr  767 (899)
                      +.|.-.|++-.++|...+-|++++|.++..+++-|-+++=-.-|+...+.+-|+|+.+++.-...=-..| .......|+
T Consensus        71 RHLkakLkes~~~l~dRetEI~eLksQL~RMrEDWIEEECHRVEAQLALKEARkEIkQLkQvieTmrssL-~ekDkGiQK  149 (305)
T PF15290_consen   71 RHLKAKLKESENRLHDRETEIDELKSQLARMREDWIEEECHRVEAQLALKEARKEIKQLKQVIETMRSSL-AEKDKGIQK  149 (305)
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-chhhhhHHH
Confidence            3333334444444444444555555555555555655554444443333333444444433211111111 112333466


Q ss_pred             hHHHHHHHHHHHHHHhhcc
Q 002627          768 YKDDIHRLEKEISQLRLKT  786 (899)
Q Consensus       768 ~k~dikrLEqElsrLr~k~  786 (899)
                      |=.||.--.+.++.|=..+
T Consensus       150 YFvDINiQN~KLEsLLqsM  168 (305)
T PF15290_consen  150 YFVDINIQNKKLESLLQSM  168 (305)
T ss_pred             HHhhhhhhHhHHHHHHHHH
Confidence            6666655455555444433

>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=81.33  E-value=24  Score=36.86  Aligned_cols=80  Identities=19%  Similarity=0.237  Sum_probs=15.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          636 SAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQ  715 (899)
Q Consensus       636 ~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~  715 (899)
                      +.+..++.....++.|+..+.+.-.+-+.++..+...-.+....+..-+..+..|+.++...+.++..+..++.+....+
T Consensus        67 ~~~~~le~~~~~l~~ELael~r~~~el~~~L~~~~~~l~~l~~~~~~~~~~l~~l~~~~~~L~~~~~~l~~~l~ek~k~~  146 (194)
T PF08614_consen   67 AQISSLEQKLAKLQEELAELYRSKGELAQQLVELNDELQELEKELSEKERRLAELEAELAQLEEKIKDLEEELKEKNKAN  146 (194)
T ss_dssp             -----------------------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44556666666667777666666666655555554444444444444455555555555444444444444444433333

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.

>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function

Probab=81.26  E-value=0.84  Score=46.63  Aligned_cols=54  Identities=24%  Similarity=0.650  Sum_probs=37.3

Q ss_pred             ccccccccccccceEEecCCCc-c-----cC------hhhHHHhhhc------------------------------CCC
Q 002627          842 ERECVMCLSEEMSVVFLPCAHQ-V-----VC------TTCNELHEKQ------------------------------GMK  879 (899)
Q Consensus       842 ~~~CvIC~d~~~~vvllPCgH~-~-----~C------~~Ca~~l~~~------------------------------~~~  879 (899)
                      +..|+|||+.+-++||+-|--. -     +|      ..|.+++.+.                              ..-
T Consensus         2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L   81 (162)
T PF07800_consen    2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPEL   81 (162)
T ss_pred             CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccccccc
Confidence            4579999999999999877422 0     33      2465554310                              023


Q ss_pred             CCCCCcccccceEeEE
Q 002627          880 DCPSCRSPIQRRIPVR  895 (899)
Q Consensus       880 kCPiCR~~I~~~irVf  895 (899)
                      .||.||..|.+.+.|.
T Consensus        82 ~CPLCRG~V~GWtvve   97 (162)
T PF07800_consen   82 ACPLCRGEVKGWTVVE   97 (162)
T ss_pred             cCccccCceeceEEch
Confidence            6999999999887764

The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=81.25  E-value=2e+02  Score=38.19  Aligned_cols=14  Identities=21%  Similarity=0.420  Sum_probs=6.0

Q ss_pred             HHHHHHHHHhhhhH
Q 002627          618 SEMENALCKASGQV  631 (899)
Q Consensus       618 ~e~E~al~kas~Q~  631 (899)
                      .++|.++..+..|+
T Consensus       105 ~~Leq~l~~~~~~L  118 (1109)
T PRK10929        105 DALEQEILQVSSQL  118 (1109)
T ss_pred             HHHHHHHHHHHHHH
Confidence            44444444444433

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=81.22  E-value=1.4  Score=54.43  Aligned_cols=104  Identities=19%  Similarity=0.282  Sum_probs=0.0

Q ss_pred             HHHHhHHHHHHHHHHHHhhHHHhHH------HHHHHHHhhhcHHHHHHHHHhHHHHH----HHHHHHHHhHHHhhhhHHH
Q 002627          550 ILKLIPRVRELHNQLHEWTEWANQK------VMQAARRLSKDKAELKTLRQEKEEVE----RLKKEKQILEENTMKKLSE  619 (899)
Q Consensus       550 il~Lv~r~~el~~~~~~~~dWA~qk------vmQaa~rl~~d~~eLk~LR~EkEe~e----Rlkk~k~~lee~t~kkL~e  619 (899)
                      +..|--+...|+.++..|+--.+.-      -...+++|.....+--.|..+...++    .+....+.|+.    .+.+
T Consensus       307 l~~lq~e~~~Le~el~sW~sl~~~~~~~~~sPe~l~~~l~~lq~~~~~L~ek~g~~~~~~~~l~~~~~~Le~----e~~~  382 (722)
T PF05557_consen  307 LAELQLENEKLEDELNSWESLLQDIGLEFDSPEDLARALVQLQQENASLTEKLGSLQSELRELEEEIQELEQ----EKEQ  382 (722)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH----HHHH
Confidence            3344456677777777777655542      23444444433333333333322211    11111111111    2233


Q ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          620 MENALCKASGQVERANSAVRRLEVENTALRQEMEAAKL  657 (899)
Q Consensus       620 ~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl  657 (899)
                      +...+.++...+......+++||+....+..|.+..+-
T Consensus       383 l~~~~~~l~~~~~~~~~~~~RLerq~~L~~kE~d~LR~  420 (722)
T PF05557_consen  383 LLKEIEELEASLEALKKLIRRLERQKALATKERDYLRA  420 (722)
T ss_dssp             --------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555666667788888888888888777663

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.

>PF10212 TTKRSYEDQ: Predicted coiled-coil domain-containing protein; InterPro: IPR019348 This entry represents a C-terminal 500 residue region, which contains a conserved TTKRSYEDQ motif

Probab=81.20  E-value=46  Score=40.10  Aligned_cols=66  Identities=26%  Similarity=0.321  Sum_probs=41.9

Q ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          618 SEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTE  697 (899)
Q Consensus       618 ~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~e  697 (899)
                      ..++..|..+..|+..|++.......|...                            ..+++...|+++..+.++|+..
T Consensus       416 ~~Y~~RI~eLt~qlQ~adSKa~~f~~Ec~a----------------------------L~~rL~~aE~ek~~l~eeL~~a  467 (518)
T PF10212_consen  416 SYYMSRIEELTSQLQHADSKAVHFYAECRA----------------------------LQKRLESAEKEKESLEEELKEA  467 (518)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------------------------HHHHHHHHHHHHHHHHHHHHHH
Confidence            455666666666666666666666643333                            3445666666777777777777


Q ss_pred             HHHHHHHHHHHHHH
Q 002627          698 KRKVVQLLQELDQA  711 (899)
Q Consensus       698 K~KLa~LeqELeqa  711 (899)
                      +.++.+++.||.-.
T Consensus       468 ~~~i~~LqDEL~TT  481 (518)
T PF10212_consen  468 NQNISRLQDELETT  481 (518)
T ss_pred             HHHHHHHHHHHHHH
Confidence            77777777776644

It is found in a family of coiled-coil domain-containing proteins that are conserved from nematodes to humans. These proteins also contain an N-terminal domain with a KLRAQ motif (IPR019343 from INTERPRO). The function of these proteins is not known.

>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]

Probab=81.14  E-value=79  Score=37.20  Aligned_cols=58  Identities=19%  Similarity=0.251  Sum_probs=30.9

Q ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          619 EMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKT  676 (899)
Q Consensus       619 e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~  676 (899)
                      +.+..|-++...+......+-++-.++..+|+|-++.+-...+.+..++++++.-...
T Consensus        10 ~~dqr~~~~~~~laq~~k~~s~~~aq~~~~~a~~~ai~a~~~~~E~~l~~Lq~e~~~l   67 (459)
T KOG0288|consen   10 ENDQRLIDLNTELAQCEKAQSRLSAQLVILRAESRAIKAKLQEKELELNRLQEENTQL   67 (459)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444445555556666666666666666666655555554443333

>PF15556 Zwint: ZW10 interactor

Probab=81.07  E-value=85  Score=33.80  Aligned_cols=39  Identities=21%  Similarity=0.232  Sum_probs=19.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          677 QMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQ  715 (899)
Q Consensus       677 ~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~  715 (899)
                      .|.|+.+.+=-+..++.....+.+|.++.++|..+++..
T Consensus       133 eK~LQ~Lae~sAEvrerq~~~qqeLe~l~qeL~~lkqQa  171 (252)
T PF15556_consen  133 EKHLQHLAEVSAEVRERQTGTQQELERLYQELGTLKQQA  171 (252)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355555555444444444555555555555555544443

>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=81.07  E-value=85  Score=33.78  Aligned_cols=57  Identities=19%  Similarity=0.200  Sum_probs=24.2

Q ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          617 LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKT  676 (899)
Q Consensus       617 L~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~  676 (899)
                      +.++|..+..+-++.++.   ....+.+...+-.|.+.+.-....-++++..+.++=.+.
T Consensus        46 ~~e~Ek~i~~~i~e~~~~---~~~~~~~i~~~~~erdq~~~dL~s~E~sfsdl~~ryek~  102 (207)
T PF05010_consen   46 MEEYEKTIAQMIEEKQKQ---KELSEAEIQKLLKERDQAYADLNSLEKSFSDLHKRYEKQ  102 (207)
T ss_pred             HHHHHHHHHHHHHHHHhh---HHhHHHHHHHHHhhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            455555555544443332   222233333333444444333333444455554444433

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

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=80.70  E-value=1e+02  Score=34.44  Aligned_cols=125  Identities=14%  Similarity=0.134  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--
Q 002627          660 AESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQAS--  737 (899)
Q Consensus       660 ~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~laqaE--  737 (899)
                      +-+...+.++.+..+..++.+.++-.|+..++..+...+.++.++..++.+++..++.++.++++.+...++..+-+.  
T Consensus        34 ~~~ds~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~l~~raRAmq~n  113 (265)
T COG3883          34 QNQDSKLSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQELLKKRARAMQVN  113 (265)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc


Q ss_pred             ------------------------------HHHHHHHHHHHHHhhHHHHHhhHHHHhhhhhHHHHHHHHHHHHHHhh
Q 002627          738 ------------------------------SIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRL  784 (899)
Q Consensus       738 ------------------------------~ER~ErEraE~~~k~keealr~K~E~E~qr~k~dikrLEqElsrLr~  784 (899)
                                                    .--+.+-.-....+.+++.-+...+...+.+..-...++..+..|..
T Consensus       114 G~~t~Yidvil~SkSfsD~IsRvtAi~~iv~aDk~ile~qk~dk~~Le~kq~~l~~~~e~l~al~~e~e~~~~~L~~  190 (265)
T COG3883         114 GTATSYIDVILNSKSFSDLISRVTAISVIVDADKKILEQQKEDKKSLEEKQAALEDKLETLVALQNELETQLNSLNS  190 (265)
T ss_pred             CChhHHHHHHHccCcHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH

>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1

Probab=80.51  E-value=2.7  Score=38.67  Aligned_cols=32  Identities=25%  Similarity=0.622  Sum_probs=24.8

Q ss_pred             cccccccccccccc--cceEEecCCCcccChhhHH
Q 002627          839 VKRERECVMCLSEE--MSVVFLPCAHQVVCTTCNE  871 (899)
Q Consensus       839 l~~~~~CvIC~d~~--~~vvllPCgH~~~C~~Ca~  871 (899)
                      +.....|.+|...-  ...++.||||. +...|..
T Consensus        75 i~~~~~C~vC~k~l~~~~f~~~p~~~v-~H~~C~~  108 (109)
T PF10367_consen   75 ITESTKCSVCGKPLGNSVFVVFPCGHV-VHYSCIK  108 (109)
T ss_pred             ECCCCCccCcCCcCCCceEEEeCCCeE-Eeccccc
Confidence            45567799999864  55677899998 7888864

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].

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

Probab=80.35  E-value=1.3e+02  Score=35.52  Aligned_cols=73  Identities=18%  Similarity=0.279  Sum_probs=37.6

Q ss_pred             HHhhHHHhHHHHHHHHHhhhcHHHHHHHHHhHHHHHHHHHHHHHhHHHhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHH
Q 002627          565 HEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEV  643 (899)
Q Consensus       565 ~~~~dWA~qkvmQaa~rl~~d~~eLk~LR~EkEe~eRlkk~k~~lee~t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~  643 (899)
                      ..-.+|-++.+-++-.+|..--..|...|.+..-+  +-.+    ......++.+++.++..+..++..+.+.+..++.
T Consensus       160 ~~~~~fl~~ql~~~~~~L~~ae~~l~~f~~~~~~~--~~~~----~~~~~~~l~~l~~~l~~~~~~l~~~~a~~~~l~~  232 (498)
T TIGR03007       160 DSAQRFIDEQIKTYEKKLEAAENRLKAFKQENGGI--LPDQ----EGDYYSEISEAQEELEAARLELNEAIAQRDALKR  232 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCccc--Cccc----hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34456766666666666665555555555433211  0000    0112345666666666666666666555555553

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.

>PF15369 KIAA1328: Uncharacterised protein KIAA1328

Probab=80.27  E-value=16  Score=41.41  Aligned_cols=87  Identities=34%  Similarity=0.508  Sum_probs=55.2

Q ss_pred             HHhhhcHHHHHHHHHhHHHH-HHHHHHHHHhHHHhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          580 RRLSKDKAELKTLRQEKEEV-ERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLR  658 (899)
Q Consensus       580 ~rl~~d~~eLk~LR~EkEe~-eRlkk~k~~lee~t~kkL~e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~  658 (899)
                      +|+..-..||..+-+|||.+ +|||.+.+.           ||.              .|+.||.+|..|-.|.|+..  
T Consensus         8 ~ri~~li~~la~~~~~~e~~~~~~~~~~~~-----------~e~--------------~~~~l~~~~~~~~~~~~~~~--   60 (328)
T PF15369_consen    8 RRIANLIKELARVSEEKEVTEERLKAEQES-----------FEK--------------KIRQLEEQNELIIKEREDLQ--   60 (328)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHH-----------HHH--------------HHHHHHHHhHHHHHHHHHHH--
Confidence            45555566777777777775 466666666           443              78889999999988888764  


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          659 AAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAK  712 (899)
Q Consensus       659 a~Es~~~~~e~~ekEkk~~k~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak  712 (899)
                        -+-+.|+|++                 .+.|+.|...+.||..---+|..++
T Consensus        61 --~qyrecqell-----------------~lyq~ylseqq~kl~~s~~~l~~~~   95 (328)
T PF15369_consen   61 --QQYRECQELL-----------------SLYQKYLSEQQEKLTMSLSELSAAR   95 (328)
T ss_pred             --HHHHHHHHHH-----------------HHHHHHHHHHHHHHhcCHHHhhhhh
Confidence              2333444443                 4556667777777555444444443

>smart00502 BBC B-Box C-terminal domain

Probab=80.21  E-value=51  Score=30.68  Aligned_cols=59  Identities=12%  Similarity=0.150  Sum_probs=40.4

Q ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          619 EMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQ  677 (899)
Q Consensus       619 e~E~al~kas~Q~~ra~~~vr~lE~ena~lr~emEaakl~a~Es~~~~~e~~ekEkk~~  677 (899)
                      ++.+.|..+....+.....+..++.....+....+.++-........+.+.++..+..+
T Consensus         4 ~L~~~l~~l~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~I~~~f~~l~~~L~~~e~~l   62 (127)
T smart00502        4 ALEELLTKLRKKAAELEDALKQLISIIQEVEENAADVEAQIKAAFDELRNALNKRKKQL   62 (127)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35555566666666666677777777777777777777777777777777776666653

Coiled coil region C-terminal to (some) B-Box domains

>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=80.14  E-value=0.8  Score=57.09  Aligned_cols=51  Identities=27%  Similarity=0.468  Sum_probs=36.4

Q ss_pred             cccccccccccccc-------cceEEecCCCcccChhhHHHhhhc-CCCCCCCCcccccc
Q 002627          839 VKRERECVMCLSEE-------MSVVFLPCAHQVVCTTCNELHEKQ-GMKDCPSCRSPIQR  890 (899)
Q Consensus       839 l~~~~~CvIC~d~~-------~~vvllPCgH~~~C~~Ca~~l~~~-~~~kCPiCR~~I~~  890 (899)
                      .....+|.||+.--       .+-..-.|.|. |-..|.-.|..+ +..+||.||..|+-
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknK-FH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNK-FHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhh-hhHHHHHHHHHhcCCCCCCcccccccc
Confidence            44567899999721       11222359999 889999988765 34699999988763

>PF09744 Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; InterPro: IPR019143 This entry represents the N-terminal 200 residues of a set of proteins conserved from yeasts to humans

Probab=80.07  E-value=77  Score=32.70  Aligned_cols=17  Identities=18%  Similarity=0.249  Sum_probs=7.0

Q ss_pred             HHHHHHHHHHHHHHHHH
Q 002627          633 RANSAVRRLEVENTALR  649 (899)
Q Consensus       633 ra~~~vr~lE~ena~lr  649 (899)
                      ..+..+..|..+|..|.
T Consensus        47 ~~~~e~~~L~~d~e~L~   63 (158)
T PF09744_consen   47 EHEVELELLREDNEQLE   63 (158)
T ss_pred             hhhhHHHHHHHHHHHHH
Confidence            33334444444444333

Most of the proteins in this entry have a RhoGEF domain (IPR000219 from INTERPRO) at their C-terminal end.

>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]

Probab=80.07  E-value=13  Score=44.79  Aligned_cols=54  Identities=19%  Similarity=0.241  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002627          679 KFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEEL  732 (899)
Q Consensus       679 ~l~~~EkQk~~LQEEL~~eK~KLa~LeqELeqak~~~kqlE~kwrQeqkakeE~  732 (899)
                      .+..+|-.+++|+.||+....|+.++++.+.+.+..+.+++..+.|.+.+.+|+
T Consensus        94 EL~ele~krqel~seI~~~n~kiEelk~~i~~~q~eL~~Lk~~ieqaq~~~~El  147 (907)
T KOG2264|consen   94 ELTELEVKRQELNSEIEEINTKIEELKRLIPQKQLELSALKGEIEQAQRQLEEL  147 (907)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHH
Confidence            344455566677777777777777777777666666666655555555444443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	899
3t6p_A	345	Iap Antagonist-Induced Conformational Change In Cia		4e-06
4auq_B	62	Structure Of Birc7-Ubch5b-Ub Complex. Length = 62		5e-06
3eb5_A	74	Structure Of The Ciap2 Ring Domain Length = 74		3e-05
3vk6_A	101	Crystal Structure Of A Phosphotyrosine Binding Doma		5e-04

>pdb|3T6P|A Chain A, Iap Antagonist-Induced Conformational Change In Ciap1 Promotes E3 Ligase Activation Via Dimerization Length = 345

Iteration: 1
 Score = 50.4 bits (119), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 21/51 (41%), Positives = 31/51 (60%), Gaps = 5/51 (9%)
Query: 839 VKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQ 889
           ++ ER C +C+ +E+SVVF+PC H VVC  C        ++ CP CR  I+
Sbjct: 292 LQEERTCKVCMDKEVSVVFIPCGHLVVCQEC-----APSLRKCPICRGIIK 337

>pdb|4AUQ|B Chain B, Structure Of Birc7-Ubch5b-Ub Complex. Length = 62

Iteration: 1
 Score = 50.4 bits (119), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 21/54 (38%), Positives = 34/54 (62%), Gaps = 6/54 (11%)
Query: 839 VKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRI 892
           ++ ER C +CL   +S+VF+PC H +VC  C       G++ CP CR+P++ R+
Sbjct: 10  LQEERTCKVCLDRAVSIVFVPCGH-LVCAEC-----APGLQLCPICRAPVRSRV 57

>pdb|3EB5|A Chain A, Structure Of The Ciap2 Ring Domain Length = 74

Iteration: 1
 Score = 47.4 bits (111), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 21/51 (41%), Positives = 32/51 (62%), Gaps = 5/51 (9%)
Query: 839 VKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQ 889
           ++ ER C +C+ +E+S+VF+PC H VVC  C        ++ CP CRS I+
Sbjct: 21  LQEERTCKVCMDKEVSIVFIPCGHLVVCKDC-----APSLRKCPICRSTIK 66

>pdb|3VK6|A Chain A, Crystal Structure Of A Phosphotyrosine Binding Domain Length = 101

Iteration: 1
 Score = 43.5 bits (101), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 18/33 (54%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 858 LPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR 890
           +PC H V C  C  LHEK+G K CP C  P+QR
Sbjct: 18  IPCKH-VFCYDCAILHEKKGDKMCPGCSDPVQR 49

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	899
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	4e-17
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	1e-13
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	8e-12
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	1e-09
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	9e-09
2ea5_A	68	Cell growth regulator with ring finger domain prot	2e-15
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	3e-15
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	2e-10
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	5e-10
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	3e-09
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	3e-14
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	3e-14
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	4e-14
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	1e-11
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	4e-11
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	5e-10
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	6e-09
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	1e-08
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	3e-07
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	5e-06
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	5e-06
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	5e-06
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	2e-05
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	4e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-05
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	7e-08
1g8x_A	1010	Myosin II heavy chain fused to alpha-actinin 3; mo	9e-08
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	3e-07
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	5e-07
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	7e-07
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	1e-04
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	9e-07
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	1e-04
4f61_I	240	Stathmin-like domain R4; alpha-tubulin, beta-tubul	7e-06
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	8e-06
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	4e-04
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	9e-04
2zuo_A	861	MVP, major vault protein; repeat domains, protein-	2e-05
2zuo_A	861	MVP, major vault protein; repeat domains, protein-	3e-05
2zuo_A	861	MVP, major vault protein; repeat domains, protein-	1e-04
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	5e-05
2xs1_A	704	Programmed cell death 6-interacting protein; prote	2e-04
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	4e-04
3haj_A	486	Human pacsin2 F-BAR; pacsin,syndapin,FAP52,F-BAR,	5e-04
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	5e-04
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	6e-04

>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 = 85.7 bits (212), Expect = 4e-17
 Identities = 46/260 (17%), Positives = 106/260 (40%), Gaps = 26/260 (10%)

Query: 545  KRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKK 604
             +DE + +   R ++   +L E  +   Q   +      K +AE +   + +E   RL  
Sbjct: 861  AKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMRVRLAA 920

Query: 605  EKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAA 664
            +KQ LEE     L EME  + +   + ++  +  ++++ +   L +++E  +    +   
Sbjct: 921  KKQELEE----ILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQL 976

Query: 665  SCQEVSKREKKTQMKFQSWEKQKALFQEE--------------LVTEKRKVVQLLQELDQ 710
                   + KK +      E Q     +E              L  E+ K   L +  ++
Sbjct: 977  EKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNK 1036

Query: 711  AKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKD 770
             +++  +LE R ++EEK+++EL        K + ++E  +    + I ++ +  +   K 
Sbjct: 1037 HESMISELEVRLKKEEKSRQEL-------EKIKRKLEGESSDLHEQI-AELQAQIAELKA 1088

Query: 771  DIHRLEKEISQLRLKTDSSK 790
             + + E+E+     + +   
Sbjct: 1089 QLAKKEEELQAALARLEDET 1108

>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 = 74.5 bits (183), Expect = 1e-13
 Identities = 37/252 (14%), Positives = 101/252 (40%), Gaps = 20/252 (7%)

Query: 543  QDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEK----EE 598
              + +E+ ++L  + +EL   LHE              R+ +++   + L+ EK    ++
Sbjct: 908  YAEAEEMRVRLAAKKQELEEILHE-----------MEARIEEEEERSQQLQAEKKKMQQQ 956

Query: 599  VERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLR 658
            +  L+++ +  E        +++     A G++++    +  +E +N  L +E +  + R
Sbjct: 957  MLDLEEQLEEEE----AARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEER 1012

Query: 659  AAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQL 718
             ++   +  E  ++ K         E   +  +  L  E++   +L +   + +     L
Sbjct: 1013 VSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDL 1072

Query: 719  EARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKE 778
              +  + +    EL  Q +   +E +   A  +  E   K+ A   +   +  I  L+++
Sbjct: 1073 HEQIAELQAQIAELKAQLAKKEEELQAALARLED-ETSQKNNALKKIRELESHISDLQED 1131

Query: 779  ISQLRLKTDSSK 790
            +   +   + ++
Sbjct: 1132 LESEKAARNKAE 1143

>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 = 68.3 bits (167), Expect = 8e-12
 Identities = 39/214 (18%), Positives = 88/214 (41%), Gaps = 7/214 (3%)

Query: 545  KRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEE-VERLK 603
            K     +    +++++ + +    +  N K+ +  + L +  ++L T   E+EE  + L 
Sbjct: 973  KLQLEKVTADGKIKKMEDDILIMED-QNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLT 1031

Query: 604  KEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESA 663
            K K   E      +SE+E  L K     +      R+LE E++ L +++   + + AE  
Sbjct: 1032 KLKNKHES----MISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELK 1087

Query: 664  ASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWR 723
            A   +  +  +    + +    QK    +++   +  +  L ++L+  KA + + E + R
Sbjct: 1088 AQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARNKAEKQKR 1147

Query: 724  QEEKAKEELVMQ-ASSIRKEREQIEASAKSKEDM 756
               +  E L  +   ++     Q E      +D 
Sbjct: 1148 DLSEELEALKTELEDTLDTTATQQELRGSDYKDD 1181

>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 = 61.0 bits (148), Expect = 1e-09
 Identities = 38/226 (16%), Positives = 81/226 (35%), Gaps = 18/226 (7%)

Query: 574  KVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKK-LSEMENALCKASGQVE 632
              +Q   R   +      +         LK  +Q  E     + L   +    KA  +++
Sbjct: 822  FCIQYNVRSFMNVXHWPWMXLFFXIXPLLKVTRQEEEMQAKDEELQRTKERQQKAEAELK 881

Query: 633  RANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQE 692
                   +L  E   L+++++A     AE           E + ++       +K   +E
Sbjct: 882  ELEQKHTQLCEEKNLLQEKLQAETELYAE---------AEEMRVRLA-----AKKQELEE 927

Query: 693  ELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKS 752
             L   + ++ +  +   Q +A +++++ +    E+  EE       ++ E+   +   K 
Sbjct: 928  ILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKK 987

Query: 753  KEDMIKSKAETNLMRYKDDIHRLEKEISQL--RLKTDSSKIAALRR 796
             ED I    + N    K +   LE+ +S L   L  +  K   L +
Sbjct: 988  MEDDILIMEDQNNKLTK-ERKLLEERVSDLTTNLAEEEEKAKNLTK 1032

>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 = 58.3 bits (141), Expect = 9e-09
 Identities = 35/225 (15%), Positives = 86/225 (38%), Gaps = 26/225 (11%)

Query: 561  HNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEM 620
               +  W        +    ++++ + E++   +E +      KE+Q   E  +K+L + 
Sbjct: 831  FMNVXHWPWMXLFFXIXPLLKVTRQEEEMQAKDEELQRT----KERQQKAEAELKELEQK 886

Query: 621  ENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKF 680
               LC+    ++    A   L  E          A+      AA  QE+ +   + + + 
Sbjct: 887  HTQLCEEKNLLQEKLQAETELYAE----------AEEMRVRLAAKKQELEEILHEMEARI 936

Query: 681  QSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIR 740
            +  E++    Q E    +++++ L ++L++ +A +++L+      EK   +       I+
Sbjct: 937  EEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQ-----LEKVTAD-----GKIK 986

Query: 741  KEREQIEASAKSKEDMIKSKA--ETNLMRYKDDIHRLEKEISQLR 783
            K  + I         + K +   E  +     ++   E++   L 
Sbjct: 987  KMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLT 1031

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 68

 Score = 71.0 bits (174), Expect = 2e-15
 Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 5/60 (8%)

Query: 840 KRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRYARS 899
           +  ++CV+C +  ++ V LPC H  +C  C +       + CP CR  +Q    +    S
Sbjct: 13  ENSKDCVVCQNGTVNWVLLPCRHTCLCDGCVKY-----FQQCPMCRQFVQESFALSGPSS 67

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 79.8 bits (197), Expect = 3e-15
 Identities = 46/248 (18%), Positives = 90/248 (36%), Gaps = 24/248 (9%)

Query: 538  EHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKE 597
             +      R+   + +   VR    ++H          +Q   R    K ELK L+ E  
Sbjct: 855  RNKYQMMLREHKSIIIQKHVRGWLARVHYHRTLKAIVYLQCCYRRMMAKRELKKLKIEAR 914

Query: 598  EVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKL 657
             VER KK    LE     K+ +++  + + + + +     +  LE+  +   +++ +   
Sbjct: 915  SVERYKKLHIGLE----NKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVE 970

Query: 658  RAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQ 717
            R   S    +  + R    Q +     K+    Q E  T +    +   E +Q   L  +
Sbjct: 971  RLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQ---LVSE 1027

Query: 718  LEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEK 777
            L+ +    +  KEEL  +                   D  K   ET   +  ++  +LE 
Sbjct: 1028 LKEQNTLLKTEKEELNRRI-----------------HDQAKEITETMEKKLVEETKQLEL 1070

Query: 778  EISQLRLK 785
            +++  RL+
Sbjct: 1071 DLNDERLR 1078

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 63.6 bits (155), Expect = 2e-10
 Identities = 29/232 (12%), Positives = 75/232 (32%), Gaps = 13/232 (5%)

Query: 569  EWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENAL---- 624
                  ++Q  +R+   +   + +R     ++ L +   +  +  M         +    
Sbjct: 815  RTRAAIIIQKFQRMYVVRKRYQCMRDATIALQALLRGYLVRNKYQMMLREHKSIIIQKHV 874

Query: 625  --CKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQS 682
                A     R   A+  L+     +  + E  KL+    A S +   K     + K   
Sbjct: 875  RGWLARVHYHRTLKAIVYLQCCYRRMMAKRELKKLKIE--ARSVERYKKLHIGLENKIMQ 932

Query: 683  WEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASS---- 738
             +++     +E  +   K+  L                R R  E+  +    +  S    
Sbjct: 933  LQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEE 992

Query: 739  IRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSK 790
            I K R+++  +   K+ + +   +      +  +  L+++ + L+ + +   
Sbjct: 993  IAKLRKELHQTQTEKKTIEEWADKYK-HETEQLVSELKEQNTLLKTEKEELN 1043

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 62.4 bits (152), Expect = 5e-10
 Identities = 30/211 (14%), Positives = 77/211 (36%), Gaps = 21/211 (9%)

Query: 543  QDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEV-ER 601
            +  +  + L+   R      +L        +K+   AR + + K     L  +  ++  +
Sbjct: 885  RTLKAIVYLQCCYRRMMAKREL--------KKLKIEARSVERYKKLHIGLENKIMQLQRK 936

Query: 602  LKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAE 661
            + ++ +  +   ++K++ +E      + ++      +R  E E       + + +   A+
Sbjct: 937  IDEQNKEYKS-LLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAK 995

Query: 662  SAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQEL-----DQAKALQE 716
                  +    +K  +     ++ +      EL  +   +    +EL     DQAK + E
Sbjct: 996  LRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELNRRIHDQAKEITE 1055

Query: 717  QLEARWRQEEKAKEELVMQASSIRKEREQIE 747
             +E +  +E K  E        +  ER + +
Sbjct: 1056 TMEKKLVEETKQLEL------DLNDERLRYQ 1080

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 60.1 bits (146), Expect = 3e-09
 Identities = 32/247 (12%), Positives = 84/247 (34%), Gaps = 26/247 (10%)

Query: 549  IILKLIPR--VRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEK 606
            II K      VR+ +  + + T       +QA  R    + + + + +E + +   K  +
Sbjct: 821  IIQKFQRMYVVRKRYQCMRDATIA-----LQALLRGYLVRNKYQMMLREHKSIIIQKHVR 875

Query: 607  QILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESA--- 663
              L      +  +    L              RR+  +    + ++EA  +   +     
Sbjct: 876  GWLARVHYHRTLKAIVYLQ----------CCYRRMMAKRELKKLKIEARSVERYKKLHIG 925

Query: 664  --ASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEAR 721
                  ++ ++  +   +++S  ++    +    TE  K+   ++ L  ++   +    R
Sbjct: 926  LENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNR 985

Query: 722  WRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQ 781
                ++   +L  +    + E++ IE  A   +   +          K+    L+ E  +
Sbjct: 986  VLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVS----ELKEQNTLLKTEKEE 1041

Query: 782  LRLKTDS 788
            L  +   
Sbjct: 1042 LNRRIHD 1048

>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA, apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase, IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB: 1qbh_A 2l9m_A 3eb5_A 3eb6_A Length = 345

 Score = 74.2 bits (180), Expect = 3e-14
 Identities = 36/230 (15%), Positives = 86/230 (37%), Gaps = 9/230 (3%)

Query: 665 SCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQ 724
             +   +      +  Q+ + +     E   T    V  LL   D+ +  +++ +A    
Sbjct: 122 VVKSALEMGFNRDLVKQTVQSKILTTGENYKTVNDIVSALLNAEDEKREEEKEKQAEEMA 181

Query: 725 EEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRL 784
            +        + +  ++    +       +  + +K E ++++ K  I    +E+    L
Sbjct: 182 SDDLSLIRKNRMALFQQLTCVLPILDNLLKANVINKQEHDIIKQKTQIPLQARELIDTIL 241

Query: 785 KTDSSKIAALRRGIDGSYAGRLTDIKSSSVHKESQTPLISEVMKDYHDFSGTGGVKRERE 844
              ++     +  +        + +  +    ++   + +E +           ++ ER 
Sbjct: 242 VKGNAAANIFKNSLKEID----STLYKNLFVDKNMKYIPTEDVSGLSLEEQLRRLQEERT 297

Query: 845 CVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPV 894
           C +C+ +E+SVVF+PC H VVC  C        ++ CP CR  I+  +  
Sbjct: 298 CKVCMDKEVSVVFIPCGHLVVCQECA-----PSLRKCPICRGIIKGTVRT 342

>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase complex, ring zinc-finger, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 2yhn_A Length = 79

 Score = 67.5 bits (165), Expect = 3e-14
 Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 5/56 (8%)

Query: 839 VKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPV 894
           +K    C++C  EE++  F PC H V C +C        ++ CP CRS ++    V
Sbjct: 15  LKEAMLCMVCCEEEINSTFCPCGHTVCCESCA-----AQLQSCPVCRSRVEHVQHV 65

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 75

 Score = 67.5 bits (165), Expect = 4e-14
 Identities = 15/56 (26%), Positives = 29/56 (51%), Gaps = 5/56 (8%)

Query: 839 VKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPV 894
           ++ E+ C +C+   +++VF+PC H V C  C      + +  CP C + I  +  +
Sbjct: 22  LQEEKLCKICMDRNIAIVFVPCGHLVTCKQCA-----EAVDKCPMCYTVITFKQKI 72

>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A Length = 64

 Score = 59.4 bits (144), Expect = 1e-11
 Identities = 15/55 (27%), Positives = 23/55 (41%), Gaps = 3/55 (5%)

Query: 842 ERECVMCLSEEMSVVFLP--CAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPV 894
              CV+C     +   +     H + C TC +  +K+    CP CR PIQ  +  
Sbjct: 8   IEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKP-CPVCRQPIQMIVLT 61

>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_B* Length = 63

 Score = 58.3 bits (141), Expect = 4e-11
 Identities = 15/59 (25%), Positives = 20/59 (33%), Gaps = 5/59 (8%)

Query: 842 ERECVMCLSEEMSVVFL--PCAHQVVCTTC-NELHEKQGMKDCPSCRSPIQRRIPVRYA 897
            + C +C         +     H V C  C   L +      CP C+  IQ  I V  A
Sbjct: 7   LKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAG--ASCPICKKEIQLVIKVFIA 63

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 60.4 bits (146), Expect = 5e-10
 Identities = 39/231 (16%), Positives = 89/231 (38%), Gaps = 3/231 (1%)

Query: 571 ANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQ 630
             +K+      L K    LK  +++ E  E+   + +    +  +++   E  L +A  +
Sbjct: 46  LQKKLKATEDELDKYSEALKDAQEKLELAEKKATDAEADVASLNRRIQLFEEELDRAQER 105

Query: 631 VERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALF 690
           +  A   +   E       + M+  + RA +     +    + K+ +   +  +++    
Sbjct: 106 LATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEV 165

Query: 691 QEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASA 750
             +LV  +  + +  +  + ++    +LE   +      + L  QA    ++ ++ E   
Sbjct: 166 ARKLVIIESDLERAEERAELSEGKCAELEEEIKTVTNNLKSLEAQAEKYSQKEDKYEEEI 225

Query: 751 KSKEDMIKSKAETNLMRYKDDIHRLEKEISQL--RLKTDSSKIAALRRGID 799
           K   D +K +AET     +  + +LEK I  L   L     K  A+   +D
Sbjct: 226 KVLSDKLK-EAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEELD 275

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 57.4 bits (138), Expect = 6e-09
 Identities = 36/211 (17%), Positives = 83/211 (39%), Gaps = 17/211 (8%)

Query: 596 KEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAA 655
           K++++ LK +K    EN + +  E E     A  + ++    +  L+ +  A   E++  
Sbjct: 5   KKKMQMLKLDK----ENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKY 60

Query: 656 KLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEEL-------VTEKRKVVQLLQEL 708
                ++    +   K+    +    S  ++  LF+EEL        T  +K+ +  +  
Sbjct: 61  SEALKDAQEKLELAEKKATDAEADVASLNRRIQLFEEELDRAQERLATALQKLEEAEKAA 120

Query: 709 DQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKS------KAE 762
           D+++   + +E+R +++E+  E   +Q    +   E  +   +     +        +AE
Sbjct: 121 DESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAE 180

Query: 763 TNLMRYKDDIHRLEKEISQLRLKTDSSKIAA 793
                 +     LE+EI  +     S +  A
Sbjct: 181 ERAELSEGKCAELEEEIKTVTNNLKSLEAQA 211

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 56.2 bits (135), Expect = 1e-08
 Identities = 22/204 (10%), Positives = 77/204 (37%), Gaps = 1/204 (0%)

Query: 580 RRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVR 639
           +++   K + +      +E E  KK  +   +    +L  ++  L     ++++ + A++
Sbjct: 6   KKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKYSEALK 65

Query: 640 RLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKR 699
             + +     ++   A+   A      Q   +   + Q +  +  ++    ++     +R
Sbjct: 66  DAQEKLELAEKKATDAEADVASLNRRIQLFEEELDRAQERLATALQKLEEAEKAADESER 125

Query: 700 KVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKS 759
            +  +     + +   E  E + ++ +   E+   +   + ++   IE+  +  E+  + 
Sbjct: 126 GMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAEERAE- 184

Query: 760 KAETNLMRYKDDIHRLEKEISQLR 783
            +E      +++I  +   +  L 
Sbjct: 185 LSEGKCAELEEEIKTVTNNLKSLE 208

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 52.0 bits (124), Expect = 3e-07
 Identities = 32/186 (17%), Positives = 77/186 (41%), Gaps = 3/186 (1%)

Query: 572 NQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQV 631
            +++ +A  RL+    +L+   +  +E ER  K  +   +   +K+   E  L +A    
Sbjct: 96  EEELDRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIA 155

Query: 632 ERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQ 691
           E A+     +  +   +  ++E A+ RA  S   C E+ +  K      +S E Q   + 
Sbjct: 156 EDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEEIKTVTNNLKSLEAQAEKYS 215

Query: 692 EELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAK 751
           ++    + ++  L  +L   K  + + E   R   K ++ +      +  ++ + +A ++
Sbjct: 216 QKEDKYEEEIKVLSDKL---KEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISE 272

Query: 752 SKEDMI 757
             +  +
Sbjct: 273 ELDHAL 278

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 48.5 bits (115), Expect = 5e-06
 Identities = 25/161 (15%), Positives = 60/161 (37%), Gaps = 4/161 (2%)

Query: 553 LIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEEN 612
               ++ + ++  +  E    K+     +L + K   +   ++ EEV R     +   E 
Sbjct: 123 SERGMKVIESRAQKDEE----KMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLER 178

Query: 613 TMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKR 672
             ++    E    +   +++   + ++ LE +     Q+ +  +      +   +E   R
Sbjct: 179 AEERAELSEGKCAELEEEIKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETR 238

Query: 673 EKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKA 713
            +  +      EK     ++EL  +K K   + +ELD A  
Sbjct: 239 AEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEELDHALN 279

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 48.5 bits (115), Expect = 5e-06
 Identities = 32/185 (17%), Positives = 73/185 (39%), Gaps = 14/185 (7%)

Query: 571 ANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQ 630
           A QK+ +A +   + +  +K +    ++ E              +K+   E  L +A   
Sbjct: 109 ALQKLEEAEKAADESERGMKVIESRAQKDE--------------EKMEIQEIQLKEAKHI 154

Query: 631 VERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALF 690
            E A+     +  +   +  ++E A+ RA  S   C E+ +  K      +S E Q   +
Sbjct: 155 AEDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEEIKTVTNNLKSLEAQAEKY 214

Query: 691 QEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASA 750
            ++    + ++  L  +L +A+   E  E    + EK+ ++L  +  + + + + I    
Sbjct: 215 SQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEEL 274

Query: 751 KSKED 755
               +
Sbjct: 275 DHALN 279

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 48.1 bits (114), Expect = 5e-06
 Identities = 30/225 (13%), Positives = 83/225 (36%), Gaps = 5/225 (2%)

Query: 543 QDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERL 602
           +D+ D+    L     +L     + T+ A   V    RR+   + EL   ++      + 
Sbjct: 54  EDELDKYSEALKDAQEKLELAEKKATD-AEADVASLNRRIQLFEEELDRAQERLATALQK 112

Query: 603 KKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAES 662
            +E +   + + + +  +E+   K   ++E     ++  +       ++ E    +    
Sbjct: 113 LEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVII 172

Query: 663 AASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELD----QAKALQEQL 718
            +  +   +R + ++ K    E++       L + + +  +  Q+ D    + K L ++L
Sbjct: 173 ESDLERAEERAELSEGKCAELEEEIKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKL 232

Query: 719 EARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAET 763
           +    + E A+  +     SI    +++ A     + + +     
Sbjct: 233 KEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEELDHA 277

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 46.6 bits (110), Expect = 2e-05
 Identities = 27/192 (14%), Positives = 71/192 (36%), Gaps = 3/192 (1%)

Query: 544 DKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAAR---RLSKDKAELKTLRQEKEEVE 600
              +E + +   R+     +L E  + A++          R  KD+ +++    + +E +
Sbjct: 93  QLFEEELDRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAK 152

Query: 601 RLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAA 660
            + ++     E   +KL  +E+ L +A  + E +      LE E   +   +++ + +A 
Sbjct: 153 HIAEDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEEIKTVTNNLKSLEAQAE 212

Query: 661 ESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEA 720
           + +    +  +  K    K +  E +    +  +   ++ +  L  EL   K   + +  
Sbjct: 213 KYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISE 272

Query: 721 RWRQEEKAKEEL 732
                      +
Sbjct: 273 ELDHALNDMTSI 284

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 42.3 bits (99), Expect = 4e-04
 Identities = 26/157 (16%), Positives = 67/157 (42%), Gaps = 8/157 (5%)

Query: 641 LEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRK 700
           ++ +   L+ + E A  RA E+ A  +    R K+ + +  S +K+    ++EL      
Sbjct: 4   IKKKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKYSEA 63

Query: 701 VVQLLQELDQAKALQEQLEA-------RWRQEEKAKEELVMQASSIRKEREQIEASAKSK 753
           +    ++L+ A+      EA       R +  E+  +    + ++  ++ E+ E +A   
Sbjct: 64  LKDAQEKLELAEKKATDAEADVASLNRRIQLFEEELDRAQERLATALQKLEEAEKAADES 123

Query: 754 EDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSK 790
           E  +K   E+   + ++ +   E ++ + +   + + 
Sbjct: 124 ERGMK-VIESRAQKDEEKMEIQEIQLKEAKHIAEDAD 159

>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 = 57.2 bits (137), Expect = 2e-08
 Identities = 68/458 (14%), Positives = 124/458 (27%), Gaps = 142/458 (31%)

Query: 40  EPNKIIPSPQNECPTYEFTAEKFDITPGHGQTGACDLCGVNQDHSDGLKLDLG-LSSAVG 98
           E + II S      T       F       +              + L+++   L S + 
Sbjct: 50  EIDHIIMSKDAVSGTLRL----FWTLLSKQEEMVQKFVE------EVLRINYKFLMSPIK 99

Query: 99  SSEVGPSRPREELEVEEFQDADWSDLT---------ESQLEEL--VLSNLDAIFKSAIKK 147
           + +  PS         E +D  ++D                +L   L  L    + A K 
Sbjct: 100 TEQRQPSMMTRMYI--EQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLEL----RPA-KN 152

Query: 148 IVACGYM----EEVATKAVLRSG------------LCYGSKDTVSNIVDNTLAFLRSGQE 191
           ++  G +    +      V  S             L   + ++   +++     L     
Sbjct: 153 VLIDG-VLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDP 211

Query: 192 INSSREHYFQDLPQLEKYILAELVCVLREVRPFFSTGDAMWCLLICDMNVSHACAMDGDP 251
             +SR  +  ++      I AEL       R    +     CLL+   NV      +   
Sbjct: 212 NWTSRSDHSSNIKLRIHSIQAEL-------RRLLKSKPYENCLLVLL-NVQ-----NAKA 258

Query: 252 LSSFSG--------------DGASNGN-SHITTQLQ----TKTE-----AKCSELNLPNP 287
            ++F+               D  S    +HI+        T  E      K   L+    
Sbjct: 259 WNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKY--LDC--- 313

Query: 288 SKPVPSIPCSHSSQPEAPTVAGIPNITKSKNSHVGSEISEKDGTNSI-------SDNVDK 340
                 +P       E   +   P       S +   I  +DG  +         D +  
Sbjct: 314 --RPQDLP------REV--LTTNPRRL----SIIAESI--RDGLATWDNWKHVNCDKLTT 357

Query: 341 TFSVAGTSQSPALEEK-------FVGSRKVHS--------GSSKREYM-----LRQKSLH 380
               +     PA   K       F  S  + +           K + M     L + SL 
Sbjct: 358 IIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL- 416

Query: 381 LEKHYRTYGSKGSSRAGKLSGLGGLILDKKLKSVSDTT 418
           +EK  +               +  + L+ K+K  ++  
Sbjct: 417 VEKQPKES----------TISIPSIYLELKVKLENEYA 444

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 48.3 bits (114), Expect = 1e-05
 Identities = 93/651 (14%), Positives = 177/651 (27%), Gaps = 197/651 (30%)

Query: 310 IPNITKS--KNSHVGSEISEKDGTNSISDNVDKTFSVAGTSQSPALEEKFVGSRKVHSGS 367
           + ++ KS      +   I  KD  +       + F    + Q   ++ KFV    V   +
Sbjct: 38  VQDMPKSILSKEEIDHIIMSKDAVSG----TLRLFWTLLSKQEEMVQ-KFVEE--VLRIN 90

Query: 368 -----SKREYMLRQKSL----HLEKHYRTYG-----SKGS-SRAGKLSGLGGLILDKKLK 412
                S  +   RQ S+    ++E+  R Y      +K + SR              KL+
Sbjct: 91  YKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPY---------LKLR 141

Query: 413 SVSDTTSVNLKNASSKISKAIEVHQDNGSHNLSTSPGTSSPATFHSQGANAISALP-KTS 471
                    L       +K + +    GS       G +  A       +   +   +  
Sbjct: 142 QA-------LLELRP--AKNVLIDGVLGS-------GKTWVA------LDVCLSYKVQCK 179

Query: 472 MPS-----TFPPGGTPAVL--PLANTLPVLSAADTELSLSLPTKSNSTQVPAGINSVAPN 524
           M             +P  +   L   L  +    T  S       +S+ +   I+S+   
Sbjct: 180 MDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS------DHSSNIKLRIHSI--- 230

Query: 525 CGYAGILSDDTSLEHLV--PQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQA---- 578
                       L  L+     +   ++L        +           N K   A    
Sbjct: 231 ---------QAELRRLLKSKPYENCLLVL------LNV---------Q-NAKAWNAFNLS 265

Query: 579 ARRL--SKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANS 636
            + L  ++ K     L         L      L         E+++ L K          
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP------DEVKSLLLKY--------- 310

Query: 637 AVRRLEVENTALRQEMEA-AKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELV 695
               L+     L +E+      R +  A S ++              W+  K +  ++L 
Sbjct: 311 ----LDCRPQDLPREVLTTNPRRLSIIAESIRDGLAT----------WDNWKHVNCDKLT 356

Query: 696 TEKRKVVQLLQELDQAKALQE-------------QLEARWRQEEKAKEELVMQ----ASS 738
           T     + +L+  +  K                  L   W    K+   +V+      S 
Sbjct: 357 TIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL 416

Query: 739 IRKEREQ-------IEASAKSKEDMIKSKAETNLMRYK-------DDI------------ 772
           + K+ ++       I    K K +   +   + +  Y        DD+            
Sbjct: 417 VEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSH 476

Query: 773 ---H----RLEKEISQLR-LKTD----SSKI--AALRRGIDGSYAGRLTDIKSSSVHKES 818
              H       + ++  R +  D      KI   +      GS    L  +K    +   
Sbjct: 477 IGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICD 536

Query: 819 QTPLISEVMKDYHDFS---GTGGVKRERECVM--CLSEEMSVVFLPCAHQV 864
             P    ++    DF        +  +   ++   L  E   +F     QV
Sbjct: 537 NDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQV 587

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus} Length = 101

 Score = 50.2 bits (119), Expect = 7e-08
 Identities = 21/47 (44%), Positives = 26/47 (55%), Gaps = 2/47 (4%)

Query: 845 CVMC-LSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR 890
           C  C L  ++    +PC H V C  C  LHEK+G K CP C  P+QR
Sbjct: 4   CDKCGLPIKVYGRMIPCKH-VFCYDCAILHEKKGDKMCPGCSDPVQR 49

>1g8x_A Myosin II heavy chain fused to alpha-actinin 3; motor, lever ARM, protein engineering, structural protein; HET: ADP; 2.80A {Dictyostelium discoideum} SCOP: k.1.1.1 Length = 1010

 Score = 55.1 bits (133), Expect = 9e-08
 Identities = 16/176 (9%), Positives = 52/176 (29%), Gaps = 10/176 (5%)

Query: 545  KRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKK 604
            KR+  +        E+ +      +   +        L + K     L++    +++L+ 
Sbjct: 841  KREPFVAPAGLTPNEIDSTWSALEKAEQEHAEALRIELKRQKKIAVLLQKYNRILKKLEN 900

Query: 605  EKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAA 664
                          E  +++     +++   +     +        ++ +   +  E   
Sbjct: 901  WATTKSVYLGSN--ETGDSITAVQAKLKNLEAFDGECQSLEGQSNSDLLSILAQLTE--- 955

Query: 665  SCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQL---LQELDQAKALQEQ 717
                 +   + T+ K   + +Q    +    T K  ++     LQ+++        
Sbjct: 956  --LNYNGVPELTERKDTFFAQQWTGVKSSAETYKNTLLAELERLQKIEDLHHHHHH 1009

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A* Length = 592

 Score = 53.0 bits (126), Expect = 3e-07
 Identities = 26/240 (10%), Positives = 84/240 (35%), Gaps = 4/240 (1%)

Query: 559 ELHNQLHEWTEWANQKVMQAARRLSKDK--AELKTLRQEKEEVERLKKEKQILEENTMKK 616
           EL +   +    A +  ++++ +        EL    ++K +    + ++   +  +   
Sbjct: 352 ELLDLHRDSEREAIEVFIRSSFKDVDHLFQKELAAQLEKKRDDFCKQNQEASSDRCSGLL 411

Query: 617 LSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKT 676
                    +    +       R    +   L+++      +  ++    Q   K ++  
Sbjct: 412 QVIFSPLEEEVKAGIYSKPGGYRLFVQKLQDLKKKYYEEPRKGIQAEEILQTYLKSKESM 471

Query: 677 QMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQA 736
                  ++     ++E+  E+ K             +Q + E    Q+E++ +E + Q 
Sbjct: 472 TDAILQTDQTLTEKEKEIEVERVKAESAQASAKMLHEMQRKNEQMMEQKERSYQEHLKQL 531

Query: 737 SS-IRKEREQ-IEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSKIAAL 794
           +  +  +R Q ++   ++    ++ + +     ++ +   ++ EI  L+ K    K   +
Sbjct: 532 TEKMENDRVQLLKEQERTLALKLQEQEQLLKEGFQKESRIMKNEIQDLQTKMRRRKACTI 591

>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A* Length = 389

 Score = 52.1 bits (124), Expect = 5e-07
 Identities = 24/123 (19%), Positives = 45/123 (36%), Gaps = 6/123 (4%)

Query: 776 EKEISQLRLKTDSSKIAALRRGIDGSY---AGRLTDIKSSSVHKESQTPLISEVMKDYHD 832
           +  I Q          A +    +G Y    GR  +   + + + +    I    + Y  
Sbjct: 265 DGNILQTIPHNKPLFQALIDGFREGFYLFPDGRNQNPDLTGLCEPTPQDHIKVTQEQYEL 324

Query: 833 FSGTGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRI 892
           +         + C +C   +  V   PC H ++CT+C    ++   + CP CR  I+   
Sbjct: 325 YCEM--GSTFQLCKICAENDKDVKIEPCGH-LMCTSCLTSWQESEGQGCPFCRCEIKGTE 381

Query: 893 PVR 895
           P+ 
Sbjct: 382 PIV 384

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus} Length = 189

 Score = 49.7 bits (118), Expect = 7e-07
 Identities = 30/184 (16%), Positives = 70/184 (38%), Gaps = 8/184 (4%)

Query: 562 NQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKE-EVERLKKEKQILEENTMKKLSEM 620
               E +    Q   +A   L + +   + L  E E ++ + ++  + L+ +  +   E+
Sbjct: 13  AYWKELSMKYKQSFQEARDELVEFQEGSRELEAELEAQLVQAEQRNRDLQADNQRLKYEV 72

Query: 621 ENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKF 680
           E    K   Q  ++   V  LE + +  R   E       E   +  ++ + ++ T M  
Sbjct: 73  EALKEKLEHQYAQSYKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIMSL 132

Query: 681 QSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIR 740
           +        F++ L     +   L  ELD+ ++L   ++    +    ++EL ++     
Sbjct: 133 ED-------FEQRLNQAIERNAFLESELDEKESLLVSVQRLKDEARDLRQELAVRERQQE 185

Query: 741 KERE 744
             R+
Sbjct: 186 VTRK 189

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus} Length = 189

 Score = 43.2 bits (101), Expect = 1e-04
 Identities = 37/217 (17%), Positives = 84/217 (38%), Gaps = 33/217 (15%)

Query: 578 AARRLSKDKAELKTLRQE----KEEVERLKKEKQILEENTMKKLSEMENALCKASGQVER 633
            A   S  K E    ++     K+  +  + E    +E + +  +E+E        Q+ +
Sbjct: 1   GAMDFSSLKEETAYWKELSMKYKQSFQEARDELVEFQEGSRELEAELEA-------QLVQ 53

Query: 634 ANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEE 693
           A    R L+ +N  L+ E+E                + +EK      QS+++   L +++
Sbjct: 54  AEQRNRDLQADNQRLKYEVE----------------ALKEKLEHQYAQSYKQVSVL-EDD 96

Query: 694 LVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSK 753
           L   +    QL + + + +   + LE   R    + E+   + +   +    +E+    K
Sbjct: 97  LSQTRAIKEQLHKYVRELEQANDDLERAKRATIMSLEDFEQRLNQAIERNAFLESELDEK 156

Query: 754 EDMIKSKAETNLMRYKDDIHRLEKEISQLRLKTDSSK 790
           E         ++ R KD+   L +E++    + + ++
Sbjct: 157 E-----SLLVSVQRLKDEARDLRQELAVRERQQEVTR 188

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A Length = 155

 Score = 48.4 bits (115), Expect = 9e-07
 Identities = 23/152 (15%), Positives = 59/152 (38%)

Query: 581 RLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRR 640
           R+ + + +++ L  +   +E      + L E   ++    E    +   +++   + ++ 
Sbjct: 1   RMKQLEDKVEELLSKNYHLENEVARLKKLLERAEERAELSEGKSAELEEELKTVTNNLKS 60

Query: 641 LEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRK 700
           LE +     Q+ +  +      +   +E   R +  +      EK     ++EL  +K K
Sbjct: 61  LEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLK 120

Query: 701 VVQLLQELDQAKALQEQLEARWRQEEKAKEEL 732
              + +E+ Q +   E+L ++    E     L
Sbjct: 121 YKAISEEMKQLEDKVEELLSKNYHLENEVARL 152

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A Length = 155

 Score = 42.3 bits (99), Expect = 1e-04
 Identities = 29/158 (18%), Positives = 61/158 (38%), Gaps = 7/158 (4%)

Query: 562 NQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEME 621
            QL +  E    K       +++ K  L+   +  E  E    E +       ++L  + 
Sbjct: 3   KQLEDKVEELLSKNYHLENEVARLKKLLERAEERAELSEGKSAELE-------EELKTVT 55

Query: 622 NALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQ 681
           N L     Q E+ +    + E E   L  +++ A+ RA  +  S  ++ K     + +  
Sbjct: 56  NNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELY 115

Query: 682 SWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLE 719
           + + +     EE+   + KV +LL +    +    +L+
Sbjct: 116 AQKLKYKAISEEMKQLEDKVEELLSKNYHLENEVARLK 153

>4f61_I Stathmin-like domain R4; alpha-tubulin, beta-tubulin, GTPase, microtubule, RB3, stath tubulin, cell cycle; HET: GTP GDP; 4.17A {Artificial gene} Length = 240

 Score = 47.7 bits (112), Expect = 7e-06
 Identities = 38/219 (17%), Positives = 78/219 (35%), Gaps = 6/219 (2%)

Query: 532 SDDTSLEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAARRLSKD---KAE 588
           S D   E      +R +  L+ I +  E   +  ++ E    K +   R   ++   +A 
Sbjct: 25  SFDGVPEFNASLPRRRDPSLEEIQKKLEAAEERRKYQEAELLKHLAEKREHEREVIQRAI 84

Query: 589 LKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTAL 648
            +     K   E+L ++ +  +EN     + M   L +     E               +
Sbjct: 85  EENNNWIKMAKEKLAQKMESNKENREAHFAAMLERLQEKDKHAEEVRQRAIEENNNWIKM 144

Query: 649 RQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQEL 708
            +E  A K+ + +     QE    +   + +    E  +   +E     K    +L Q++
Sbjct: 145 AKEKLAQKMESNKENRKYQEAELLKHLAEKREHEREVIQRAIEENNNWIKMAKEKLAQKM 204

Query: 709 DQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIE 747
           +  K  +E   A   +  + K++    A  +RK +E  E
Sbjct: 205 ESNKENREAHFAAMLERLQEKDK---HAEEVRKNKELKE 240

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 46.7 bits (110), Expect = 8e-06
 Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 14/76 (18%)

Query: 710 QAKALQEQLEA--RWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMR 767
           QA  L ++ E+  +WR EE+ K    + A+S   E+E  E + K  E+  + ++E     
Sbjct: 76  QADRLTQEPESIRKWR-EEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSE----- 129

Query: 768 YKDDIHRLEKEISQLR 783
                 ++EK     R
Sbjct: 130 ------QVEKNKINNR 139

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 41.3 bits (96), Expect = 4e-04
 Identities = 19/111 (17%), Positives = 34/111 (30%), Gaps = 37/111 (33%)

Query: 648 LRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSW-EKQKALFQEELVTEKRKVVQLLQ 706
           L QE E+ +                          W E+Q+   QE     K    +  +
Sbjct: 80  LTQEPESIR-------------------------KWREEQRKRLQELDAASKVMEQEWRE 114

Query: 707 ELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMI 757
           +    K L+E  + +  Q EK K           +  ++     +   D+I
Sbjct: 115 K--AKKDLEEWNQRQSEQVEKNKIN--------NRIADK-AFYQQPDADII 154

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 40.5 bits (94), Expect = 9e-04
 Identities = 25/97 (25%), Positives = 42/97 (43%), Gaps = 29/97 (29%)

Query: 667 QEVSKREKKTQMKFQSW-EKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQE 725
           Q     ++   ++   W E+Q+          KR     LQELD A    + +E  WR  
Sbjct: 76  QADRLTQEPESIR--KWREEQR----------KR-----LQELDAA---SKVMEQEWR-- 113

Query: 726 EKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAE 762
           EKAK++L       +++ EQ+E   K+K +   +   
Sbjct: 114 EKAKKDLEEWN---QRQSEQVE---KNKINNRIADKA 144

>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex, cytoplasm, ribonucleoprotein, structural protein; 3.50A {Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A Length = 861

 Score = 47.9 bits (113), Expect = 2e-05
 Identities = 43/219 (19%), Positives = 87/219 (39%), Gaps = 13/219 (5%)

Query: 533 DDTSLEHLVPQDKRDEIILKLIPRVRELHNQLHEWTEWANQKVMQAA------RRLSKDK 586
           D T L     Q    +  L +     +    + + T  A Q+ +Q A       + +  K
Sbjct: 615 DGTLLPKARDQAVFPQNGLVVSSVDVQSVEPVDQRTRDALQRSVQLAIEITTNSQEAAAK 674

Query: 587 AELKTLRQE-KEEVERLKKEKQILEENTMKKLSEME--NALCKASGQVERANSA---VRR 640
            E + L QE +  +ER K   Q   E   K+L E+E  +   +++G  +    +     R
Sbjct: 675 HEAQRLEQEARGRLERQKILDQSEAEKARKELLELEAMSMAVESTGNAKAEAESRAEAAR 734

Query: 641 LEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRK 700
           +E E + L+ +++A  L     A   +    RE +        E + +  Q+    E +K
Sbjct: 735 IEGEGSVLQAKLKAQALAIETEAELERVKKVREMELIYARAQLELEVSKAQQLANVEAKK 794

Query: 701 VVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSI 739
             ++ + L     +++   A    + K  + L ++++ I
Sbjct: 795 FKEMTEAL-GPGTIRDLAVAGPEMQVKLLQSLGLKSTLI 832

>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex, cytoplasm, ribonucleoprotein, structural protein; 3.50A {Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A Length = 861

 Score = 46.7 bits (110), Expect = 3e-05
 Identities = 29/218 (13%), Positives = 70/218 (32%), Gaps = 15/218 (6%)

Query: 569 EWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKAS 628
             A  + +     L     +++++    +      +    L         E         
Sbjct: 620 PKARDQAVFPQNGLVVSSVDVQSVEPVDQRTRDALQRSVQLAIEITTNSQEAAAKHEAQR 679

Query: 629 GQVERANSAVR-RLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQK 687
            + E      R ++  ++ A +   E  +L A   A      +K E +++ +    E + 
Sbjct: 680 LEQEARGRLERQKILDQSEAEKARKELLELEAMSMAVESTGNAKAEAESRAEAARIEGEG 739

Query: 688 ALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIE 747
           ++ Q +L  +             A A++ + E   R ++  + EL+   + +  E  + +
Sbjct: 740 SVLQAKLKAQ-------------ALAIETEAELE-RVKKVREMELIYARAQLELEVSKAQ 785

Query: 748 ASAKSKEDMIKSKAETNLMRYKDDIHRLEKEISQLRLK 785
             A  +    K   E        D+     E+    L+
Sbjct: 786 QLANVEAKKFKEMTEALGPGTIRDLAVAGPEMQVKLLQ 823

>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex, cytoplasm, ribonucleoprotein, structural protein; 3.50A {Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A Length = 861

 Score = 44.8 bits (105), Expect = 1e-04
 Identities = 34/221 (15%), Positives = 73/221 (33%), Gaps = 11/221 (4%)

Query: 581 RLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRR 640
           R++    E+         +    +++ +  +N +   S    ++     +   A     +
Sbjct: 600 RMAVFGFEMSEDTGPDGTLLPKARDQAVFPQNGLVVSSVDVQSVEPVDQRTRDALQRSVQ 659

Query: 641 LEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRK 700
           L +E T   QE         E+    QE   R ++ ++  QS  ++      EL      
Sbjct: 660 LAIEITTNSQEAA----AKHEAQRLEQEARGRLERQKILDQSEAEKARKELLELEAMSMA 715

Query: 701 VVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSK 760
           V        +A++  E       +    + +L  QA +I  E E        + ++I ++
Sbjct: 716 VESTGNAKAEAESRAEAARIE-GEGSVLQAKLKAQALAIETEAELERVKKVREMELIYAR 774

Query: 761 AETNLMRYKD------DIHRLEKEISQLRLKTDSSKIAALR 795
           A+  L   K       +  + ++    L   T      A  
Sbjct: 775 AQLELEVSKAQQLANVEAKKFKEMTEALGPGTIRDLAVAGP 815

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 65

 Score = 41.1 bits (96), Expect = 5e-05
 Identities = 12/55 (21%), Positives = 28/55 (50%), Gaps = 6/55 (10%)

Query: 842 ERECVMCLSEE-----MSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRR 891
           ++ C  C + +     + ++   C H + C +C +L   +G  +CP C +P+++ 
Sbjct: 3   DQGCPRCKTTKYRNPSLKLMVNVCGHTL-CESCVDLLFVRGAGNCPECGTPLRKS 56

>2xs1_A Programmed cell death 6-interacting protein; protein transport-viral protein complex, cell cycle; 2.30A {Homo sapiens} PDB: 2xs8_A 2oev_A 2r05_A 2r02_A 2r03_A 2oex_A 2ojq_A Length = 704

 Score = 44.2 bits (103), Expect = 2e-04
 Identities = 16/206 (7%), Positives = 63/206 (30%), Gaps = 16/206 (7%)

Query: 583 SKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLE 642
             D    +  +  ++ +  L K +  L                +    ++   S +  ++
Sbjct: 510 QADGQVKECYQSHRDTIVLLCKPEPELNAAIPSANPAKTMQGSEVVNVLKSLLSNLDEVK 569

Query: 643 VENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVV 702
            E   L  ++++          +         +  +     ++       ++    +K  
Sbjct: 570 KEREGLENDLKSVNFDMTSKFLTALAQDGVINEEALSVTELDRVYGGLTTKVQESLKKQE 629

Query: 703 QLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAE 762
            LL+ +  +     +++ +   E   +EE++          + +  +  +  + + +  +
Sbjct: 630 GLLKNIQVSHQEFSKMK-QSNNEANLREEVL----------KNLATAYDNFVE-LVANLK 677

Query: 763 TNLMRYKDDIHRLEKEISQLRLKTDS 788
                Y +    L + + + + K   
Sbjct: 678 EGTKFYNE----LTEILVRFQNKCSD 699

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 71

 Score = 38.7 bits (90), Expect = 4e-04
 Identities = 17/47 (36%), Positives = 21/47 (44%), Gaps = 2/47 (4%)

Query: 842 ERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPI 888
             EC +CL   +  V LPC H V C  C +     G + C  CR  I
Sbjct: 15  VPECAICLQTCVHPVSLPCKH-VFCYLCVKGASWLGKR-CALCRQEI 59

>3haj_A Human pacsin2 F-BAR; pacsin,syndapin,FAP52,F-BAR, alternative splicing, coiled coil, cytoplasmic vesicle, endocytosis, phosphoprotein, polymorphism; 2.78A {Homo sapiens} Length = 486

 Score = 42.8 bits (99), Expect = 5e-04
 Identities = 27/186 (14%), Positives = 68/186 (36%), Gaps = 10/186 (5%)

Query: 597 EEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEA-A 655
            ++     E+  +E+   ++L+E      +   +  +  +  +           E E  +
Sbjct: 39  SDLMNCLHERARIEKAYAQQLTEWARRWRQLVEKGPQYGTVEKAWMA----FMSEAERVS 94

Query: 656 KLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQE--ELVTEKRKVVQLLQE-LDQAK 712
           +L     A+   +  ++ K  Q K    ++    F+E  E     RK  +   + L + +
Sbjct: 95  ELHLEVKASLMNDDFEKIKNWQ-KEAFHKQMMGGFKETKEAEDGFRKAQKPWAKKLKEVE 153

Query: 713 ALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDI 772
           A ++   A  ++E+ A        +      EQ++   + K +  K        +Y+  +
Sbjct: 154 AAKKAHHAACKEEKLAISREANSKADPSLNPEQLKKL-QDKIEKCKQDVLKTKEKYEKSL 212

Query: 773 HRLEKE 778
             L++ 
Sbjct: 213 KELDQG 218

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 70

 Score = 38.5 bits (90), Expect = 5e-04
 Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 11/56 (19%)

Query: 839 VKRERECVMCLSEEMSVVFLPCAHQVVCTTC----NELHEKQGMKDCPSCRSPIQR 890
           +  E EC +C+ +  + + LPCAH   C  C    ++ H       CP CR  +  
Sbjct: 12  LTDEEECCICM-DGRADLILPCAH-SFCQKCIDKWSDRHRN-----CPICRLQMTG 60

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens} Length = 124

 Score = 39.6 bits (92), Expect = 6e-04
 Identities = 13/53 (24%), Positives = 22/53 (41%), Gaps = 1/53 (1%)

Query: 839 VKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRR 891
           V+   +C+ C       +   C H V C  C +   +  +  CP+CR  + R 
Sbjct: 49  VEETFQCICCQELVFRPITTVCQHNV-CKDCLDRSFRAQVFSCPACRYDLGRS 100

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	899
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	5e-09
d1f5na1	300	a.114.1.1 (A:284-583) Interferon-induced guanylate	8e-07
d1f5na1	300	a.114.1.1 (A:284-583) Interferon-induced guanylate	7e-05
d1f5na1	300	a.114.1.1 (A:284-583) Interferon-induced guanylate	2e-04
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	4e-06
d2efka1	279	a.238.1.4 (A:10-288) CDC42-interacting protein 4,	5e-06
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	9e-06
d2es4d1	280	a.137.15.1 (D:53-332) Lipase chaperone LifO (LipB)	1e-05
d2es4d1	280	a.137.15.1 (D:53-332) Lipase chaperone LifO (LipB)	5e-05
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	5e-05
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-04
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	1e-04
d2efla1	288	a.238.1.4 (A:1-288) Formin-binding protein 1, FNBP	1e-04
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	6e-04

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.5 bits (123), Expect = 5e-09
 Identities = 18/80 (22%), Positives = 33/80 (41%), Gaps = 6/80 (7%)

Query: 816 KESQTPLISEVMKDYHDFSGTGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEK 875
            +    +  E  + Y +   T      + C +C   +  V   PC H ++CT+C    ++
Sbjct: 2   PQDHIKVTQEQYELYCEMGST-----FQLCKICAENDKDVKIEPCGH-LMCTSCLTSWQE 55

Query: 876 QGMKDCPSCRSPIQRRIPVR 895
              + CP CR  I+   P+ 
Sbjct: 56  SEGQGCPFCRCEIKGTEPIV 75

>d1f5na1 a.114.1.1 (A:284-583) Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 300

class: All alpha proteins
fold: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
superfamily: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
family: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
domain: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.4 bits (117), Expect = 8e-07
 Identities = 25/204 (12%), Positives = 73/204 (35%), Gaps = 5/204 (2%)

Query: 580 RRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVR 639
           + L+    + +    ++ +     +   +L+        E++  +    G        ++
Sbjct: 99  KELAAQLEKKRDDFCKQNQEASSDRCSGLLQVIFSPLEEEVKAGIYSKPGGYRLFVQKLQ 158

Query: 640 RLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKR 699
            L+ +     ++   A+        S + ++    +T       EK+  + + +  + + 
Sbjct: 159 DLKKKYYEEPRKGIQAEEILQTYLKSKESMTDAILQTDQTLTEKEKEIEVERVKAESAQA 218

Query: 700 KVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKS 759
               L +   + + + EQ E R  QE   +    M+   ++  +EQ    A   ++  + 
Sbjct: 219 SAKMLHEMQRKNEQMMEQKE-RSYQEHLKQLTEKMENDRVQLLKEQERTLALKLQEQEQL 277

Query: 760 KAETNLMRYKDDIHRLEKEISQLR 783
             E     ++ +   ++ EI  L+
Sbjct: 278 LKE----GFQKESRIMKNEIQDLQ 297

>d1f5na1 a.114.1.1 (A:284-583) Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 300

class: All alpha proteins
fold: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
superfamily: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
family: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
domain: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.6 bits (102), Expect = 7e-05
 Identities = 28/165 (16%), Positives = 65/165 (39%), Gaps = 8/165 (4%)

Query: 586 KAELKTLRQEKEEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVEN 645
           KA + +         +  ++ +       +K  + E  L       E    A+ + +   
Sbjct: 140 KAGIYSKPGGYRLFVQKLQDLKKKYYEEPRKGIQAEEILQTYLKSKESMTDAILQTDQTL 199

Query: 646 TALRQEMEAAKLRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLL 705
           T   +E+E  +++A  + AS + + + ++K +   +  E+     QE L     K   + 
Sbjct: 200 TEKEKEIEVERVKAESAQASAKMLHEMQRKNEQMMEQKERSY---QEHLKQLTEK---ME 253

Query: 706 QELDQAKALQEQLEARWRQEEK--AKEELVMQASSIRKEREQIEA 748
            +  Q    QE+  A   QE++   KE    ++  ++ E + ++ 
Sbjct: 254 NDRVQLLKEQERTLALKLQEQEQLLKEGFQKESRIMKNEIQDLQT 298

>d1f5na1 a.114.1.1 (A:284-583) Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 300

class: All alpha proteins
fold: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
superfamily: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
family: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
domain: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.0 bits (98), Expect = 2e-04
 Identities = 25/222 (11%), Positives = 71/222 (31%), Gaps = 16/222 (7%)

Query: 558 RELHNQLHEWTEWANQKVMQAARRLSKDKAELKTLRQEKEEVERLKKEKQILEENTMKKL 617
                +L    E       +  +  S D+             E +K             +
Sbjct: 95  HLFQKELAAQLEKKRDDFCKQNQEASSDRCSGLLQVIFSPLEEEVKAGIYSKPGGYRLFV 154

Query: 618 SEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAKLRAAESAASCQEVSKREKKTQ 677
            ++++   K   +  R       +       ++ M  A L+  ++    ++  + E+   
Sbjct: 155 QKLQDLKKKYY-EEPRKGIQAEEILQTYLKSKESMTDAILQTDQTLTEKEKEIEVERVKA 213

Query: 678 MKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQEQLEARWRQEEKAKEELVMQAS 737
                  +  A    E    +RK  Q++++ +++     +      + ++ +     + +
Sbjct: 214 ES----AQASAKMLHE---MQRKNEQMMEQKERSYQEHLKQLTEKMENDRVQLLKEQERT 266

Query: 738 SIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLEKEI 779
              K +EQ        E ++K   +      K++I  L+ ++
Sbjct: 267 LALKLQEQ--------EQLLKEGFQKESRIMKNEIQDLQTKM 300

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.6 bits (100), Expect = 4e-06
 Identities = 14/45 (31%), Positives = 19/45 (42%), Gaps = 5/45 (11%)

Query: 844 ECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPI 888
            C  C +E      LPC H  +C+ C E         CP C++P 
Sbjct: 8   RCQQCQAEAKCPKLLPCLH-TLCSGCLE----ASGMQCPICQAPW 47

>d2efka1 a.238.1.4 (A:10-288) CDC42-interacting protein 4, CIP4 {Human (Homo sapiens) [TaxId: 9606]} Length = 279

class: All alpha proteins
fold: BAR/IMD domain-like
superfamily: BAR/IMD domain-like
family: FCH domain
domain: CDC42-interacting protein 4, CIP4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.8 bits (110), Expect = 5e-06
 Identities = 32/233 (13%), Positives = 77/233 (33%), Gaps = 7/233 (3%)

Query: 597 EEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAK 656
           +   +  KE+  +E+   K+L  +           +   S   + +     L++  + A 
Sbjct: 17  DRYVKFVKERTEVEQAYAKQLRSLVKKYLPKRPAKDDPESKFSQQQSFVQILQEVNDFAG 76

Query: 657 LRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQE 716
            R   +      V     K   + +   K      +E    ++++    ++L+ +K   E
Sbjct: 77  QRELVAENLSVRVCLELTKYSQEMKQERKM---HFQEGRRAQQQLENGFKQLENSKRKFE 133

Query: 717 QLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLE 776
           +     R+ EKA +        I   +  +E  AK +  +    AE +   Y   + R  
Sbjct: 134 R---DCREAEKAAQTAERLDQDINATKADVEK-AKQQAHLRSHMAEESKNEYAAQLQRFN 189

Query: 777 KEISQLRLKTDSSKIAALRRGIDGSYAGRLTDIKSSSVHKESQTPLISEVMKD 829
           ++ +             L+   +             S  +    P+I++ ++ 
Sbjct: 190 RDQAHFYFSQMPQIFDKLQDMDERRATRLGAGYGLLSEAELEVVPIIAKCLEG 242

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.1 bits (98), Expect = 9e-06
 Identities = 10/54 (18%), Positives = 24/54 (44%), Gaps = 4/54 (7%)

Query: 842 ERECVMCLSE----EMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRR 891
           ++ C  C +         + +      +C +C +L   +G  +CP C +P+++ 
Sbjct: 3   DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKS 56

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.2 bits (96), Expect = 5e-05
 Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 3/56 (5%)

Query: 838 GVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNE--LHEKQGMKDCPSCRSPIQRR 891
            +++  EC +CL      V   C H + C  C    L++K+G   CP C++ I +R
Sbjct: 17  AMQKILECPICLELIKEPVSTKCDH-IFCKFCMLKLLNQKKGPSQCPLCKNDITKR 71

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 38.8 bits (90), Expect = 1e-04
 Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 3/50 (6%)

Query: 844 ECVMCLSE-EMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRI 892
            C +CL +     + LPC H   C  C     +Q    CP C+ P++  +
Sbjct: 7   RCPICLEDPSNYSMALPCLH-AFCYVCITRWIRQNPT-CPLCKVPVESVV 54

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 39.1 bits (91), Expect = 1e-04
 Identities = 16/57 (28%), Positives = 19/57 (33%), Gaps = 4/57 (7%)

Query: 842 ERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR---RIPVR 895
              C +C       V   C H + C  C     K     CPSCR P        PV+
Sbjct: 23  SISCQICEHILADPVETSCKH-LFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVK 78

>d2efla1 a.238.1.4 (A:1-288) Formin-binding protein 1, FNBP1 {Human (Homo sapiens) [TaxId: 9606]} Length = 288

class: All alpha proteins
fold: BAR/IMD domain-like
superfamily: BAR/IMD domain-like
family: FCH domain
domain: Formin-binding protein 1, FNBP1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.5 bits (99), Expect = 1e-04
 Identities = 22/187 (11%), Positives = 64/187 (34%), Gaps = 7/187 (3%)

Query: 597 EEVERLKKEKQILEENTMKKLSEMENALCKASGQVERANSAVRRLEVENTALRQEMEAAK 656
           E+  +  KE+  +E +  K+L  +           E         +   + L +  + A 
Sbjct: 26  EKYIKFVKERTEIELSYAKQLRNLSKKYQPKKNSKEEEEYKYTSCKAFISNLNEMNDYAG 85

Query: 657 LRAAESAASCQEVSKREKKTQMKFQSWEKQKALFQEELVTEKRKVVQLLQELDQAKALQE 716
                S     ++           Q  ++++     +    ++ +    ++L+ +K    
Sbjct: 86  QHEVISENMASQI---IVDLARYVQELKQERKSNFHDGRKAQQHIETCWKQLESSK---R 139

Query: 717 QLEARWRQEEKAKEELVMQASSIRKEREQIEASAKSKEDMIKSKAETNLMRYKDDIHRLE 776
           + E   ++ ++A++      + I   +  +E  A+ +  +    AE +   Y   + +  
Sbjct: 140 RFERDCKEADRAQQYFEKMDADINVTKADVE-KARQQAQIRHQMAEDSKADYSSILQKFN 198

Query: 777 KEISQLR 783
            E  +  
Sbjct: 199 HEQHEYY 205

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.6 bits (84), Expect = 6e-04
 Identities = 10/49 (20%), Positives = 21/49 (42%), Gaps = 5/49 (10%)

Query: 844 ECVMCLSE----EMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPI 888
           EC +C+      +++     C +Q+     + +   +    CP+CR P 
Sbjct: 2   ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGL-CPACRKPY 49

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	899
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	98.39
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	98.23
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	98.07
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	98.01
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	97.93
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	97.74
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	97.74
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	97.74
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	97.72
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	97.69
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	97.66
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	97.58
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	97.4
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	97.35
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	97.33
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	96.46
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	94.96

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.39  E-value=8.6e-08  Score=72.84  Aligned_cols=54  Identities=28%  Similarity=0.670  Sum_probs=46.9

Q ss_pred             CCCCCCCCCCCCCEEEECCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEE
Q ss_conf             2211211234652188168971047232898621299998778645566376873
Q 002627          842 ERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVRY  896 (899)
Q Consensus       842 ~~eC~IC~d~~~~vVllPCgH~vfC~~Ca~~~~~~~~~kCP~CR~~I~~~irVf~  896 (899)
                      ...|.||++...+.+++||||. ||..|+..|...+..+||+||..|.....+.+
T Consensus        23 ~~~C~IC~~~~~~~~~~~CgH~-fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~~i~i   76 (79)
T d1fbva4          23 FQLCKICAENDKDVKIEPCGHL-MCTSCLTSWQESEGQGCPFCRCEIKGTEPIVV   76 (79)
T ss_dssp             TTBCTTTSSSBCCEECSSSCCE-ECHHHHHHHHHTTCCSCTTTCCCCCCCCCSSC
T ss_pred             CCCCCCCCCCCCCEEEECCCCE-EEHHHHHHHHHHCCCCCCCCCCCCCCCCEEEC
T ss_conf             8999358976899699589993-52999999999785818997958647766640

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.23  E-value=2.6e-07  Score=69.23  Aligned_cols=52  Identities=27%  Similarity=0.426  Sum_probs=45.7

Q ss_pred             CCCCCCCCCCCCCCCCCEEEECCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             66532211211234652188168971047232898621299998778645566
Q 002627          838 GVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR  890 (899)
Q Consensus       838 ~~~~~~eC~IC~d~~~~vVllPCgH~vfC~~Ca~~~~~~~~~kCP~CR~~I~~  890 (899)
                      ++.....|+||++...+.+++||||. ||..|+..|.+.+.++||.||.++..
T Consensus        19 d~~~~l~C~IC~~~~~~pv~~~CgH~-FC~~Ci~~~~~~~~~~CP~Cr~p~~~   70 (86)
T d1rmda2          19 HFVKSISCQICEHILADPVETSCKHL-FCRICILRCLKVMGSYCPSCRYPCFP   70 (86)
T ss_dssp             HHHHHTBCTTTCSBCSSEEECTTSCE-EEHHHHHHHHHHTCSBCTTTCCBCCG
T ss_pred             HHCCCCCCCCCCCCHHCCEECCCCCH-HHHHHHHHHHHHCCCCCCCCCCCCCH
T ss_conf             30567599567844415552678876-31999999996487907036997996

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.07  E-value=1.3e-06  Score=64.10  Aligned_cols=50  Identities=28%  Similarity=0.557  Sum_probs=42.4

Q ss_pred             CCCCCCCCCCCCCCCCEEEECCCCCCCCHHHHHHHHHCC--CCCCCCCCCCCC
Q ss_conf             653221121123465218816897104723289862129--999877864556
Q 002627          839 VKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQG--MKDCPSCRSPIQ  889 (899)
Q Consensus       839 ~~~~~eC~IC~d~~~~vVllPCgH~vfC~~Ca~~~~~~~--~~kCP~CR~~I~  889 (899)
                      +.....|+||++...+.+.+||||. ||..|+..|....  ...||.||.++.
T Consensus        18 l~~~l~CpIC~~~~~~pv~~~CgH~-fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   69 (103)
T d1jm7a_          18 MQKILECPICLELIKEPVSTKCDHI-FCKFCMLKLLNQKKGPSQCPLCKNDIT   69 (103)
T ss_dssp             HHHHTSCSSSCCCCSSCCBCTTSCC-CCSHHHHHHHHSSSSSCCCTTTSCCCC
T ss_pred             CCCCCCCCCCCCHHCCEEECCCCCC-HHHHHHHHHHHHCCCCCCCCCCCCCCC
T ss_conf             6358499721823189188379986-416789999997799980969888387

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

Probab=98.01  E-value=1.9e-06  Score=62.72  Aligned_cols=52  Identities=27%  Similarity=0.732  Sum_probs=43.0

Q ss_pred             CCCCCCCCCCCCC-EEEECCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEE
Q ss_conf             2211211234652-18816897104723289862129999877864556637687
Q 002627          842 ERECVMCLSEEMS-VVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQRRIPVR  895 (899)
Q Consensus       842 ~~eC~IC~d~~~~-vVllPCgH~vfC~~Ca~~~~~~~~~kCP~CR~~I~~~irVf  895 (899)
                      ..+|+||++...+ ++++||+|. ||..|+..|...+ .+||+||.+|..++..+
T Consensus         5 ~d~C~IC~~~~~~~~~~~~C~H~-Fc~~Ci~~w~~~~-~~CP~CR~~i~~~~~~~   57 (68)
T d1chca_           5 AERCPICLEDPSNYSMALPCLHA-FCYVCITRWIRQN-PTCPLCKVPVESVVHTI   57 (68)
T ss_dssp             CCCCSSCCSCCCSCEEETTTTEE-ESTTHHHHHHHHS-CSTTTTCCCCCCEECCC
T ss_pred             CCCCCCCCCCCCCCCEEECCCCC-CCHHHHHHHHHHC-CCCCCCCCCHHHHCCCC
T ss_conf             99994499396688388289991-7689999999829-90888781637242165

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.93  E-value=3.2e-06  Score=61.05  Aligned_cols=48  Identities=25%  Similarity=0.830  Sum_probs=39.4

Q ss_pred             CCCCCCCCCC-----CCCEEEECCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             2211211234-----652188168971047232898621299998778645566
Q 002627          842 ERECVMCLSE-----EMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR  890 (899)
Q Consensus       842 ~~eC~IC~d~-----~~~vVllPCgH~vfC~~Ca~~~~~~~~~kCP~CR~~I~~  890 (899)
                      +..|+||++.     ...+++.+|||. ||..|+..|.......||+||.+|..
T Consensus         3 d~~CpIC~~~~~~~~~~~~~~~~C~H~-fc~~Ci~~~~~~~~~~CP~CR~~i~~   55 (65)
T d1g25a_           3 DQGCPRCKTTKYRNPSLKLMVNVCGHT-LCESCVDLLFVRGAGNCPECGTPLRK   55 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCC-EEHHHHHHHHHTTSSSCTTTCCCCSS
T ss_pred             CCCCCCCCCEEECCCCEEEEECCCCHH-HHHHHHHHHHCCCCCCCCCCCCCCCC
T ss_conf             899870882600399567984763727-64889999857081979999868130

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.74  E-value=3.4e-06  Score=60.89  Aligned_cols=45  Identities=31%  Similarity=0.738  Sum_probs=39.2

Q ss_pred             CCCCCCCCCCCCCCEEEECCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             32211211234652188168971047232898621299998778645566
Q 002627          841 RERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR  890 (899)
Q Consensus       841 ~~~eC~IC~d~~~~vVllPCgH~vfC~~Ca~~~~~~~~~kCP~CR~~I~~  890 (899)
                      +.+.|.||++...+.+++||||. ||..|+..+    ..+||+||.+|.-
T Consensus         5 ~~l~C~IC~~~~~~p~~lpCgH~-fC~~Ci~~~----~~~CP~Cr~~~~~   49 (56)
T d1bora_           5 QFLRCQQCQAEAKCPKLLPCLHT-LCSGCLEAS----GMQCPICQAPWPL   49 (56)
T ss_dssp             CCSSCSSSCSSCBCCSCSTTSCC-SBTTTCSSS----SSSCSSCCSSSSC
T ss_pred             CCCCCCCCCCCCCCCEEECCCCH-HHHHHHHCC----CCCCCCCCCCCCC
T ss_conf             78898402941589789017777-859988729----7968497996669

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.74  E-value=1.1e-05  Score=56.93  Aligned_cols=48  Identities=23%  Similarity=0.555  Sum_probs=37.7

Q ss_pred             CCCCCCCCCCCC------------------CEEEECCCCCCCCHHHHHHHHHCC----CCCCCCCCCCCCC
Q ss_conf             221121123465------------------218816897104723289862129----9998778645566
Q 002627          842 ERECVMCLSEEM------------------SVVFLPCAHQVVCTTCNELHEKQG----MKDCPSCRSPIQR  890 (899)
Q Consensus       842 ~~eC~IC~d~~~------------------~vVllPCgH~vfC~~Ca~~~~~~~----~~kCP~CR~~I~~  890 (899)
                      ...|.||++...                  .+.+++|+|. ||..|+..|...+    ..+||+||+.+..
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~-FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~   94 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHA-FHLLCLLAMYCNGNKDGSLQCPSCKTIYGE   94 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCE-ECHHHHHHHHHHTCCSSCCBCTTTCCBSSS
T ss_pred             CCCCCCHHHEECCCCCCCCCCCCCCCCCCCCEEECCCCCH-HHHHHHHHHHHHCCCCCCCCCCCCCCHHCC
T ss_conf             6534530100013444335433345455434687999990-569999999996675789766550122066

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.74  E-value=6.7e-06  Score=58.63  Aligned_cols=47  Identities=26%  Similarity=0.633  Sum_probs=38.5

Q ss_pred             CCCCCCCCCC----CCEEEECCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             2112112346----52188168971047232898621299998778645566
Q 002627          843 RECVMCLSEE----MSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR  890 (899)
Q Consensus       843 ~eC~IC~d~~----~~vVllPCgH~vfC~~Ca~~~~~~~~~kCP~CR~~I~~  890 (899)
                      ++|+||++..    ..+.+++|||. ||..|+..|..+...+||+||.+|..
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~-~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQ-ICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCC-CCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCCCCCCHHHHCCCCEEEECCCCCC-CCHHHHHHHHHHCCCCCCCCCCCCCC
T ss_conf             9995878235189825986699770-45589999996648989865794889

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.72  E-value=1.4e-05  Score=56.16  Aligned_cols=52  Identities=13%  Similarity=0.016  Sum_probs=45.8

Q ss_pred             CCCCCCCCCCCCCCCCCEEEECCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             66532211211234652188168971047232898621299998778645566
Q 002627          838 GVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR  890 (899)
Q Consensus       838 ~~~~~~eC~IC~d~~~~vVllPCgH~vfC~~Ca~~~~~~~~~kCP~CR~~I~~  890 (899)
                      +..+...|+||++-..+.|++||||. ||..|+..+...+...||.||.++..
T Consensus         3 eiP~~l~CpIc~~l~~dPv~~~cGht-fc~~ci~~~l~~~~~~cP~c~~~l~~   54 (80)
T d2c2la2           3 DIPDYLCGKISFELMREPCITPSGIT-YDRKDIEEHLQRVGHFNPVTRSPLTQ   54 (80)
T ss_dssp             CCCSTTBCTTTCSBCSSEEECSSCCE-EETTHHHHHHHHTCSSCTTTCCCCCG
T ss_pred             CCCCCCCCCCCCCHHHHHCCCCCCCE-ECHHHHHHHHHCCCCCCCCCCCCCCC
T ss_conf             89700118583732340330588685-63889999986377657875666542

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.69  E-value=1.8e-05  Score=55.42  Aligned_cols=52  Identities=13%  Similarity=0.211  Sum_probs=46.7

Q ss_pred             CCCCCCCCCCCCCCCCCEEEECCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             66532211211234652188168971047232898621299998778645566
Q 002627          838 GVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR  890 (899)
Q Consensus       838 ~~~~~~eC~IC~d~~~~vVllPCgH~vfC~~Ca~~~~~~~~~kCP~CR~~I~~  890 (899)
                      +..+...|.||++-..+.|.++|||. ||..|+..|...+...||.|+.++..
T Consensus         4 eiP~~l~CpIc~~~m~dPV~~~cgh~-fc~~ci~~~~~~~~~~cP~~~~~l~~   55 (78)
T d1t1ha_           4 EFPEYFRCPISLELMKDPVIVSTGQT-YERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             CCSSSSSCTTTSCCCSSEEEETTTEE-EEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             CCCCCCCCCCCCCHHHCCEECCCCCC-CHHHHHHHHHHHCCCCCCCCCCCCCC
T ss_conf             89962799171812108337267774-33999999999888878865563775

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=97.66  E-value=1.9e-05  Score=55.30  Aligned_cols=48  Identities=29%  Similarity=0.670  Sum_probs=37.9

Q ss_pred             CCCCCCCCCCCCCCC---EEEE-CCCCCCCCHHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf             532211211234652---1881-6897104723289862129999877864556
Q 002627          840 KRERECVMCLSEEMS---VVFL-PCAHQVVCTTCNELHEKQGMKDCPSCRSPIQ  889 (899)
Q Consensus       840 ~~~~eC~IC~d~~~~---vVll-PCgH~vfC~~Ca~~~~~~~~~kCP~CR~~I~  889 (899)
                      ++..+|.||++....   ++.+ +|+|. ||..|+..|... ...||+||.+|.
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~-Fh~~Ci~~Wl~~-~~~CP~CR~~i~   54 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHG-FHAECVDMWLGS-HSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCE-ECTTHHHHTTTT-CCSCSSSCCCSC
T ss_pred             CCCCCCEEECCCCCCCCEEEEECCCCCC-CCHHHHHHHHHH-CCCCCCCCCEEE
T ss_conf             8999984979001079889990898981-059999999984-993878897848

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.58  E-value=7.2e-06  Score=58.42  Aligned_cols=48  Identities=23%  Similarity=0.484  Sum_probs=39.7

Q ss_pred             CCCCCCCCCCCCCCCCEEE-ECCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             6532211211234652188-168971047232898621299998778645566
Q 002627          839 VKRERECVMCLSEEMSVVF-LPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR  890 (899)
Q Consensus       839 ~~~~~eC~IC~d~~~~vVl-lPCgH~vfC~~Ca~~~~~~~~~kCP~CR~~I~~  890 (899)
                      +.....|.||++...+.+. .+|||. ||..|+..|..   ..||.||.++..
T Consensus        19 l~~~l~C~IC~~~~~~pv~~~~CgH~-fC~~Ci~~~~~---~~CP~Cr~~~~~   67 (97)
T d1jm7b_          19 LEKLLRCSRCTNILREPVCLGGCEHI-FCSNCVSDCIG---TGCPVCYTPAWI   67 (97)
T ss_dssp             HHHTTSCSSSCSCCSSCBCCCSSSCC-BCTTTGGGGTT---TBCSSSCCBCSC
T ss_pred             HHHCCCCCCCCCHHHCCCEECCCCCC-HHHHHHHHHHH---CCCCCCCCCCCH
T ss_conf             21228992587221127465889993-02999999985---366622786765

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.40  E-value=5.9e-05  Score=51.58  Aligned_cols=34  Identities=21%  Similarity=0.324  Sum_probs=30.0

Q ss_pred             CEEEECCCCCCCCHHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf             218816897104723289862129999877864556
Q 002627          854 SVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQ  889 (899)
Q Consensus       854 ~vVllPCgH~vfC~~Ca~~~~~~~~~kCP~CR~~I~  889 (899)
                      .++.++|+|. ||..|+..|.... ..||+||.++.
T Consensus        51 ~~~~~~C~H~-FH~~Ci~~Wl~~~-~~CP~CR~~~~   84 (88)
T d3dplr1          51 TVAWGVCNHA-FHFHCISRWLKTR-QVCPLDNREWE   84 (88)
T ss_dssp             CEEEETTSCE-EEHHHHHHHHTTC-SBCSSSCSBCC
T ss_pred             CEEECCCCCC-CCHHHHHHHHHHC-CCCCCCCCCCC
T ss_conf             7287265474-6579999999879-96878897231

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.35  E-value=0.00012  Score=49.33  Aligned_cols=54  Identities=19%  Similarity=0.057  Sum_probs=46.4

Q ss_pred             CCCCCCCCCCCCCCCCCCCEEEECCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             8766532211211234652188168971047232898621299998778645566
Q 002627          836 TGGVKRERECVMCLSEEMSVVFLPCAHQVVCTTCNELHEKQGMKDCPSCRSPIQR  890 (899)
Q Consensus       836 ~~~~~~~~eC~IC~d~~~~vVllPCgH~vfC~~Ca~~~~~~~~~kCP~CR~~I~~  890 (899)
                      .....+...|+||.+-..+.|++||+|..||..|+..|... ...||+||.++..
T Consensus        16 ~~~~P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~-~~~~P~~~~~l~~   69 (98)
T d1wgma_          16 YADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLS-DQTDPFNRSPLTM   69 (98)
T ss_dssp             CCSCCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTT-SCBCTTTCSBCCT
T ss_pred             HCCCCHHHCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHH-CCCCCCCCCCCCC
T ss_conf             15990774886734688777762355320149999999870-6876655566640

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.33  E-value=4.6e-05  Score=52.36  Aligned_cols=50  Identities=14%  Similarity=0.139  Sum_probs=42.6

Q ss_pred             CCCCCCCCCCCCEEEEC-CCCCCCCHHHHHHHHHCCCCCCCCCCCCCC--CEEEE
Q ss_conf             21121123465218816-897104723289862129999877864556--63768
Q 002627          843 RECVMCLSEEMSVVFLP-CAHQVVCTTCNELHEKQGMKDCPSCRSPIQ--RRIPV  894 (899)
Q Consensus       843 ~eC~IC~d~~~~vVllP-CgH~vfC~~Ca~~~~~~~~~kCP~CR~~I~--~~irV  894 (899)
                      +.|.||++-..+.|++| |||. ||..|+..|..+. .+||+||.++.  +.+++
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~-fc~~cI~~~l~~~-~~CP~c~~~l~~~dLipi   53 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTI-FEKSLLEQYVKDT-GNDPITNEPLSIEEIVEI   53 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEE-EEHHHHHHHHHHH-SBCTTTCCBCCGGGCEEC
T ss_pred             CCCCCCCCHHHHCCCCCCCCCC-CCHHHHHHHHHHC-CCCCCCCCCCCHHHCEEC
T ss_conf             9993678568865745789984-5599999987603-679854781887753647

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=96.46  E-value=0.00081  Score=43.00  Aligned_cols=49  Identities=18%  Similarity=0.328  Sum_probs=39.6

Q ss_pred             CCCCCCCCCCCCCCCEEEECCC-----CCCCCHHHHHHHHHC-CCCCCCCCCCCCC
Q ss_conf             5322112112346521881689-----710472328986212-9999877864556
Q 002627          840 KRERECVMCLSEEMSVVFLPCA-----HQVVCTTCNELHEKQ-GMKDCPSCRSPIQ  889 (899)
Q Consensus       840 ~~~~eC~IC~d~~~~vVllPCg-----H~vfC~~Ca~~~~~~-~~~kCP~CR~~I~  889 (899)
                      ++...|.||++...+..+.||.     |. |+..|...|... +..+||+||++|.
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~-~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELEN-VHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGS-CCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCCCCCCCCCCCEEEECCCCCCCCE-ECHHHHHHHHHHCCCCCCCCCCCEEE
T ss_conf             88999923886277751673145897788-73899999971078988916697124

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.96  E-value=0.0035  Score=38.26  Aligned_cols=46  Identities=26%  Similarity=0.613  Sum_probs=32.8

Q ss_pred             CCCCCCCCCCCCC--C-EEEECCCCCCCCHHHHHHHHHC----CC---CCCCCCCCC
Q ss_conf             3221121123465--2-1881689710472328986212----99---998778645
Q 002627          841 RERECVMCLSEEM--S-VVFLPCAHQVVCTTCNELHEKQ----GM---KDCPSCRSP  887 (899)
Q Consensus       841 ~~~eC~IC~d~~~--~-vVllPCgH~vfC~~Ca~~~~~~----~~---~kCP~CR~~  887 (899)
                      ....|.||++...  + +.+.+|+|. ||..|...+...    +.   -+||.|+-+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~-fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C~   59 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCI-FCTLCLKQYVELLIKEGLETAISCPDAACP   59 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEE-EEHHHHHHHHHHHHHHCSCCCEECSCTTCS
T ss_pred             CCCCCCCCCCCCCCCCEEEECCCCCE-ECCCCHHHHHHHHHHCCCCCCCCCCCCCCC
T ss_conf             89849317983607755777899998-488179999999985179665589199988