Citrus Sinensis ID: 005476

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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-----
Protein Sequence
MALTLHFPAKTVTTITQFPENPKTLIVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKEGSCSCNDYW
Secondary Structure (PSIPRED)
ccccccccccccccccccccccHHHHHHHccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHcccccccHHHHHHHHccccccccccHHHHHHHHHcccccHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHccccccccEEHHHHHHHHHccccHHHHHHHHHHHHHcccccccEEHHHHHHHHcccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHcccccccEEEHHHHHHHHHcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccEEHHHHHHHHHccccHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHcccccHHHHHHHHHHHcccccccccccccHHHHHHHHHccccHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHccccccccHHHHHHHHHHHccccHHHHHHHHHHHHccccccccEEEEEEccEEEEEEccccccccHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHccccHHHHHHHHHHcccccccEEEEcccccccHHHHHHHHHHHHcccEEEEEccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHcccccccccHHHHHHHHHcHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHccccHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEEEEccEEEEEEEcccccccHHHHHHHHHHHHHHHHHccccccccEEEccccHHHHHHHHHHHHHHHHHHHHHHcccccccEEEEEccEEcccHHHHHHHHHHHcccEEEEEccccccccccccEcccccc
Coil and Loop (DISEMBL)
maltlhfpaktvttitqfpenpktLIVQQCKTTKDLNQVHAHLIKSrfhlnptiSENLLEAAAILIPATTMDYALSIFHkinepdssaYNIMIRAFTLKQSPQEAVMLYKTMLqnsvepdrfTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFdrmsnrdvfswnsmfsgyvKTECWREIVDLFNEMRdlgvkfdeVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGvfhdmqmanvvpnEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMRekniepndVAFIAVLSACSHVGMVDEGRELFVSMsrdfdleprmehYGCMVDILGRAGLVEEAYQFIknmpippnpVIWRTLLAACRAHKNVKVGEESLKNlvtlepmhsgdyilLSDIYASAGRCEDALRVMNQMREqgikktpgcslielDGEIYEFLaednmcphfkeVYDATENMMKRIKsagyvpntadarldaeeddkeasvAHHSEKLAIAFGLiraspgttirisknlrvctdchNATKIISKVFNreivvrdrtrfhhfkegscscndyw
Flexible Loop (DISEMBL)
maltlhfpaktvttitqfpenpKTLIVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMReqgikktpgcsLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHnatkiiskvfnreivvrdrtrfhhfkegscscndyw
Low Complexity Region (SEG)
MALTLHFPAKTVTTITQFPENPKTLIVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKEGSCSCNDYW
Disordered region (IsUnstruct)
****LHFPAKTVTTITQFPENPKTLIVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIK**GY*************************KLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKEGSCSC****
Disordered Region (DISOPRED)
MALTLHF**************PKTLIVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKEGSCSCNDYW
Disordered Region (DISEMBL)
MALTLHFPAKTVTTITQFPENPKTLIVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARL************HHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKEGSCSCNDYW
Disordered Region (DISPRO)
MALTLHFPAKTVTTITQFPENPKTLIVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKEGSCSCNDYW
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MALTLHFPAKTVTTITQFPENPKTLIVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKEGSCSCNDYW
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	695	2.2.26 [Sep-21-2011]
Q9LN01	741	Pentatricopeptide repeat-	yes	no	0.994	0.932	0.395	1e-166
O82380	738	Pentatricopeptide repeat-	no	no	0.962	0.906	0.397	1e-162
Q9SR82	685	Putative pentatricopeptid	no	no	0.979	0.994	0.388	1e-149
O23337	722	Pentatricopeptide repeat-	no	no	0.952	0.916	0.377	1e-145
Q3E6Q1	809	Pentatricopeptide repeat-	no	no	0.961	0.825	0.383	1e-141
Q7Y211	890	Pentatricopeptide repeat-	no	no	0.941	0.734	0.380	1e-139
Q9LTV8	694	Pentatricopeptide repeat-	no	no	0.958	0.959	0.361	1e-136
Q9LUJ2	842	Pentatricopeptide repeat-	no	no	0.942	0.777	0.361	1e-136
Q9FJY7	620	Pentatricopeptide repeat-	no	no	0.830	0.930	0.408	1e-135
Q9LW32	659	Pentatricopeptide repeat-	no	no	0.892	0.940	0.388	1e-134

>sp|Q9LN01|PPR21_ARATH Pentatricopeptide repeat-containing protein At1g08070 OS=Arabidopsis thaliana GN=PCMP-H12 PE=2 SV=1

 Score =  587 bits (1513), Expect = e-166,   Method: Compositional matrix adjust.
 Identities = 287/725 (39%), Positives = 444/725 (61%), Gaps = 34/725 (4%)

Query: 5   LHF-PAKTVTTITQFPENPKTLIVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAA 63
            HF P+ +         +P   ++  CKT + L  +HA +IK   H        L+E   
Sbjct: 17  FHFLPSSSDPPYDSIRNHPSLSLLHNCKTLQSLRIIHAQMIKIGLHNTNYALSKLIEFCI 76

Query: 64  ILIPATTMDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFT 123
           +      + YA+S+F  I EP+   +N M R   L   P  A+ LY  M+   + P+ +T
Sbjct: 77  LSPHFEGLPYAISVFKTIQEPNLLIWNTMFRGHALSSDPVSALKLYVCMISLGLLPNSYT 136

Query: 124 FACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMS 183
           F   LK+C++ +A +EG+QIH  +LK G      V  +LI +Y   GR++ A K+FD+  
Sbjct: 137 FPFVLKSCAKSKAFKEGQQIHGHVLKLGCDLDLYVHTSLISMYVQNGRLEDAHKVFDKSP 196

Query: 184 NRDVFS-------------------------------WNSMFSGYVKTECWREIVDLFNE 212
           +RDV S                               WN+M SGY +T  ++E ++LF +
Sbjct: 197 HRDVVSYTALIKGYASRGYIENAQKLFDEIPVKDVVSWNAMISGYAETGNYKEALELFKD 256

Query: 213 MRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGH 272
           M    V+ DE T++ V+ AC +   IELG  +  ++++     N+K++ A++D+Y+KCG 
Sbjct: 257 MMKTNVRPDESTMVTVVSACAQSGSIELGRQVHLWIDDHGFGSNLKIVNALIDLYSKCGE 316

Query: 273 VDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSC 332
           ++ A  LFE++  KDV++W+ +I GY+     KEAL +F +M  +   PN+VTM+S+L  
Sbjct: 317 LETACGLFERLPYKDVISWNTLIGGYTHMNLYKEALLLFQEMLRSGETPNDVTMLSILPA 376

Query: 333 CAVLGALETGKWVHLYVKKKRMELT--ITLGTALMDFYAKCGLIENAVEVFKKMPLKNVF 390
           CA LGA++ G+W+H+Y+ K+   +T   +L T+L+D YAKCG IE A +VF  +  K++ 
Sbjct: 377 CAHLGAIDIGRWIHVYIDKRLKGVTNASSLRTSLIDMYAKCGDIEAAHQVFNSILHKSLS 436

Query: 391 FWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSM 450
            W  +I   A +G+ + + + +  MR+  I+P+D+ F+ +LSACSH GM+D GR +F +M
Sbjct: 437 SWNAMIFGFAMHGRADASFDLFSRMRKIGIQPDDITFVGLLSACSHSGMLDLGRHIFRTM 496

Query: 451 SRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKV 510
           ++D+ + P++EHYGCM+D+LG +GL +EA + I  M + P+ VIW +LL AC+ H NV++
Sbjct: 497 TQDYKMTPKLEHYGCMIDLLGHSGLFKEAEEMINMMEMEPDGVIWCSLLKACKMHGNVEL 556

Query: 511 GEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELDG 570
           GE   +NL+ +EP + G Y+LLS+IYASAGR  +  +    + ++G+KK PGCS IE+D 
Sbjct: 557 GESFAENLIKIEPENPGSYVLLSNIYASAGRWNEVAKTRALLNDKGMKKVPGCSSIEIDS 616

Query: 571 EIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEASVAHHSEK 630
            ++EF+  D   P  +E+Y   E M   ++ AG+VP+T++   + EE+ KE ++ HHSEK
Sbjct: 617 VVHEFIIGDKFHPRNREIYGMLEEMEVLLEKAGFVPDTSEVLQEMEEEWKEGALRHHSEK 676

Query: 631 LAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKEGSCS 690
           LAIAFGLI   PGT + I KNLRVC +CH ATK+ISK++ REI+ RDRTRFHHF++G CS
Sbjct: 677 LAIAFGLISTKPGTKLTIVKNLRVCRNCHEATKLISKIYKREIIARDRTRFHHFRDGVCS 736

Query: 691 CNDYW 695
           CNDYW
Sbjct: 737 CNDYW 741

Arabidopsis thaliana (taxid: 3702)

>sp|O82380|PP175_ARATH Pentatricopeptide repeat-containing protein At2g29760, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H33 PE=2 SV=1

 Score =  573 bits (1477), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 280/704 (39%), Positives = 432/704 (61%), Gaps = 35/704 (4%)

Query: 26  IVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPD 85
           ++++C + + L Q H H+I++    +P  +  L   AA L    +++YA  +F +I +P+
Sbjct: 36  LIERCVSLRQLKQTHGHMIRTGTFSDPYSASKLFAMAA-LSSFASLEYARKVFDEIPKPN 94

Query: 86  SSAYNIMIRAFTLKQSPQEAVMLYKTMLQNS-VEPDRFTFACTLKACSRIRALEEGEQIH 144
           S A+N +IRA+     P  ++  +  M+  S   P+++TF   +KA + + +L  G+ +H
Sbjct: 95  SFAWNTLIRAYASGPDPVLSIWAFLDMVSESQCYPNKYTFPFLIKAAAEVSSLSLGQSLH 154

Query: 145 AQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWR 204
              +KS  G    V N+LIH Y +CG +D A K+F  +  +DV SWNSM +G+V+     
Sbjct: 155 GMAVKSAVGSDVFVANSLIHCYFSCGDLDSACKVFTTIKEKDVVSWNSMINGFVQKGSPD 214

Query: 205 EIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVV 264
           + ++LF +M    VK   VT++ VL AC ++ ++E G  +  Y+EE  +N N+ L  A++
Sbjct: 215 KALELFKKMESEDVKASHVTMVGVLSACAKIRNLEFGRQVCSYIEENRVNVNLTLANAML 274

Query: 265 DMYAKCGHVDKARRLFEQM----NI---------------------------KDVVAWSA 293
           DMY KCG ++ A+RLF+ M    N+                           KD+VAW+A
Sbjct: 275 DMYTKCGSIEDAKRLFDAMEEKDNVTWTTMLDGYAISEDYEAAREVLNSMPQKDIVAWNA 334

Query: 294 MISGYSQARRCKEALGVFHDMQMA-NVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKK 352
           +IS Y Q  +  EAL VFH++Q+  N+  N++T+VS LS CA +GALE G+W+H Y+KK 
Sbjct: 335 LISAYEQNGKPNEALIVFHELQLQKNMKLNQITLVSTLSACAQVGALELGRWIHSYIKKH 394

Query: 353 RMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETY 412
            + +   + +AL+  Y+KCG +E + EVF  +  ++VF W+ +I  LA +G G  A++ +
Sbjct: 395 GIRMNFHVTSALIHMYSKCGDLEKSREVFNSVEKRDVFVWSAMIGGLAMHGCGNEAVDMF 454

Query: 413 YIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGR 472
           Y M+E N++PN V F  V  ACSH G+VDE   LF  M  ++ + P  +HY C+VD+LGR
Sbjct: 455 YKMQEANVKPNGVTFTNVFCACSHTGLVDEAESLFHQMESNYGIVPEEKHYACIVDVLGR 514

Query: 473 AGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILL 532
           +G +E+A +FI+ MPIPP+  +W  LL AC+ H N+ + E +   L+ LEP + G ++LL
Sbjct: 515 SGYLEKAVKFIEAMPIPPSTSVWGALLGACKIHANLNLAEMACTRLLELEPRNDGAHVLL 574

Query: 533 SDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDAT 592
           S+IYA  G+ E+   +   MR  G+KK PGCS IE+DG I+EFL+ DN  P  ++VY   
Sbjct: 575 SNIYAKLGKWENVSELRKHMRVTGLKKEPGCSSIEIDGMIHEFLSGDNAHPMSEKVYGKL 634

Query: 593 ENMMKRIKSAGYVPNTADA-RLDAEEDDKEASVAHHSEKLAIAFGLIRASPGTTIRISKN 651
             +M+++KS GY P  +   ++  EE+ KE S+  HSEKLAI +GLI       IR+ KN
Sbjct: 635 HEVMEKLKSNGYEPEISQVLQIIEEEEMKEQSLNLHSEKLAICYGLISTEAPKVIRVIKN 694

Query: 652 LRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKEGSCSCNDYW 695
           LRVC DCH+  K+IS++++REI+VRDR RFHHF+ G CSCND+W
Sbjct: 695 LRVCGDCHSVAKLISQLYDREIIVRDRYRFHHFRNGQCSCNDFW 738

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SR82|PP219_ARATH Putative pentatricopeptide repeat-containing protein At3g08820 OS=Arabidopsis thaliana GN=PCMP-H84 PE=3 SV=1

 Score =  530 bits (1366), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 266/685 (38%), Positives = 401/685 (58%), Gaps = 4/685 (0%)

Query: 11  TVTTITQFPENPKTLIVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATT 70
           TV + T   +  KTLI   C T   L Q+H  LI    H + T   NLL    +    T 
Sbjct: 5   TVPSATSKVQQIKTLISVAC-TVNHLKQIHVSLINHHLH-HDTFLVNLLLKRTLFFRQTK 62

Query: 71  MDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKA 130
             Y L  F     P+   YN +I  F       E + L+ ++ ++ +    FTF   LKA
Sbjct: 63  YSYLL--FSHTQFPNIFLYNSLINGFVNNHLFHETLDLFLSIRKHGLYLHGFTFPLVLKA 120

Query: 131 CSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSW 190
           C+R  + + G  +H+ ++K GF        +L+ +Y+  GR++ A K+FD + +R V +W
Sbjct: 121 CTRASSRKLGIDLHSLVVKCGFNHDVAAMTSLLSIYSGSGRLNDAHKLFDEIPDRSVVTW 180

Query: 191 NSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEE 250
            ++FSGY  +   RE +DLF +M ++GVK D   ++ VL AC  + D++ G WI +YMEE
Sbjct: 181 TALFSGYTTSGRHREAIDLFKKMVEMGVKPDSYFIVQVLSACVHVGDLDSGEWIVKYMEE 240

Query: 251 KELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGV 310
            E+  N  + T +V++YAKCG ++KAR +F+ M  KD+V WS MI GY+     KE + +
Sbjct: 241 MEMQKNSFVRTTLVNLYAKCGKMEKARSVFDSMVEKDIVTWSTMIQGYASNSFPKEGIEL 300

Query: 311 FHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAK 370
           F  M   N+ P++ ++V  LS CA LGAL+ G+W    + +      + +  AL+D YAK
Sbjct: 301 FLQMLQENLKPDQFSIVGFLSSCASLGALDLGEWGISLIDRHEFLTNLFMANALIDMYAK 360

Query: 371 CGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAV 430
           CG +    EVFK+M  K++      I  LA NG  + +   +    +  I P+   F+ +
Sbjct: 361 CGAMARGFEVFKEMKEKDIVIMNAAISGLAKNGHVKLSFAVFGQTEKLGISPDGSTFLGL 420

Query: 431 LSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPP 490
           L  C H G++ +G   F ++S  + L+  +EHYGCMVD+ GRAG++++AY+ I +MP+ P
Sbjct: 421 LCGCVHAGLIQDGLRFFNAISCVYALKRTVEHYGCMVDLWGRAGMLDDAYRLICDMPMRP 480

Query: 491 NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMN 550
           N ++W  LL+ CR  K+ ++ E  LK L+ LEP ++G+Y+ LS+IY+  GR ++A  V +
Sbjct: 481 NAIVWGALLSGCRLVKDTQLAETVLKELIALEPWNAGNYVQLSNIYSVGGRWDEAAEVRD 540

Query: 551 QMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTAD 610
            M ++G+KK PG S IEL+G+++EFLA+D   P   ++Y   E++   ++  G+VP T  
Sbjct: 541 MMNKKGMKKIPGYSWIELEGKVHEFLADDKSHPLSDKIYAKLEDLGNEMRLMGFVPTTEF 600

Query: 611 ARLDAEEDDKEASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFN 670
              D EE++KE  + +HSEKLA+A GLI    G  IR+ KNLRVC DCH   K+ISK+  
Sbjct: 601 VFFDVEEEEKERVLGYHSEKLAVALGLISTDHGQVIRVVKNLRVCGDCHEVMKLISKITR 660

Query: 671 REIVVRDRTRFHHFKEGSCSCNDYW 695
           REIVVRD  RFH F  GSCSCNDYW
Sbjct: 661 REIVVRDNNRFHCFTNGSCSCNDYW 685

Arabidopsis thaliana (taxid: 3702)

>sp|O23337|PP311_ARATH Pentatricopeptide repeat-containing protein At4g14820 OS=Arabidopsis thaliana GN=PCMP-H3 PE=2 SV=1

 Score =  516 bits (1330), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 266/705 (37%), Positives = 418/705 (59%), Gaps = 43/705 (6%)

Query: 30  CKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKI-NEPDSSA 88
           CK+   + Q+HAH++++   +N  ++ + L   ++   +  + YAL++F  I + P+S  
Sbjct: 22  CKSLNHIKQLHAHILRTV--INHKLN-SFLFNLSVSSSSINLSYALNVFSSIPSPPESIV 78

Query: 89  YNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQIL 148
           +N  +R  +    P+  ++ Y+ +       D+F+F   LKA S++ AL EG ++H    
Sbjct: 79  FNPFLRDLSRSSEPRATILFYQRIRHVGGRLDQFSFLPILKAVSKVSALFEGMELHGVAF 138

Query: 149 KSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVD 208
           K    C   V    + +YA+CGRI+ AR +FD MS+RDV +WN+M   Y +     E   
Sbjct: 139 KIATLCDPFVETGFMDMYASCGRINYARNVFDEMSHRDVVTWNTMIERYCRFGLVDEAFK 198

Query: 209 LFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYA 268
           LF EM+D  V  DE+ L N++ ACGR  ++     I E++ E ++  +  L+TA+V MYA
Sbjct: 199 LFEEMKDSNVMPDEMILCNIVSACGRTGNMRYNRAIYEFLIENDVRMDTHLLTALVTMYA 258

Query: 269 -------------------------------KCGHVDKARRLFEQMNIKDVVAWSAMISG 297
                                          KCG +D A+ +F+Q   KD+V W+ MIS 
Sbjct: 259 GAGCMDMAREFFRKMSVRNLFVSTAMVSGYSKCGRLDDAQVIFDQTEKKDLVCWTTMISA 318

Query: 298 YSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELT 357
           Y ++   +EAL VF +M  + + P+ V+M SV+S CA LG L+  KWVH  +    +E  
Sbjct: 319 YVESDYPQEALRVFEEMCCSGIKPDVVSMFSVISACANLGILDKAKWVHSCIHVNGLESE 378

Query: 358 ITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMRE 417
           +++  AL++ YAKCG ++   +VF+KMP +NV  W+ +I  L+ +G+   AL  +  M++
Sbjct: 379 LSINNALINMYAKCGGLDATRDVFEKMPRRNVVSWSSMINALSMHGEASDALSLFARMKQ 438

Query: 418 KNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVE 477
           +N+EPN+V F+ VL  CSH G+V+EG+++F SM+ ++++ P++EHYGCMVD+ GRA L+ 
Sbjct: 439 ENVEPNEVTFVGVLYGCSHSGLVEEGKKIFASMTDEYNITPKLEHYGCMVDLFGRANLLR 498

Query: 478 EAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYA 537
           EA + I++MP+  N VIW +L++ACR H  +++G+ + K ++ LEP H G  +L+S+IYA
Sbjct: 499 EALEVIESMPVASNVVIWGSLMSACRIHGELELGKFAAKRILELEPDHDGALVLMSNIYA 558

Query: 538 SAGRCEDALRVMNQMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMK 597
              R ED   +   M E+ + K  G S I+ +G+ +EFL  D       E+Y   + ++ 
Sbjct: 559 REQRWEDVRNIRRVMEEKNVFKEKGLSRIDQNGKSHEFLIGDKRHKQSNEIYAKLDEVVS 618

Query: 598 RIKSAGYVPNTADARLDAEEDDKEASVAHHSEKLAIAFGLI-------RASPGTTIRISK 650
           ++K AGYVP+     +D EE++K+  V  HSEKLA+ FGL+       + S G  IRI K
Sbjct: 619 KLKLAGYVPDCGSVLVDVEEEEKKDLVLWHSEKLALCFGLMNEEKEEEKDSCG-VIRIVK 677

Query: 651 NLRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKEGSCSCNDYW 695
           NLRVC DCH   K++SKV+ REI+VRDRTRFH +K G CSC DYW
Sbjct: 678 NLRVCEDCHLFFKLVSKVYEREIIVRDRTRFHCYKNGLCSCRDYW 722

Arabidopsis thaliana (taxid: 3702)

>sp|Q3E6Q1|PPR32_ARATH Pentatricopeptide repeat-containing protein At1g11290 OS=Arabidopsis thaliana GN=PCMP-H40 PE=2 SV=1

 Score =  501 bits (1291), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 259/675 (38%), Positives = 399/675 (59%), Gaps = 7/675 (1%)

Query: 24  TLIVQQCKTTKDL---NQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHK 80
           T +++ C    +L    ++H  L+KS F L+      L    A       ++ A  +F +
Sbjct: 139 TYLLKVCGDEAELRVGKEIHGLLVKSGFSLDLFAMTGLENMYA---KCRQVNEARKVFDR 195

Query: 81  INEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEG 140
           + E D  ++N ++  ++     + A+ + K+M + +++P   T    L A S +R +  G
Sbjct: 196 MPERDLVSWNTIVAGYSQNGMARMALEMVKSMCEENLKPSFITIVSVLPAVSALRLISVG 255

Query: 141 EQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKT 200
           ++IH   ++SGF     ++  L+ +YA CG ++ AR++FD M  R+V SWNSM   YV+ 
Sbjct: 256 KEIHGYAMRSGFDSLVNISTALVDMYAKCGSLETARQLFDGMLERNVVSWNSMIDAYVQN 315

Query: 201 ECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLM 260
           E  +E + +F +M D GVK  +V+++  L AC  L D+E G +I +   E  L+ NV ++
Sbjct: 316 ENPKEAMLIFQKMLDEGVKPTDVSVMGALHACADLGDLERGRFIHKLSVELGLDRNVSVV 375

Query: 261 TAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVV 320
            +++ MY KC  VD A  +F ++  + +V+W+AMI G++Q  R  +AL  F  M+   V 
Sbjct: 376 NSLISMYCKCKEVDTAASMFGKLQSRTLVSWNAMILGFAQNGRPIDALNYFSQMRSRTVK 435

Query: 321 PNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEV 380
           P+  T VSV++  A L      KW+H  V +  ++  + + TAL+D YAKCG I  A  +
Sbjct: 436 PDTFTYVSVITAIAELSITHHAKWIHGVVMRSCLDKNVFVTTALVDMYAKCGAIMIARLI 495

Query: 381 FKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMV 440
           F  M  ++V  W  +I    ++G G+ ALE +  M++  I+PN V F++V+SACSH G+V
Sbjct: 496 FDMMSERHVTTWNAMIDGYGTHGFGKAALELFEEMQKGTIKPNGVTFLSVISACSHSGLV 555

Query: 441 DEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLA 500
           + G + F  M  ++ +E  M+HYG MVD+LGRAG + EA+ FI  MP+ P   ++  +L 
Sbjct: 556 EAGLKCFYMMKENYSIELSMDHYGAMVDLLGRAGRLNEAWDFIMQMPVKPAVNVYGAMLG 615

Query: 501 ACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKT 560
           AC+ HKNV   E++ + L  L P   G ++LL++IY +A   E   +V   M  QG++KT
Sbjct: 616 ACQIHKNVNFAEKAAERLFELNPDDGGYHVLLANIYRAASMWEKVGQVRVSMLRQGLRKT 675

Query: 561 PGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDK 620
           PGCS++E+  E++ F +     P  K++Y   E ++  IK AGYVP+T +  L  E D K
Sbjct: 676 PGCSMVEIKNEVHSFFSGSTAHPDSKKIYAFLEKLICHIKEAGYVPDT-NLVLGVENDVK 734

Query: 621 EASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTR 680
           E  ++ HSEKLAI+FGL+  + GTTI + KNLRVC DCHNATK IS V  REIVVRD  R
Sbjct: 735 EQLLSTHSEKLAISFGLLNTTAGTTIHVRKNLRVCADCHNATKYISLVTGREIVVRDMQR 794

Query: 681 FHHFKEGSCSCNDYW 695
           FHHFK G+CSC DYW
Sbjct: 795 FHHFKNGACSCGDYW 809

Arabidopsis thaliana (taxid: 3702)

>sp|Q7Y211|PP285_ARATH Pentatricopeptide repeat-containing protein At3g57430, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H81 PE=2 SV=2

 Score =  497 bits (1279), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 256/672 (38%), Positives = 399/672 (59%), Gaps = 18/672 (2%)

Query: 38  QVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMIRAFT 97
           QVHA+ ++ +  LN  I   L+     L    +    L  F      D   +N ++ +  
Sbjct: 223 QVHAYGLR-KGELNSFIINTLVAMYGKLGKLASSKVLLGSF---GGRDLVTWNTVLSSLC 278

Query: 98  LKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSG-FGCRQ 156
             +   EA+   + M+   VEPD FT +  L ACS +  L  G+++HA  LK+G      
Sbjct: 279 QNEQLLEALEYLREMVLEGVEPDEFTISSVLPACSHLEMLRTGKELHAYALKNGSLDENS 338

Query: 157 LVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRD- 215
            V + L+ +Y NC ++   R++FD M +R +  WN+M +GY + E  +E + LF  M + 
Sbjct: 339 FVGSALVDMYCNCKQVLSGRRVFDGMFDRKIGLWNAMIAGYSQNEHDKEALLLFIGMEES 398

Query: 216 LGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDK 275
            G+  +  T+  V+ AC R         I  ++ ++ L+ +  +   ++DMY++ G +D 
Sbjct: 399 AGLLANSTTMAGVVPACVRSGAFSRKEAIHGFVVKRGLDRDRFVQNTLMDMYSRLGKIDI 458

Query: 276 ARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQ-----------MANVVPNEV 324
           A R+F +M  +D+V W+ MI+GY  +   ++AL + H MQ             ++ PN +
Sbjct: 459 AMRIFGKMEDRDLVTWNTMITGYVFSEHHEDALLLLHKMQNLERKVSKGASRVSLKPNSI 518

Query: 325 TMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKM 384
           T++++L  CA L AL  GK +H Y  K  +   + +G+AL+D YAKCG ++ + +VF ++
Sbjct: 519 TLMTILPSCAALSALAKGKEIHAYAIKNNLATDVAVGSALVDMYAKCGCLQMSRKVFDQI 578

Query: 385 PLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGR 444
           P KNV  W V+I     +G G+ A++   +M  + ++PN+V FI+V +ACSH GMVDEG 
Sbjct: 579 PQKNVITWNVIIMAYGMHGNGQEAIDLLRMMMVQGVKPNEVTFISVFAACSHSGMVDEGL 638

Query: 445 ELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPV-IWRTLLAACR 503
            +F  M  D+ +EP  +HY C+VD+LGRAG ++EAYQ +  MP   N    W +LL A R
Sbjct: 639 RIFYVMKPDYGVEPSSDHYACVVDLLGRAGRIKEAYQLMNMMPRDFNKAGAWSSLLGASR 698

Query: 504 AHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGC 563
            H N+++GE + +NL+ LEP  +  Y+LL++IY+SAG  + A  V   M+EQG++K PGC
Sbjct: 699 IHNNLEIGEIAAQNLIQLEPNVASHYVLLANIYSSAGLWDKATEVRRNMKEQGVRKEPGC 758

Query: 564 SLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEAS 623
           S IE   E+++F+A D+  P  +++    E + +R++  GYVP+T+    + EED+KE  
Sbjct: 759 SWIEHGDEVHKFVAGDSSHPQSEKLSGYLETLWERMRKEGYVPDTSCVLHNVEEDEKEIL 818

Query: 624 VAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHH 683
           +  HSEKLAIAFG++  SPGT IR++KNLRVC DCH ATK ISK+ +REI++RD  RFH 
Sbjct: 819 LCGHSEKLAIAFGILNTSPGTIIRVAKNLRVCNDCHLATKFISKIVDREIILRDVRRFHR 878

Query: 684 FKEGSCSCNDYW 695
           FK G+CSC DYW
Sbjct: 879 FKNGTCSCGDYW 890

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LTV8|PP224_ARATH Pentatricopeptide repeat-containing protein At3g12770 OS=Arabidopsis thaliana GN=PCMP-H43 PE=2 SV=1

 Score =  486 bits (1250), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 243/672 (36%), Positives = 394/672 (58%), Gaps = 6/672 (0%)

Query: 26  IVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPD 85
           ++        L Q+HA L+      +  +   L+ A++     T   +A  +F  +  P 
Sbjct: 27  LIDSATHKAQLKQIHARLLVLGLQFSGFLITKLIHASSSFGDIT---FARQVFDDLPRPQ 83

Query: 86  SSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHA 145
              +N +IR ++     Q+A+++Y  M    V PD FTF   LKACS +  L+ G  +HA
Sbjct: 84  IFPWNAIIRGYSRNNHFQDALLMYSNMQLARVSPDSFTFPHLLKACSGLSHLQMGRFVHA 143

Query: 146 QILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMS--NRDVFSWNSMFSGYVKTECW 203
           Q+ + GF     V N LI LYA C R+  AR +F+ +    R + SW ++ S Y +    
Sbjct: 144 QVFRLGFDADVFVQNGLIALYAKCRRLGSARTVFEGLPLPERTIVSWTAIVSAYAQNGEP 203

Query: 204 REIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAV 263
            E +++F++MR + VK D V L++VL A   L D++ G  I   + +  L     L+ ++
Sbjct: 204 MEALEIFSQMRKMDVKPDWVALVSVLNAFTCLQDLKQGRSIHASVVKMGLEIEPDLLISL 263

Query: 264 VDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNE 323
             MYAKCG V  A+ LF++M   +++ W+AMISGY++    +EA+ +FH+M   +V P+ 
Sbjct: 264 NTMYAKCGQVATAKILFDKMKSPNLILWNAMISGYAKNGYAREAIDMFHEMINKDVRPDT 323

Query: 324 VTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKK 383
           +++ S +S CA +G+LE  + ++ YV +      + + +AL+D +AKCG +E A  VF +
Sbjct: 324 ISITSAISACAQVGSLEQARSMYEYVGRSDYRDDVFISSALIDMFAKCGSVEGARLVFDR 383

Query: 384 MPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEG 443
              ++V  W+ +I     +G+   A+  Y  M    + PNDV F+ +L AC+H GMV EG
Sbjct: 384 TLDRDVVVWSAMIVGYGLHGRAREAISLYRAMERGGVHPNDVTFLGLLMACNHSGMVREG 443

Query: 444 RELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACR 503
              F  M+ D  + P+ +HY C++D+LGRAG +++AY+ IK MP+ P   +W  LL+AC+
Sbjct: 444 WWFFNRMA-DHKINPQQQHYACVIDLLGRAGHLDQAYEVIKCMPVQPGVTVWGALLSACK 502

Query: 504 AHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGC 563
            H++V++GE + + L +++P ++G Y+ LS++YA+A   +    V  +M+E+G+ K  GC
Sbjct: 503 KHRHVELGEYAAQQLFSIDPSNTGHYVQLSNLYAAARLWDRVAEVRVRMKEKGLNKDVGC 562

Query: 564 SLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEAS 623
           S +E+ G +  F   D   P ++E+    E +  R+K  G+V N   +  D  +++ E +
Sbjct: 563 SWVEVRGRLEAFRVGDKSHPRYEEIERQVEWIESRLKEGGFVANKDASLHDLNDEEAEET 622

Query: 624 VAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHH 683
           +  HSE++AIA+GLI    GT +RI+KNLR C +CH ATK+ISK+ +REIVVRD  RFHH
Sbjct: 623 LCSHSERIAIAYGLISTPQGTPLRITKNLRACVNCHAATKLISKLVDREIVVRDTNRFHH 682

Query: 684 FKEGSCSCNDYW 695
           FK+G CSC DYW
Sbjct: 683 FKDGVCSCGDYW 694

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LUJ2|PP249_ARATH Pentatricopeptide repeat-containing protein At3g22690 OS=Arabidopsis thaliana GN=PCMP-H56 PE=2 SV=1

 Score =  484 bits (1247), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 250/691 (36%), Positives = 404/691 (58%), Gaps = 36/691 (5%)

Query: 38  QVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMIRAFT 97
           Q+H  ++K  +  +  +  +L+   A       +D A  +F +++E +  ++  MI  + 
Sbjct: 155 QIHGLIVKMGYAKDLFVQNSLVHFYA---ECGELDSARKVFDEMSERNVVSWTSMICGYA 211

Query: 98  LKQSPQEAVMLYKTMLQNS-VEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQ 156
            +   ++AV L+  M+++  V P+  T  C + AC+++  LE GE+++A I  SG     
Sbjct: 212 RRDFAKDAVDLFFRMVRDEEVTPNSVTMVCVISACAKLEDLETGEKVYAFIRNSGIEVND 271

Query: 157 LVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDL 216
           L+ + L+ +Y  C  ID+A+++FD     ++   N+M S YV+    RE + +FN M D 
Sbjct: 272 LMVSALVDMYMKCNAIDVAKRLFDEYGASNLDLCNAMASNYVRQGLTREALGVFNLMMDS 331

Query: 217 GVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKC------ 270
           GV+ D +++++ + +C +L +I  G     Y+          +  A++DMY KC      
Sbjct: 332 GVRPDRISMLSAISSCSQLRNILWGKSCHGYVLRNGFESWDNICNALIDMYMKCHRQDTA 391

Query: 271 -------------------------GHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCK 305
                                    G VD A   FE M  K++V+W+ +ISG  Q    +
Sbjct: 392 FRIFDRMSNKTVVTWNSIVAGYVENGEVDAAWETFETMPEKNIVSWNTIISGLVQGSLFE 451

Query: 306 EALGVFHDMQ-MANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTAL 364
           EA+ VF  MQ    V  + VTM+S+ S C  LGAL+  KW++ Y++K  ++L + LGT L
Sbjct: 452 EAIEVFCSMQSQEGVNADGVTMMSIASACGHLGALDLAKWIYYYIEKNGIQLDVRLGTTL 511

Query: 365 MDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPND 424
           +D +++CG  E+A+ +F  +  ++V  WT  I  +A  G  ERA+E +  M E+ ++P+ 
Sbjct: 512 VDMFSRCGDPESAMSIFNSLTNRDVSAWTAAIGAMAMAGNAERAIELFDDMIEQGLKPDG 571

Query: 425 VAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIK 484
           VAF+  L+ACSH G+V +G+E+F SM +   + P   HYGCMVD+LGRAGL+EEA Q I+
Sbjct: 572 VAFVGALTACSHGGLVQQGKEIFYSMLKLHGVSPEDVHYGCMVDLLGRAGLLEEAVQLIE 631

Query: 485 NMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCED 544
           +MP+ PN VIW +LLAACR   NV++   + + +  L P  +G Y+LLS++YASAGR  D
Sbjct: 632 DMPMEPNDVIWNSLLAACRVQGNVEMAAYAAEKIQVLAPERTGSYVLLSNVYASAGRWND 691

Query: 545 ALRVMNQMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGY 604
             +V   M+E+G++K PG S I++ G+ +EF + D   P    +    + + +R    G+
Sbjct: 692 MAKVRLSMKEKGLRKPPGTSSIQIRGKTHEFTSGDESHPEMPNIEAMLDEVSQRASHLGH 751

Query: 605 VPNTADARLDAEEDDKEASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKI 664
           VP+ ++  +D +E +K   ++ HSEKLA+A+GLI ++ GTTIRI KNLRVC+DCH+  K 
Sbjct: 752 VPDLSNVLMDVDEKEKIFMLSRHSEKLAMAYGLISSNKGTTIRIVKNLRVCSDCHSFAKF 811

Query: 665 ISKVFNREIVVRDRTRFHHFKEGSCSCNDYW 695
            SKV+NREI++RD  RFH+ ++G CSC D+W
Sbjct: 812 ASKVYNREIILRDNNRFHYIRQGKCSCGDFW 842

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJY7|PP449_ARATH Pentatricopeptide repeat-containing protein At5g66520 OS=Arabidopsis thaliana GN=PCMP-H61 PE=2 SV=1

 Score =  482 bits (1241), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 251/615 (40%), Positives = 364/615 (59%), Gaps = 38/615 (6%)

Query: 116 SVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDI- 174
           S+E + +     L+ CS+    EE +QIHA++LK+G           +    +    D  
Sbjct: 9   SLEHNLYETMSCLQRCSK---QEELKQIHARMLKTGLMQDSYAITKFLSFCISSTSSDFL 65

Query: 175 --ARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMAC 232
             A+ +FD     D F WN M  G+  ++     + L+  M       +  T  ++L AC
Sbjct: 66  PYAQIVFDGFDRPDTFLWNLMIRGFSCSDEPERSLLLYQRMLCSSAPHNAYTFPSLLKAC 125

Query: 233 GRL----------ADIELGGW------ISEYMEEKELNGNVKLM---------------T 261
             L          A I   G+      ++  +    + GN KL                 
Sbjct: 126 SNLSAFEETTQIHAQITKLGYENDVYAVNSLINSYAVTGNFKLAHLLFDRIPEPDDVSWN 185

Query: 262 AVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVP 321
           +V+  Y K G +D A  LF +M  K+ ++W+ MISGY QA   KEAL +FH+MQ ++V P
Sbjct: 186 SVIKGYVKAGKMDIALTLFRKMAEKNAISWTTMISGYVQADMNKEALQLFHEMQNSDVEP 245

Query: 322 NEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVF 381
           + V++ + LS CA LGALE GKW+H Y+ K R+ +   LG  L+D YAKCG +E A+EVF
Sbjct: 246 DNVSLANALSACAQLGALEQGKWIHSYLNKTRIRMDSVLGCVLIDMYAKCGEMEEALEVF 305

Query: 382 KKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVD 441
           K +  K+V  WT LI   A +G G  A+  +  M++  I+PN + F AVL+ACS+ G+V+
Sbjct: 306 KNIKKKSVQAWTALISGYAYHGHGREAISKFMEMQKMGIKPNVITFTAVLTACSYTGLVE 365

Query: 442 EGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAA 501
           EG+ +F SM RD++L+P +EHYGC+VD+LGRAGL++EA +FI+ MP+ PN VIW  LL A
Sbjct: 366 EGKLIFYSMERDYNLKPTIEHYGCIVDLLGRAGLLDEAKRFIQEMPLKPNAVIWGALLKA 425

Query: 502 CRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTP 561
           CR HKN+++GEE  + L+ ++P H G Y+  ++I+A   + + A      M+EQG+ K P
Sbjct: 426 CRIHKNIELGEEIGEILIAIDPYHGGRYVHKANIHAMDKKWDKAAETRRLMKEQGVAKVP 485

Query: 562 GCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLD-AEEDDK 620
           GCS I L+G  +EFLA D   P  +++      M ++++  GYVP   +  LD  ++D++
Sbjct: 486 GCSTISLEGTTHEFLAGDRSHPEIEKIQSKWRIMRRKLEENGYVPELEEMLLDLVDDDER 545

Query: 621 EASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTR 680
           EA V  HSEKLAI +GLI+  PGT IRI KNLRVC DCH  TK+ISK++ R+IV+RDRTR
Sbjct: 546 EAIVHQHSEKLAITYGLIKTKPGTIIRIMKNLRVCKDCHKVTKLISKIYKRDIVMRDRTR 605

Query: 681 FHHFKEGSCSCNDYW 695
           FHHF++G CSC DYW
Sbjct: 606 FHHFRDGKCSCGDYW 620

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LW32|PP258_ARATH Pentatricopeptide repeat-containing protein At3g26782, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H34 PE=2 SV=1

 Score =  480 bits (1235), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 245/630 (38%), Positives = 384/630 (60%), Gaps = 10/630 (1%)

Query: 76  SIFHK-INEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRI 134
           ++F++ +++ D  ++N +I          EA++ + +M + S+ P R +F C +KACS +
Sbjct: 30  TLFNRYVDKTDVFSWNSVIADLARSGDSAEALLAFSSMRKLSLYPTRSSFPCAIKACSSL 89

Query: 135 RALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMF 194
             +  G+Q H Q    G+     V++ LI +Y+ CG+++ ARK+FD +  R++ SW SM 
Sbjct: 90  FDIFSGKQTHQQAFVFGYQSDIFVSSALIVMYSTCGKLEDARKVFDEIPKRNIVSWTSMI 149

Query: 195 SGYVKTECWREIVDLFNEM------RDLGVKFDEVTLINVLMACGRLADIELGGWISEYM 248
            GY       + V LF ++       D  +  D + L++V+ AC R+    L   I  ++
Sbjct: 150 RGYDLNGNALDAVSLFKDLLVDENDDDDAMFLDSMGLVSVISACSRVPAKGLTESIHSFV 209

Query: 249 EEKELNGNVKLMTAVVDMYAKCGH--VDKARRLFEQMNIKDVVAWSAMISGYSQARRCKE 306
            ++  +  V +   ++D YAK G   V  AR++F+Q+  KD V++++++S Y+Q+    E
Sbjct: 210 IKRGFDRGVSVGNTLLDAYAKGGEGGVAVARKIFDQIVDKDRVSYNSIMSVYAQSGMSNE 269

Query: 307 ALGVFHDMQMANVVP-NEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALM 365
           A  VF  +    VV  N +T+ +VL   +  GAL  GK +H  V +  +E  + +GT+++
Sbjct: 270 AFEVFRRLVKNKVVTFNAITLSTVLLAVSHSGALRIGKCIHDQVIRMGLEDDVIVGTSII 329

Query: 366 DFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDV 425
           D Y KCG +E A + F +M  KNV  WT +I     +G   +ALE +  M +  + PN +
Sbjct: 330 DMYCKCGRVETARKAFDRMKNKNVRSWTAMIAGYGMHGHAAKALELFPAMIDSGVRPNYI 389

Query: 426 AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKN 485
            F++VL+ACSH G+  EG   F +M   F +EP +EHYGCMVD+LGRAG +++AY  I+ 
Sbjct: 390 TFVSVLAACSHAGLHVEGWRWFNAMKGRFGVEPGLEHYGCMVDLLGRAGFLQKAYDLIQR 449

Query: 486 MPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDA 545
           M + P+ +IW +LLAACR HKNV++ E S+  L  L+  + G Y+LLS IYA AGR +D 
Sbjct: 450 MKMKPDSIIWSSLLAACRIHKNVELAEISVARLFELDSSNCGYYMLLSHIYADAGRWKDV 509

Query: 546 LRVMNQMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYV 605
            RV   M+ +G+ K PG SL+EL+GE++ FL  D   P  +++Y+    + +++  AGYV
Sbjct: 510 ERVRMIMKNRGLVKPPGFSLLELNGEVHVFLIGDEEHPQREKIYEFLAELNRKLLEAGYV 569

Query: 606 PNTADARLDAEEDDKEASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKII 665
            NT+    D +E++KE ++  HSEKLAIAFG++   PG+T+ + KNLRVC+DCHN  K+I
Sbjct: 570 SNTSSVCHDVDEEEKEMTLRVHSEKLAIAFGIMNTVPGSTVNVVKNLRVCSDCHNVIKLI 629

Query: 666 SKVFNREIVVRDRTRFHHFKEGSCSCNDYW 695
           SK+ +RE VVRD  RFHHFK+G CSC DYW
Sbjct: 630 SKIVDREFVVRDAKRFHHFKDGGCSCGDYW 659

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	695
225456890	698	PREDICTED: pentatricopeptide repeat-cont	0.998	0.994	0.728	0.0
449440989	695	PREDICTED: pentatricopeptide repeat-cont	0.989	0.989	0.647	0.0
242076234	693	hypothetical protein SORBIDRAFT_06g02025	0.946	0.949	0.570	0.0
413918675	694	hypothetical protein ZEAMMB73_481408 [Ze	0.946	0.948	0.571	0.0
357167843	745	PREDICTED: pentatricopeptide repeat-cont	0.952	0.888	0.563	0.0
225423499	738	PREDICTED: pentatricopeptide repeat-cont	0.994	0.936	0.437	0.0
255540507	441	pentatricopeptide repeat-containing prot	0.611	0.963	0.677	1e-177
225445386	711	PREDICTED: pentatricopeptide repeat-cont	0.972	0.950	0.435	1e-175
449464596	734	PREDICTED: pentatricopeptide repeat-cont	0.971	0.919	0.415	1e-174
225434622	743	PREDICTED: pentatricopeptide repeat-cont	0.974	0.911	0.415	1e-173

>gi|225456890|ref|XP_002277458.1| PREDICTED: pentatricopeptide repeat-containing protein At1g08070 [Vitis vinifera]

 Score = 1106 bits (2860), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 509/699 (72%), Positives = 611/699 (87%), Gaps = 5/699 (0%)

Query: 1   MALTLHF-PAKTVT---TITQFPENPKTLIVQQCKTTKDLNQVHAHLIKSRFHLNPTISE 56
           MA+TL   PAKT T   +I+ FPENPKTLI++QCKT +DLN++HAHLIK+R  L P ++E
Sbjct: 1   MAVTLPLLPAKTPTAKTSISLFPENPKTLILEQCKTIRDLNEIHAHLIKTRLLLKPKVAE 60

Query: 57  NLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNS 116
           NLLE+AAIL+P T+MDYA+SIF +I+EPDS AYNIMIR FTLKQSP EA++L+K M +NS
Sbjct: 61  NLLESAAILLP-TSMDYAVSIFRQIDEPDSPAYNIMIRGFTLKQSPHEAILLFKEMHENS 119

Query: 117 VEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIAR 176
           V+PD FTF C LK CSR++AL EGEQIHA I+K GFG    V NTLIH+YANCG +++AR
Sbjct: 120 VQPDEFTFPCILKVCSRLQALSEGEQIHALIMKCGFGSHGFVKNTLIHMYANCGEVEVAR 179

Query: 177 KMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLA 236
           ++FD MS R+V +WNSMF+GY K+  W E+V LF+EM +L ++FDEVTL++VL ACGRLA
Sbjct: 180 RVFDEMSERNVRTWNSMFAGYTKSGNWEEVVKLFHEMLELDIRFDEVTLVSVLTACGRLA 239

Query: 237 DIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMIS 296
           D+ELG WI+ Y+EEK L GN  L+T++VDMYAKCG VD ARRLF+QM+ +DVVAWSAMIS
Sbjct: 240 DLELGEWINRYVEEKGLKGNPTLITSLVDMYAKCGQVDTARRLFDQMDRRDVVAWSAMIS 299

Query: 297 GYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMEL 356
           GYSQA RC+EAL +FH+MQ AN+ PNE+TMVS+LS CAVLGALETGKWVH ++KKKRM+L
Sbjct: 300 GYSQASRCREALDLFHEMQKANIDPNEITMVSILSSCAVLGALETGKWVHFFIKKKRMKL 359

Query: 357 TITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMR 416
           T+TLGTALMDFYAKCG +E+++EVF KMP+KNV  WTVLIQ LASNGQG++ALE +Y+M 
Sbjct: 360 TVTLGTALMDFYAKCGSVESSIEVFGKMPVKNVLSWTVLIQGLASNGQGKKALEYFYLML 419

Query: 417 EKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLV 476
           EKN+EPNDV FI VLSACSH G+VDEGR+LFVSMSRDF +EPR+EHYGCMVDILGRAGL+
Sbjct: 420 EKNVEPNDVTFIGVLSACSHAGLVDEGRDLFVSMSRDFGIEPRIEHYGCMVDILGRAGLI 479

Query: 477 EEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIY 536
           EEA+QFIKNMPI PN VIWRTLLA+C+ HKNV++GEESLK L+ LEP HSGDYILLS+IY
Sbjct: 480 EEAFQFIKNMPIQPNAVIWRTLLASCKVHKNVEIGEESLKQLIILEPTHSGDYILLSNIY 539

Query: 537 ASAGRCEDALRVMNQMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMM 596
           AS GR EDAL+V  +M+E+GIKKTPGCSLIELDG I+EF AEDN+    +E+Y+A E+MM
Sbjct: 540 ASVGRWEDALKVRGEMKEKGIKKTPGCSLIELDGVIHEFFAEDNVHSQSEEIYNAIEDMM 599

Query: 597 KRIKSAGYVPNTADARLDAEEDDKEASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCT 656
           K+IKSAGYVPNTA+ARLDAEEDDKE+SV+HHSEKLAIAFGLI++ PGTTIRI+KNLRVCT
Sbjct: 600 KQIKSAGYVPNTAEARLDAEEDDKESSVSHHSEKLAIAFGLIKSPPGTTIRITKNLRVCT 659

Query: 657 DCHNATKIISKVFNREIVVRDRTRFHHFKEGSCSCNDYW 695
           DCHNATK++SKVFNREIVVRDRTRFHHFKEGSCSCNDYW
Sbjct: 660 DCHNATKLVSKVFNREIVVRDRTRFHHFKEGSCSCNDYW 698

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449440989|ref|XP_004138266.1| PREDICTED: pentatricopeptide repeat-containing protein At1g08070-like [Cucumis sativus] gi|449524140|ref|XP_004169081.1| PREDICTED: pentatricopeptide repeat-containing protein At1g08070-like [Cucumis sativus]

 Score =  967 bits (2501), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 446/689 (64%), Positives = 558/689 (80%), Gaps = 1/689 (0%)

Query: 7   FPAKTVTTITQFPENPKTLIVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILI 66
            P  ++T+ITQFPENPK+LI+QQCKT KDL QVHAHL+K+R  L+P I+E +LE+AA+L+
Sbjct: 8   LPNISLTSITQFPENPKSLILQQCKTPKDLQQVHAHLLKTRRLLDPIITEAVLESAALLL 67

Query: 67  PATTMDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFAC 126
           P  T+DYALSIF+ I++P+SSAYN+MIR    K+SP  A++L+K M + SV+ D+FTF+ 
Sbjct: 68  P-DTIDYALSIFNHIDKPESSAYNVMIRGLAFKRSPDNALLLFKKMHEKSVQHDKFTFSS 126

Query: 127 TLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRD 186
            LKACSR++AL EGEQ+HA ILKSGF   + V NTLI +YANCG+I +AR +FD M  R 
Sbjct: 127 VLKACSRMKALREGEQVHALILKSGFKSNEFVENTLIQMYANCGQIGVARHVFDGMPERS 186

Query: 187 VFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISE 246
           + +WNSM SGY K   W E+V LF ++ +L ++FD+VT+I+VLMACGRLA++E+G  I E
Sbjct: 187 IVAWNSMLSGYTKNGLWDEVVKLFRKILELRIEFDDVTMISVLMACGRLANLEIGELIGE 246

Query: 247 YMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKE 306
           Y+  K L  N  L T+++DMYAKCG VD AR+LF++M+ +DVVAWSAMISGY+QA RCKE
Sbjct: 247 YIVSKGLRRNNTLTTSLIDMYAKCGQVDTARKLFDEMDKRDVVAWSAMISGYAQADRCKE 306

Query: 307 ALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMD 366
           AL +FH+MQ  NV PNEVTMVSVL  CA+LGA ETGKWVH Y+KKK+M+LT+TLGT L+D
Sbjct: 307 ALNLFHEMQKGNVYPNEVTMVSVLYSCAMLGAYETGKWVHFYIKKKKMKLTVTLGTQLID 366

Query: 367 FYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVA 426
           FYAKCG I+ +VEVFK+M  KNVF WT LIQ LA+NG+G+ ALE +  M E +++PNDV 
Sbjct: 367 FYAKCGYIDRSVEVFKEMSFKNVFTWTALIQGLANNGEGKMALEFFSSMLENDVKPNDVT 426

Query: 427 FIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM 486
           FI VLSACSH  +VD+GR LF SM RDFD+EPR+EHYGCMVDILGRAG +EEAYQFI NM
Sbjct: 427 FIGVLSACSHACLVDQGRHLFNSMRRDFDIEPRIEHYGCMVDILGRAGFLEEAYQFIDNM 486

Query: 487 PIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDAL 546
           P PPN V+WRTLLA+CRAHKN+++ E+SL+++  LEP HSGDYILLS+ YA  GR EDA+
Sbjct: 487 PFPPNAVVWRTLLASCRAHKNIEMAEKSLEHITRLEPAHSGDYILLSNTYALVGRVEDAI 546

Query: 547 RVMNQMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVP 606
           RV + ++E+ IKK PGCSLIELDG ++EF +ED    H KE++DA + MMK+IK  GYVP
Sbjct: 547 RVRSLIKEKEIKKIPGCSLIELDGVVHEFFSEDGEHKHSKEIHDALDKMMKQIKRLGYVP 606

Query: 607 NTADARLDAEEDDKEASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIIS 666
           NT DARL+AEE+ KE SV+HHSEKLAIA+GLIR SP TTIRISKNLR+C DCHNATK IS
Sbjct: 607 NTDDARLEAEEESKETSVSHHSEKLAIAYGLIRTSPRTTIRISKNLRMCRDCHNATKFIS 666

Query: 667 KVFNREIVVRDRTRFHHFKEGSCSCNDYW 695
           +VF R I+VRDR RFHHFK+G CSCNDYW
Sbjct: 667 QVFERMIIVRDRNRFHHFKDGLCSCNDYW 695

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242076234|ref|XP_002448053.1| hypothetical protein SORBIDRAFT_06g020256 [Sorghum bicolor] gi|241939236|gb|EES12381.1| hypothetical protein SORBIDRAFT_06g020256 [Sorghum bicolor]

 Score =  800 bits (2066), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 379/664 (57%), Positives = 500/664 (75%), Gaps = 6/664 (0%)

Query: 36  LNQVHAHLIKS-RFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSA--YNIM 92
           L Q+HA LIKS     +P    +LLEAAA     T + YA+S+F     P  S   YN++
Sbjct: 32  LPQLHAALIKSGELTGSPKCFHSLLEAAAA--SPTLLPYAVSLFRLGPRPPLSTPCYNVL 89

Query: 93  IRAFTLKQSPQEAVMLYKTMLQ-NSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSG 151
           +RA      P++A+ L+  ML   SV PD+ T AC LK+CSR+  L+ G  I A  +K G
Sbjct: 90  MRALLHAGHPEDALHLFVEMLDVASVCPDQHTVACALKSCSRMCTLDVGRGIQAYAVKRG 149

Query: 152 FGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFN 211
               + V ++LIH+YA+C  +  A+ +FD +    V  WN++ + Y+K   W E+V++F 
Sbjct: 150 LMADRFVLSSLIHMYASCRDVAAAQLLFDAVEENGVVMWNAIITAYMKNGNWMEVVEMFK 209

Query: 212 EMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCG 271
            M ++GV FDE+TL++V+ ACGR+ D +LG W++EY++EK L  N  LMTA++DMYAKCG
Sbjct: 210 GMLEVGVAFDEITLVSVVTACGRIGDAKLGKWVAEYVDEKGLVRNRNLMTALIDMYAKCG 269

Query: 272 HVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLS 331
            + KARRLF+ M  +DVVAWSAMISGY+QA +C+EAL +F +MQ+A V PN+VTMVSVLS
Sbjct: 270 ELGKARRLFDGMQSRDVVAWSAMISGYTQADQCREALALFSEMQLAEVEPNDVTMVSVLS 329

Query: 332 CCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFF 391
            CAVLGALETGKWVH Y+++KR+ LTI LGTAL+DFYAKCG I++AVE F+ MP+KN + 
Sbjct: 330 ACAVLGALETGKWVHSYIRRKRLSLTIILGTALVDFYAKCGCIDDAVEAFESMPVKNSWT 389

Query: 392 WTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMS 451
           WT LI+ +A+NG+G  ALE +  MR+ +IEP DV FI VL ACSH  +V+EGR  F SM+
Sbjct: 390 WTALIKGMATNGRGREALELFSSMRKASIEPTDVTFIGVLMACSHSCLVEEGRRHFDSMT 449

Query: 452 RDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVG 511
           +D+ ++PR EHYGC+VD+LGRAGL++EAYQFI+ MPI PN VIWR LL++C  HKNV++G
Sbjct: 450 QDYGIKPRAEHYGCVVDLLGRAGLIDEAYQFIRTMPIEPNAVIWRALLSSCAVHKNVEIG 509

Query: 512 EESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELDGE 571
           EE+LK +V+L P HSGDYILLS+IYAS G+ ++A  +  +M+++GI+KTPGCSLIELDG 
Sbjct: 510 EEALKQIVSLNPSHSGDYILLSNIYASVGQWKNAAMIRKEMKDRGIEKTPGCSLIELDGV 569

Query: 572 IYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEASVAHHSEKL 631
           + EF AED+  P  KE+Y   E M+ RIK AGY+PNTAD RL+ +E +KE SV+HHSEKL
Sbjct: 570 VVEFFAEDSDHPQLKEIYQKVEEMIDRIKMAGYIPNTADVRLEVDEHEKEVSVSHHSEKL 629

Query: 632 AIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKEGSCSC 691
           AIAFGL++  PG TIR+SKNLRVCTDCH+ATK+ISKV+NREIVVRDR RFHHFK+G+CSC
Sbjct: 630 AIAFGLMKLDPGATIRLSKNLRVCTDCHSATKLISKVYNREIVVRDRNRFHHFKDGTCSC 689

Query: 692 NDYW 695
           NDYW
Sbjct: 690 NDYW 693

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|413918675|gb|AFW58607.1| hypothetical protein ZEAMMB73_481408 [Zea mays]

 Score =  797 bits (2059), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 380/665 (57%), Positives = 499/665 (75%), Gaps = 7/665 (1%)

Query: 36  LNQVHAHLIKSRFHLNPTIS-ENLLEAAAILIPATTMDYALSIFHKINEPDSSA--YNIM 92
           L Q+HA LIKS        S  +LLEAAA     T + YA+S+F     P  S   YN++
Sbjct: 32  LPQLHAALIKSGELTGSAKSFHSLLEAAAA--SPTLLPYAVSLFRLGPRPPLSTPCYNVL 89

Query: 93  IRAFTLKQSPQEAVMLYKTMLQ--NSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKS 150
           +RAF     P++A+ L+  ML   ++   D+ T AC LK+CSR+ AL+ G  + A  +K 
Sbjct: 90  MRAFLHAGHPEDALHLFIEMLHAASACPADQHTAACALKSCSRMCALDVGRGVQAYAVKR 149

Query: 151 GFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLF 210
           G    + V ++LIH+YA+CG +  AR +FD      V  WN++ + Y+K   W E+V++F
Sbjct: 150 GLVADRFVLSSLIHMYASCGDVAAARLVFDAAEESGVVMWNAIVAAYLKNGDWMEVVEMF 209

Query: 211 NEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKC 270
             M ++GV FDEVTL++V+ ACGR+ D +LG W++ +++E+ L  N KL+TA++DMYAKC
Sbjct: 210 KGMLEVGVAFDEVTLVSVVTACGRIGDAKLGKWVAGHVDEEGLARNPKLVTALMDMYAKC 269

Query: 271 GHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVL 330
           G + KARRLF+ M  +DVVAWSAMISGY+QA +C+EALG+F +MQ+A V PN+VTMVSVL
Sbjct: 270 GEIGKARRLFDGMQSRDVVAWSAMISGYTQADQCREALGLFSEMQLARVEPNDVTMVSVL 329

Query: 331 SCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVF 390
           S CAVLGALETGKWVH YV++KR+ LT  LGTAL+DFYAKCG I++AVE F+ MP+KN +
Sbjct: 330 SACAVLGALETGKWVHSYVRRKRLSLTTILGTALVDFYAKCGCIDDAVEAFESMPVKNSW 389

Query: 391 FWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSM 450
            WT LI+ +A+NG+G  ALE +  MRE  IEP DV FI VL ACSH  +V+EGR  F SM
Sbjct: 390 TWTALIKGMATNGRGREALELFSSMREAGIEPTDVTFIGVLMACSHSCLVEEGRRHFDSM 449

Query: 451 SRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKV 510
           +RD+ ++PR+EHYGCMVD+LGRAGLV+EAYQFI+ MPI PN VIWR LL++C  H+NV +
Sbjct: 450 ARDYGIKPRVEHYGCMVDLLGRAGLVDEAYQFIRTMPIEPNAVIWRALLSSCAVHRNVGI 509

Query: 511 GEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELDG 570
           GEE+LK +++L P HSGDY+LLS+IYASAG+ +DA  V  +M+++GI+KTPGCSLIELDG
Sbjct: 510 GEEALKQIISLNPSHSGDYVLLSNIYASAGQWKDAAMVRKEMKDRGIEKTPGCSLIELDG 569

Query: 571 EIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEASVAHHSEK 630
            ++EF AED+  P  +E+Y   E M+ RIK AGYVPNTAD RL+ EE +KE SV+HHSEK
Sbjct: 570 VVFEFFAEDSDHPELREIYQKVEEMIGRIKVAGYVPNTADVRLEVEEREKEVSVSHHSEK 629

Query: 631 LAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKEGSCS 690
           LAIAFGL++  PG TIR+SKNLRVC DCH+ATK+ISKV++REIVVRDR  FHHFK+G+CS
Sbjct: 630 LAIAFGLMKLDPGATIRLSKNLRVCADCHSATKLISKVYDREIVVRDRNIFHHFKDGTCS 689

Query: 691 CNDYW 695
           CNDYW
Sbjct: 690 CNDYW 694

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357167843|ref|XP_003581359.1| PREDICTED: pentatricopeptide repeat-containing protein At2g29760, chloroplastic-like, partial [Brachypodium distachyon]

 Score =  781 bits (2016), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 377/669 (56%), Positives = 501/669 (74%), Gaps = 7/669 (1%)

Query: 34  KDLNQVHAHLIKS-RFHLNPTISENLLEAAAILIPATT---MDYALSIFHKINEPDSSA- 88
           +D+ Q+HA L+KS     +P    +LLEAAA+  PAT+   + YA+ +F     P  SA 
Sbjct: 77  RDVPQLHATLLKSGAMTTSPDSFHSLLEAAALPAPATSSAHLSYAIRLFRLGPHPPRSAR 136

Query: 89  -YNIMIRAFTLKQSPQEAVMLYKTMLQNS-VEPDRFTFACTLKACSRIRALEEGEQIHAQ 146
            YNI+IR+F     P++A+ L+  ML ++ V PD+ T A T+K+CSR+  L  G  + A 
Sbjct: 137 SYNILIRSFLRAGHPEDALHLFVEMLDDTAVSPDQHTVANTVKSCSRMCDLSVGRGVQAY 196

Query: 147 ILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREI 206
             K GF   Q V N+LIH+YA+CG +  A  +F  +  + V +WN+M +GYVK   W+E+
Sbjct: 197 AFKRGFMVDQFVLNSLIHMYASCGDVVAAHVLFHTVQVKGVIAWNAMIAGYVKNGDWKEV 256

Query: 207 VDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDM 266
           V++F  M ++   FDEVTL++V  ACGRL D  LG WI+EY EEK +  +  L TA+VDM
Sbjct: 257 VEMFKGMLEVRAPFDEVTLLSVATACGRLGDANLGQWIAEYAEEKGMLRSRNLATALVDM 316

Query: 267 YAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTM 326
           YAKCG +DKARRLF++M+ +DVVAWSAMISGY+Q+ RC+EAL +F++MQ   V PN+VTM
Sbjct: 317 YAKCGELDKARRLFDRMHSRDVVAWSAMISGYTQSDRCREALAIFNEMQGTEVNPNDVTM 376

Query: 327 VSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPL 386
           VSVLS CAVLGALETGKWVH Y+++K + LT+ LGTAL+DFYAKCG I++AV+ F+ MP+
Sbjct: 377 VSVLSACAVLGALETGKWVHSYIRRKDLPLTVILGTALVDFYAKCGCIKDAVKAFESMPV 436

Query: 387 KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGREL 446
           +N + WT LI+ +ASNG+   ALE +  M E NIEP DV FI VL ACSH  +V+EGR  
Sbjct: 437 RNTWTWTALIKGMASNGRSREALELFSSMLEANIEPTDVTFIGVLLACSHGCLVEEGRRH 496

Query: 447 FVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHK 506
           F SM++D+ + PR+EHYGCMVD+LGRAGL++EAYQFI+NMPI PN V+WR LL+AC  HK
Sbjct: 497 FTSMTQDYGICPRIEHYGCMVDLLGRAGLIDEAYQFIRNMPIEPNAVVWRALLSACTVHK 556

Query: 507 NVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLI 566
           NV++GEE+LK +V L+P HSG+YILLS+ YAS G+ ++A  V  +M+E+G++K PGCSLI
Sbjct: 557 NVEIGEEALKQIVPLDPCHSGNYILLSNTYASVGQWKNAAMVRKEMKEKGVEKIPGCSLI 616

Query: 567 ELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEASVAH 626
           EL+G I+EF AED+  P   E+Y+    M++ IK  GY+PNTADARLD +E +K+ SV+H
Sbjct: 617 ELEGTIFEFFAEDSEHPQLTEIYEKVHEMIENIKMVGYIPNTADARLDVDEYEKQVSVSH 676

Query: 627 HSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKE 686
           HSEKLAIAFGL+++ PG TIR+SKNLRVC DCH+ATK+ISKV+NREI+VRDR RFHHFK+
Sbjct: 677 HSEKLAIAFGLMKSRPGATIRLSKNLRVCIDCHSATKLISKVYNREIIVRDRNRFHHFKD 736

Query: 687 GSCSCNDYW 695
           G CSCNDYW
Sbjct: 737 GLCSCNDYW 745

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225423499|ref|XP_002274432.1| PREDICTED: pentatricopeptide repeat-containing protein At1g08070-like [Vitis vinifera]

 Score =  660 bits (1702), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 317/724 (43%), Positives = 458/724 (63%), Gaps = 33/724 (4%)

Query: 4   TLHFPAKTVTTITQFPENPKTLIVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAA 63
           TLHF   +         +P   ++  CK+ ++L Q+H+ +IK+  H        L+E  A
Sbjct: 16  TLHFQPTSDPPYKLLQNHPSLTLLSTCKSFQNLKQIHSQIIKTGLHNTQFALSKLIEFCA 75

Query: 64  ILIPATTMDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFT 123
           I  P   + YAL +F  I +P+   +N MIR  +L  SP  A+  Y  ML   VEP+ +T
Sbjct: 76  I-SPFGNLSYALLLFESIEQPNQFIWNTMIRGNSLSSSPVGAIDFYVRMLLCGVEPNSYT 134

Query: 124 FACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRI----------- 172
           F   LK+C+++ A +EG+QIH  +LK G      V  +LI++YA  G +           
Sbjct: 135 FPFLLKSCAKVGATQEGKQIHGHVLKLGLESDPFVHTSLINMYAQNGELGYAELVFSKSS 194

Query: 173 --------------------DIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNE 212
                               D AR++F+ +  RD  SWN+M +GY ++  + E +  F E
Sbjct: 195 LRDAVSFTALITGYTLRGCLDDARRLFEEIPVRDAVSWNAMIAGYAQSGRFEEALAFFQE 254

Query: 213 MRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGH 272
           M+   V  +E T++ VL AC +   +ELG W+  ++E+  L  N++L+ A++DMY+KCG 
Sbjct: 255 MKRANVAPNESTMVTVLSACAQSGSLELGNWVRSWIEDHGLGSNLRLVNALIDMYSKCGD 314

Query: 273 VDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSC 332
           +DKAR LFE +  KD+++W+ MI GYS     KEAL +F  MQ +NV PN+VT VS+L  
Sbjct: 315 LDKARDLFEGICEKDIISWNVMIGGYSHMNSYKEALALFRKMQQSNVEPNDVTFVSILPA 374

Query: 333 CAVLGALETGKWVHLYVKKKRMELTIT-LGTALMDFYAKCGLIENAVEVFKKMPLKNVFF 391
           CA LGAL+ GKW+H Y+ KK + LT T L T+L+D YAKCG IE A +VF  M  K++  
Sbjct: 375 CAYLGALDLGKWIHAYIDKKFLGLTNTSLWTSLIDMYAKCGNIEAAKQVFAGMKPKSLGS 434

Query: 392 WTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMS 451
           W  +I  LA +G    ALE +  MR++  EP+D+ F+ VLSACSH G+V+ GR+ F SM 
Sbjct: 435 WNAMISGLAMHGHANMALELFRQMRDEGFEPDDITFVGVLSACSHAGLVELGRQCFSSMV 494

Query: 452 RDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVG 511
            D+D+ P+++HYGCM+D+LGRAGL +EA   +KNM + P+  IW +LL ACR H NV++G
Sbjct: 495 EDYDISPKLQHYGCMIDLLGRAGLFDEAEALMKNMEMKPDGAIWGSLLGACRVHGNVELG 554

Query: 512 EESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELDGE 571
           E + K+L  LEP + G Y+LLS+IYA+AGR +D  R+  ++ ++G+KK PGCS IE+D  
Sbjct: 555 EFAAKHLFELEPENPGAYVLLSNIYATAGRWDDVARIRTKLNDKGMKKVPGCSSIEVDSV 614

Query: 572 IYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEASVAHHSEKL 631
           ++EFL  D +    +++Y   + + + ++ AG+VP+T++   D +E+ KE S++HHSEKL
Sbjct: 615 VHEFLVGDKVHEQSQDIYKMLDEIDQLLEKAGHVPDTSEVLYDMDEEWKEGSLSHHSEKL 674

Query: 632 AIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKEGSCSC 691
           AIAFGLI   P TTIRI KNLRVC +CH+A K+ISK+FNREI+ RDR RFHHFK+GSCSC
Sbjct: 675 AIAFGLISTKPETTIRIVKNLRVCGNCHSAIKLISKIFNREIIARDRNRFHHFKDGSCSC 734

Query: 692 NDYW 695
            DYW
Sbjct: 735 MDYW 738

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255540507|ref|XP_002511318.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223550433|gb|EEF51920.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  629 bits (1621), Expect = e-177,   Method: Compositional matrix adjust.
 Identities = 290/428 (67%), Positives = 362/428 (84%), Gaps = 3/428 (0%)

Query: 6   HFPAKTVT---TITQFPENPKTLIVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAA 62
            FPA  +T   T+TQFP+NPK+LI+QQCKT KDL QVHAHL+K+R HL+ T++ENLLE+A
Sbjct: 8   QFPASILTPISTVTQFPDNPKSLILQQCKTIKDLKQVHAHLLKTRRHLDSTVTENLLESA 67

Query: 63  AILIPATTMDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRF 122
           AI++PATTM+YALSIF  I+ PDSSAYNIMIRAFTLK+SPQ+A+  +K ML+ +V  D F
Sbjct: 68  AIILPATTMEYALSIFDNIDGPDSSAYNIMIRAFTLKRSPQKALAFFKQMLEEAVAFDEF 127

Query: 123 TFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRM 182
           TF CTLKACSR+R  +EG+QIHAQI+K GFG   +V NTLIH+YANCG I+IAR MFD M
Sbjct: 128 TFPCTLKACSRLRGRKEGKQIHAQIVKYGFGSNCIVLNTLIHMYANCGEIEIARNMFDGM 187

Query: 183 SNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGG 242
           S RD+F+WNSMFSGYVK+  + + V LF EMR+LGV F+++TLI+VL ACGRLAD+ELG 
Sbjct: 188 SERDIFAWNSMFSGYVKSGYYEDTVRLFEEMRELGVGFNDITLISVLAACGRLADVELGE 247

Query: 243 WISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQAR 302
           WI++Y+    L+ N+ L+TA+VDMYAKCG VDKARRLF+QM+ +DVVAWSAMISGYSQAR
Sbjct: 248 WIAKYVRVNGLDRNMNLVTALVDMYAKCGEVDKARRLFDQMDGRDVVAWSAMISGYSQAR 307

Query: 303 RCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGT 362
           RC+EA+ +F++MQMAN+ PNEVTMVSVLSCCA LGAL TGKW+HLY+K+K M LT+TLGT
Sbjct: 308 RCQEAVDLFNEMQMANLDPNEVTMVSVLSCCAALGALGTGKWIHLYIKRKGMNLTVTLGT 367

Query: 363 ALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEP 422
           AL+DFY KCGL+++A+EVF+ MP+KNV+ WT LIQ LA+NGQG+RALE Y +MRE N+EP
Sbjct: 368 ALVDFYGKCGLVDSAIEVFQLMPVKNVYSWTALIQGLANNGQGKRALEYYQLMRESNVEP 427

Query: 423 NDVAFIAV 430
           NDV  + V
Sbjct: 428 NDVWLMKV 435

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225445386|ref|XP_002281711.1| PREDICTED: pentatricopeptide repeat-containing protein At2g29760, chloroplastic [Vitis vinifera]

 Score =  622 bits (1604), Expect = e-175,   Method: Compositional matrix adjust.
 Identities = 296/680 (43%), Positives = 450/680 (66%), Gaps = 4/680 (0%)

Query: 16  TQFPENPKTLIVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYAL 75
           +Q   +P  L +++C T   L Q+HA ++++   ++P  S + + A   L  + ++ YA 
Sbjct: 36  SQIQLHPCLLSLEKCTTMSQLKQIHAQMLRTCLFVDP-FSASKIVAFCALHDSGSLPYAR 94

Query: 76  SIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIR 135
            +F++I  P +   N +IR +T K  P++A++ Y+ M+   ++PDRFTF    K+C    
Sbjct: 95  LVFNQIPNPTTFTCNSIIRGYTNKNLPRQAILFYQLMMLQGLDPDRFTFPSLFKSCG--- 151

Query: 136 ALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFS 195
            L EG+Q+H    K GF     + NTL+++Y+NCG +  ARK+FD+M N+ V SW +M  
Sbjct: 152 VLCEGKQLHCHSTKLGFASDAYIQNTLMNMYSNCGCLVSARKVFDKMVNKSVVSWATMIG 211

Query: 196 GYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNG 255
            Y + +   E + LF  M    VK +E+TL+NVL AC R  D+E    + +Y++E  +  
Sbjct: 212 AYAQWDLPHEAIKLFRRMEIASVKPNEITLVNVLTACARSRDLETAKQVHKYIDETGIGF 271

Query: 256 NVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQ 315
           +  L +A++D+Y KCG    AR LF +M  K++  W+ MI+G+ +    +EAL +F++MQ
Sbjct: 272 HTVLTSALMDVYCKCGCYPLARDLFNKMPEKNLFCWNIMINGHVEDSDYEEALSLFNEMQ 331

Query: 316 MANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIE 375
           ++ V  ++VTM S+L  C  LGALE GKW+H+Y++K+++E+ + LGTAL+D YAKCG IE
Sbjct: 332 LSGVKGDKVTMASLLIACTHLGALELGKWLHVYIEKEKIEVDVALGTALVDMYAKCGSIE 391

Query: 376 NAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACS 435
           +A+ VF++MP K+V  WT LI  LA  GQG +ALE ++ M+   ++P+ + F+ VL+ACS
Sbjct: 392 SAMRVFQEMPEKDVMTWTALIVGLAMCGQGLKALELFHEMQMSEVKPDAITFVGVLAACS 451

Query: 436 HVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIW 495
           H G+V+EG   F SM   + ++P +EHYGCMVD+LGRAG + EA   I+NMP+ P+  + 
Sbjct: 452 HAGLVNEGIAYFNSMPNKYGIQPSIEHYGCMVDMLGRAGRIAEAEDLIQNMPMAPDYFVL 511

Query: 496 RTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQ 555
             LL+ACR H N+ V E + + L+ L+P + G Y+LLS+IY+S    E A ++   M E+
Sbjct: 512 VGLLSACRIHGNLVVAERAAQQLIELDPKNGGTYVLLSNIYSSMKNWEAAKKMRELMVER 571

Query: 556 GIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDA 615
            IKK PGCS IE+ G ++EF+  D   P   E+Y+  ++MM+R+KSAGYVP+ ++   D 
Sbjct: 572 NIKKPPGCSAIEVGGVVHEFVKGDVSHPQSSEIYETLDDMMRRLKSAGYVPDKSEVLFDM 631

Query: 616 EEDDKEASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVV 675
           +E +KE  ++ HSEKLAIAFGL+  +PGT IR+ KNLRVC+DCH+A K IS+V+NREI+V
Sbjct: 632 DEKEKENELSLHSEKLAIAFGLLSTTPGTPIRVVKNLRVCSDCHSAMKFISEVYNREIIV 691

Query: 676 RDRTRFHHFKEGSCSCNDYW 695
           RDR RFHHF +GSCSC D+W
Sbjct: 692 RDRNRFHHFTKGSCSCRDFW 711

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449464596|ref|XP_004150015.1| PREDICTED: pentatricopeptide repeat-containing protein At1g08070-like [Cucumis sativus] gi|449529868|ref|XP_004171920.1| PREDICTED: pentatricopeptide repeat-containing protein At1g08070-like [Cucumis sativus]

 Score =  617 bits (1591), Expect = e-174,   Method: Compositional matrix adjust.
 Identities = 294/707 (41%), Positives = 452/707 (63%), Gaps = 32/707 (4%)

Query: 20  ENPKTLIVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFH 79
           E+P   ++ +C++ +   Q+HAH+IK+  H        L+E +A+   +  + YA+S+F+
Sbjct: 29  EHPSLKLLSKCQSIRTFKQIHAHIIKTGLHNTLFALSKLIEFSAV-SRSGDISYAISLFN 87

Query: 80  KINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEE 139
            I EP+   +N MIR  ++  SP  A++ +  M+ + VEP+ +TF   LK+C+++ +  E
Sbjct: 88  SIEEPNLFIWNSMIRGLSMSLSPALALVFFVRMIYSGVEPNSYTFPFLLKSCAKLASAHE 147

Query: 140 GEQIHAQILKSGFGCRQLVTNTLIHLYANCGR---------------------------- 171
           G+QIHA +LK GF     +  +LI++YA  G                             
Sbjct: 148 GKQIHAHVLKLGFVSDVFIHTSLINMYAQSGEMNNAQLVFDQSNFRDAISFTALIAGYAL 207

Query: 172 ---IDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINV 228
              +D AR++FD M  +DV SWN+M +GY +    +E + LF +MR   V  +E T+++V
Sbjct: 208 WGYMDRARQLFDEMPVKDVVSWNAMIAGYAQMGRSKEALLLFEDMRKANVPPNESTIVSV 267

Query: 229 LMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDV 288
           L AC +   ++LG  +  ++E++ L  N+KL+ A++DMY+KCG +  AR LF+ M  +DV
Sbjct: 268 LSACAQSNALDLGNSMRSWIEDRGLCSNLKLVNALIDMYSKCGDLQTARELFDDMLERDV 327

Query: 289 VAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLY 348
           ++W+ MI GY+     KEAL +F +M  + V P E+T +S+L  CA LGA++ GKW+H Y
Sbjct: 328 ISWNVMIGGYTHMCSYKEALALFREMLASGVEPTEITFLSILPSCAHLGAIDLGKWIHAY 387

Query: 349 VKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERA 408
           + K    ++ +L T+L+D YAKCG I  A +VF  M +K++  W  +I  LA +GQ ++A
Sbjct: 388 INKNFNSVSTSLSTSLIDLYAKCGNIVAARQVFDGMKIKSLASWNAMICGLAMHGQADKA 447

Query: 409 LETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVD 468
            E +  M    IEPN++ F+ +LSAC H G+VD G++ F SM +D+ + P+ +HYGCM+D
Sbjct: 448 FELFSKMSSDGIEPNEITFVGILSACKHAGLVDLGQQFFSSMVQDYKISPKSQHYGCMID 507

Query: 469 ILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGD 528
           +LGRAGL EEA   ++NM + P+  IW +LL ACR H  V++GE   + L  LEP + G 
Sbjct: 508 LLGRAGLFEEAESLLQNMEVKPDGAIWGSLLGACRDHGRVELGELVAERLFELEPDNPGA 567

Query: 529 YILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEV 588
           Y+LLS+IYA AG+ +D  R+  ++ ++G+KK PGC+ IE+D  ++EFL  D + P  +++
Sbjct: 568 YVLLSNIYAGAGKWDDVARIRTRLNDRGMKKVPGCTTIEVDNVVHEFLVGDKVHPQSEDI 627

Query: 589 YDATENMMKRIKSAGYVPNTADARLDAEEDDKEASVAHHSEKLAIAFGLIRASPGTTIRI 648
           Y   E + +++K  G+V +T++   D +E+ KE +++HHSEKLAIAFGLI   PGT IRI
Sbjct: 628 YRMLEEVDEQLKVFGFVADTSEVLYDMDEEWKEGALSHHSEKLAIAFGLISTKPGTPIRI 687

Query: 649 SKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKEGSCSCNDYW 695
            KNLRVC +CH+ATK+ISK+FNREI+ RDR RFHHFK+GSCSCNDYW
Sbjct: 688 IKNLRVCRNCHSATKLISKIFNREIIARDRNRFHHFKDGSCSCNDYW 734

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225434622|ref|XP_002279360.1| PREDICTED: pentatricopeptide repeat-containing protein At2g29760, chloroplastic-like [Vitis vinifera]

 Score =  613 bits (1582), Expect = e-173,   Method: Compositional matrix adjust.
 Identities = 296/712 (41%), Positives = 441/712 (61%), Gaps = 35/712 (4%)

Query: 18  FPENPKTLIVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSI 77
           F  +P   ++ QC  TK L Q+HA ++++    +P  +  L+ AAA L P  ++DYA  +
Sbjct: 33  FANHPTLSLIDQCSETKQLKQIHAQMLRTGLFFDPFSASRLITAAA-LSPFPSLDYAQQV 91

Query: 78  FHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVE-PDRFTFACTLKACSRIRA 136
           F +I  P+   +N +IRA+    +P ++++++  ML  S + PD+FTF   +KA S +  
Sbjct: 92  FDQIPHPNLYTWNTLIRAYASSSNPHQSLLIFLRMLHQSPDFPDKFTFPFLIKAASELEE 151

Query: 137 LEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSG 196
           L  G+  H  ++K   G    + N+LIH YA CG + +  ++F  +  RDV SWNSM + 
Sbjct: 152 LFTGKAFHGMVIKVLLGSDVFILNSLIHFYAKCGELGLGYRVFVNIPRRDVVSWNSMITA 211

Query: 197 YVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGN 256
           +V+  C  E ++LF EM    VK + +T++ VL AC + +D E G W+  Y+E   +  +
Sbjct: 212 FVQGGCPEEALELFQEMETQNVKPNGITMVGVLSACAKKSDFEFGRWVHSYIERNRIGES 271

Query: 257 VKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVV--------------------------- 289
           + L  A++DMY KCG V+ A+RLF++M  KD+V                           
Sbjct: 272 LTLSNAMLDMYTKCGSVEDAKRLFDKMPEKDIVSWTTMLVGYAKIGEYDAAQGIFDAMPN 331

Query: 290 ----AWSAMISGYSQARRCKEALGVFHDMQMANVV-PNEVTMVSVLSCCAVLGALETGKW 344
               AW+A+IS Y Q  + KEAL +FH++Q++    P+EVT+VS LS CA LGA++ G W
Sbjct: 332 QDIAAWNALISAYEQCGKPKEALELFHELQLSKTAKPDEVTLVSTLSACAQLGAMDLGGW 391

Query: 345 VHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQ 404
           +H+Y+KK+ M+L   L T+L+D Y KCG ++ A+ VF  +  K+VF W+ +I  LA +G 
Sbjct: 392 IHVYIKKQGMKLNCHLTTSLIDMYCKCGDLQKALMVFHSVERKDVFVWSAMIAGLAMHGH 451

Query: 405 GERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYG 464
           G+ A+  +  M+E  ++PN V F  +L ACSHVG+V+EGR  F  M   + + P ++HY 
Sbjct: 452 GKDAIALFSKMQEDKVKPNAVTFTNILCACSHVGLVEEGRTFFNQMELVYGVLPGVKHYA 511

Query: 465 CMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPM 524
           CMVDILGRAGL+EEA + I+ MP+ P   +W  LL AC  H+NV + E++   L+ LEP 
Sbjct: 512 CMVDILGRAGLLEEAVELIEKMPMAPAASVWGALLGACTIHENVVLAEQACSQLIELEPG 571

Query: 525 HSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPH 584
           + G Y+LLS+IYA AG+ +    +   MR+ G+KK PGCS IE+DG ++EFL  DN  P 
Sbjct: 572 NHGAYVLLSNIYAKAGKWDRVSGLRKLMRDVGLKKEPGCSSIEVDGIVHEFLVGDNSHPS 631

Query: 585 FKEVYDATENMMKRIKSAGYVPNTAD-ARLDAEEDDKEASVAHHSEKLAIAFGLIRASPG 643
            K++Y   + ++ R+++ GYVPN +   +L  EED KE ++  HSEKLAIAFGLI     
Sbjct: 632 AKKIYAKLDEIVARLETIGYVPNKSHLLQLVEEEDVKEQALFLHSEKLAIAFGLISTGQS 691

Query: 644 TTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKEGSCSCNDYW 695
             IRI KNLRVC DCH+  K++SK+++REI++RDR RFHHF+EG CSC DYW
Sbjct: 692 QPIRIVKNLRVCGDCHSVAKLVSKLYDREILLRDRYRFHHFREGHCSCMDYW 743

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	695
TAIR|locus:2205200	741	OTP82 "AT1G08070" [Arabidopsis	0.873	0.819	0.409	1.1e-137
TAIR|locus:2077878	685	AT3G08820 "AT3G08820" [Arabido	0.979	0.994	0.388	5.8e-137
TAIR|locus:2202074	809	CRR22 "CHLORORESPIRATORY REDUC	0.961	0.825	0.383	1e-130
TAIR|locus:2103483	890	OTP84 "ORGANELLE TRANSCRIPT PR	0.941	0.734	0.380	1.4e-128
TAIR|locus:4010713776	659	AT3G26782 [Arabidopsis thalian	0.892	0.940	0.388	2.7e-123
TAIR|locus:2124137	871	DOT4 "DEFECTIVELY ORGANIZED TR	0.942	0.752	0.358	2.8e-121
TAIR|locus:2154855	620	AT5G66520 "AT5G66520" [Arabido	0.844	0.946	0.393	5.8e-121
TAIR|locus:2118964	823	EMB2758 "embryo defective 2758	0.952	0.804	0.374	5.2e-120
TAIR|locus:2119440	1064	AT4G13650 [Arabidopsis thalian	0.942	0.615	0.361	4.7e-119
TAIR|locus:2082886	850	EMB2261 "embryo defective 2261	0.897	0.734	0.370	4.2e-118

TAIR|locus:2205200 OTP82 "AT1G08070" [Arabidopsis thaliana (taxid:3702)]

 Score = 1348 (479.6 bits), Expect = 1.1e-137, P = 1.1e-137
 Identities = 252/615 (40%), Positives = 403/615 (65%)

Query:    84 PDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQI 143
             P+S  +  ++++    ++ +E   ++  +L+   + D +     +    +   LE+  ++
Sbjct:   132 PNSYTFPFVLKSCAKSKAFKEGQQIHGHVLKLGCDLDLYVHTSLISMYVQNGRLEDAHKV 191

Query:   144 HAQILKSGFGCRQLVTNT-LIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTEC 202
                  KS    R +V+ T LI  YA+ G I+ A+K+FD +  +DV SWN+M SGY +T  
Sbjct:   192 FD---KSPH--RDVVSYTALIKGYASRGYIENAQKLFDEIPVKDVVSWNAMISGYAETGN 246

Query:   203 WREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTA 262
             ++E ++LF +M    V+ DE T++ V+ AC +   IELG  +  ++++     N+K++ A
Sbjct:   247 YKEALELFKDMMKTNVRPDESTMVTVVSACAQSGSIELGRQVHLWIDDHGFGSNLKIVNA 306

Query:   263 VVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPN 322
             ++D+Y+KCG ++ A  LFE++  KDV++W+ +I GY+     KEAL +F +M  +   PN
Sbjct:   307 LIDLYSKCGELETACGLFERLPYKDVISWNTLIGGYTHMNLYKEALLLFQEMLRSGETPN 366

Query:   323 EVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELT--ITLGTALMDFYAKCGLIENAVEV 380
             +VTM+S+L  CA LGA++ G+W+H+Y+ K+   +T   +L T+L+D YAKCG IE A +V
Sbjct:   367 DVTMLSILPACAHLGAIDIGRWIHVYIDKRLKGVTNASSLRTSLIDMYAKCGDIEAAHQV 426

Query:   381 FKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMV 440
             F  +  K++  W  +I   A +G+ + + + +  MR+  I+P+D+ F+ +LSACSH GM+
Sbjct:   427 FNSILHKSLSSWNAMIFGFAMHGRADASFDLFSRMRKIGIQPDDITFVGLLSACSHSGML 486

Query:   441 DEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLA 500
             D GR +F +M++D+ + P++EHYGCM+D+LG +GL +EA + I  M + P+ VIW +LL 
Sbjct:   487 DLGRHIFRTMTQDYKMTPKLEHYGCMIDLLGHSGLFKEAEEMINMMEMEPDGVIWCSLLK 546

Query:   501 ACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKT 560
             AC+ H NV++GE   +NL+ +EP + G Y+LLS+IYASAGR  +  +    + ++G+KK 
Sbjct:   547 ACKMHGNVELGESFAENLIKIEPENPGSYVLLSNIYASAGRWNEVAKTRALLNDKGMKKV 606

Query:   561 PGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDK 620
             PGCS IE+D  ++EF+  D   P  +E+Y   E M   ++ AG+VP+T++   + EE+ K
Sbjct:   607 PGCSSIEIDSVVHEFIIGDKFHPRNREIYGMLEEMEVLLEKAGFVPDTSEVLQEMEEEWK 666

Query:   621 EASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTR 680
             E ++ HHSEKLAIAFGLI   PGT + I KNLRVC +CH ATK+ISK++ REI+ RDRTR
Sbjct:   667 EGALRHHSEKLAIAFGLISTKPGTKLTIVKNLRVCRNCHEATKLISKIYKREIIARDRTR 726

Query:   681 FHHFKEGSCSCNDYW 695
             FHHF++G CSCNDYW
Sbjct:   727 FHHFRDGVCSCNDYW 741

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2077878 AT3G08820 "AT3G08820" [Arabidopsis thaliana (taxid:3702)]

 Score = 1341 (477.1 bits), Expect = 5.8e-137, P = 5.8e-137
 Identities = 266/685 (38%), Positives = 401/685 (58%)

Query:    11 TVTTITQFPENPKTLIVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATT 70
             TV + T   +  KTLI   C T   L Q+H  LI    H + T   NLL    +    T 
Sbjct:     5 TVPSATSKVQQIKTLISVAC-TVNHLKQIHVSLINHHLH-HDTFLVNLLLKRTLFFRQTK 62

Query:    71 MDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKA 130
               Y L  F     P+   YN +I  F       E + L+ ++ ++ +    FTF   LKA
Sbjct:    63 YSYLL--FSHTQFPNIFLYNSLINGFVNNHLFHETLDLFLSIRKHGLYLHGFTFPLVLKA 120

Query:   131 CSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSW 190
             C+R  + + G  +H+ ++K GF        +L+ +Y+  GR++ A K+FD + +R V +W
Sbjct:   121 CTRASSRKLGIDLHSLVVKCGFNHDVAAMTSLLSIYSGSGRLNDAHKLFDEIPDRSVVTW 180

Query:   191 NSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEE 250
              ++FSGY  +   RE +DLF +M ++GVK D   ++ VL AC  + D++ G WI +YMEE
Sbjct:   181 TALFSGYTTSGRHREAIDLFKKMVEMGVKPDSYFIVQVLSACVHVGDLDSGEWIVKYMEE 240

Query:   251 KELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGV 310
              E+  N  + T +V++YAKCG ++KAR +F+ M  KD+V WS MI GY+     KE + +
Sbjct:   241 MEMQKNSFVRTTLVNLYAKCGKMEKARSVFDSMVEKDIVTWSTMIQGYASNSFPKEGIEL 300

Query:   311 FHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAK 370
             F  M   N+ P++ ++V  LS CA LGAL+ G+W    + +      + +  AL+D YAK
Sbjct:   301 FLQMLQENLKPDQFSIVGFLSSCASLGALDLGEWGISLIDRHEFLTNLFMANALIDMYAK 360

Query:   371 CGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAV 430
             CG +    EVFK+M  K++      I  LA NG  + +   +    +  I P+   F+ +
Sbjct:   361 CGAMARGFEVFKEMKEKDIVIMNAAISGLAKNGHVKLSFAVFGQTEKLGISPDGSTFLGL 420

Query:   431 LSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPP 490
             L  C H G++ +G   F ++S  + L+  +EHYGCMVD+ GRAG++++AY+ I +MP+ P
Sbjct:   421 LCGCVHAGLIQDGLRFFNAISCVYALKRTVEHYGCMVDLWGRAGMLDDAYRLICDMPMRP 480

Query:   491 NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMN 550
             N ++W  LL+ CR  K+ ++ E  LK L+ LEP ++G+Y+ LS+IY+  GR ++A  V +
Sbjct:   481 NAIVWGALLSGCRLVKDTQLAETVLKELIALEPWNAGNYVQLSNIYSVGGRWDEAAEVRD 540

Query:   551 QMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTAD 610
              M ++G+KK PG S IEL+G+++EFLA+D   P   ++Y   E++   ++  G+VP T  
Sbjct:   541 MMNKKGMKKIPGYSWIELEGKVHEFLADDKSHPLSDKIYAKLEDLGNEMRLMGFVPTTEF 600

Query:   611 ARLDAEEDDKEASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFN 670
                D EE++KE  + +HSEKLA+A GLI    G  IR+ KNLRVC DCH   K+ISK+  
Sbjct:   601 VFFDVEEEEKERVLGYHSEKLAVALGLISTDHGQVIRVVKNLRVCGDCHEVMKLISKITR 660

Query:   671 REIVVRDRTRFHHFKEGSCSCNDYW 695
             REIVVRD  RFH F  GSCSCNDYW
Sbjct:   661 REIVVRDNNRFHCFTNGSCSCNDYW 685

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2202074 CRR22 "CHLORORESPIRATORY REDUCTION22" [Arabidopsis thaliana (taxid:3702)]

 Score = 1282 (456.3 bits), Expect = 1.0e-130, P = 1.0e-130
 Identities = 259/675 (38%), Positives = 399/675 (59%)

Query:    24 TLIVQQCKTTKDLN---QVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHK 80
             T +++ C    +L    ++H  L+KS F L+      L    A       ++ A  +F +
Sbjct:   139 TYLLKVCGDEAELRVGKEIHGLLVKSGFSLDLFAMTGLENMYA---KCRQVNEARKVFDR 195

Query:    81 INEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEG 140
             + E D  ++N ++  ++     + A+ + K+M + +++P   T    L A S +R +  G
Sbjct:   196 MPERDLVSWNTIVAGYSQNGMARMALEMVKSMCEENLKPSFITIVSVLPAVSALRLISVG 255

Query:   141 EQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKT 200
             ++IH   ++SGF     ++  L+ +YA CG ++ AR++FD M  R+V SWNSM   YV+ 
Sbjct:   256 KEIHGYAMRSGFDSLVNISTALVDMYAKCGSLETARQLFDGMLERNVVSWNSMIDAYVQN 315

Query:   201 ECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLM 260
             E  +E + +F +M D GVK  +V+++  L AC  L D+E G +I +   E  L+ NV ++
Sbjct:   316 ENPKEAMLIFQKMLDEGVKPTDVSVMGALHACADLGDLERGRFIHKLSVELGLDRNVSVV 375

Query:   261 TAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVV 320
              +++ MY KC  VD A  +F ++  + +V+W+AMI G++Q  R  +AL  F  M+   V 
Sbjct:   376 NSLISMYCKCKEVDTAASMFGKLQSRTLVSWNAMILGFAQNGRPIDALNYFSQMRSRTVK 435

Query:   321 PNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEV 380
             P+  T VSV++  A L      KW+H  V +  ++  + + TAL+D YAKCG I  A  +
Sbjct:   436 PDTFTYVSVITAIAELSITHHAKWIHGVVMRSCLDKNVFVTTALVDMYAKCGAIMIARLI 495

Query:   381 FKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMV 440
             F  M  ++V  W  +I    ++G G+ ALE +  M++  I+PN V F++V+SACSH G+V
Sbjct:   496 FDMMSERHVTTWNAMIDGYGTHGFGKAALELFEEMQKGTIKPNGVTFLSVISACSHSGLV 555

Query:   441 DEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLA 500
             + G + F  M  ++ +E  M+HYG MVD+LGRAG + EA+ FI  MP+ P   ++  +L 
Sbjct:   556 EAGLKCFYMMKENYSIELSMDHYGAMVDLLGRAGRLNEAWDFIMQMPVKPAVNVYGAMLG 615

Query:   501 ACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKT 560
             AC+ HKNV   E++ + L  L P   G ++LL++IY +A   E   +V   M  QG++KT
Sbjct:   616 ACQIHKNVNFAEKAAERLFELNPDDGGYHVLLANIYRAASMWEKVGQVRVSMLRQGLRKT 675

Query:   561 PGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDK 620
             PGCS++E+  E++ F +     P  K++Y   E ++  IK AGYVP+T +  L  E D K
Sbjct:   676 PGCSMVEIKNEVHSFFSGSTAHPDSKKIYAFLEKLICHIKEAGYVPDT-NLVLGVENDVK 734

Query:   621 EASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTR 680
             E  ++ HSEKLAI+FGL+  + GTTI + KNLRVC DCHNATK IS V  REIVVRD  R
Sbjct:   735 EQLLSTHSEKLAISFGLLNTTAGTTIHVRKNLRVCADCHNATKYISLVTGREIVVRDMQR 794

Query:   681 FHHFKEGSCSCNDYW 695
             FHHFK G+CSC DYW
Sbjct:   795 FHHFKNGACSCGDYW 809

GO:0005739 "mitochondrion" evidence=ISM

GO:0004519 "endonuclease activity" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0016556 "mRNA modification" evidence=RCA;IMP

TAIR|locus:2103483 OTP84 "ORGANELLE TRANSCRIPT PROCESSING 84" [Arabidopsis thaliana (taxid:3702)]

 Score = 1262 (449.3 bits), Expect = 1.4e-128, P = 1.4e-128
 Identities = 256/672 (38%), Positives = 399/672 (59%)

Query:    38 QVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMIRAFT 97
             QVHA+ ++ +  LN  I   L+     L    +    L  F      D   +N ++ +  
Sbjct:   223 QVHAYGLR-KGELNSFIINTLVAMYGKLGKLASSKVLLGSF---GGRDLVTWNTVLSSLC 278

Query:    98 LKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSG-FGCRQ 156
               +   EA+   + M+   VEPD FT +  L ACS +  L  G+++HA  LK+G      
Sbjct:   279 QNEQLLEALEYLREMVLEGVEPDEFTISSVLPACSHLEMLRTGKELHAYALKNGSLDENS 338

Query:   157 LVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRD- 215
              V + L+ +Y NC ++   R++FD M +R +  WN+M +GY + E  +E + LF  M + 
Sbjct:   339 FVGSALVDMYCNCKQVLSGRRVFDGMFDRKIGLWNAMIAGYSQNEHDKEALLLFIGMEES 398

Query:   216 LGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDK 275
              G+  +  T+  V+ AC R         I  ++ ++ L+ +  +   ++DMY++ G +D 
Sbjct:   399 AGLLANSTTMAGVVPACVRSGAFSRKEAIHGFVVKRGLDRDRFVQNTLMDMYSRLGKIDI 458

Query:   276 ARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQ-----------MANVVPNEV 324
             A R+F +M  +D+V W+ MI+GY  +   ++AL + H MQ             ++ PN +
Sbjct:   459 AMRIFGKMEDRDLVTWNTMITGYVFSEHHEDALLLLHKMQNLERKVSKGASRVSLKPNSI 518

Query:   325 TMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKM 384
             T++++L  CA L AL  GK +H Y  K  +   + +G+AL+D YAKCG ++ + +VF ++
Sbjct:   519 TLMTILPSCAALSALAKGKEIHAYAIKNNLATDVAVGSALVDMYAKCGCLQMSRKVFDQI 578

Query:   385 PLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGR 444
             P KNV  W V+I     +G G+ A++   +M  + ++PN+V FI+V +ACSH GMVDEG 
Sbjct:   579 PQKNVITWNVIIMAYGMHGNGQEAIDLLRMMMVQGVKPNEVTFISVFAACSHSGMVDEGL 638

Query:   445 ELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPV-IWRTLLAACR 503
              +F  M  D+ +EP  +HY C+VD+LGRAG ++EAYQ +  MP   N    W +LL A R
Sbjct:   639 RIFYVMKPDYGVEPSSDHYACVVDLLGRAGRIKEAYQLMNMMPRDFNKAGAWSSLLGASR 698

Query:   504 AHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGC 563
              H N+++GE + +NL+ LEP  +  Y+LL++IY+SAG  + A  V   M+EQG++K PGC
Sbjct:   699 IHNNLEIGEIAAQNLIQLEPNVASHYVLLANIYSSAGLWDKATEVRRNMKEQGVRKEPGC 758

Query:   564 SLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEAS 623
             S IE   E+++F+A D+  P  +++    E + +R++  GYVP+T+    + EED+KE  
Sbjct:   759 SWIEHGDEVHKFVAGDSSHPQSEKLSGYLETLWERMRKEGYVPDTSCVLHNVEEDEKEIL 818

Query:   624 VAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHH 683
             +  HSEKLAIAFG++  SPGT IR++KNLRVC DCH ATK ISK+ +REI++RD  RFH 
Sbjct:   819 LCGHSEKLAIAFGILNTSPGTIIRVAKNLRVCNDCHLATKFISKIVDREIILRDVRRFHR 878

Query:   684 FKEGSCSCNDYW 695
             FK G+CSC DYW
Sbjct:   879 FKNGTCSCGDYW 890

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:4010713776 AT3G26782 [Arabidopsis thaliana (taxid:3702)]

 Score = 1212 (431.7 bits), Expect = 2.7e-123, P = 2.7e-123
 Identities = 245/630 (38%), Positives = 384/630 (60%)

Query:    76 SIFHK-INEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRI 134
             ++F++ +++ D  ++N +I          EA++ + +M + S+ P R +F C +KACS +
Sbjct:    30 TLFNRYVDKTDVFSWNSVIADLARSGDSAEALLAFSSMRKLSLYPTRSSFPCAIKACSSL 89

Query:   135 RALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMF 194
               +  G+Q H Q    G+     V++ LI +Y+ CG+++ ARK+FD +  R++ SW SM 
Sbjct:    90 FDIFSGKQTHQQAFVFGYQSDIFVSSALIVMYSTCGKLEDARKVFDEIPKRNIVSWTSMI 149

Query:   195 SGYVKTECWREIVDLFNEMR------DLGVKFDEVTLINVLMACGRLADIELGGWISEYM 248
              GY       + V LF ++       D  +  D + L++V+ AC R+    L   I  ++
Sbjct:   150 RGYDLNGNALDAVSLFKDLLVDENDDDDAMFLDSMGLVSVISACSRVPAKGLTESIHSFV 209

Query:   249 EEKELNGNVKLMTAVVDMYAKCGH--VDKARRLFEQMNIKDVVAWSAMISGYSQARRCKE 306
              ++  +  V +   ++D YAK G   V  AR++F+Q+  KD V++++++S Y+Q+    E
Sbjct:   210 IKRGFDRGVSVGNTLLDAYAKGGEGGVAVARKIFDQIVDKDRVSYNSIMSVYAQSGMSNE 269

Query:   307 ALGVFHDMQMANVVP-NEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALM 365
             A  VF  +    VV  N +T+ +VL   +  GAL  GK +H  V +  +E  + +GT+++
Sbjct:   270 AFEVFRRLVKNKVVTFNAITLSTVLLAVSHSGALRIGKCIHDQVIRMGLEDDVIVGTSII 329

Query:   366 DFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDV 425
             D Y KCG +E A + F +M  KNV  WT +I     +G   +ALE +  M +  + PN +
Sbjct:   330 DMYCKCGRVETARKAFDRMKNKNVRSWTAMIAGYGMHGHAAKALELFPAMIDSGVRPNYI 389

Query:   426 AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKN 485
              F++VL+ACSH G+  EG   F +M   F +EP +EHYGCMVD+LGRAG +++AY  I+ 
Sbjct:   390 TFVSVLAACSHAGLHVEGWRWFNAMKGRFGVEPGLEHYGCMVDLLGRAGFLQKAYDLIQR 449

Query:   486 MPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDA 545
             M + P+ +IW +LLAACR HKNV++ E S+  L  L+  + G Y+LLS IYA AGR +D 
Sbjct:   450 MKMKPDSIIWSSLLAACRIHKNVELAEISVARLFELDSSNCGYYMLLSHIYADAGRWKDV 509

Query:   546 LRVMNQMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYV 605
              RV   M+ +G+ K PG SL+EL+GE++ FL  D   P  +++Y+    + +++  AGYV
Sbjct:   510 ERVRMIMKNRGLVKPPGFSLLELNGEVHVFLIGDEEHPQREKIYEFLAELNRKLLEAGYV 569

Query:   606 PNTADARLDAEEDDKEASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKII 665
              NT+    D +E++KE ++  HSEKLAIAFG++   PG+T+ + KNLRVC+DCHN  K+I
Sbjct:   570 SNTSSVCHDVDEEEKEMTLRVHSEKLAIAFGIMNTVPGSTVNVVKNLRVCSDCHNVIKLI 629

Query:   666 SKVFNREIVVRDRTRFHHFKEGSCSCNDYW 695
             SK+ +RE VVRD  RFHHFK+G CSC DYW
Sbjct:   630 SKIVDREFVVRDAKRFHHFKDGGCSCGDYW 659

GO:0005739 "mitochondrion" evidence=ISM;IDA

TAIR|locus:2124137 DOT4 "DEFECTIVELY ORGANIZED TRIBUTARIES 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 1193 (425.0 bits), Expect = 2.8e-121, P = 2.8e-121
 Identities = 236/659 (35%), Positives = 385/659 (58%)

Query:    38 QVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMIRAFT 97
             Q+H  ++KS F    ++  +L+   A  +    +D A  +F ++ E D  ++N +I  + 
Sbjct:   216 QLHGFILKSGFGERNSVGNSLV---AFYLKNQRVDSARKVFDEMTERDVISWNSIINGYV 272

Query:    98 LKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQL 157
                  ++ + ++  ML + +E D  T       C+  R +  G  +H+  +K+ F     
Sbjct:   273 SNGLAEKGLSVFVQMLVSGIEIDLATIVSVFAGCADSRLISLGRAVHSIGVKACFSREDR 332

Query:   158 VTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLG 217
               NTL+ +Y+ CG +D A+ +F  MS+R V S+ SM +GY +     E V LF EM + G
Sbjct:   333 FCNTLLDMYSKCGDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEMEEEG 392

Query:   218 VKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKAR 277
             +  D  T+  VL  C R   ++ G  + E+++E +L  ++ +  A++DMYAKCG + +A 
Sbjct:   393 ISPDVYTVTAVLNCCARYRLLDEGKRVHEWIKENDLGFDIFVSNALMDMYAKCGSMQEAE 452

Query:   278 RLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDM-QMANVVPNEVTMVSVLSCCAVL 336
              +F +M +KD+++W+ +I GYS+     EAL +F+ + +     P+E T+  VL  CA L
Sbjct:   453 LVFSEMRVKDIISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPACASL 512

Query:   337 GALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLI 396
              A + G+ +H Y+ +        +  +L+D YAKCG +  A  +F  +  K++  WTV+I
Sbjct:   513 SAFDKGREIHGYIMRNGYFSDRHVANSLVDMYAKCGALLLAHMLFDDIASKDLVSWTVMI 572

Query:   397 QCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDL 456
                  +G G+ A+  +  MR+  IE ++++F+++L ACSH G+VDEG   F  M  +  +
Sbjct:   573 AGYGMHGFGKEAIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGWRFFNIMRHECKI 632

Query:   457 EPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLK 516
             EP +EHY C+VD+L R G + +AY+FI+NMPIPP+  IW  LL  CR H +VK+ E+  +
Sbjct:   633 EPTVEHYACIVDMLARTGDLIKAYRFIENMPIPPDATIWGALLCGCRIHHDVKLAEKVAE 692

Query:   517 NLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELDGEIYEFL 576
              +  LEP ++G Y+L+++IYA A + E   R+  ++ ++G++K PGCS IE+ G +  F+
Sbjct:   693 KVFELEPENTGYYVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIEIKGRVNIFV 752

Query:   577 AEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEASVAHHSEKLAIAFG 636
             A D+  P  + +      +  R+   GY P T  A +DAEE +KE ++  HSEKLA+A G
Sbjct:   753 AGDSSNPETENIEAFLRKVRARMIEEGYSPLTKYALIDAEEMEKEEALCGHSEKLAMALG 812

Query:   637 LIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKEGSCSCNDYW 695
             +I +  G  IR++KNLRVC DCH   K +SK+  REIV+RD  RFH FK+G CSC  +W
Sbjct:   813 IISSGHGKIIRVTKNLRVCGDCHEMAKFMSKLTRREIVLRDSNRFHQFKDGHCSCRGFW 871

GO:0009507 "chloroplast" evidence=ISM

GO:0010087 "phloem or xylem histogenesis" evidence=IMP

GO:0010305 "leaf vascular tissue pattern formation" evidence=IMP

GO:0010588 "cotyledon vascular tissue pattern formation" evidence=IMP

GO:0048366 "leaf development" evidence=IMP

TAIR|locus:2154855 AT5G66520 "AT5G66520" [Arabidopsis thaliana (taxid:3702)]

 Score = 1190 (424.0 bits), Expect = 5.8e-121, P = 5.8e-121
 Identities = 236/599 (39%), Positives = 363/599 (60%)

Query:   103 QEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQ-LVTNT 161
             +E   ++  ML+  +  D +     L  C  I +       +AQI+  GF      + N 
Sbjct:    28 EELKQIHARMLKTGLMQDSYAITKFLSFC--ISSTSSDFLPYAQIVFDGFDRPDTFLWNL 85

Query:   162 LIHLYANCGRIDIARKMFDRM----SNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLG 217
             +I  ++     + +  ++ RM    +  + +++ S+         + E   +  ++  LG
Sbjct:    86 MIRGFSCSDEPERSLLLYQRMLCSSAPHNAYTFPSLLKACSNLSAFEETTQIHAQITKLG 145

Query:   218 VKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKAR 277
              + D   + +++ +     + +L   + + + E +   +V    +V+  Y K G +D A 
Sbjct:   146 YENDVYAVNSLINSYAVTGNFKLAHLLFDRIPEPD---DVS-WNSVIKGYVKAGKMDIAL 201

Query:   278 RLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLG 337
              LF +M  K+ ++W+ MISGY QA   KEAL +FH+MQ ++V P+ V++ + LS CA LG
Sbjct:   202 TLFRKMAEKNAISWTTMISGYVQADMNKEALQLFHEMQNSDVEPDNVSLANALSACAQLG 261

Query:   338 ALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQ 397
             ALE GKW+H Y+ K R+ +   LG  L+D YAKCG +E A+EVFK +  K+V  WT LI 
Sbjct:   262 ALEQGKWIHSYLNKTRIRMDSVLGCVLIDMYAKCGEMEEALEVFKNIKKKSVQAWTALIS 321

Query:   398 CLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLE 457
               A +G G  A+  +  M++  I+PN + F AVL+ACS+ G+V+EG+ +F SM RD++L+
Sbjct:   322 GYAYHGHGREAISKFMEMQKMGIKPNVITFTAVLTACSYTGLVEEGKLIFYSMERDYNLK 381

Query:   458 PRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKN 517
             P +EHYGC+VD+LGRAGL++EA +FI+ MP+ PN VIW  LL ACR HKN+++GEE  + 
Sbjct:   382 PTIEHYGCIVDLLGRAGLLDEAKRFIQEMPLKPNAVIWGALLKACRIHKNIELGEEIGEI 441

Query:   518 LVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELDGEIYEFLA 577
             L+ ++P H G Y+  ++I+A   + + A      M+EQG+ K PGCS I L+G  +EFLA
Sbjct:   442 LIAIDPYHGGRYVHKANIHAMDKKWDKAAETRRLMKEQGVAKVPGCSTISLEGTTHEFLA 501

Query:   578 EDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEASVAH-HSEKLAIAFG 636
              D   P  +++      M ++++  GYVP   +  LD  +DD+  ++ H HSEKLAI +G
Sbjct:   502 GDRSHPEIEKIQSKWRIMRRKLEENGYVPELEEMLLDLVDDDEREAIVHQHSEKLAITYG 561

Query:   637 LIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKEGSCSCNDYW 695
             LI+  PGT IRI KNLRVC DCH  TK+ISK++ R+IV+RDRTRFHHF++G CSC DYW
Sbjct:   562 LIKTKPGTIIRIMKNLRVCKDCHKVTKLISKIYKRDIVMRDRTRFHHFRDGKCSCGDYW 620

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0016556 "mRNA modification" evidence=RCA

TAIR|locus:2118964 EMB2758 "embryo defective 2758" [Arabidopsis thaliana (taxid:3702)]

 Score = 1181 (420.8 bits), Expect = 5.2e-120, P = 5.2e-120
 Identities = 252/673 (37%), Positives = 384/673 (57%)

Query:    26 IVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPD 85
             +++ C+T  D N++H   +K  F  +  ++ +L+    +      +  A  +F ++   D
Sbjct:   159 VLKACRTVIDGNKIHCLALKFGFMWDVYVAASLIH---LYSRYKAVGNARILFDEMPVRD 215

Query:    86 SSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEP-DRFTFACTLKACSRIRALEEGEQIH 144
               ++N MI  +    + +EA+ L      N +   D  T    L AC+       G  IH
Sbjct:   216 MGSWNAMISGYCQSGNAKEALTL-----SNGLRAMDSVTVVSLLSACTEAGDFNRGVTIH 270

Query:   145 AQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWR 204
             +  +K G      V+N LI LYA  GR+   +K+FDRM  RD+ SWNS+   Y   E   
Sbjct:   271 SYSIKHGLESELFVSNKLIDLYAEFGRLRDCQKVFDRMYVRDLISWNSIIKAYELNEQPL 330

Query:   205 EIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKE-LNGNVKLMTAV 263
               + LF EMR   ++ D +TLI++     +L DI     +  +   K     ++ +  AV
Sbjct:   331 RAISLFQEMRLSRIQPDCLTLISLASILSQLGDIRACRSVQGFTLRKGWFLEDITIGNAV 390

Query:   264 VDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQM-ANVVPN 322
             V MYAK G VD AR +F  +   DV++W+ +ISGY+Q     EA+ +++ M+    +  N
Sbjct:   391 VVMYAKLGLVDSARAVFNWLPNTDVISWNTIISGYAQNGFASEAIEMYNIMEEEGEIAAN 450

Query:   323 EVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFK 382
             + T VSVL  C+  GAL  G  +H  + K  + L + + T+L D Y KCG +E+A+ +F 
Sbjct:   451 QGTWVSVLPACSQAGALRQGMKLHGRLLKNGLYLDVFVVTSLADMYGKCGRLEDALSLFY 510

Query:   383 KMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDE 442
             ++P  N   W  LI C   +G GE+A+  +  M ++ ++P+ + F+ +LSACSH G+VDE
Sbjct:   511 QIPRVNSVPWNTLIACHGFHGHGEKAVMLFKEMLDEGVKPDHITFVTLLSACSHSGLVDE 570

Query:   443 GRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAAC 502
             G+  F  M  D+ + P ++HYGCMVD+ GRAG +E A +FIK+M + P+  IW  LL+AC
Sbjct:   571 GQWCFEMMQTDYGITPSLKHYGCMVDMYGRAGQLETALKFIKSMSLQPDASIWGALLSAC 630

Query:   503 RAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPG 562
             R H NV +G+ + ++L  +EP H G ++LLS++YASAG+ E    + +    +G++KTPG
Sbjct:   631 RVHGNVDLGKIASEHLFEVEPEHVGYHVLLSNMYASAGKWEGVDEIRSIAHGKGLRKTPG 690

Query:   563 CSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEA 622
              S +E+D ++  F   +   P ++E+Y     +  ++K  GYVP+      D E+D+KE 
Sbjct:   691 WSSMEVDNKVEVFYTGNQTHPMYEEMYRELTALQAKLKMIGYVPDHRFVLQDVEDDEKEH 750

Query:   623 SVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFH 682
              +  HSE+LAIAF LI     TTIRI KNLRVC DCH+ TK ISK+  REI+VRD  RFH
Sbjct:   751 ILMSHSERLAIAFALIATPAKTTIRIFKNLRVCGDCHSVTKFISKITEREIIVRDSNRFH 810

Query:   683 HFKEGSCSCNDYW 695
             HFK G CSC DYW
Sbjct:   811 HFKNGVCSCGDYW 823

GO:0005739 "mitochondrion" evidence=ISM

GO:0009793 "embryo development ending in seed dormancy" evidence=NAS

TAIR|locus:2119440 AT4G13650 [Arabidopsis thaliana (taxid:3702)]

 Score = 1172 (417.6 bits), Expect = 4.7e-119, P = 4.7e-119
 Identities = 238/658 (36%), Positives = 372/658 (56%)

Query:    38 QVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMIRAFT 97
             Q+HA+  K  F  N  I   LL   A       ++ AL  F +    +   +N+M+ A+ 
Sbjct:   410 QLHAYTTKLGFASNNKIEGALLNLYA---KCADIETALDYFLETEVENVVLWNVMLVAYG 466

Query:    98 LKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQL 157
             L    + +  +++ M    + P+++T+   LK C R+  LE GEQIH+QI+K+ F     
Sbjct:   467 LLDDLRNSFRIFRQMQIEEIVPNQYTYPSILKTCIRLGDLELGEQIHSQIIKTNFQLNAY 526

Query:   158 VTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLG 217
             V + LI +YA  G++D A  +  R + +DV SW +M +GY +     + +  F +M D G
Sbjct:   527 VCSVLIDMYAKLGKLDTAWDILIRFAGKDVVSWTTMIAGYTQYNFDDKALTTFRQMLDRG 586

Query:   218 VKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKAR 277
             ++ DEV L N + AC  L  ++ G  I         + ++    A+V +Y++CG ++++ 
Sbjct:   587 IRSDEVGLTNAVSACAGLQALKEGQQIHAQACVSGFSSDLPFQNALVTLYSRCGKIEESY 646

Query:   278 RLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLG 337
               FEQ    D +AW+A++SG+ Q+   +EAL VF  M    +  N  T  S +   +   
Sbjct:   647 LAFEQTEAGDNIAWNALVSGFQQSGNNEEALRVFVRMNREGIDNNNFTFGSAVKAASETA 706

Query:   338 ALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQ 397
              ++ GK VH  + K   +    +  AL+  YAKCG I +A + F ++  KN   W  +I 
Sbjct:   707 NMKQGKQVHAVITKTGYDSETEVCNALISMYAKCGSISDAEKQFLEVSTKNEVSWNAIIN 766

Query:   398 CLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLE 457
               + +G G  AL+++  M   N+ PN V  + VLSACSH+G+VD+G   F SM+ ++ L 
Sbjct:   767 AYSKHGFGSEALDSFDQMIHSNVRPNHVTLVGVLSACSHIGLVDKGIAYFESMNSEYGLS 826

Query:   458 PRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKN 517
             P+ EHY C+VD+L RAGL+  A +FI+ MPI P+ ++WRTLL+AC  HKN+++GE +  +
Sbjct:   827 PKPEHYVCVVDMLTRAGLLSRAKEFIQEMPIKPDALVWRTLLSACVVHKNMEIGEFAAHH 886

Query:   518 LVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELDGEIYEFLA 577
             L+ LEP  S  Y+LLS++YA + + +       +M+E+G+KK PG S IE+   I+ F  
Sbjct:   887 LLELEPEDSATYVLLSNLYAVSKKWDARDLTRQKMKEKGVKKEPGQSWIEVKNSIHSFYV 946

Query:   578 EDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEASVAHHSEKLAIAFGL 637
              D   P   E+++  +++ KR    GYV +      + + + K+  +  HSEKLAI+FGL
Sbjct:   947 GDQNHPLADEIHEYFQDLTKRASEIGYVQDCFSLLNELQHEQKDPIIFIHSEKLAISFGL 1006

Query:   638 IRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKEGSCSCNDYW 695
             +       I + KNLRVC DCH   K +SKV NREI+VRD  RFHHF+ G+CSC DYW
Sbjct:  1007 LSLPATVPINVMKNLRVCNDCHAWIKFVSKVSNREIIVRDAYRFHHFEGGACSCKDYW 1064

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2082886 EMB2261 "embryo defective 2261" [Arabidopsis thaliana (taxid:3702)]

 Score = 1163 (414.5 bits), Expect = 4.2e-118, P = 4.2e-118
 Identities = 235/635 (37%), Positives = 373/635 (58%)

Query:    70 TMDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLK 129
             + + A  +F K++E +   + +MI        P+EA+  +  M+ +  E D+FT +    
Sbjct:   218 SFENAYKVFDKMSELNVVTWTLMITRCMQMGFPREAIRFFLDMVLSGFESDKFTLSSVFS 277

Query:   130 ACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANC---GRIDIARKMFDRMSNRD 186
             AC+ +  L  G+Q+H+  ++SG      V  +L+ +YA C   G +D  RK+FDRM +  
Sbjct:   278 ACAELENLSLGKQLHSWAIRSGLV--DDVECSLVDMYAKCSADGSVDDCRKVFDRMEDHS 335

Query:   187 VFSWNSMFSGYVKT-ECWREIVDLFNEMRDLG-VKFDEVTLINVLMACGRLADIELGGWI 244
             V SW ++ +GY+K      E ++LF+EM   G V+ +  T  +   ACG L+D  +G  +
Sbjct:   336 VMSWTALITGYMKNCNLATEAINLFSEMITQGHVEPNHFTFSSAFKACGNLSDPRVGKQV 395

Query:   245 SEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRC 304
                  ++ L  N  +  +V+ M+ K   ++ A+R FE ++ K++V+++  + G  +    
Sbjct:   396 LGQAFKRGLASNSSVANSVISMFVKSDRMEDAQRAFESLSEKNLVSYNTFLDGTCRNLNF 455

Query:   305 KEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTAL 364
             ++A  +  ++    +  +  T  S+LS  A +G++  G+ +H  V K  +     +  AL
Sbjct:   456 EQAFKLLSEITERELGVSAFTFASLLSGVANVGSIRKGEQIHSQVVKLGLSCNQPVCNAL 515

Query:   365 MDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPND 424
             +  Y+KCG I+ A  VF  M  +NV  WT +I   A +G   R LET+  M E+ ++PN+
Sbjct:   516 ISMYSKCGSIDTASRVFNFMENRNVISWTSMITGFAKHGFAIRVLETFNQMIEEGVKPNE 575

Query:   425 VAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIK 484
             V ++A+LSACSHVG+V EG   F SM  D  ++P+MEHY CMVD+L RAGL+ +A++FI 
Sbjct:   576 VTYVAILSACSHVGLVSEGWRHFNSMYEDHKIKPKMEHYACMVDLLCRAGLLTDAFEFIN 635

Query:   485 NMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCED 544
              MP   + ++WRT L ACR H N ++G+ + + ++ L+P     YI LS+IYA AG+ E+
Sbjct:   636 TMPFQADVLVWRTFLGACRVHSNTELGKLAARKILELDPNEPAAYIQLSNIYACAGKWEE 695

Query:   545 ALRVMNQMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGY 604
             +  +  +M+E+ + K  GCS IE+  +I++F   D   P+  ++YD  + ++  IK  GY
Sbjct:   696 STEMRRKMKERNLVKEGGCSWIEVGDKIHKFYVGDTAHPNAHQIYDELDRLITEIKRCGY 755

Query:   605 VPNTADA--RLDAEEDD--KEASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHN 660
             VP+T     +L+ E D+  KE  +  HSEK+A+AFGLI  S    +R+ KNLRVC DCHN
Sbjct:   756 VPDTDLVLHKLEEENDEAEKERLLYQHSEKIAVAFGLISTSKSRPVRVFKNLRVCGDCHN 815

Query:   661 ATKIISKVFNREIVVRDRTRFHHFKEGSCSCNDYW 695
             A K IS V  REIV+RD  RFHHFK+G CSCNDYW
Sbjct:   816 AMKYISTVSGREIVLRDLNRFHHFKDGKCSCNDYW 850

GO:0009507 "chloroplast" evidence=ISM

GO:0009793 "embryo development ending in seed dormancy" evidence=IMP;NAS

---

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)
Q9LN01	PPR21_ARATH	No assigned EC number	0.3958	0.9942	0.9325	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: GSVIVG00015978001 SubName- Full=Chromosome chr17 scaffold_12, whole genome shotgun sequence; (698 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	695
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-169
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-157
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-83
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-62
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	6e-50
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-25
pfam14432	116	pfam14432, DYW_deaminase, DYW family of nucleic ac	1e-20
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-16
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-14
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-05
pfam01535	31	pfam01535, PPR, PPR repeat	1e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-04
pfam01535	31	pfam01535, PPR, PPR repeat	2e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	6e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	0.004

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  506 bits (1305), Expect = e-169
 Identities = 247/671 (36%), Positives = 383/671 (57%), Gaps = 9/671 (1%)

Query: 26  IVQQCKTTKDL---NQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKIN 82
           +++ C    DL    +VHAH+++  F L+  +   L+    + +    +  A  +F ++ 
Sbjct: 193 VLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALI---TMYVKCGDVVSARLVFDRMP 249

Query: 83  EPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQ 142
             D  ++N MI  +       E + L+ TM + SV+PD  T    + AC  +     G +
Sbjct: 250 RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGRE 309

Query: 143 IHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTEC 202
           +H  ++K+GF     V N+LI +Y + G    A K+F RM  +D  SW +M SGY K   
Sbjct: 310 MHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGL 369

Query: 203 WREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTA 262
             + ++ +  M    V  DE+T+ +VL AC  L D+++G  + E  E K L   V +  A
Sbjct: 370 PDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANA 429

Query: 263 VVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPN 322
           +++MY+KC  +DKA  +F  +  KDV++W+++I+G     RC EAL  F  M +  + PN
Sbjct: 430 LIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPN 488

Query: 323 EVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFK 382
            VT+++ LS CA +GAL  GK +H +V +  +     L  AL+D Y +CG +  A   F 
Sbjct: 489 SVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFN 548

Query: 383 KMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDE 442
               K+V  W +L+    ++G+G  A+E +  M E  + P++V FI++L ACS  GMV +
Sbjct: 549 SHE-KDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQ 607

Query: 443 GRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAAC 502
           G E F SM   + + P ++HY C+VD+LGRAG + EAY FI  MPI P+P +W  LL AC
Sbjct: 608 GLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNAC 667

Query: 503 RAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPG 562
           R H++V++GE + +++  L+P   G YILL ++YA AG+ ++  RV   MRE G+   PG
Sbjct: 668 RIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPG 727

Query: 563 CSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEA 622
           CS +E+ G+++ FL +D   P  KE+    E   +++K++G    +  + +D  E  K+ 
Sbjct: 728 CSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLA-GSESSSMDEIEVSKDD 786

Query: 623 SVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFH 682
               HSE+LAIAFGLI   PG  I ++KNL +C +CHN  K ISK+  REI VRD  +FH
Sbjct: 787 IFCGHSERLAIAFGLINTVPGMPIWVTKNLYMCENCHNTVKFISKIVRREISVRDTEQFH 846

Query: 683 HFKEGSCSCND 693
           HFK+G CSC D
Sbjct: 847 HFKDGECSCGD 857

Length = 857

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score =  470 bits (1210), Expect = e-157
 Identities = 204/573 (35%), Positives = 337/573 (58%)

Query: 123 TFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRM 182
           T+   ++AC  ++++   + ++  +  SGF   Q + N ++ ++  CG +  AR++FD M
Sbjct: 125 TYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEM 184

Query: 183 SNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGG 242
             R++ SW ++  G V    +RE   LF EM + G   +  T + +L A   L     G 
Sbjct: 185 PERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQ 244

Query: 243 WISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQAR 302
            +   + +  + G+  +  A++DMY+KCG ++ AR +F+ M  K  VAW++M++GY+   
Sbjct: 245 QLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHG 304

Query: 303 RCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGT 362
             +EAL ++++M+ + V  ++ T   ++   + L  LE  K  H  + +    L I   T
Sbjct: 305 YSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANT 364

Query: 363 ALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEP 422
           AL+D Y+K G +E+A  VF +MP KN+  W  LI    ++G+G +A+E +  M  + + P
Sbjct: 365 ALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAP 424

Query: 423 NDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQF 482
           N V F+AVLSAC + G+ ++G E+F SMS +  ++PR  HY CM+++LGR GL++EAY  
Sbjct: 425 NHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAM 484

Query: 483 IKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRC 542
           I+  P  P   +W  LL ACR HKN+++G  + + L  + P    +Y++L ++Y S+GR 
Sbjct: 485 IRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQ 544

Query: 543 EDALRVMNQMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSA 602
            +A +V+  ++ +G+   P C+ IE+  + + F + D + P  +E+Y   + +MK I   
Sbjct: 545 AEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEY 604

Query: 603 GYVPNTADARLDAEEDDKEASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNAT 662
           GYV    +   D +ED+++ S  +HSEKLAIAFGLI  S  T ++I+++ R+C DCH   
Sbjct: 605 GYVAEENELLPDVDEDEEKVSGRYHSEKLAIAFGLINTSEWTPLQITQSHRICKDCHKVI 664

Query: 663 KIISKVFNREIVVRDRTRFHHFKEGSCSCNDYW 695
           K I+ V  REIVVRD +RFHHFK G CSC DYW
Sbjct: 665 KFIALVTKREIVVRDASRFHHFKLGKCSCGDYW 697

Length = 697

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  280 bits (719), Expect = 2e-83
 Identities = 136/375 (36%), Positives = 208/375 (55%), Gaps = 5/375 (1%)

Query: 74  ALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSR 133
           A  +F K+ E D  ++N+++  +       EA+ LY  ML   V PD +TF C L+ C  
Sbjct: 140 AWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGG 199

Query: 134 IRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSM 193
           I  L  G ++HA +++ GF     V N LI +Y  CG +  AR +FDRM  RD  SWN+M
Sbjct: 200 IPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAM 259

Query: 194 FSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKEL 253
            SGY +     E ++LF  MR+L V  D +T+ +V+ AC  L D  LG  +  Y+ +   
Sbjct: 260 ISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGF 319

Query: 254 NGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHD 313
             +V +  +++ MY   G   +A ++F +M  KD V+W+AMISGY +     +AL  +  
Sbjct: 320 AVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYAL 379

Query: 314 MQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGL 373
           M+  NV P+E+T+ SVLS CA LG L+ G  +H   ++K +   + +  AL++ Y+KC  
Sbjct: 380 MEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKC 439

Query: 374 IENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREK--NIEPNDVAFIAVL 431
           I+ A+EVF  +P K+V  WT +I  L  N    R  E     R+    ++PN V  IA L
Sbjct: 440 IDKALEVFHNIPEKDVISWTSIIAGLRLN---NRCFEALIFFRQMLLTLKPNSVTLIAAL 496

Query: 432 SACSHVGMVDEGREL 446
           SAC+ +G +  G+E+
Sbjct: 497 SACARIGALMCGKEI 511

Length = 857

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  223 bits (571), Expect = 1e-62
 Identities = 121/427 (28%), Positives = 219/427 (51%), Gaps = 14/427 (3%)

Query: 83  EPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQ 142
              +   N  +RA       ++A+ L ++M +  V  D   +    + C   RA+EEG +
Sbjct: 48  SSSTHDSNSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSR 107

Query: 143 IHAQILKS--GFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKT 200
           + ++ L S    G R  + N ++ ++   G +  A  +F +M  RD+FSWN +  GY K 
Sbjct: 108 VCSRALSSHPSLGVR--LGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKA 165

Query: 201 ECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLM 260
             + E + L++ M   GV+ D  T   VL  CG + D+  G  +  ++       +V ++
Sbjct: 166 GYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVV 225

Query: 261 TAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVV 320
            A++ MY KCG V  AR +F++M  +D ++W+AMISGY +   C E L +F  M+  +V 
Sbjct: 226 NALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVD 285

Query: 321 PNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEV 380
           P+ +T+ SV+S C +LG    G+ +H YV K    + +++  +L+  Y   G    A +V
Sbjct: 286 PDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKV 345

Query: 381 FKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMV 440
           F +M  K+   WT +I     NG  ++ALETY +M + N+ P+++   +VLSAC+ +G +
Sbjct: 346 FSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDL 405

Query: 441 DEGRELFVSMSRDFDLEPRMEHY----GCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWR 496
           D G +L      +      +  Y      ++++  +   +++A +   N+P   + + W 
Sbjct: 406 DVGVKL-----HELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIP-EKDVISWT 459

Query: 497 TLLAACR 503
           +++A  R
Sbjct: 460 SIIAGLR 466

Length = 857

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score =  185 bits (471), Expect = 6e-50
 Identities = 92/325 (28%), Positives = 168/325 (51%), Gaps = 2/325 (0%)

Query: 74  ALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSR 133
           A  +F ++ E + +++  +I       + +EA  L++ M ++  + +  TF   L+A + 
Sbjct: 177 ARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAG 236

Query: 134 IRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSM 193
           + +   G+Q+H  +LK+G      V+  LI +Y+ CG I+ AR +FD M  +   +WNSM
Sbjct: 237 LGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSM 296

Query: 194 FSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKEL 253
            +GY       E + L+ EMRD GV  D+ T   ++    RLA +E        +     
Sbjct: 297 LAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGF 356

Query: 254 NGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHD 313
             ++   TA+VD+Y+K G ++ AR +F++M  K++++W+A+I+GY    R  +A+ +F  
Sbjct: 357 PLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFER 416

Query: 314 MQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKK-KRMELTITLGTALMDFYAKCG 372
           M    V PN VT ++VLS C   G  E G  +   + +  R++        +++   + G
Sbjct: 417 MIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREG 476

Query: 373 LIENAVEVFKKMPLK-NVFFWTVLI 396
           L++ A  + ++ P K  V  W  L+
Sbjct: 477 LLDEAYAMIRRAPFKPTVNMWAALL 501

Length = 697

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score =  112 bits (281), Expect = 1e-25
 Identities = 61/181 (33%), Positives = 100/181 (55%), Gaps = 2/181 (1%)

Query: 71  MDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKA 130
           ++ A  +F  + E  + A+N M+  + L    +EA+ LY  M  + V  D+FTF+  ++ 
Sbjct: 275 IEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRI 334

Query: 131 CSRIRALEEGEQIHAQILKSGFGCRQLVTNT-LIHLYANCGRIDIARKMFDRMSNRDVFS 189
            SR+  LE  +Q HA ++++GF    +V NT L+ LY+  GR++ AR +FDRM  +++ S
Sbjct: 335 FSRLALLEHAKQAHAGLIRTGFPL-DIVANTALVDLYSKWGRMEDARNVFDRMPRKNLIS 393

Query: 190 WNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYME 249
           WN++ +GY       + V++F  M   GV  + VT + VL AC      E G  I + M 
Sbjct: 394 WNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMS 453

Query: 250 E 250
           E
Sbjct: 454 E 454

Length = 697

>gnl|CDD|222749 pfam14432, DYW_deaminase, DYW family of nucleic acid deaminases

 Score = 87.5 bits (217), Expect = 1e-20
 Identities = 50/131 (38%), Positives = 65/131 (49%), Gaps = 21/131 (16%)

Query: 561 PGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADA--RLDAEED 618
           PGC   E      + L+ D   P  KE       + +RIK  G VP T +    +DAEE 
Sbjct: 1   PGCVWSE----GKKTLSGDGSHPTSKE------ELFQRIKVEGVVPETKEIGHDVDAEEF 50

Query: 619 D----KEASVAHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIV 674
                K   +A H+EK A+A+G       TT  I    R+C DCH   + I+K   REI+
Sbjct: 51  RDNGIKGKLLASHAEKQALAYG-----LLTTRIIKVLKRMCGDCHEFFRYIAKYTGREII 105

Query: 675 VRDRTRFHHFK 685
           VRD +RFHHFK
Sbjct: 106 VRDPSRFHHFK 116

A family of nucleic acid deaminases prototyped by the plant PPR DYW proteins that are implicated in chloroplast and mitochondrial RNA transcript maturation by numerous C to U editing events. The name derives from the DYW motif present at the C-terminus of the classical plant PPR DYW deaminases. Members of this family are present in bacteria, plants, Naegleria, and fungi. Plants and Naegleria show lineage-specific expansions of this family. The classical DYW family contain an additional C-terminal metal-binding cluster composed of 2 histidines and a CxC motif and are often fused to PPR repeats. Ascomycete versions, which are independent lateral transfers, contain a large insert within the domain and are often fused to ankyrin repeats. Bacterial versions are predicted to function as toxins in polymorphic toxin systems. Length = 116

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 82.6 bits (204), Expect = 4e-16
 Identities = 90/366 (24%), Positives = 149/366 (40%), Gaps = 40/366 (10%)

Query: 225 LINVLMACGRLADIELGGWIS----EYMEEKEL----NGNVKLMTAV---VDMYA---KC 270
            +++      + D EL G  S      +EE+      NG V         +D Y    + 
Sbjct: 324 SLSLDKKNNGVKDAELPGQSSGQAASDVEEENSLAAYNGGVSGKRKSPEYIDAYNRLLRD 383

Query: 271 GHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEV--TMVS 328
           G +     L E M  + ++     I      + CK+   V    + A ++ N    T   
Sbjct: 384 GRIKDCIDLLEDMEKRGLLDMDK-IYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNM 442

Query: 329 VLSCCA----VLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKM 384
           ++S CA    + GAL     V   V++  ++    L T L+   AK G ++   EVF +M
Sbjct: 443 LMSVCASSQDIDGALR----VLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEM 498

Query: 385 PLK----NVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMV 440
                  NV  +  LI   A  GQ  +A   Y IMR KN++P+ V F A++SAC   G V
Sbjct: 499 VNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAV 558

Query: 441 DEGRELFVSM-SRDFDLEPRMEHYGCMVDILGRAGLVE---EAYQFIKNMPIPPNPVIWR 496
           D   ++   M +    ++P     G ++     AG V+   E YQ I    I   P ++ 
Sbjct: 559 DRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYT 618

Query: 497 TLLAACRAHKNV----KVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQM 552
             + +C    +      + ++  K  V  + +    +  L D+   AG  + A  ++   
Sbjct: 619 IAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVF---FSALVDVAGHAGDLDKAFEILQDA 675

Query: 553 REQGIK 558
           R+QGIK
Sbjct: 676 RKQGIK 681

Length = 1060

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 75.3 bits (185), Expect = 6e-14
 Identities = 64/301 (21%), Positives = 134/301 (44%), Gaps = 17/301 (5%)

Query: 224 TLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQM 283
           TLI+    C +   ++    +   M    +  NV    A++D  A+ G V KA   +  M
Sbjct: 477 TLIS---TCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIM 533

Query: 284 NIKDV----VAWSAMISGYSQARRCKEALGVFHDMQMAN--VVPNEVTMVSVLSCCAVLG 337
             K+V    V ++A+IS   Q+     A  V  +M+     + P+ +T+ +++  CA  G
Sbjct: 534 RSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAG 593

Query: 338 ALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNV----FFWT 393
            ++  K V+  + +  ++ T  + T  ++  ++ G  + A+ ++  M  K V     F++
Sbjct: 594 QVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFS 653

Query: 394 VLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRD 453
            L+      G  ++A E     R++ I+   V++ +++ ACS+     +  EL+  + + 
Sbjct: 654 ALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDI-KS 712

Query: 454 FDLEPRMEHYGCMVDILGRAGLVEEAYQF---IKNMPIPPNPVIWRTLLAACRAHKNVKV 510
             L P +     ++  L     + +A +    +K + + PN + +  LL A     +  V
Sbjct: 713 IKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADV 772

Query: 511 G 511
           G
Sbjct: 773 G 773

Length = 1060

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 66.4 bits (162), Expect = 3e-11
 Identities = 80/417 (19%), Positives = 154/417 (36%), Gaps = 87/417 (20%)

Query: 99  KQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLV 158
           +++ +EA    K +      P   TF   +  C+  + ++   ++   + ++G      +
Sbjct: 419 QRAVKEAFRFAKLIR----NPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKL 474

Query: 159 TNTLIHLYANCGRIDIARKMFDRMSNR----DVFSWNSMFSGYVKTECWREIVDLFNEMR 214
             TLI   A  G++D   ++F  M N     +V ++ ++  G  +     +    +  MR
Sbjct: 475 YTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMR 534

Query: 215 DLGVKFDEV---TLINVLMACGR----------LAD------------IELGGWIS---- 245
              VK D V    LI+   ACG+          LA+            I +G  +     
Sbjct: 535 SKNVKPDRVVFNALIS---ACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACAN 591

Query: 246 -----------EYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDV----VA 290
                      + + E  + G  ++ T  V+  ++ G  D A  +++ M  K V    V 
Sbjct: 592 AGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVF 651

Query: 291 WSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVK 350
           +SA++     A    +A  +  D +   +    V+  S++  C+     +  K + LY  
Sbjct: 652 FSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWK--KALELYED 709

Query: 351 KKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALE 410
            K ++L  T+ T             NA                 LI  L    Q  +ALE
Sbjct: 710 IKSIKLRPTVSTM------------NA-----------------LITALCEGNQLPKALE 740

Query: 411 TYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMV 467
               M+   + PN + +  +L A       D G +L  S +++  ++P +    C+ 
Sbjct: 741 VLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLL-SQAKEDGIKPNLVMCRCIT 796

Length = 1060

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 53.2 bits (129), Expect = 2e-09
 Identities = 14/49 (28%), Positives = 27/49 (55%)

Query: 286 KDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCA 334
            DVV ++ +I GY +  + +EAL +F++M+   + PN  T   ++    
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 45.9 bits (110), Expect = 9e-07
 Identities = 18/47 (38%), Positives = 27/47 (57%), Gaps = 3/47 (6%)

Query: 186 DVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVT---LINVL 229
           DV ++N++  GY K     E + LFNEM+  G+K +  T   LI+ L
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 44.7 bits (107), Expect = 2e-06
 Identities = 12/50 (24%), Positives = 26/50 (52%)

Query: 84  PDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSR 133
           PD   YN +I  +  K   +EA+ L+  M +  ++P+ +T++  +    +
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 44.3 bits (106), Expect = 3e-06
 Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 5/47 (10%)

Query: 158 VT-NTLIHLYANCGRIDIARKMFDRMSNR----DVFSWNSMFSGYVK 199
           VT NTLI  Y   G+++ A K+F+ M  R    +V++++ +  G  K
Sbjct: 4   VTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 43.5 bits (104), Expect = 5e-06
 Identities = 11/50 (22%), Positives = 23/50 (46%)

Query: 387 KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSH 436
            +V  +  LI      G+ E AL+ +  M+++ I+PN   +  ++     
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 40.9 bits (97), Expect = 5e-05
 Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 4/49 (8%)

Query: 256 NVKLMTAVVDMYAKCGHVDKARRLFEQM---NIK-DVVAWSAMISGYSQ 300
           +V     ++D Y K G V++A +LF +M    IK +V  +S +I G  +
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 39.4 bits (93), Expect = 1e-04
 Identities = 13/31 (41%), Positives = 20/31 (64%)

Query: 188 FSWNSMFSGYVKTECWREIVDLFNEMRDLGV 218
            ++NS+ SGY K     E ++LF EM++ GV
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 39.4 bits (93), Expect = 1e-04
 Identities = 11/35 (31%), Positives = 21/35 (60%)

Query: 289 VAWSAMISGYSQARRCKEALGVFHDMQMANVVPNE 323
           V ++ +I G  +A R +EAL +F +M+   + P+ 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 38.6 bits (91), Expect = 2e-04
 Identities = 12/31 (38%), Positives = 22/31 (70%)

Query: 289 VAWSAMISGYSQARRCKEALGVFHDMQMANV 319
           V ++++ISGY +A + +EAL +F +M+   V
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 37.4 bits (88), Expect = 6e-04
 Identities = 10/35 (28%), Positives = 20/35 (57%)

Query: 188 FSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDE 222
            ++N++  G  K     E ++LF EM++ G++ D 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 40.2 bits (94), Expect = 0.004
 Identities = 61/284 (21%), Positives = 121/284 (42%), Gaps = 30/284 (10%)

Query: 72  DYALSIFHKIN----EPDSSAYNIMI----RAFTLKQSPQEAVMLYKTMLQNSVEPDRFT 123
           D    +FH++     E +   +  +I    RA    Q  + A   Y  M   +V+PDR  
Sbjct: 489 DAMFEVFHEMVNAGVEANVHTFGALIDGCARA---GQVAK-AFGAYGIMRSKNVKPDRVV 544

Query: 124 FACTLKACSRIRALEEGEQIHAQILKSGFGCR--QLVTNTLIHLYANCGRIDIARKMFDR 181
           F   + AC +  A++    + A++           +    L+   AN G++D A++++  
Sbjct: 545 FNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQM 604

Query: 182 MSNRDVFSWNSMFSGYV----KTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLAD 237
           +   ++     +++  V    +   W   + ++++M+  GVK DEV    ++   G   D
Sbjct: 605 IHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGD 664

Query: 238 IELGGWISEYMEEKELNGNVKLMTAVVD--MYAKC--GHVDKARRLFEQM-NIK---DVV 289
           ++      E +++    G +KL T      M A     +  KA  L+E + +IK    V 
Sbjct: 665 LDKA---FEILQDARKQG-IKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVS 720

Query: 290 AWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCC 333
             +A+I+   +  +  +AL V  +M+   + PN +T   +L   
Sbjct: 721 TMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVAS 764

Length = 1060

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	695
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PF14432	116	DYW_deaminase: DYW family of nucleic acid deaminas	99.97
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.93
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.92
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.9
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.89
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.88
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.86
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.85
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.83
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.83
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.81
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.81
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.8
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.78
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.78
PRK14574	822	hmsH outer membrane protein; Provisional	99.77
PRK14574	822	hmsH outer membrane protein; Provisional	99.76
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.74
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.72
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.67
KOG2003	840	consensus TPR repeat-containing protein [General f	99.66
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.65
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.6
KOG2076	895	consensus RNA polymerase III transcription factor	99.58
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.57
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.53
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.52
KOG1126	638	consensus DNA-binding cell division cycle control	99.51
KOG2003	840	consensus TPR repeat-containing protein [General f	99.5
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.48
KOG2076	895	consensus RNA polymerase III transcription factor	99.48
KOG1126	638	consensus DNA-binding cell division cycle control	99.45
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.45
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.44
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.44
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.41
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.39
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.39
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.37
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.36
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.35
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.35
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.32
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.3
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.3
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.27
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.26
PF13041	50	PPR_2: PPR repeat family	99.24
PF13041	50	PPR_2: PPR repeat family	99.23
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.2
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.19
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.19
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.19
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.19
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.17
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.13
PRK12370	553	invasion protein regulator; Provisional	99.13
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.11
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.09
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.08
PRK11189	296	lipoprotein NlpI; Provisional	99.08
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.03
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.03
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.99
PRK12370	553	invasion protein regulator; Provisional	98.99
KOG1129	478	consensus TPR repeat-containing protein [General f	98.98
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.98
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.97
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.92
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.91
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.91
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.9
PRK11189	296	lipoprotein NlpI; Provisional	98.89
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.89
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.88
KOG1129	478	consensus TPR repeat-containing protein [General f	98.88
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.84
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.83
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.79
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.79
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.77
PRK04841	903	transcriptional regulator MalT; Provisional	98.75
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.73
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.7
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.69
KOG1125	579	consensus TPR repeat-containing protein [General f	98.69
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.69
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.67
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.64
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.61
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.6
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.59
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.57
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.56
PRK04841	903	transcriptional regulator MalT; Provisional	98.55
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.52
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.52
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.49
PF12854	34	PPR_1: PPR repeat	98.48
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.48
PF12854	34	PPR_1: PPR repeat	98.46
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.45
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.45
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.43
PRK15359	144	type III secretion system chaperone protein SscB;	98.42
PLN02789	320	farnesyltranstransferase	98.41
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.37
PRK15359	144	type III secretion system chaperone protein SscB;	98.36
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.33
KOG1125	579	consensus TPR repeat-containing protein [General f	98.33
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.28
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.25
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.23
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.23
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.22
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.21
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.15
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.14
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.11
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.1
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.07
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.06
PLN02789	320	farnesyltranstransferase	98.06
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.05
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.05
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.04
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.98
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.98
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.98
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.95
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.95
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.93
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.88
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.82
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.8
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.77
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.74
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.73
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.7
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.7
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.69
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.67
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.65
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.63
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.59
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.55
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.55
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.54
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.52
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.49
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.49
KOG0553	304	consensus TPR repeat-containing protein [General f	97.48
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.43
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.41
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.41
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.34
PRK15331	165	chaperone protein SicA; Provisional	97.33
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.32
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.3
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.27
PF13371	73	TPR_9: Tetratricopeptide repeat	97.25
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.24
KOG0553	304	consensus TPR repeat-containing protein [General f	97.21
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.2
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.2
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.16
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.12
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.05
PF13431	34	TPR_17: Tetratricopeptide repeat	97.03
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.02
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.01
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.96
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	96.96
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.93
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.91
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.9
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.87
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.87
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.84
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.83
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.81
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.79
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	96.78
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.77
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	96.76
PF12688	120	TPR_5: Tetratrico peptide repeat	96.75
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.73
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.72
PRK10803	263	tol-pal system protein YbgF; Provisional	96.72
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.72
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.71
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.68
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.68
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.67
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.66
PF12688	120	TPR_5: Tetratrico peptide repeat	96.64
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.55
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.54
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.51
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	96.48
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.48
PF13428	44	TPR_14: Tetratricopeptide repeat	96.43
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.31
PF13371	73	TPR_9: Tetratricopeptide repeat	96.27
KOG1258	577	consensus mRNA processing protein [RNA processing	96.21
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.2
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.18
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.12
PRK10803	263	tol-pal system protein YbgF; Provisional	96.05
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.05
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	96.03
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	95.84
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	95.83
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.71
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.58
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.55
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	95.4
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	95.36
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.3
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.27
KOG4555	175	consensus TPR repeat-containing protein [Function	95.2
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.19
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.13
PF13512	142	TPR_18: Tetratricopeptide repeat	95.11
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	94.87
KOG3941	406	consensus Intermediate in Toll signal transduction	94.81
PRK11906	458	transcriptional regulator; Provisional	94.79
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	94.77
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.66
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	94.62
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	94.6
KOG3941	406	consensus Intermediate in Toll signal transduction	94.56
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	94.5
KOG1585	308	consensus Protein required for fusion of vesicles	94.47
PRK11906	458	transcriptional regulator; Provisional	94.35
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.28
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.16
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.12
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.05
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	93.97
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	93.86
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	93.8
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.76
KOG1941	518	consensus Acetylcholine receptor-associated protei	93.67
COG3118	304	Thioredoxin domain-containing protein [Posttransla	93.62
PF03704	146	BTAD: Bacterial transcriptional activator domain;	93.48
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.31
smart00299	140	CLH Clathrin heavy chain repeat homology.	93.08
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	93.06
COG3118	304	Thioredoxin domain-containing protein [Posttransla	92.84
PF13512	142	TPR_18: Tetratricopeptide repeat	92.84
KOG2610	491	consensus Uncharacterized conserved protein [Funct	92.82
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	92.66
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	92.52
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	92.36
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	92.34
KOG2610	491	consensus Uncharacterized conserved protein [Funct	92.21
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	92.04
PRK09687	280	putative lyase; Provisional	91.9
COG4105	254	ComL DNA uptake lipoprotein [General function pred	91.84
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	91.83
COG4105	254	ComL DNA uptake lipoprotein [General function pred	91.64
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	91.4
PRK09687	280	putative lyase; Provisional	91.25
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	91.12
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	90.73
PRK15331	165	chaperone protein SicA; Provisional	90.57
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	90.31
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	90.03
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	89.96
KOG4234	271	consensus TPR repeat-containing protein [General f	89.91
COG3629	280	DnrI DNA-binding transcriptional activator of the	89.46
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	89.39
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	89.33
KOG4555	175	consensus TPR repeat-containing protein [Function	89.28
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	88.82
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	88.8
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	88.75
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	88.08
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	88.03
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	87.91
COG3629	280	DnrI DNA-binding transcriptional activator of the	87.68
PF13428	44	TPR_14: Tetratricopeptide repeat	87.64
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	87.52
KOG1585	308	consensus Protein required for fusion of vesicles	87.24
KOG4570	418	consensus Uncharacterized conserved protein [Funct	87.1
COG3947	361	Response regulator containing CheY-like receiver a	86.86
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	86.85
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	86.72
KOG1258	577	consensus mRNA processing protein [RNA processing	86.39
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	85.77
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	84.15
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	83.99
PRK11619	644	lytic murein transglycosylase; Provisional	83.76
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	83.75
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	83.75
KOG1941	518	consensus Acetylcholine receptor-associated protei	83.6
KOG4648	536	consensus Uncharacterized conserved protein, conta	83.46
KOG3364	149	consensus Membrane protein involved in organellar	83.06
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	82.5
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	82.3
KOG1586	288	consensus Protein required for fusion of vesicles	82.24
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	82.17
PRK13800	897	putative oxidoreductase/HEAT repeat-containing pro	82.15
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	82.06
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	81.83
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	81.24
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	81.18
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	80.87
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	80.28
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	80.07

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=6.5e-131  Score=1133.54  Aligned_cols=673  Identities=37%  Similarity=0.678  Sum_probs=662.7

Q ss_pred             ccCCCCChHHHHHHhccCCChH---HHHHHHHHHhcCCCCchhHHHHHHHHHccCCCCCHHHHHHHhccCCCCCcchHHH
Q 005476           15 ITQFPENPKTLIVQQCKTTKDL---NQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNI   91 (695)
Q Consensus        15 ~~~~~~~~~~~~l~~~~~~~~~---~~~~~~~~~~g~~~~~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~~~~~~~~~   91 (695)
                      .-.|+.+||++++++|+..+++   +++|+.+.+.|+.+|+.++|+|+.+|+++   |++++|.++|++|++||.++||+
T Consensus       182 g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~---g~~~~A~~lf~~m~~~d~~s~n~  258 (857)
T PLN03077        182 GVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKC---GDVVSARLVFDRMPRRDCISWNA  258 (857)
T ss_pred             CCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcC---CCHHHHHHHHhcCCCCCcchhHH
Confidence            4578999999999999988877   89999999999999999999999999999   99999999999999999999999


Q ss_pred             HHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCC
Q 005476           92 MIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGR  171 (695)
Q Consensus        92 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~  171 (695)
                      ||.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++|..+.+.|+.||..+||+||.+|+++|+
T Consensus       259 li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~  338 (857)
T PLN03077        259 MISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGS  338 (857)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHhccCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHh
Q 005476          172 IDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEK  251 (695)
Q Consensus       172 ~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~  251 (695)
                      +++|.++|++|..||.++||+||.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++|+.+.+.
T Consensus       339 ~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~  418 (857)
T PLN03077        339 WGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERK  418 (857)
T ss_pred             HHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHH
Q 005476          252 ELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLS  331 (695)
Q Consensus       252 g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~  331 (695)
                      |+.|+..++++|+++|+++|++++|.++|++|.++|+++||+||.+|+++|+.++|+.+|++|.. +++||..||+++|.
T Consensus       419 g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~  497 (857)
T PLN03077        419 GLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALS  497 (857)
T ss_pred             CCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999986 69999999999999


Q ss_pred             HHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHH
Q 005476          332 CCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALET  411 (695)
Q Consensus       332 a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l  411 (695)
                      +|++.|+++.+.++|..+.+.|+.++..++|+||++|+|+|++++|.++|+.+ .+|+++||+||.+|+++|+.++|+++
T Consensus       498 a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~l  576 (857)
T PLN03077        498 ACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVEL  576 (857)
T ss_pred             HHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-CCChhhHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999 89999999999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCC
Q 005476          412 YYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPN  491 (695)
Q Consensus       412 ~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~  491 (695)
                      |++|.+.|+.||.+||+.+|.+|++.|++++|.++|+.|.+++|+.|+..+|++|+++|+++|++++|.+++++|+++||
T Consensus       577 f~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd  656 (857)
T PLN03077        577 FNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPD  656 (857)
T ss_pred             HHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCC
Confidence            99999999999999999999999999999999999999987789999999999999999999999999999999999999


Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCCCccCCceeEEEECCE
Q 005476          492 PVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELDGE  571 (695)
Q Consensus       492 ~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~  571 (695)
                      ..+|++|+.+|+.+|+.+.|+.+.+++++++|+++..|+.|+++|+..|+|++|.++++.|+++|++|+||+|||++++.
T Consensus       657 ~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~~~~  736 (857)
T PLN03077        657 PAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGK  736 (857)
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEEECCE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeecCCCCCcchHHHHHHHHHHHHHHHHcCcccCCCcccccCChhhhhhhhhhchHHHHHHHhhhcCCCCCcEEEEcc
Q 005476          572 IYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEASVAHHSEKLAIAFGLIRASPGTTIRISKN  651 (695)
Q Consensus       572 ~~~f~~~~~~~~~~~~~~~~~~~l~~~m~~~g~~pd~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~~~~~~~~~  651 (695)
                      +|.|.+||.+||+.++||..+++|..+|++.||+||+..++ +.++++|+..+++||||||+|||||++|||.||||+||
T Consensus       737 ~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~g~~~~~~~~~-~~~~~~k~~~~~~hse~la~a~~l~~~~~~~~i~i~kn  815 (857)
T PLN03077        737 VHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESSSM-DEIEVSKDDIFCGHSERLAIAFGLINTVPGMPIWVTKN  815 (857)
T ss_pred             EEEEecCCCCCcchHHHHHHHHHHHHHHHhCCcCCCcchhc-cccHHHHHHHHHhccHHHHHHHhhhcCCCCCeEEEeCC
Confidence            99999999999999999999999999999999999999887 55778899999999999999999999999999999999


Q ss_pred             ccccCCccchhhhhhcccCceEEEecCCcccccCcccccCCC
Q 005476          652 LRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKEGSCSCND  693 (695)
Q Consensus       652 l~~~~~~~~~~~~~s~~~~~~~~~~~~~~~h~~~~g~cs~~~  693 (695)
                      ||+|+|||+++|+||++++|+|||||.+|||||++|+|||+|
T Consensus       816 lr~c~dch~~~k~~s~~~~r~i~~rd~~rfh~f~~g~csc~d  857 (857)
T PLN03077        816 LYMCENCHNTVKFISKIVRREISVRDTEQFHHFKDGECSCGD  857 (857)
T ss_pred             CEeCccHHHHHHHHHHHhCeEEEEecCCcceeCCCCcccCCC
Confidence            999999999999999999999999999999999999999998

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=100.00  E-value=2.5e-123  Score=1045.75  Aligned_cols=613  Identities=34%  Similarity=0.636  Sum_probs=605.7

Q ss_pred             CCCcchHHHHHHHHHcCCCchHHHHHHHHHHhCC-CCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHH
Q 005476           83 EPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNS-VEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNT  161 (695)
Q Consensus        83 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~  161 (695)
                      .++..+|+.+|.+|.+.|++++|+++|+.|...+ +.||..+|+.++.+|++.++++.|.++|..|.+.|+.||..++|.
T Consensus        84 ~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~  163 (697)
T PLN03081         84 RKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNR  163 (697)
T ss_pred             CCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHH
Confidence            4577899999999999999999999999999864 789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCChhHHHHHHhccCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHH
Q 005476          162 LIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELG  241 (695)
Q Consensus       162 Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a  241 (695)
                      |+++|+++|++++|.++|++|++||.++||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|+..|+.+.+
T Consensus       164 Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~  243 (697)
T PLN03081        164 VLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAG  243 (697)
T ss_pred             HHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCC
Q 005476          242 GWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVP  321 (695)
Q Consensus       242 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  321 (695)
                      .++|..+.+.|+.+|..++++|+++|+++|++++|.++|++|.++|+++||+||.+|++.|+.++|+++|++|.+.|+.|
T Consensus       244 ~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~p  323 (697)
T PLN03081        244 QQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSI  323 (697)
T ss_pred             HHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHh
Q 005476          322 NEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLAS  401 (695)
Q Consensus       322 d~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~  401 (695)
                      |..||++++.+|++.|.++.|.++|..|.+.|+.+|..++++||++|+++|++++|.++|++|.++|+++||+||.+|++
T Consensus       324 d~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~  403 (697)
T PLN03081        324 DQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGN  403 (697)
T ss_pred             CHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHH
Q 005476          402 NGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQ  481 (695)
Q Consensus       402 ~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  481 (695)
                      +|+.++|+++|++|.+.|+.||.+||+.+|.+|++.|++++|.++|+.|.+++|+.|+..+|++|+++|++.|++++|.+
T Consensus       404 ~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~  483 (697)
T PLN03081        404 HGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYA  483 (697)
T ss_pred             cCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999999888999999999999999999999999999


Q ss_pred             HHHhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCCCccCC
Q 005476          482 FIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTP  561 (695)
Q Consensus       482 ~~~~m~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~  561 (695)
                      ++++|+..|+..+|++|+.+|+.+|+++.|+.+++++++++|++..+|+.|+++|++.|+|++|.+++++|+++|+++.|
T Consensus       484 ~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~  563 (697)
T PLN03081        484 MIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHP  563 (697)
T ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ceeEEEECCEEEEeecCCCCCcchHHHHHHHHHHHHHHHHcCcccCCCcccccCChhhhhhhhhhchHHHHHHHhhhcCC
Q 005476          562 GCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEASVAHHSEKLAIAFGLIRAS  641 (695)
Q Consensus       562 ~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~l~~~m~~~g~~pd~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~  641 (695)
                      |+||+++++.+|.|.+||..||+.++++..+.+|..+|++.||+||+..++|++++++|+..+++||||||+|||||++|
T Consensus       564 g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~~~~~~~~~~~~~~~~~~~~hsekla~a~~l~~~~  643 (697)
T PLN03081        564 ACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEENELLPDVDEDEEKVSGRYHSEKLAIAFGLINTS  643 (697)
T ss_pred             CeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCCCCCcchhhccccHHHHHHHHHhccHHHHHHhhCccCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcEEEEccccccCCccchhhhhhcccCceEEEecCCcccccCcccccCCCCC
Q 005476          642 PGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHHFKEGSCSCNDYW  695 (695)
Q Consensus       642 ~~~~~~~~~~l~~~~~~~~~~~~~s~~~~~~~~~~~~~~~h~~~~g~cs~~~~~  695 (695)
                      ||.||||+||||+|+|||+++|+||+++||+|||||.+|||||++|+|||+|||
T Consensus       644 ~~~~i~i~knlr~c~dch~~~k~~s~~~~r~i~~rd~~rfh~f~~g~csc~d~w  697 (697)
T PLN03081        644 EWTPLQITQSHRICKDCHKVIKFIALVTKREIVVRDASRFHHFKLGKCSCGDYW  697 (697)
T ss_pred             CCCeEEEecCCEECCCchhhHHHHhhhcceEEEEecCCccccCCCCcccccccC
Confidence            999999999999999999999999999999999999999999999999999999

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=9.3e-84  Score=742.16  Aligned_cols=650  Identities=27%  Similarity=0.430  Sum_probs=573.3

Q ss_pred             CCCCChHHHHHHhccCCChH---HHHHHHHHHhcCCCCchhHHHHHHHHHccCCCCCHHHHHHHhccCCCCCcchHHHHH
Q 005476           17 QFPENPKTLIVQQCKTTKDL---NQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMI   93 (695)
Q Consensus        17 ~~~~~~~~~~l~~~~~~~~~---~~~~~~~~~~g~~~~~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li   93 (695)
                      +|+..+|..++++|...+.+   .++|..+.+.|..+++.++|+|+++|+++   |+++.|+++|++|++||+++||+||
T Consensus        83 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n~li~~~~~~---g~~~~A~~~f~~m~~~d~~~~n~li  159 (857)
T PLN03077         83 PVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRF---GELVHAWYVFGKMPERDLFSWNVLV  159 (857)
T ss_pred             CCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHhC---CChHHHHHHHhcCCCCCeeEHHHHH
Confidence            57788999999999887766   89999999999999999999999999999   9999999999999999999999999


Q ss_pred             HHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChh
Q 005476           94 RAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRID  173 (695)
Q Consensus        94 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~  173 (695)
                      .+|++.|++++|+++|++|...|+.||.+||++++++|+..++++.+.++|..+.+.|+.||..++|+||.+|+++|+++
T Consensus       160 ~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~  239 (857)
T PLN03077        160 GGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVV  239 (857)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhccCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhCC
Q 005476          174 IARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKEL  253 (695)
Q Consensus       174 ~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~  253 (695)
                      +|.++|++|+++|.++||+||.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++|..+.+.|+
T Consensus       240 ~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~  319 (857)
T PLN03077        240 SARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGF  319 (857)
T ss_pred             HHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHH
Q 005476          254 NGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCC  333 (695)
Q Consensus       254 ~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~  333 (695)
                      .||..+||+|+.+|+++|++++|.++|++|..+|.++||+||.+|++.|++++|+++|++|.+.|+.||..||++++.+|
T Consensus       320 ~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~  399 (857)
T PLN03077        320 AVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSAC  399 (857)
T ss_pred             ccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHH
Q 005476          334 AVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYY  413 (695)
Q Consensus       334 ~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~  413 (695)
                      ++.|+++.|.++|+.+.+.|+.++..++|+||++|+++|++++|.++|++|.++|+++||+||.+|+++|+.++|+++|+
T Consensus       400 ~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~  479 (857)
T PLN03077        400 ACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFR  479 (857)
T ss_pred             hccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHh
Q 005476          414 IMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPV  493 (695)
Q Consensus       414 ~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~  493 (695)
                      +|.. +++||.+||+.+|.+|++.|.++.+.+++..+.+. |+.++..++++|+++|+++|++++|.++|+++  .||..
T Consensus       480 ~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~-g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~--~~d~~  555 (857)
T PLN03077        480 QMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRT-GIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH--EKDVV  555 (857)
T ss_pred             HHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHh-CCCccceechHHHHHHHHcCCHHHHHHHHHhc--CCChh
Confidence            9986 59999999999999999999999999999999875 99999999999999999999999999999998  79999


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhcC-CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH-hCCCccCCceeEEEECCE
Q 005476          494 IWRTLLAACRAHKNVKVGEESLKNLVTLE-PMHSGDYILLSDIYASAGRCEDALRVMNQMR-EQGIKKTPGCSLIELDGE  571 (695)
Q Consensus       494 ~~~~ll~a~~~~g~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~-~~~~~~~~~~s~~~~~~~  571 (695)
                      +|++++.+|.++|+.++|.++|++|.+.+ .+|..+|..++.+|.+.|++++|.++|+.|. +.|+.|+......     
T Consensus       556 s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~-----  630 (857)
T PLN03077        556 SWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYAC-----  630 (857)
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHH-----
Confidence            99999999999999999999999999865 3467899999999999999999999999999 5788875422111     


Q ss_pred             EEEeecCCCCCcchHHHHHHHHHHHHHHHHcCcccCCCcccccCChhhhhhhhhhchHHHH-HHHhhhcCCCCCcEEEEc
Q 005476          572 IYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDKEASVAHHSEKLA-IAFGLIRASPGTTIRISK  650 (695)
Q Consensus       572 ~~~f~~~~~~~~~~~~~~~~~~~l~~~m~~~g~~pd~~~~~~~~~~~~~~~~~~~~~~~la-~~~~~~~~~~~~~~~~~~  650 (695)
                         ++......+..+++.    ++++   +.++.||...|..-+..+...+-+ .-.|+.+ ..+.+.+..++.-+.+.+
T Consensus       631 ---lv~~l~r~G~~~eA~----~~~~---~m~~~pd~~~~~aLl~ac~~~~~~-e~~e~~a~~l~~l~p~~~~~y~ll~n  699 (857)
T PLN03077        631 ---VVDLLGRAGKLTEAY----NFIN---KMPITPDPAVWGALLNACRIHRHV-ELGELAAQHIFELDPNSVGYYILLCN  699 (857)
T ss_pred             ---HHHHHHhCCCHHHHH----HHHH---HCCCCCCHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhhCCCCcchHHHHHH
Confidence               111122223344444    3444   446889987664433333211100 0011211 223444443443333333


Q ss_pred             cccccCCccchhhhhhcc--------cCceEEEecCCcccccCccccc
Q 005476          651 NLRVCTDCHNATKIISKV--------FNREIVVRDRTRFHHFKEGSCS  690 (695)
Q Consensus       651 ~l~~~~~~~~~~~~~s~~--------~~~~~~~~~~~~~h~~~~g~cs  690 (695)
                      -+...|+..++.+....|        +|... |--.+..|-|..|--+
T Consensus       700 ~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~-ie~~~~~~~f~~~d~~  746 (857)
T PLN03077        700 LYADAGKWDEVARVRKTMRENGLTVDPGCSW-VEVKGKVHAFLTDDES  746 (857)
T ss_pred             HHHHCCChHHHHHHHHHHHHcCCCCCCCccE-EEECCEEEEEecCCCC
Confidence            345678888888777544        44442 2234678888766443

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.1e-67  Score=596.15  Aligned_cols=504  Identities=16%  Similarity=0.252  Sum_probs=467.6

Q ss_pred             CCCchhHHHHHHHHHccCCCCCHHHHHHHhccCCCCCcc-----hHHHHHHHHHcCCCchHHHHHHHHHHhCCCCCChhh
Q 005476           49 HLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSS-----AYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFT  123 (695)
Q Consensus        49 ~~~~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~~~~~-----~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  123 (695)
                      .++...+..++..++++   |++++|+++|+.|+.++..     .++.++.+|.+.|..++|+.+|+.|..    ||..+
T Consensus       367 ~~~~~~~~~~y~~l~r~---G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~T  439 (1060)
T PLN03218        367 KRKSPEYIDAYNRLLRD---GRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLST  439 (1060)
T ss_pred             CCCchHHHHHHHHHHHC---cCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHH
Confidence            56777889999999999   9999999999999876654     455677789999999999999999974    89999


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccC----CCCeehHHHHHHHHHh
Q 005476          124 FACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMS----NRDVFSWNSMFSGYVK  199 (695)
Q Consensus       124 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~----~~~~~~~~~li~~~~~  199 (695)
                      |+.+|.+|++.|+++.|.++|+.|.+.|+.||..+|+.||.+|+++|++++|.++|++|.    .||..+||+||.+|++
T Consensus       440 yn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k  519 (1060)
T PLN03218        440 FNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCAR  519 (1060)
T ss_pred             HHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999998    4899999999999999


Q ss_pred             CCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHH--hCCCCchHHHHHHHHHHHhcCCHHHHH
Q 005476          200 TECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEE--KELNGNVKLMTAVVDMYAKCGHVDKAR  277 (695)
Q Consensus       200 ~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~--~g~~~~~~~~~~li~~~~~~g~~~~A~  277 (695)
                      .|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++|+.|.+  .|+.||..+|++|+.+|+++|++++|.
T Consensus       520 ~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~  599 (1060)
T PLN03218        520 AGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAK  599 (1060)
T ss_pred             CcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHH
Confidence            999999999999999999999999999999999999999999999999987  678999999999999999999999999


Q ss_pred             HHHHhcCCC----ChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhC
Q 005476          278 RLFEQMNIK----DVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKR  353 (695)
Q Consensus       278 ~~f~~m~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~  353 (695)
                      ++|++|.+.    +..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.|.+.|
T Consensus       600 elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G  679 (1060)
T PLN03218        600 EVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQG  679 (1060)
T ss_pred             HHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcC
Confidence            999999754    6699999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCchHHHhHHhcchhhcCCHHHHHHHHhcCC----CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 005476          354 MELTITLGTALMDFYAKCGLIENAVEVFKKMP----LKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIA  429 (695)
Q Consensus       354 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~  429 (695)
                      +.|+..+|++||++|+++|++++|.++|++|.    .||+.+||+||.+|++.|++++|+++|++|...|+.||..||+.
T Consensus       680 ~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~s  759 (1060)
T PLN03218        680 IKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSI  759 (1060)
T ss_pred             CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            99999999999999999999999999999994    58999999999999999999999999999999999999999999


Q ss_pred             HHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHh----hcC-------------------CHHHHHHHHHhC
Q 005476          430 VLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILG----RAG-------------------LVEEAYQFIKNM  486 (695)
Q Consensus       430 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~----~~g-------------------~~~~A~~~~~~m  486 (695)
                      ++.+|++.|++++|.++|..|.+. |+.||..+|++|++++.    +++                   ..++|..+|++|
T Consensus       760 LL~a~~k~G~le~A~~l~~~M~k~-Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM  838 (1060)
T PLN03218        760 LLVASERKDDADVGLDLLSQAKED-GIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRET  838 (1060)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHH
Confidence            999999999999999999999875 99999999999998743    222                   346799999999


Q ss_pred             ---CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhc-CCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCCCccCCc
Q 005476          487 ---PIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTL-EPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPG  562 (695)
Q Consensus       487 ---~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~-~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~  562 (695)
                         ++.||..+|+.++.++...+..+.+..+++.+... .+++..+|..|++.+.+.  .++|..++++|.+.|+.|+..
T Consensus       839 ~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~Gi~p~~~  916 (1060)
T PLN03218        839 ISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLGVVPSVS  916 (1060)
T ss_pred             HHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcCCCCCcc
Confidence               88999999999998877888888888888776543 356778999999987432  368999999999999988653

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=100.00  E-value=5e-66  Score=581.13  Aligned_cols=436  Identities=25%  Similarity=0.428  Sum_probs=413.0

Q ss_pred             CCCCChHHHHHHhccCCChH---HHHHHHHHHhcCCCCchhHHHHHHHHHccCCCCCHHHHHHHhccCCCCCcchHHHHH
Q 005476           17 QFPENPKTLIVQQCKTTKDL---NQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMI   93 (695)
Q Consensus        17 ~~~~~~~~~~l~~~~~~~~~---~~~~~~~~~~g~~~~~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li   93 (695)
                      .|+..||.+++++|+..+.+   +++|..+.+.|+.||+.++|.|+++|+++   |++++|+++|++|++||.++||++|
T Consensus       120 ~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~---g~~~~A~~lf~~m~~~~~~t~n~li  196 (697)
T PLN03081        120 TLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKC---GMLIDARRLFDEMPERNLASWGTII  196 (697)
T ss_pred             CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcC---CCHHHHHHHHhcCCCCCeeeHHHHH
Confidence            47889999999999988876   89999999999999999999999999999   9999999999999999999999999


Q ss_pred             HHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChh
Q 005476           94 RAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRID  173 (695)
Q Consensus        94 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~  173 (695)
                      .+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|..+.+.++|..+.+.|+.+|..++|+||++|+++|+++
T Consensus       197 ~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~  276 (697)
T PLN03081        197 GGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIE  276 (697)
T ss_pred             HHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhccCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhCC
Q 005476          174 IARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKEL  253 (695)
Q Consensus       174 ~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~  253 (695)
                      +|.++|++|+++|+++||+||.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|+++|+.|.+.|+
T Consensus       277 ~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~  356 (697)
T PLN03081        277 DARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGF  356 (697)
T ss_pred             HHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHH
Q 005476          254 NGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCC  333 (695)
Q Consensus       254 ~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~  333 (695)
                      .||..++++|+++|+++|++++|.++|++|.++|+++||+||.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|
T Consensus       357 ~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~  436 (697)
T PLN03081        357 PLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSAC  436 (697)
T ss_pred             CCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hccCChhHHHHHHHHHHH-hCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCC-CChhHHHHHHHHHHhcCChHHHHHH
Q 005476          334 AVLGALETGKWVHLYVKK-KRMELTITLGTALMDFYAKCGLIENAVEVFKKMPL-KNVFFWTVLIQCLASNGQGERALET  411 (695)
Q Consensus       334 ~~~~~~~~a~~i~~~~~~-~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~l  411 (695)
                      ++.|.+++|.++|+.|.+ .|+.|+..+|+.++++|++.|++++|.++|++|+. |+..+|++|+.+|..+|+.+.|..+
T Consensus       437 ~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~  516 (697)
T PLN03081        437 RYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLA  516 (697)
T ss_pred             hcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHH
Confidence            999999999999999986 69999999999999999999999999999988864 7888888888888888888888888


Q ss_pred             HHHHHHCCCCCC-HHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCC
Q 005476          412 YYIMREKNIEPN-DVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEP  458 (695)
Q Consensus       412 ~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p  458 (695)
                      ++++.+  +.|+ ..+|..+++.|++.|++++|.++++.|.+. |+.+
T Consensus       517 ~~~l~~--~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~-g~~k  561 (697)
T PLN03081        517 AEKLYG--MGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRK-GLSM  561 (697)
T ss_pred             HHHHhC--CCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHc-CCcc
Confidence            888765  5665 447888888888888888888888888654 6643

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=4.2e-64  Score=567.23  Aligned_cols=498  Identities=15%  Similarity=0.210  Sum_probs=465.6

Q ss_pred             CCChHHHHHHhccCCChH---HHHHHHHHHhcC-CCCchhHHHHHHHHHccCCCCCHHHHHHHhccCCCCCcchHHHHHH
Q 005476           19 PENPKTLIVQQCKTTKDL---NQVHAHLIKSRF-HLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMIR   94 (695)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~---~~~~~~~~~~g~-~~~~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~   94 (695)
                      +...+..++..|...+.+   .+++..|.+.|+ +++...++.++..|.+.   |.+++|..+|+.|+.||..+||.+|.
T Consensus       369 ~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~---g~~~eAl~lf~~M~~pd~~Tyn~LL~  445 (1060)
T PLN03218        369 KSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQ---RAVKEAFRFAKLIRNPTLSTFNMLMS  445 (1060)
T ss_pred             CchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHC---CCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            345567777776544544   788999999985 67888889999999999   99999999999999999999999999


Q ss_pred             HHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhH
Q 005476           95 AFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDI  174 (695)
Q Consensus        95 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~  174 (695)
                      +|++.|++++|+++|+.|.+.|+.||..+|+++|.+|++.|+++.|.++|++|.+.|+.||..+|+.||.+|++.|++++
T Consensus       446 a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~ee  525 (1060)
T PLN03218        446 VCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAK  525 (1060)
T ss_pred             HHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhccCC----CCeehHHHHHHHHHhCCChhHHHHHHHHHHH--cCCCCCHhHHHHHHHHHhccCChhHHHHHHHHH
Q 005476          175 ARKMFDRMSN----RDVFSWNSMFSGYVKTECWREIVDLFNEMRD--LGVKFDEVTLINVLMACGRLADIELGGWISEYM  248 (695)
Q Consensus       175 A~~~f~~m~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~  248 (695)
                      |.++|++|.+    ||.++||+||.+|++.|++++|.++|++|..  .|+.||.+||+.++.+|++.|++++|.++|+.|
T Consensus       526 Al~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M  605 (1060)
T PLN03218        526 AFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMI  605 (1060)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            9999999964    8999999999999999999999999999976  689999999999999999999999999999999


Q ss_pred             HHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcC----CCChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHH
Q 005476          249 EEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMN----IKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEV  324 (695)
Q Consensus       249 ~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~  324 (695)
                      .+.|+.|+..+|+.+|.+|++.|++++|.++|++|.    .+|..+|+++|.+|++.|+.++|.++|++|.+.|+.||..
T Consensus       606 ~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~  685 (1060)
T PLN03218        606 HEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTV  685 (1060)
T ss_pred             HHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHH
Confidence            999999999999999999999999999999999997    4689999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCC----CCChhHHHHHHHHHH
Q 005476          325 TMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMP----LKNVFFWTVLIQCLA  400 (695)
Q Consensus       325 t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~  400 (695)
                      +|++++.+|++.|++++|.++|+.|.+.|+.||..+||+||.+|++.|++++|.++|++|.    .||..+|+++|.+|+
T Consensus       686 tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~  765 (1060)
T PLN03218        686 SYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASE  765 (1060)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999985    489999999999999


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----c-------------------ccHHHHHHHHHHchhhcCCC
Q 005476          401 SNGQGERALETYYIMREKNIEPNDVAFIAVLSACSH----V-------------------GMVDEGRELFVSMSRDFDLE  457 (695)
Q Consensus       401 ~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~----~-------------------g~~~~a~~~~~~~~~~~~~~  457 (695)
                      +.|+.++|.++|++|.+.|+.||..+|+.++..|.+    .                   +..++|..+|++|.+. |+.
T Consensus       766 k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~-Gi~  844 (1060)
T PLN03218        766 RKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISA-GTL  844 (1060)
T ss_pred             HCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHC-CCC
Confidence            999999999999999999999999999999976542    1                   1246799999999875 999


Q ss_pred             CChhHHHHHHHHHhhcCCHHHHHHHHHhCC---CCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcC
Q 005476          458 PRMEHYGCMVDILGRAGLVEEAYQFIKNMP---IPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLE  522 (695)
Q Consensus       458 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~---~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~  522 (695)
                      ||..+|+.++..+.+.+..+.+..+++.|+   ..|+..+|++|+.++.+.  .++|..++++|.+.+
T Consensus       845 Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~G  910 (1060)
T PLN03218        845 PTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLG  910 (1060)
T ss_pred             CCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcC
Confidence            999999999999999999999999999984   556789999999998443  468999999999976

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=100.00  E-value=3e-29  Score=295.32  Aligned_cols=506  Identities=13%  Similarity=0.069  Sum_probs=369.9

Q ss_pred             HHHHHHHHHhcCCCCchhHHHHHHHHHccCCCCCHHHHHHHhccCCC---CCcchHHHHHHHHHcCCCchHHHHHHHHHH
Q 005476           37 NQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINE---PDSSAYNIMIRAFTLKQSPQEAVMLYKTML  113 (695)
Q Consensus        37 ~~~~~~~~~~g~~~~~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  113 (695)
                      ......+.+.. +.++..++.+...|.+.   |++++|...|+++.+   .+...|..+...+...|++++|++.|+.+.
T Consensus       349 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  424 (899)
T TIGR02917       349 IATLSPALGLD-PDDPAALSLLGEAYLAL---GDFEKAAEYLAKATELDPENAAARTQLGISKLSQGDPSEAIADLETAA  424 (899)
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHH
Confidence            33444444333 34667788888888888   999999999987643   345567788888888899999999888887


Q ss_pred             hCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCC---CCeehH
Q 005476          114 QNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSN---RDVFSW  190 (695)
Q Consensus       114 ~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~---~~~~~~  190 (695)
                      +.... +......++..+.+.|++++|.++++.+.+.. +.+..++..+...|...|++++|...|+++.+   .+...+
T Consensus       425 ~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~  502 (899)
T TIGR02917       425 QLDPE-LGRADLLLILSYLRSGQFDKALAAAKKLEKKQ-PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAA  502 (899)
T ss_pred             hhCCc-chhhHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCcHHHH
Confidence            75432 23445556677778888888888888887653 55677888888888888888888888887643   345567


Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhc
Q 005476          191 NSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKC  270 (695)
Q Consensus       191 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~  270 (695)
                      ..+...+...|++++|.+.|+++...+ +.+..++..+...+...|+.++|...+..+.+.+ +.+...+..++..|.+.
T Consensus       503 ~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  580 (899)
T TIGR02917       503 ANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGK  580 (899)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHC
Confidence            777778888888888888888887653 2355667777777778888888888888877664 44566777788888888


Q ss_pred             CCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHH
Q 005476          271 GHVDKARRLFEQMNI---KDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHL  347 (695)
Q Consensus       271 g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~  347 (695)
                      |++++|..+++.+..   .+...|..+...|.+.|++++|+..|+++.+.. +.+...+..+...+...|+++.|..++.
T Consensus       581 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  659 (899)
T TIGR02917       581 GQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLK  659 (899)
T ss_pred             CCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            888888888887753   356678888888888888888888888877653 3345566677777778888888888888


Q ss_pred             HHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH
Q 005476          348 YVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPL---KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPND  424 (695)
Q Consensus       348 ~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~  424 (695)
                      .+.+.. +.+...+..++..+.+.|++++|.++++.+..   .+...|..+...+...|++++|++.|+++..  ..|+.
T Consensus       660 ~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~~~~  736 (899)
T TIGR02917       660 RALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALK--RAPSS  736 (899)
T ss_pred             HHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHh--hCCCc
Confidence            777654 44566777777888888888888888877754   3555677777777788888888888888777  34555


Q ss_pred             HHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHhhHHHHHHHH
Q 005476          425 VAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PI-PPNPVIWRTLLAAC  502 (695)
Q Consensus       425 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-~p~~~~~~~ll~a~  502 (695)
                      .++..+..++.+.|++++|.+.++.+.+  ..+.+...+..+...|.+.|++++|.+.|+++ .. +++..+++.+...+
T Consensus       737 ~~~~~l~~~~~~~g~~~~A~~~~~~~l~--~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  814 (899)
T TIGR02917       737 QNAIKLHRALLASGNTAEAVKTLEAWLK--THPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLY  814 (899)
T ss_pred             hHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            6666777777777888888887777765  33446677777777777788888887777776 22 33566777777777


Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCCC
Q 005476          503 RAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGI  557 (695)
Q Consensus       503 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  557 (695)
                      ...|+ ++|+..++++++..|+++..+..++.+|...|++++|.++++++.+.+.
T Consensus       815 ~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~  868 (899)
T TIGR02917       815 LELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAP  868 (899)
T ss_pred             HhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            77777 6677777777777777777777777777777777777777777776543

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=100.00  E-value=4.7e-29  Score=293.70  Aligned_cols=505  Identities=13%  Similarity=0.029  Sum_probs=429.2

Q ss_pred             HHHHHHHHHhcCCCCchhHHHHHHHHHccCCCCCHHHHHHHhccCCC---CCcchHHHHHHHHHcCCCchHHHHHHHHHH
Q 005476           37 NQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINE---PDSSAYNIMIRAFTLKQSPQEAVMLYKTML  113 (695)
Q Consensus        37 ~~~~~~~~~~g~~~~~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  113 (695)
                      ...+..+++.. +.++..+..+...+.+.   |++++|...++.+..   .+...|+.+...+.+.|++++|.++|+++.
T Consensus       315 ~~~~~~~~~~~-p~~~~~~~~la~~~~~~---g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  390 (899)
T TIGR02917       315 YQYLNQILKYA-PNSHQARRLLASIQLRL---GRVDEAIATLSPALGLDPDDPAALSLLGEAYLALGDFEKAAEYLAKAT  390 (899)
T ss_pred             HHHHHHHHHhC-CCChHHHHHHHHHHHHC---CCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            55556555543 34566778888899999   999999999988753   456689999999999999999999999998


Q ss_pred             hCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCC---CCeehH
Q 005476          114 QNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSN---RDVFSW  190 (695)
Q Consensus       114 ~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~---~~~~~~  190 (695)
                      +... .+...+..+...+...|++++|.+.+..+.+.. +........++..|.+.|++++|..+++++..   .+..+|
T Consensus       391 ~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  468 (899)
T TIGR02917       391 ELDP-ENAAARTQLGISKLSQGDPSEAIADLETAAQLD-PELGRADLLLILSYLRSGQFDKALAAAKKLEKKQPDNASLH  468 (899)
T ss_pred             hcCC-CCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhC-CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcHHH
Confidence            7532 255677778888889999999999999998875 33456677788999999999999999998864   466789


Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhc
Q 005476          191 NSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKC  270 (695)
Q Consensus       191 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~  270 (695)
                      +.+...|...|++++|.+.|+++.+.. +.+...+..+...+...|++++|...++.+.+.+ +.+..++..+...|.+.
T Consensus       469 ~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  546 (899)
T TIGR02917       469 NLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRT  546 (899)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHc
Confidence            999999999999999999999998753 2344557778888899999999999999998875 55788899999999999


Q ss_pred             CCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHH
Q 005476          271 GHVDKARRLFEQMNI---KDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHL  347 (695)
Q Consensus       271 g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~  347 (695)
                      |+.++|...|+++..   .+...+..++..|.+.|++++|+.+++++.... +.+..++..+...+...|+++.|...+.
T Consensus       547 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  625 (899)
T TIGR02917       547 GNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFK  625 (899)
T ss_pred             CCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            999999999998743   356788889999999999999999999998753 5567788999999999999999999999


Q ss_pred             HHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH
Q 005476          348 YVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPL---KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPND  424 (695)
Q Consensus       348 ~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~  424 (695)
                      .+.+.. +.+...+..+..+|.+.|++++|...|+++..   .+..+|..++..+...|++++|.++++.+.+.+ +++.
T Consensus       626 ~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~  703 (899)
T TIGR02917       626 KLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAA  703 (899)
T ss_pred             HHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCh
Confidence            998865 45667788899999999999999999988754   467889999999999999999999999998864 4456


Q ss_pred             HHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHhhHHHHHHHH
Q 005476          425 VAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-P-IPPNPVIWRTLLAAC  502 (695)
Q Consensus       425 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~-~~p~~~~~~~ll~a~  502 (695)
                      ..+..+...+...|++++|.+.|..+..   ..|+..++..++..+.+.|++++|.+.++++ . .+.+..++..+...|
T Consensus       704 ~~~~~~~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~  780 (899)
T TIGR02917       704 LGFELEGDLYLRQKDYPAAIQAYRKALK---RAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELY  780 (899)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            6788888899999999999999999874   3566688888999999999999999999887 2 234677888888899


Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 005476          503 RAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       503 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      ...|+.++|.+.++++++..|+++..+..++.+|...|+ ++|+.+++++.+..
T Consensus       781 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~  833 (899)
T TIGR02917       781 LAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLA  833 (899)
T ss_pred             HHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhC
Confidence            999999999999999999999999999999999999999 88999999988753

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>PF14432 DYW_deaminase: DYW family of nucleic acid deaminases

Probab=99.97  E-value=1.9e-31  Score=221.22  Aligned_cols=106  Identities=54%  Similarity=0.941  Sum_probs=97.6

Q ss_pred             ceeEEEECCEEEEeecCCCCCcchHHHHHHHHHHHHHHHHcCcccCCCcccccCChhhh--------hhhhhhchHHHHH
Q 005476          562 GCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEEDDK--------EASVAHHSEKLAI  633 (695)
Q Consensus       562 ~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~l~~~m~~~g~~pd~~~~~~~~~~~~~--------~~~~~~~~~~la~  633 (695)
                      ||||+++    |.|.+|+.+||+.        ++..++...||.|++..+.|+++++++        +..+++||||||+
T Consensus         2 ~~~w~~~----h~F~sgd~shp~~--------~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~d~~~~~~~~~~HSEKlAi   69 (116)
T PF14432_consen    2 GCSWIEV----HSFVSGDRSHPQS--------ELINKMKEEGYVPDTKEVGHDVDEEEKHDYDEEEKEESLCYHSEKLAI   69 (116)
T ss_pred             CCCccce----EEEEeCCCcCccH--------HHHHHHHHcCCcchhhhhCCCchhhhhhhcccccchhhhhccHHHHHH
Confidence            7899886    9999999999988        566678889999999999998887755        5688999999999


Q ss_pred             HHhhhcCCCCCcEEEEccc-cccCCccchhhhhhcccCceEEEecCCcccccC
Q 005476          634 AFGLIRASPGTTIRISKNL-RVCTDCHNATKIISKVFNREIVVRDRTRFHHFK  685 (695)
Q Consensus       634 ~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~~s~~~~~~~~~~~~~~~h~~~  685 (695)
                      ||||+++      +|+||+ |||+|||+++|+||+++||+|+|||++|||||+
T Consensus        70 afgli~~------~vvkn~~RvC~DCH~~~K~iS~~~~ReIiVRD~~rfHhFk  116 (116)
T PF14432_consen   70 AFGLINT------RVVKNLKRVCGDCHSFIKFISKITGREIIVRDSNRFHHFK  116 (116)
T ss_pred             Hhcccce------eEEecCCccchHHHHHHHHHHHHHCeEEEEeCCCeeeeCC
Confidence            9999998      899999 999999999999999999999999999999996

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.93  E-value=2.1e-21  Score=230.01  Aligned_cols=503  Identities=13%  Similarity=0.085  Sum_probs=275.4

Q ss_pred             HHHHHHHHHhcCCCCchhHHHHHHHHHccCCCCCHHHHHHHhccCCC--CCc-chH----------------HHHHHHHH
Q 005476           37 NQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINE--PDS-SAY----------------NIMIRAFT   97 (695)
Q Consensus        37 ~~~~~~~~~~g~~~~~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~--~~~-~~~----------------~~li~~~~   97 (695)
                      ++...++...- +.|+.+...+...+.+.   |+.++|.+.+++..+  |+. ..+                -.+...+.
T Consensus        48 ~~~l~kl~~~~-p~~p~~~~~~~~~~l~~---g~~~~A~~~l~~l~~~~P~~~~~~~~~~~~~~~~~~~~~~l~~A~ll~  123 (1157)
T PRK11447         48 RQSLYRLELID-PNNPDVIAARFRLLLRQ---GDSDGAQKLLDRLSQLAPDSNAYRSSRTTMLLSTPEGRQALQQARLLA  123 (1157)
T ss_pred             HHHHHHHHccC-CCCHHHHHHHHHHHHhC---CCHHHHHHHHHHHHhhCCCChHHHHHHHHHHhcCCchhhHHHHHHHHH
Confidence            44444433332 34788888889999999   999999999998853  322 222                22334678


Q ss_pred             cCCCchHHHHHHHHHHhCCCCCChh-hHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHH
Q 005476           98 LKQSPQEAVMLYKTMLQNSVEPDRF-TFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIAR  176 (695)
Q Consensus        98 ~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~  176 (695)
                      ..|++++|++.|+.+.+.. +|+.. ............++.++|.+.++.+.+.. +.+...+..|...+...|+.++|+
T Consensus       124 ~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~LA~ll~~~g~~~eAl  201 (1157)
T PRK11447        124 TTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTLALLLFSSGRRDEGF  201 (1157)
T ss_pred             hCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHccCCHHHHH
Confidence            8999999999999998753 23322 11112222334689999999999999885 557778899999999999999999


Q ss_pred             HHHhccCCCCe------ehH-----------------HHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHh
Q 005476          177 KMFDRMSNRDV------FSW-----------------NSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACG  233 (695)
Q Consensus       177 ~~f~~m~~~~~------~~~-----------------~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~  233 (695)
                      ..|+++.....      ..|                 ...+..+-.....+.|...+.++......|+... .....++.
T Consensus       202 ~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~-~~~G~~~~  280 (1157)
T PRK11447        202 AVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRA-RAQGLAAV  280 (1157)
T ss_pred             HHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHH-HHHHHHHH
Confidence            99998743211      011                 1111111111112233333333322211222111 11123344


Q ss_pred             ccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCCC--C---hhHHHHH------------HH
Q 005476          234 RLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIK--D---VVAWSAM------------IS  296 (695)
Q Consensus       234 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~--~---~~~~~~l------------i~  296 (695)
                      ..|++++|...++.+++.. +.+..++..|...|.+.|++++|+..|++..+.  +   ...|..+            ..
T Consensus       281 ~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~  359 (1157)
T PRK11447        281 DSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGD  359 (1157)
T ss_pred             HCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHH
Confidence            4556666666666555542 234555555666666666666666666554321  1   1112111            22


Q ss_pred             HHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHH------------
Q 005476          297 GYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTAL------------  364 (695)
Q Consensus       297 ~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~l------------  364 (695)
                      .+.+.|++++|+..|++..... +.+...+..+...+...|++++|.+.++.+.+... .+...+..+            
T Consensus       360 ~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p-~~~~a~~~L~~l~~~~~~~~A  437 (1157)
T PRK11447        360 AALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDP-GNTNAVRGLANLYRQQSPEKA  437 (1157)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcCHHHH
Confidence            3445566666666666655542 22333444455555556666666666665555431 122233333            


Q ss_pred             ------------------------------hcchhhcCCHHHHHHHHhcCCC--C-ChhHHHHHHHHHHhcCChHHHHHH
Q 005476          365 ------------------------------MDFYAKCGLIENAVEVFKKMPL--K-NVFFWTVLIQCLASNGQGERALET  411 (695)
Q Consensus       365 ------------------------------i~~y~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~l  411 (695)
                                                    ...+...|++++|.+.|++..+  | +...+..+...|.+.|++++|+..
T Consensus       438 ~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A~~~  517 (1157)
T PRK11447        438 LAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQADAL  517 (1157)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence                                          3344445555555555555432  1 333444455555555555555555


Q ss_pred             HHHHHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHHHHchhhcCCCCCh---------hHHHHHHHHHhhcCCHHHHHH
Q 005476          412 YYIMREKNIEPNDV-AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRM---------EHYGCMVDILGRAGLVEEAYQ  481 (695)
Q Consensus       412 ~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~---------~~~~~li~~~~~~g~~~~A~~  481 (695)
                      |+++.+  ..|+.. .+..+...+...++.++|...++.+... ...++.         ..+..+.+.+...|+.++|.+
T Consensus       518 l~~al~--~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~-~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~  594 (1157)
T PRK11447        518 MRRLAQ--QKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRA-QWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEA  594 (1157)
T ss_pred             HHHHHH--cCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCch-hcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHH
Confidence            555554  233222 2222223344455555555555544221 111110         011223444555666666666


Q ss_pred             HHHhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          482 FIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       482 ~~~~m~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      +++.-|  ++...+..+...+.+.|++++|+..++++++.+|+++.++..++.+|...|++++|.+.++...+
T Consensus       595 ~l~~~p--~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~  665 (1157)
T PRK11447        595 LLRQQP--PSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPA  665 (1157)
T ss_pred             HHHhCC--CCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence            666322  23445556666677777777777777777777777777777777777777777777777776654

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.92  E-value=4.4e-20  Score=218.80  Aligned_cols=476  Identities=11%  Similarity=0.069  Sum_probs=343.5

Q ss_pred             CCHHHHHHHhccCCC--C-CcchHHHHHHHHHcCCCchHHHHHHHHHHhCCC------------------C---------
Q 005476           69 TTMDYALSIFHKINE--P-DSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSV------------------E---------  118 (695)
Q Consensus        69 g~~~~A~~~f~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~------------------~---------  118 (695)
                      |+.++|+..|+++..  | +...+..+...+...|++++|+..|+++.+...                  .         
T Consensus       161 g~~~~A~~~L~~ll~~~P~~~~~~~~LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~  240 (1157)
T PRK11447        161 AQRPEAINQLQRLNADYPGNTGLRNTLALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQK  240 (1157)
T ss_pred             ccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHH
Confidence            889999999988763  3 455788888889899999999999988754321                  0         


Q ss_pred             -----CChhhH----H-----------------HHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCCh
Q 005476          119 -----PDRFTF----A-----------------CTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRI  172 (695)
Q Consensus       119 -----p~~~~~----~-----------------~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~  172 (695)
                           |+...+    .                 .....+...|++++|...++..++.. +.+..++..|...|.+.|++
T Consensus       241 ~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~G~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~  319 (1157)
T PRK11447        241 YLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQGLAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDR  319 (1157)
T ss_pred             HHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence                 110000    0                 01123445677888888888777764 44667777788888888888


Q ss_pred             hHHHHHHhccCC--CCe---ehHHHH------------HHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhcc
Q 005476          173 DIARKMFDRMSN--RDV---FSWNSM------------FSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRL  235 (695)
Q Consensus       173 ~~A~~~f~~m~~--~~~---~~~~~l------------i~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~  235 (695)
                      ++|+..|++..+  |+.   ..|..+            ...+.+.|++++|+..|++..... +.+...+..+...+...
T Consensus       320 ~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~  398 (1157)
T PRK11447        320 ARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMAR  398 (1157)
T ss_pred             HHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHC
Confidence            888888877654  221   123222            234567788888888888877653 22344566667777778


Q ss_pred             CChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCC------------hhHHHHHHHHHHhcCC
Q 005476          236 ADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKD------------VVAWSAMISGYSQARR  303 (695)
Q Consensus       236 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~------------~~~~~~li~~~~~~g~  303 (695)
                      |++++|.+.++.+++.. +.+...+..+...|. .++.++|..+++.+....            ...+..+...+...|+
T Consensus       399 g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~  476 (1157)
T PRK11447        399 KDYAAAERYYQQALRMD-PGNTNAVRGLANLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGK  476 (1157)
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCC
Confidence            88888888888877763 334556666666664 456788887777665321            1234456667788999


Q ss_pred             HHHHHHHHHHhHHCCCCCC-HHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHh
Q 005476          304 CKEALGVFHDMQMANVVPN-EVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFK  382 (695)
Q Consensus       304 ~~~A~~~~~~m~~~g~~pd-~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~  382 (695)
                      +++|++.|++..+.  .|+ ...+..+...+...|+.++|...++.+++.. +.+...+..+...+.+.|+.++|...++
T Consensus       477 ~~eA~~~~~~Al~~--~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~  553 (1157)
T PRK11447        477 WAQAAELQRQRLAL--DPGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLN  553 (1157)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            99999999998875  354 4566777888899999999999999988754 3344444455556778899999999999


Q ss_pred             cCCCC----Ch---------hHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHH
Q 005476          383 KMPLK----NV---------FFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVS  449 (695)
Q Consensus       383 ~~~~~----~~---------~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~  449 (695)
                      .+...    +.         ..+..+...+...|+.++|+++++.     .+++...+..+...+.+.|++++|.+.|+.
T Consensus       554 ~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~  628 (1157)
T PRK11447        554 TLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQR  628 (1157)
T ss_pred             hCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            88642    11         1123445678889999999999872     234455677788889999999999999999


Q ss_pred             chhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcc
Q 005476          450 MSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSG  527 (695)
Q Consensus       450 ~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~  527 (695)
                      +.+.  -+.+...+..++..|...|++++|++.++.. ...| +...+..+..++...|++++|.+.++++++..|+++.
T Consensus       629 al~~--~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~  706 (1157)
T PRK11447        629 VLTR--EPGNADARLGLIEVDIAQGDLAAARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPP  706 (1157)
T ss_pred             HHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCc
Confidence            9752  2335788999999999999999999999987 3344 4566777888899999999999999999998765543


Q ss_pred             ------cHHHHHHHHHHcCCHHHHHHHHHHHHh-CCCc
Q 005476          528 ------DYILLSDIYASAGRCEDALRVMNQMRE-QGIK  558 (695)
Q Consensus       528 ------~~~~l~~~~~~~g~~~~a~~~~~~m~~-~~~~  558 (695)
                            .+..++.++...|++++|...+++... .|+.
T Consensus       707 ~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~~~~  744 (1157)
T PRK11447        707 SMESALVLRDAARFEAQTGQPQQALETYKDAMVASGIT  744 (1157)
T ss_pred             chhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcCCC
Confidence                  455678999999999999999999864 3454

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.90  E-value=1e-20  Score=189.71  Aligned_cols=449  Identities=14%  Similarity=0.066  Sum_probs=320.9

Q ss_pred             HHHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcC
Q 005476           91 IMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCG  170 (695)
Q Consensus        91 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g  170 (695)
                      .|..-..+.|++++|.+.-...-+.+. .+......+-..+.+..+++...+--...++.. +.-..+|..+.+.+-..|
T Consensus        53 ~lah~~yq~gd~~~a~~h~nmv~~~d~-t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~-~q~ae~ysn~aN~~kerg  130 (966)
T KOG4626|consen   53 ELAHRLYQGGDYKQAEKHCNMVGQEDP-TNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKN-PQGAEAYSNLANILKERG  130 (966)
T ss_pred             HHHHHHHhccCHHHHHHHHhHhhccCC-Ccccceeeehhhhhcccchhhhhhhhhhhhhcc-chHHHHHHHHHHHHHHhc
Confidence            344445566777777765554433221 122222222233344444444433333333321 233456777777777778


Q ss_pred             ChhHHHHHHhccCC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHH-HHHhccCChhHHHHHHH
Q 005476          171 RIDIARKMFDRMSN---RDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVL-MACGRLADIELGGWISE  246 (695)
Q Consensus       171 ~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll-~a~~~~~~~~~a~~~~~  246 (695)
                      ++++|+.+++.+.+   ..+..|..+..++...|+.+.|.+.|.+.++  +.|+.+...+-+ ......|.+++|...+.
T Consensus       131 ~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alq--lnP~l~ca~s~lgnLlka~Grl~ea~~cYl  208 (966)
T KOG4626|consen  131 QLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQ--LNPDLYCARSDLGNLLKAEGRLEEAKACYL  208 (966)
T ss_pred             hHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHh--cCcchhhhhcchhHHHHhhcccchhHHHHH
Confidence            88888887777654   3456777777888888888888888877766  356655433322 22234577777777777


Q ss_pred             HHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCC---hhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCC-
Q 005476          247 YMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKD---VVAWSAMISGYSQARRCKEALGVFHDMQMANVVPN-  322 (695)
Q Consensus       247 ~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-  322 (695)
                      ..++.. +--..+|+.|...+-..|++..|+..|++...-|   ..+|-.|...|...+.+++|+..|.+....  .|+ 
T Consensus       209 kAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~l--rpn~  285 (966)
T KOG4626|consen  209 KAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNL--RPNH  285 (966)
T ss_pred             HHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhc--CCcc
Confidence            766653 2235567777777788888888888888765433   356777777888888888888888777654  454 


Q ss_pred             HHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCC---CChhHHHHHHHHH
Q 005476          323 EVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPL---KNVFFWTVLIQCL  399 (695)
Q Consensus       323 ~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~  399 (695)
                      .+.+..+...|...|.++.|..-+++.++.. +.-+..|+.|..++-..|++.+|.+.+++...   ....+.+.|...|
T Consensus       286 A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgni~  364 (966)
T KOG4626|consen  286 AVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGNIY  364 (966)
T ss_pred             hhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHHHH
Confidence            4466666666777888888888888777654 23356777788888888888888888877653   3556788899999


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHHHHchhhcCCCCC-hhHHHHHHHHHhhcCCHH
Q 005476          400 ASNGQGERALETYYIMREKNIEPNDV-AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPR-MEHYGCMVDILGRAGLVE  477 (695)
Q Consensus       400 ~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~  477 (695)
                      ...|.+++|..+|....+  +.|.-. .++.|...|-+.|++++|...+++.+   .+.|+ ...|+.+...|-..|+.+
T Consensus       365 ~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal---rI~P~fAda~~NmGnt~ke~g~v~  439 (966)
T KOG4626|consen  365 REQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL---RIKPTFADALSNMGNTYKEMGDVS  439 (966)
T ss_pred             HHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH---hcCchHHHHHHhcchHHHHhhhHH
Confidence            999999999999999988  788765 88999999999999999999999886   67887 578999999999999999


Q ss_pred             HHHHHHHhC-CCCCC-HhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHH
Q 005476          478 EAYQFIKNM-PIPPN-PVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQM  552 (695)
Q Consensus       478 ~A~~~~~~m-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  552 (695)
                      .|...+.+. .+.|. ....+.|.+.|...|++.+|+..++.+++++|+.+.+|-.++.+..-..+|.+-.+.++++
T Consensus       440 ~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~vcdw~D~d~~~~kl  516 (966)
T KOG4626|consen  440 AAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIVCDWTDYDKRMKKL  516 (966)
T ss_pred             HHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHHhcccchHHHHHHH
Confidence            999988876 56665 5578899999999999999999999999999999999999998887777777644444443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.89  E-value=3.8e-18  Score=193.31  Aligned_cols=467  Identities=10%  Similarity=0.011  Sum_probs=310.4

Q ss_pred             CCHHHHHHHhccCCC---CCcchHHHHHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHH
Q 005476           69 TTMDYALSIFHKINE---PDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHA  145 (695)
Q Consensus        69 g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  145 (695)
                      |++++|...|+...+   .+..++..|...|.+.|++++|+..+++..+.  .|+...|..++..+   ++.++|..+++
T Consensus        58 Gd~~~A~~~l~~Al~~dP~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~l--dP~n~~~~~~La~i---~~~~kA~~~ye  132 (987)
T PRK09782         58 NDEATAIREFEYIHQQVPDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKR--HPGDARLERSLAAI---PVEVKSVTTVE  132 (987)
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CcccHHHHHHHHHh---ccChhHHHHHH
Confidence            888888888887643   34567788888888888888888888888874  45544444444333   77888888888


Q ss_pred             HHHHhCCCCCccHHHHHHHH--------HHhcCChhHHHHHHhccCCCC--eehHH-HHHHHHHhCCChhHHHHHHHHHH
Q 005476          146 QILKSGFGCRQLVTNTLIHL--------YANCGRIDIARKMFDRMSNRD--VFSWN-SMFSGYVKTECWREIVDLFNEMR  214 (695)
Q Consensus       146 ~~~~~g~~~~~~~~~~Li~~--------y~~~g~~~~A~~~f~~m~~~~--~~~~~-~li~~~~~~g~~~~A~~~~~~m~  214 (695)
                      ++.+.. +.+..++..+...        |.+.+...+++.  .+...++  ..... .+...|.+.|++++|++++.++.
T Consensus       133 ~l~~~~-P~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~--lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~  209 (987)
T PRK09782        133 ELLAQQ-KACDAVPTLRCRSEVGQNALRLAQLPVARAQLN--DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEAR  209 (987)
T ss_pred             HHHHhC-CCChhHHHHHHHHhhccchhhhhhHHHHHHHHH--HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHH
Confidence            888875 4556666666665        777766666666  3333333  33333 34788888888888888888888


Q ss_pred             HcCCCCCHhHHHHHHHHHhc-cCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCCC-----Ch
Q 005476          215 DLGVKFDEVTLINVLMACGR-LADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIK-----DV  288 (695)
Q Consensus       215 ~~g~~pd~~t~~~ll~a~~~-~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~-----~~  288 (695)
                      +.+... ..-...+-.++.. .++ +.+..++..    .+..+..++..+++.|.+.|+.++|.+++++++.-     +.
T Consensus       210 k~~pl~-~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~  283 (987)
T PRK09782        210 QQNTLS-AAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQE  283 (987)
T ss_pred             hcCCCC-HHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCcc
Confidence            875332 2324445456655 355 555555332    33457778888888888888888888888776410     00


Q ss_pred             hH------------------------------------------------------------------------------
Q 005476          289 VA------------------------------------------------------------------------------  290 (695)
Q Consensus       289 ~~------------------------------------------------------------------------------  290 (695)
                      .+                                                                              
T Consensus       284 ~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~  363 (987)
T PRK09782        284 KSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALR  363 (987)
T ss_pred             HHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHH
Confidence            00                                                                              


Q ss_pred             -HHH--------------HHHHHHhcCCHHHHHHHHHHhHHC-C-CCCCHHHHHHHHHHHhcc-----------------
Q 005476          291 -WSA--------------MISGYSQARRCKEALGVFHDMQMA-N-VVPNEVTMVSVLSCCAVL-----------------  336 (695)
Q Consensus       291 -~~~--------------li~~~~~~g~~~~A~~~~~~m~~~-g-~~pd~~t~~~ll~a~~~~-----------------  336 (695)
                       |-.              +.--..+.|+.++|.++|+..... + ..++.....-++..+...                 
T Consensus       364 ~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~  443 (987)
T PRK09782        364 LARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLP  443 (987)
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccc
Confidence             000              000123455666666666555431 0 111111222233333222                 


Q ss_pred             ----------------------------------------------CChhHHHHHHHHHHHhCCCCchHHHhHHhcchhh
Q 005476          337 ----------------------------------------------GALETGKWVHLYVKKKRMELTITLGTALMDFYAK  370 (695)
Q Consensus       337 ----------------------------------------------~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~  370 (695)
                                                                    +..++|...+.......  |+......+...+..
T Consensus       444 ~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~  521 (987)
T PRK09782        444 LAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRDTLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQ  521 (987)
T ss_pred             cchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHhCCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHH
Confidence                                                          33334444444433332  333222233444457


Q ss_pred             cCCHHHHHHHHhcCCC--CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHH
Q 005476          371 CGLIENAVEVFKKMPL--KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDV-AFIAVLSACSHVGMVDEGRELF  447 (695)
Q Consensus       371 ~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~  447 (695)
                      .|++++|...|+++..  ++...+..+...+.+.|+.++|...|++..+.  .|+.. .+..+.......|++++|...+
T Consensus       522 ~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l--~P~~~~l~~~La~~l~~~Gr~~eAl~~~  599 (987)
T PRK09782        522 VEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQR--GLGDNALYWWLHAQRYIPGQPELALNDL  599 (987)
T ss_pred             CCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            7888888888876643  33445666667778888888888888888774  35443 3333444455668999999999


Q ss_pred             HHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC
Q 005476          448 VSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMH  525 (695)
Q Consensus       448 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~  525 (695)
                      +...   .+.|+...|..+..++.+.|++++|+..+++. ...| +...+..+..++...|++++|+..++++++++|++
T Consensus       600 ~~AL---~l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~  676 (987)
T PRK09782        600 TRSL---NIAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDD  676 (987)
T ss_pred             HHHH---HhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            8886   45677888899999999999999999999886 4556 45677777788999999999999999999999999


Q ss_pred             cccHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 005476          526 SGDYILLSDIYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       526 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      +..+..++.+|...|++++|...+++..+..
T Consensus       677 ~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        677 PALIRQLAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            9999999999999999999999999987743

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.88  E-value=9.6e-20  Score=182.85  Aligned_cols=418  Identities=13%  Similarity=0.127  Sum_probs=338.4

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCC---CCeehHHHHHHHHHhCCC
Q 005476          126 CTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSN---RDVFSWNSMFSGYVKTEC  202 (695)
Q Consensus       126 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~  202 (695)
                      .|..-..+.|++++|++--..+-..+ +.+....-.+-..|....+.+....--.....   .-..+|..+.+.+-..|+
T Consensus        53 ~lah~~yq~gd~~~a~~h~nmv~~~d-~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~~q~ae~ysn~aN~~kerg~  131 (966)
T KOG4626|consen   53 ELAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKERGQ  131 (966)
T ss_pred             HHHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHhch
Confidence            34444557788888877544443332 33333333444556666666554332222211   234689999999999999


Q ss_pred             hhHHHHHHHHHHHcCCCCC-HhHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCch-HHHHHHHHHHHhcCCHHHHHHHH
Q 005476          203 WREIVDLFNEMRDLGVKFD-EVTLINVLMACGRLADIELGGWISEYMEEKELNGNV-KLMTAVVDMYAKCGHVDKARRLF  280 (695)
Q Consensus       203 ~~~A~~~~~~m~~~g~~pd-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~-~~~~~li~~~~~~g~~~~A~~~f  280 (695)
                      .++|+.+++.|.+.  +|+ ...|..+..++...|+.+.|.+.+...++.  .|+. .+.+-+.......|++++|...+
T Consensus       132 ~~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~~cY  207 (966)
T KOG4626|consen  132 LQDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAKACY  207 (966)
T ss_pred             HHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhHHHH
Confidence            99999999999984  564 445899999999999999999999998876  4543 34455556666789999999988


Q ss_pred             HhcCCC---ChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCC-HHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCC
Q 005476          281 EQMNIK---DVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPN-EVTMVSVLSCCAVLGALETGKWVHLYVKKKRMEL  356 (695)
Q Consensus       281 ~~m~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~  356 (695)
                      .+..+.   =.++|+.|...+-.+|+...|++.|++....  .|+ ...|..+...+...+.++.|...+..+.... +.
T Consensus       208 lkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-pn  284 (966)
T KOG4626|consen  208 LKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-PN  284 (966)
T ss_pred             HHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-Cc
Confidence            876543   3578999999999999999999999999864  565 3478888888888999999988888776654 34


Q ss_pred             chHHHhHHhcchhhcCCHHHHHHHHhcCCC--C-ChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHH
Q 005476          357 TITLGTALMDFYAKCGLIENAVEVFKKMPL--K-NVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDV-AFIAVLS  432 (695)
Q Consensus       357 ~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~  432 (695)
                      ...++..+...|-..|.++.|...+++..+  | =...||.|..++-..|+..+|...|.+...  +.|+.. ..+.|..
T Consensus       285 ~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~--l~p~hadam~NLgn  362 (966)
T KOG4626|consen  285 HAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALR--LCPNHADAMNNLGN  362 (966)
T ss_pred             chhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHH--hCCccHHHHHHHHH
Confidence            456677788999999999999999998865  3 346899999999999999999999999998  788866 8889999


Q ss_pred             HHhccccHHHHHHHHHHchhhcCCCCC-hhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HhhHHHHHHHHHhcCChh
Q 005476          433 ACSHVGMVDEGRELFVSMSRDFDLEPR-MEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPN-PVIWRTLLAACRAHKNVK  509 (695)
Q Consensus       433 a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~a~~~~g~~~  509 (695)
                      .+...|.+++|..+|....   .+.|. ....+.|...|-++|++++|+.-+++. .++|+ ...++.+...|...|+.+
T Consensus       363 i~~E~~~~e~A~~ly~~al---~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v~  439 (966)
T KOG4626|consen  363 IYREQGKIEEATRLYLKAL---EVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDVS  439 (966)
T ss_pred             HHHHhccchHHHHHHHHHH---hhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhHH
Confidence            9999999999999999886   45665 567899999999999999999999886 78886 568999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 005476          510 VGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       510 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      .|.+.+.+++..+|.-+.++..|+.+|-.+|+..+|++-++...+..
T Consensus       440 ~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklk  486 (966)
T KOG4626|consen  440 AAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLK  486 (966)
T ss_pred             HHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccC
Confidence            99999999999999999999999999999999999999999988743

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.86  E-value=6.2e-17  Score=183.49  Aligned_cols=502  Identities=11%  Similarity=0.015  Sum_probs=346.5

Q ss_pred             HHHHHHHHhcCCCCchhHHHHHHHHHccCCCCCHHHHHHHhccCCC--CCcchHHHHHHHHHcCCCchHHHHHHHHHHhC
Q 005476           38 QVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINE--PDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQN  115 (695)
Q Consensus        38 ~~~~~~~~~g~~~~~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  115 (695)
                      ..+...++.. +.++.++..|...|.+.   |+.++|+..+++...  |+-..|..++..+   +++++|..+|+++...
T Consensus        65 ~~l~~Al~~d-P~n~~~~~~LA~~yl~~---g~~~~A~~~~~kAv~ldP~n~~~~~~La~i---~~~~kA~~~ye~l~~~  137 (987)
T PRK09782         65 REFEYIHQQV-PDNIPLTLYLAEAYRHF---GHDDRARLLLEDQLKRHPGDARLERSLAAI---PVEVKSVTTVEELLAQ  137 (987)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHhcCcccHHHHHHHHHh---ccChhHHHHHHHHHHh
Confidence            3344444443 23578889999999999   999999999988754  3222233323323   7777888888887653


Q ss_pred             CCC--------------------------------------CChhhHHHH-HHHHhccCChHHHHHHHHHHHHhCCCCCc
Q 005476          116 SVE--------------------------------------PDRFTFACT-LKACSRIRALEEGEQIHAQILKSGFGCRQ  156 (695)
Q Consensus       116 g~~--------------------------------------p~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~g~~~~~  156 (695)
                      ...                                      |+..+.... .+.+...++++++..++..+.+.+ +.+.
T Consensus       138 ~P~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~-pl~~  216 (987)
T PRK09782        138 QKACDAVPTLRCRSEVGQNALRLAQLPVARAQLNDATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQN-TLSA  216 (987)
T ss_pred             CCCChhHHHHHHHHhhccchhhhhhHHHHHHHHHHhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcC-CCCH
Confidence            211                                      112222222 555666777777888888887776 4445


Q ss_pred             cHHHHHHHHHHh-cCChhHHHHHHhccCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCC-CCHhHHHHH------
Q 005476          157 LVTNTLIHLYAN-CGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVK-FDEVTLINV------  228 (695)
Q Consensus       157 ~~~~~Li~~y~~-~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-pd~~t~~~l------  228 (695)
                      .....|..+|.. .++ ++|..+++.....+...+..+...|.+.|+.++|..+++++...-.. |+..++..+      
T Consensus       217 ~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~  295 (987)
T PRK09782        217 AERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSA  295 (987)
T ss_pred             HHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccC
Confidence            556666667776 355 77777766544457778889999999999999999999887643221 222221111      


Q ss_pred             ------------------------HHHHhcc-------------------------------------------------
Q 005476          229 ------------------------LMACGRL-------------------------------------------------  235 (695)
Q Consensus       229 ------------------------l~a~~~~-------------------------------------------------  235 (695)
                                              +..+.+.                                                 
T Consensus       296 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~  375 (987)
T PRK09782        296 NPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRLARLLYQQEPAN  375 (987)
T ss_pred             chhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCCC
Confidence                                    1111112                                                 


Q ss_pred             --------------CChhHHHHHHHHHHHh-C-CCCchHHHHHHHHHHHhcCC---HHHHHHH-----------------
Q 005476          236 --------------ADIELGGWISEYMEEK-E-LNGNVKLMTAVVDMYAKCGH---VDKARRL-----------------  279 (695)
Q Consensus       236 --------------~~~~~a~~~~~~~~~~-g-~~~~~~~~~~li~~~~~~g~---~~~A~~~-----------------  279 (695)
                                    |+.++|.+++...... + -..+....+-|+..|.+.+.   ..++..+                 
T Consensus       376 ~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  455 (987)
T PRK09782        376 LTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLP  455 (987)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhh
Confidence                          2222223333222221 0 11123344456666666655   2222222                 


Q ss_pred             --------HHhcC---CC--ChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHH
Q 005476          280 --------FEQMN---IK--DVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVH  346 (695)
Q Consensus       280 --------f~~m~---~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~  346 (695)
                              +....   ..  +...|..+..++.. ++.++|+..|.+....  .|+......+..++...|++++|...+
T Consensus       456 ~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~  532 (987)
T PRK09782        456 GIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAW  532 (987)
T ss_pred             hhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHH
Confidence                    11111   11  44566777777766 7888899988777765  477655444555567899999999999


Q ss_pred             HHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCCChhHHHHH---HHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 005476          347 LYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVL---IQCLASNGQGERALETYYIMREKNIEPN  423 (695)
Q Consensus       347 ~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~l---i~~~~~~g~~~~A~~l~~~m~~~g~~p~  423 (695)
                      +.+...  +|+...+..+...+.+.|++++|...|++....++..++..   .......|++++|+..|++..+  +.|+
T Consensus       533 rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~--l~P~  608 (987)
T PRK09782        533 QKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLN--IAPS  608 (987)
T ss_pred             HHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHH--hCCC
Confidence            987654  34444556677888999999999999988766443333333   2334455999999999999998  7788


Q ss_pred             HHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHH
Q 005476          424 DVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEP-RMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLA  500 (695)
Q Consensus       424 ~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~  500 (695)
                      ...+..+..++.+.|+.++|...++....   +.| +...++.+...+...|++++|++.+++. ...| +...+..+..
T Consensus       609 ~~a~~~LA~~l~~lG~~deA~~~l~~AL~---l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~  685 (987)
T PRK09782        609 ANAYVARATIYRQRHNVPAAVSDLRAALE---LEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAY  685 (987)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            78899999999999999999999999874   455 5778889999999999999999999986 4455 5778999999


Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCCCc
Q 005476          501 ACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIK  558 (695)
Q Consensus       501 a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  558 (695)
                      ++...|++++|+..++++++++|++..+....+++..+..+++.|.+-+++....++.
T Consensus       686 al~~lGd~~eA~~~l~~Al~l~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~~~~  743 (987)
T PRK09782        686 VNQRLDDMAATQHYARLVIDDIDNQALITPLTPEQNQQRFNFRRLHEEVGRRWTFSFD  743 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhhcCcc
Confidence            9999999999999999999999999999999999999999999999988887665543

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=99.85  E-value=5.7e-18  Score=188.62  Aligned_cols=250  Identities=12%  Similarity=0.074  Sum_probs=188.6

Q ss_pred             cCCHHHHHHHHHHhHHCC-CCCC-HHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHH
Q 005476          301 ARRCKEALGVFHDMQMAN-VVPN-EVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAV  378 (695)
Q Consensus       301 ~g~~~~A~~~~~~m~~~g-~~pd-~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~  378 (695)
                      .+++++|++.|++....+ ..|+ ...+..+...+...|++++|...+..+++.. +.....+..+...|...|++++|.
T Consensus       307 ~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~  385 (615)
T TIGR00990       307 DESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAE  385 (615)
T ss_pred             hhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHH
Confidence            356777777777776654 2232 3345555556666777777777777776653 223446666777777888888888


Q ss_pred             HHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhccccHHHHHHHHHHchhhc
Q 005476          379 EVFKKMPL---KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPND-VAFIAVLSACSHVGMVDEGRELFVSMSRDF  454 (695)
Q Consensus       379 ~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  454 (695)
                      ..|++...   .+...|..+...+...|++++|+..|++..+  +.|+. ..+..+...+.+.|++++|...|+...+. 
T Consensus       386 ~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~--l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~-  462 (615)
T TIGR00990       386 EDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSID--LDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN-  462 (615)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--cCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-
Confidence            88876543   3567888888899999999999999999988  56764 46777888889999999999999998752 


Q ss_pred             CCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCH-h-------hHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC
Q 005476          455 DLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPNP-V-------IWRTLLAACRAHKNVKVGEESLKNLVTLEPMH  525 (695)
Q Consensus       455 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-~-------~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~  525 (695)
                       .+.+...++.+..++...|++++|.+.|++. ...|+. .       .++..+..+...|++++|+..++++++++|++
T Consensus       463 -~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~  541 (615)
T TIGR00990       463 -FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPEC  541 (615)
T ss_pred             -CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCc
Confidence             3335778889999999999999999999885 333321 1       12222223445699999999999999999999


Q ss_pred             cccHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 005476          526 SGDYILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       526 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      ...+..++.+|...|++++|.+.+++..+.
T Consensus       542 ~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       542 DIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            888999999999999999999999998764

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.83  E-value=1.8e-18  Score=182.87  Aligned_cols=288  Identities=15%  Similarity=0.166  Sum_probs=184.1

Q ss_pred             HhcCCHHHHHHHHHhcCCC---ChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCC---HHHHHHHHHHHhccCChhH
Q 005476          268 AKCGHVDKARRLFEQMNIK---DVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPN---EVTMVSVLSCCAVLGALET  341 (695)
Q Consensus       268 ~~~g~~~~A~~~f~~m~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd---~~t~~~ll~a~~~~~~~~~  341 (695)
                      ...|++++|...|.++...   +..+|..+...+...|++++|+.+++.+...+..++   ..++..+...+...|+++.
T Consensus        46 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~  125 (389)
T PRK11788         46 LLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDR  125 (389)
T ss_pred             HhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHH
Confidence            3344444444444444321   223344444444444444444444444443221111   1233334444444444444


Q ss_pred             HHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCCC--------hhHHHHHHHHHHhcCChHHHHHHHH
Q 005476          342 GKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKN--------VFFWTVLIQCLASNGQGERALETYY  413 (695)
Q Consensus       342 a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~--------~~~~~~li~~~~~~g~~~~A~~l~~  413 (695)
                      |..++..+.+.. +.+..+++.++.+|.+.|++++|.+.|+.+...+        ...|..+...+.+.|++++|+..|+
T Consensus       126 A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~  204 (389)
T PRK11788        126 AEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLK  204 (389)
T ss_pred             HHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            444444444331 2233444455555555555555555555543211        1134556677788889999999999


Q ss_pred             HHHHCCCCCC-HHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCC--hhHHHHHHHHHhhcCCHHHHHHHHHhC-CCC
Q 005476          414 IMREKNIEPN-DVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPR--MEHYGCMVDILGRAGLVEEAYQFIKNM-PIP  489 (695)
Q Consensus       414 ~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~  489 (695)
                      ++.+  ..|+ ...+..+...+.+.|++++|.++|+++...   .|+  ...++.++.+|.+.|++++|...++++ ...
T Consensus       205 ~al~--~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~---~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~  279 (389)
T PRK11788        205 KALA--ADPQCVRASILLGDLALAQGDYAAAIEALERVEEQ---DPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY  279 (389)
T ss_pred             HHHh--HCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH---ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            8887  3455 346777778888899999999999888642   343  456788889999999999999999886 446


Q ss_pred             CCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHH---cCCHHHHHHHHHHHHhCCCccCCc
Q 005476          490 PNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYAS---AGRCEDALRVMNQMREQGIKKTPG  562 (695)
Q Consensus       490 p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~---~g~~~~a~~~~~~m~~~~~~~~~~  562 (695)
                      |+...+..+...+.+.|++++|...++++++..|++. .+..+...+..   .|+.+++..++++|.+++++++|.
T Consensus       280 p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~-~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        280 PGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLR-GFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHH-HHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            7777778888889999999999999999999998765 55555555543   568999999999999999888885

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.83  E-value=2.3e-18  Score=182.05  Aligned_cols=300  Identities=15%  Similarity=0.134  Sum_probs=187.6

Q ss_pred             HHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCC---ccHHHHHHHHHHh
Q 005476           92 MIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCR---QLVTNTLIHLYAN  168 (695)
Q Consensus        92 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~---~~~~~~Li~~y~~  168 (695)
                      ....+...|++++|+..|+++.+.+. .+..++..+...+...|++++|..+++.+++.+..++   ..++..|...|.+
T Consensus        41 ~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~  119 (389)
T PRK11788         41 KGLNFLLNEQPDKAIDLFIEMLKVDP-ETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLK  119 (389)
T ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence            34456677888888888888887532 2445777777888888888888888888876532111   2456677777777


Q ss_pred             cCChhHHHHHHhccCC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHH
Q 005476          169 CGRIDIARKMFDRMSN---RDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWIS  245 (695)
Q Consensus       169 ~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~  245 (695)
                      .|++++|..+|+++.+   .+..+++.++..+.+.|++++|++.++.+.+.+..++...                     
T Consensus       120 ~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---------------------  178 (389)
T PRK11788        120 AGLLDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVE---------------------  178 (389)
T ss_pred             CCCHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHH---------------------
Confidence            7888888777777754   3455677777777777777777777777766432221100                     


Q ss_pred             HHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCC
Q 005476          246 EYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNI---KDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPN  322 (695)
Q Consensus       246 ~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd  322 (695)
                                ....+..+...+.+.|++++|...|+++.+   .+..++..+...|.+.|++++|+++|+++...+....
T Consensus       179 ----------~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~  248 (389)
T PRK11788        179 ----------IAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYL  248 (389)
T ss_pred             ----------HHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhH
Confidence                      011234455556666666666666666542   2344666666777777777777777777765432112


Q ss_pred             HHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCC--CChhHHHHHHHHHH
Q 005476          323 EVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPL--KNVFFWTVLIQCLA  400 (695)
Q Consensus       323 ~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~  400 (695)
                      ..++..+..++...|+.++|...+..+.+..  |+...+..++..|.+.|++++|.++|+++.+  |+...++.++..+.
T Consensus       249 ~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~~  326 (389)
T PRK11788        249 SEVLPKLMECYQALGDEAEGLEFLRRALEEY--PGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYHL  326 (389)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHhh
Confidence            3445556666666666666666666665543  3333445566666666666666666665433  55556666665554


Q ss_pred             h---cCChHHHHHHHHHHHHCCCCCCHH
Q 005476          401 S---NGQGERALETYYIMREKNIEPNDV  425 (695)
Q Consensus       401 ~---~g~~~~A~~l~~~m~~~g~~p~~~  425 (695)
                      .   .|+.++++.+|++|.+.+++|++.
T Consensus       327 ~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        327 AEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             hccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            3   446667777777776666555544

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.81  E-value=3.2e-16  Score=177.81  Aligned_cols=395  Identities=10%  Similarity=-0.016  Sum_probs=177.3

Q ss_pred             HHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCC---CCeehHHHHHHHHHhCCChh
Q 005476          128 LKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSN---RDVFSWNSMFSGYVKTECWR  204 (695)
Q Consensus       128 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~  204 (695)
                      +......|+.++|.+++....... +.+...+..+...+.+.|++++|..+|++..+   .+...+..+...+...|+++
T Consensus        22 ~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~~  100 (765)
T PRK10049         22 LQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQYD  100 (765)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHH
Confidence            333444455555555544444321 22333344455555555555555555554321   12333444444555555555


Q ss_pred             HHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 005476          205 EIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMN  284 (695)
Q Consensus       205 ~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~  284 (695)
                      +|+..+++..+.  .|+...+..+..++...|+.+.|...++.+.+.. +.+..++..+..++...|..+.|++.++...
T Consensus       101 eA~~~l~~~l~~--~P~~~~~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~  177 (765)
T PRK10049        101 EALVKAKQLVSG--APDKANLLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDAN  177 (765)
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhCC
Confidence            555555555443  2222114444444455555555555555555542 2244445556666666677777777776655


Q ss_pred             CCChh--------HHHHHHHHH-----HhcCCH---HHHHHHHHHhHHC-CCCCCHH-HHH----HHHHHHhccCChhHH
Q 005476          285 IKDVV--------AWSAMISGY-----SQARRC---KEALGVFHDMQMA-NVVPNEV-TMV----SVLSCCAVLGALETG  342 (695)
Q Consensus       285 ~~~~~--------~~~~li~~~-----~~~g~~---~~A~~~~~~m~~~-g~~pd~~-t~~----~ll~a~~~~~~~~~a  342 (695)
                      . +..        ....++...     ...+++   ++|++.++.+... ...|+.. .+.    ..+.++...++.++|
T Consensus       178 ~-~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA  256 (765)
T PRK10049        178 L-TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDV  256 (765)
T ss_pred             C-CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHH
Confidence            4 111        111111111     112223   5667777776643 1222221 111    112233444556666


Q ss_pred             HHHHHHHHHhCCC-CchHHHhHHhcchhhcCCHHHHHHHHhcCCCCC-------hhHHHHHHHHHHhcCChHHHHHHHHH
Q 005476          343 KWVHLYVKKKRME-LTITLGTALMDFYAKCGLIENAVEVFKKMPLKN-------VFFWTVLIQCLASNGQGERALETYYI  414 (695)
Q Consensus       343 ~~i~~~~~~~~~~-~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~-------~~~~~~li~~~~~~g~~~~A~~l~~~  414 (695)
                      ...++.+.+.+.+ |+- ....+...|...|++++|+..|+++...+       ...+..+..++.+.|++++|++++++
T Consensus       257 ~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~  335 (765)
T PRK10049        257 ISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAH  335 (765)
T ss_pred             HHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            6666665554421 111 11113445555555555555555543211       11233344445555555555555555


Q ss_pred             HHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHHHHchhhcCCCCC---hhHHHHHHHHHhhcCCHHHHHHHHHhC-CCC
Q 005476          415 MREKNIEPNDV-AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPR---MEHYGCMVDILGRAGLVEEAYQFIKNM-PIP  489 (695)
Q Consensus       415 m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~  489 (695)
                      +...  .|... .+.                     .   ..-.|+   ...+..+...+...|++++|++.++++ ...
T Consensus       336 ~~~~--~P~~~~~~~---------------------~---~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~  389 (765)
T PRK10049        336 TINN--SPPFLRLYG---------------------S---PTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA  389 (765)
T ss_pred             Hhhc--CCceEeecC---------------------C---CCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            5542  11100 000                     0   000111   112334444445555555555555543 112


Q ss_pred             C-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          490 P-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       490 p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      | +...+..+...+...|++++|++.++++++++|++...+..++..+...|+|++|..+++.+.+
T Consensus       390 P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~  455 (765)
T PRK10049        390 PGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVA  455 (765)
T ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            2 3344444455555555555555555555555555555555555555555555555555555443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.81  E-value=2.9e-16  Score=174.40  Aligned_cols=366  Identities=9%  Similarity=-0.004  Sum_probs=271.4

Q ss_pred             hcCChhHHHHHHhccCC------CCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHH
Q 005476          168 NCGRIDIARKMFDRMSN------RDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELG  241 (695)
Q Consensus       168 ~~g~~~~A~~~f~~m~~------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a  241 (695)
                      +..+++.-.-.|...++      .+......++..+.+.|++++|+.+++........+... +..++.+....|+++.|
T Consensus        17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~-l~~l~~~~l~~g~~~~A   95 (656)
T PRK15174         17 KQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKNGRDL-LRRWVISPLASSQPDAV   95 (656)
T ss_pred             hhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCchhH-HHHHhhhHhhcCCHHHH
Confidence            44555555555555543      123334456677788888889988888887764443333 33444555668888888


Q ss_pred             HHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCC
Q 005476          242 GWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNI---KDVVAWSAMISGYSQARRCKEALGVFHDMQMAN  318 (695)
Q Consensus       242 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  318 (695)
                      ...++.+.+.. +.+...+..+...+...|++++|...|++...   .+...|..+...+.+.|++++|...++++....
T Consensus        96 ~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~  174 (656)
T PRK15174         96 LQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEV  174 (656)
T ss_pred             HHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC
Confidence            88888888774 44667788888889999999999999988753   356788888889999999999999998887653


Q ss_pred             CCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCC---CChhHHHHH
Q 005476          319 VVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPL---KNVFFWTVL  395 (695)
Q Consensus       319 ~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~l  395 (695)
                        |+.......+..+...|++++|...+..+.+....++......+...+.+.|++++|...|++...   .+...+..+
T Consensus       175 --P~~~~a~~~~~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~L  252 (656)
T PRK15174        175 --PPRGDMIATCLSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSL  252 (656)
T ss_pred             --CCCHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence              332222222334677899999999888887765444444555566788889999999999988754   356778888


Q ss_pred             HHHHHhcCChHH----HHHHHHHHHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHHHHchhhcCCCC-ChhHHHHHHHH
Q 005476          396 IQCLASNGQGER----ALETYYIMREKNIEPNDV-AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEP-RMEHYGCMVDI  469 (695)
Q Consensus       396 i~~~~~~g~~~~----A~~l~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~  469 (695)
                      ...|.+.|++++    |+..|++..+  +.|+.. .+..+...+...|++++|...++...+   ..| +...+..+...
T Consensus       253 g~~l~~~G~~~eA~~~A~~~~~~Al~--l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~---l~P~~~~a~~~La~~  327 (656)
T PRK15174        253 GLAYYQSGRSREAKLQAAEHWRHALQ--FNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLA---THPDLPYVRAMYARA  327 (656)
T ss_pred             HHHHHHcCCchhhHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHH
Confidence            899999999886    8999999988  667654 788888999999999999999999875   345 45667788999


Q ss_pred             HhhcCCHHHHHHHHHhC-CCCCCHhhHH-HHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHH
Q 005476          470 LGRAGLVEEAYQFIKNM-PIPPNPVIWR-TLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALR  547 (695)
Q Consensus       470 ~~~~g~~~~A~~~~~~m-~~~p~~~~~~-~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  547 (695)
                      |.+.|++++|.+.++++ ...|+...+. .+..++...|+.++|...++++++..|++.            ...+++|..
T Consensus       328 l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~------------~~~~~ea~~  395 (656)
T PRK15174        328 LRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHL------------PQSFEEGLL  395 (656)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhc------------hhhHHHHHH
Confidence            99999999999999887 3456654443 356678899999999999999999998764            234455555


Q ss_pred             HHHHHHh
Q 005476          548 VMNQMRE  554 (695)
Q Consensus       548 ~~~~m~~  554 (695)
                      .+....+
T Consensus       396 ~~~~~~~  402 (656)
T PRK15174        396 ALDGQIS  402 (656)
T ss_pred             HHHHHHH
Confidence            5555554

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.80  E-value=8.8e-16  Score=174.25  Aligned_cols=372  Identities=11%  Similarity=0.088  Sum_probs=253.6

Q ss_pred             CCCccHHHHHHHHHHhcCChhHHHHHHhccCC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCC-HhHHHHH
Q 005476          153 GCRQLVTNTLIHLYANCGRIDIARKMFDRMSN---RDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFD-EVTLINV  228 (695)
Q Consensus       153 ~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~l  228 (695)
                      +.+.....-.+......|+.++|+.++.+...   .+...+..+...+...|++++|..+|++....  .|+ ...+..+
T Consensus        12 ~~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~l   89 (765)
T PRK10049         12 ALSNNQIADWLQIALWAGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSL--EPQNDDYQRGL   89 (765)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            44555666677778888999999999988764   23335888888899999999999999998764  343 4456667


Q ss_pred             HHHHhccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHH
Q 005476          229 LMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNI---KDVVAWSAMISGYSQARRCK  305 (695)
Q Consensus       229 l~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~  305 (695)
                      ...+...|+.++|...++.+++.. +.+.. +..+..++...|+.++|+..++++..   .+...+..+...+...|..+
T Consensus        90 a~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e  167 (765)
T PRK10049         90 ILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSA  167 (765)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChH
Confidence            777788899999999888888773 44555 88888888888999999988888753   25556667777888888888


Q ss_pred             HHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCH---HHHHHHHh
Q 005476          306 EALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLI---ENAVEVFK  382 (695)
Q Consensus       306 ~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~---~~A~~~~~  382 (695)
                      +|++.+++...   .|+....   +..       ..+    ....+          ..+...+...+++   ++|.+.++
T Consensus       168 ~Al~~l~~~~~---~p~~~~~---l~~-------~~~----~~~~r----------~~~~~~~~~~~r~~~ad~Al~~~~  220 (765)
T PRK10049        168 PALGAIDDANL---TPAEKRD---LEA-------DAA----AELVR----------LSFMPTRSEKERYAIADRALAQYD  220 (765)
T ss_pred             HHHHHHHhCCC---CHHHHHH---HHH-------HHH----HHHHH----------hhcccccChhHHHHHHHHHHHHHH
Confidence            88888876553   3431000   000       000    00000          0011111222233   45555555


Q ss_pred             cCCC-----CChh-H----HHHHHHHHHhcCChHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHhccccHHHHHHHHHHch
Q 005476          383 KMPL-----KNVF-F----WTVLIQCLASNGQGERALETYYIMREKNIE-PNDVAFIAVLSACSHVGMVDEGRELFVSMS  451 (695)
Q Consensus       383 ~~~~-----~~~~-~----~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  451 (695)
                      .+..     |+.. .    ....+..+...|++++|+..|+++.+.+-+ |+..- ..+..++...|++++|...|+.+.
T Consensus       221 ~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~-~~la~~yl~~g~~e~A~~~l~~~l  299 (765)
T PRK10049        221 ALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQ-RWVASAYLKLHQPEKAQSILTELF  299 (765)
T ss_pred             HHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHH-HHHHHHHHhcCCcHHHHHHHHHHh
Confidence            4431     1111 1    111133445678888888888888876532 43322 224567888888999998888876


Q ss_pred             hhcCCCC--ChhHHHHHHHHHhhcCCHHHHHHHHHhCC-CC-------------CC---HhhHHHHHHHHHhcCChhHHH
Q 005476          452 RDFDLEP--RMEHYGCMVDILGRAGLVEEAYQFIKNMP-IP-------------PN---PVIWRTLLAACRAHKNVKVGE  512 (695)
Q Consensus       452 ~~~~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~-------------p~---~~~~~~ll~a~~~~g~~~~a~  512 (695)
                      +.....+  .......|..++.+.|++++|.++++++. ..             |+   ...+..+...+...|++++|+
T Consensus       300 ~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~  379 (765)
T PRK10049        300 YHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAE  379 (765)
T ss_pred             hcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHH
Confidence            4211111  13456667777888899999988888762 22             23   123455667788999999999


Q ss_pred             HHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 005476          513 ESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       513 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      +.++++++..|.++..+..++.++...|+.++|++.+++..+..
T Consensus       380 ~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~  423 (765)
T PRK10049        380 MRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLE  423 (765)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC
Confidence            99999999999999999999999999999999999999988754

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=99.78  E-value=3.4e-15  Score=166.41  Aligned_cols=438  Identities=13%  Similarity=-0.003  Sum_probs=295.6

Q ss_pred             hHHHHHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHH
Q 005476           88 AYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYA  167 (695)
Q Consensus        88 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~  167 (695)
                      .+......+.+.|++++|+..|++..+  ..|+...|..+..++...|++++|.+.+...++.. +.+...+..+..+|.
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~--~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~  205 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIE--CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHH
Confidence            456677788899999999999999887  56777888888889999999999999999988874 445678888999999


Q ss_pred             hcCChhHHHHHHhccCCCC---eehHHHHHHHHHhCCChhHHHHHHHHHHHcC--CCCCHhHHHHHHHHHhccCChhHHH
Q 005476          168 NCGRIDIARKMFDRMSNRD---VFSWNSMFSGYVKTECWREIVDLFNEMRDLG--VKFDEVTLINVLMACGRLADIELGG  242 (695)
Q Consensus       168 ~~g~~~~A~~~f~~m~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~pd~~t~~~ll~a~~~~~~~~~a~  242 (695)
                      ..|++++|..-|......+   ......++.-+..    ..+........+..  ..|........+...    ......
T Consensus       206 ~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~----~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~----~~~~~~  277 (615)
T TIGR00990       206 GLGKYADALLDLTASCIIDGFRNEQSAQAVERLLK----KFAESKAKEILETKPENLPSVTFVGNYLQSF----RPKPRP  277 (615)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHH----HHHHHHHHHHHhcCCCCCCCHHHHHHHHHHc----cCCcch
Confidence            9999999988776543211   1111122221111    22223233332221  111111111222111    111111


Q ss_pred             HHHHHHHHhCCCCc-hHHHHHHHHH---HHhcCCHHHHHHHHHhcCCC------ChhHHHHHHHHHHhcCCHHHHHHHHH
Q 005476          243 WISEYMEEKELNGN-VKLMTAVVDM---YAKCGHVDKARRLFEQMNIK------DVVAWSAMISGYSQARRCKEALGVFH  312 (695)
Q Consensus       243 ~~~~~~~~~g~~~~-~~~~~~li~~---~~~~g~~~~A~~~f~~m~~~------~~~~~~~li~~~~~~g~~~~A~~~~~  312 (695)
                      .-+....+  ..+. ...+..+...   ....+++++|.+.|+.....      +...|+.+...+...|++++|+..|+
T Consensus       278 ~~~~~~~~--~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~  355 (615)
T TIGR00990       278 AGLEDSNE--LDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLS  355 (615)
T ss_pred             hhhhcccc--cccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            11111111  1111 0111111111   12346788888888876532      44578888888888999999999998


Q ss_pred             HhHHCCCCCC-HHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCC---CC
Q 005476          313 DMQMANVVPN-EVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPL---KN  388 (695)
Q Consensus       313 ~m~~~g~~pd-~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~  388 (695)
                      +....  .|+ ...|..+...+...|++++|...+..+++.. +.+..++..+...|...|++++|...|++...   .+
T Consensus       356 kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~  432 (615)
T TIGR00990       356 KSIEL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDF  432 (615)
T ss_pred             HHHHc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccC
Confidence            88765  454 4577777778888899999999998888764 44567888888899999999999999988754   35


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCC--h-----
Q 005476          389 VFFWTVLIQCLASNGQGERALETYYIMREKNIEPN-DVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPR--M-----  460 (695)
Q Consensus       389 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~--~-----  460 (695)
                      ...|..+...+.+.|++++|+..|++...  ..|+ ...+..+...+...|++++|.+.|+....   +.|+  .     
T Consensus       433 ~~~~~~la~~~~~~g~~~eA~~~~~~al~--~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~---l~p~~~~~~~~~  507 (615)
T TIGR00990       433 IFSHIQLGVTQYKEGSIASSMATFRRCKK--NFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIE---LEKETKPMYMNV  507 (615)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHh---cCCccccccccH
Confidence            66778888889999999999999999887  4565 45788888899999999999999998764   2332  1     


Q ss_pred             -hHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHH
Q 005476          461 -EHYGCMVDILGRAGLVEEAYQFIKNM-PIPPN-PVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYA  537 (695)
Q Consensus       461 -~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  537 (695)
                       ..++.....+...|++++|.+++++. ...|+ ...+..+...+.+.|++++|...+++++++.+....        ..
T Consensus       508 ~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~~~~e--------~~  579 (615)
T TIGR00990       508 LPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAELARTEGE--------LV  579 (615)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhccHHH--------HH
Confidence             12233333455579999999999885 45564 457888999999999999999999999998765332        12


Q ss_pred             HcCCHHHHHHHHHHHHh
Q 005476          538 SAGRCEDALRVMNQMRE  554 (695)
Q Consensus       538 ~~g~~~~a~~~~~~m~~  554 (695)
                      ....+.+|.++.....+
T Consensus       580 ~a~~~~~a~~~~~~~~~  596 (615)
T TIGR00990       580 QAISYAEATRTQIQVQE  596 (615)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            23345556665544443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.78  E-value=1.1e-15  Score=169.85  Aligned_cols=349  Identities=12%  Similarity=0.055  Sum_probs=275.3

Q ss_pred             HhCCChhHHHHHHHHHHHc--CCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHH
Q 005476          198 VKTECWREIVDLFNEMRDL--GVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDK  275 (695)
Q Consensus       198 ~~~g~~~~A~~~~~~m~~~--g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  275 (695)
                      .+..+|+.-.-+|..-.+.  .-.-+..-...++..+.+.|+++.|..++..++..... +......++......|++++
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~   94 (656)
T PRK15174         16 LKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDA   94 (656)
T ss_pred             hhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHH
Confidence            3455555544444443221  11123334666788888999999999999999887533 45556666677788999999


Q ss_pred             HHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCC-HHHHHHHHHHHhccCChhHHHHHHHHHHH
Q 005476          276 ARRLFEQMNI---KDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPN-EVTMVSVLSCCAVLGALETGKWVHLYVKK  351 (695)
Q Consensus       276 A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~ll~a~~~~~~~~~a~~i~~~~~~  351 (695)
                      |...|+++..   .+...|..+...+.+.|++++|+..|++....  .|+ ...+..+...+...|+.++|...+..+..
T Consensus        95 A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~  172 (656)
T PRK15174         95 VLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMDKELQAISLARTQAQ  172 (656)
T ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHH
Confidence            9999999863   35678899999999999999999999999875  454 55777888899999999999999998877


Q ss_pred             hCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCC----ChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHH
Q 005476          352 KRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLK----NVFFWTVLIQCLASNGQGERALETYYIMREKNIEPN-DVA  426 (695)
Q Consensus       352 ~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t  426 (695)
                      ....+.. .+..+. .+.+.|++++|...++.+...    +...+..+...+...|++++|+..|+++.+  ..|+ ...
T Consensus       173 ~~P~~~~-a~~~~~-~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~--~~p~~~~~  248 (656)
T PRK15174        173 EVPPRGD-MIATCL-SFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALA--RGLDGAAL  248 (656)
T ss_pred             hCCCCHH-HHHHHH-HHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCCHHH
Confidence            6544333 333333 478899999999999987543    233445556788899999999999999998  4565 447


Q ss_pred             HHHHHHHHhccccHHH----HHHHHHHchhhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHH
Q 005476          427 FIAVLSACSHVGMVDE----GRELFVSMSRDFDLEP-RMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLL  499 (695)
Q Consensus       427 ~~~ll~a~~~~g~~~~----a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll  499 (695)
                      +..+...+...|++++    |...|+.+.+   +.| +...+..+...+.+.|++++|...+++. ...| +...+..+.
T Consensus       249 ~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~---l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La  325 (656)
T PRK15174        249 RRSLGLAYYQSGRSREAKLQAAEHWRHALQ---FNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYA  325 (656)
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHHHHh---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            7788889999999986    8999998874   345 5778999999999999999999999886 3455 456778888


Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 005476          500 AACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       500 ~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      .++...|++++|...++++++.+|+++..+..++.++...|++++|...+++..+..
T Consensus       326 ~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~  382 (656)
T PRK15174        326 RALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQAR  382 (656)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            899999999999999999999999887767778889999999999999999988754

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.77  E-value=1.5e-14  Score=161.08  Aligned_cols=436  Identities=13%  Similarity=0.076  Sum_probs=271.6

Q ss_pred             HHccCCCCCHHHHHHHhccCCCCCcc---hHHHHHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChH
Q 005476           62 AAILIPATTMDYALSIFHKINEPDSS---AYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALE  138 (695)
Q Consensus        62 y~~~~~~g~~~~A~~~f~~~~~~~~~---~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~  138 (695)
                      ..+.   |+++.|+..|++..+.++.   ....++..+...|+.++|+..+++.... -.........+...+...|+++
T Consensus        44 ~~r~---Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd  119 (822)
T PRK14574         44 RARA---GDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWD  119 (822)
T ss_pred             HHhC---CCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHH
Confidence            3455   8888888888777542222   1236777777778888888888777621 1112222222344666778888


Q ss_pred             HHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCCCCeehHHHHHHHHHh--CCChhHHHHHHHHHHHc
Q 005476          139 EGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVK--TECWREIVDLFNEMRDL  216 (695)
Q Consensus       139 ~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~--~g~~~~A~~~~~~m~~~  216 (695)
                      .|.++++.+++.. +.++.++..|+..|...++.++|+..++++...+......+..+|..  .++..+|++.++++.+.
T Consensus       120 ~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~  198 (822)
T PRK14574        120 QALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRL  198 (822)
T ss_pred             HHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHh
Confidence            8888888887765 44566666777777788888888888877765333322223334333  45555577777777765


Q ss_pred             CCCCC-HhHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHH
Q 005476          217 GVKFD-EVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMI  295 (695)
Q Consensus       217 g~~pd-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li  295 (695)
                        .|+ ...+..+..+..+.|-...|.++...-      |+.++-......     +.+.|.+..+.-..+.        
T Consensus       199 --~P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~------p~~f~~~~~~~l-----~~~~~a~~vr~a~~~~--------  257 (822)
T PRK14574        199 --APTSEEVLKNHLEILQRNRIVEPALRLAKEN------PNLVSAEHYRQL-----ERDAAAEQVRMAVLPT--------  257 (822)
T ss_pred             --CCCCHHHHHHHHHHHHHcCCcHHHHHHHHhC------ccccCHHHHHHH-----HHHHHHHHHhhccccc--------
Confidence              343 333455555666666555555444331      111111100000     0111111111110000        


Q ss_pred             HHHHhcCC---HHHHHHHHHHhHHC-CCCCCH-H----HHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhc
Q 005476          296 SGYSQARR---CKEALGVFHDMQMA-NVVPNE-V----TMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMD  366 (695)
Q Consensus       296 ~~~~~~g~---~~~A~~~~~~m~~~-g~~pd~-~----t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~  366 (695)
                        -....+   .+.|+.-++.+... +-.|.. .    ...--+-++...++..++...++.+...+.+....+-.++.+
T Consensus       258 --~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~ad  335 (822)
T PRK14574        258 --RSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAAS  335 (822)
T ss_pred             --ccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHH
Confidence              001111   24455555554431 112321 1    122334566777888888888888888777666677788888


Q ss_pred             chhhcCCHHHHHHHHhcCCCC---------ChhHHHHHHHHHHhcCChHHHHHHHHHHHHCC-------------CCCCH
Q 005476          367 FYAKCGLIENAVEVFKKMPLK---------NVFFWTVLIQCLASNGQGERALETYYIMREKN-------------IEPND  424 (695)
Q Consensus       367 ~y~~~g~~~~A~~~~~~~~~~---------~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g-------------~~p~~  424 (695)
                      +|...+++++|..+|.++...         +......|.-+|...+++++|..+++++.+.-             ..||-
T Consensus       336 ayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~  415 (822)
T PRK14574        336 AYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDW  415 (822)
T ss_pred             HHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccH
Confidence            888888888888888876431         22234667888888999999999999888731             12333


Q ss_pred             H-HHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HhhHHHHHHH
Q 005476          425 V-AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPN-PVIWRTLLAA  501 (695)
Q Consensus       425 ~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~a  501 (695)
                      . .+..+...+...|++.+|++.++.+..  .-+-|......+.+++...|++.+|++.++.. ...|+ ..+......+
T Consensus       416 ~~~~~l~a~~~~~~gdl~~Ae~~le~l~~--~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~  493 (822)
T PRK14574        416 IEGQTLLVQSLVALNDLPTAQKKLEDLSS--TAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAET  493 (822)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHH
Confidence            3 334456667888999999999999864  34447888889999999999999999999775 34564 4566677777


Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCcc
Q 005476          502 CRAHKNVKVGEESLKNLVTLEPMHSG  527 (695)
Q Consensus       502 ~~~~g~~~~a~~~~~~~~~~~p~~~~  527 (695)
                      ....+++++|..+.+.+++..|+++.
T Consensus       494 al~l~e~~~A~~~~~~l~~~~Pe~~~  519 (822)
T PRK14574        494 AMALQEWHQMELLTDDVISRSPEDIP  519 (822)
T ss_pred             HHhhhhHHHHHHHHHHHHhhCCCchh
Confidence            88889999999999999999998874

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.76  E-value=2.4e-14  Score=159.43  Aligned_cols=430  Identities=9%  Similarity=-0.010  Sum_probs=288.2

Q ss_pred             HHcCCCchHHHHHHHHHHhCCCCCCh--hhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHH--HHHHHhcCC
Q 005476           96 FTLKQSPQEAVMLYKTMLQNSVEPDR--FTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTL--IHLYANCGR  171 (695)
Q Consensus        96 ~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~L--i~~y~~~g~  171 (695)
                      ..++|+++.|++.|++..+.  .|+.  ..+ .++..+...|+.++|...++....   +.+...+..+  ...|...|+
T Consensus        44 ~~r~Gd~~~Al~~L~qaL~~--~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~---p~n~~~~~llalA~ly~~~gd  117 (822)
T PRK14574         44 RARAGDTAPVLDYLQEESKA--GPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQS---SMNISSRGLASAARAYRNEKR  117 (822)
T ss_pred             HHhCCCHHHHHHHHHHHHhh--CccchhhHH-HHHHHHHHcCCcHHHHHHHHHhcc---CCCCCHHHHHHHHHHHHHcCC
Confidence            45778888888888888774  3443  233 667777777888888888777761   1122333333  557777788


Q ss_pred             hhHHHHHHhccCC--C-CeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHH
Q 005476          172 IDIARKMFDRMSN--R-DVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYM  248 (695)
Q Consensus       172 ~~~A~~~f~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~  248 (695)
                      +++|..+|+++.+  | +...+..++..|.+.++.++|++.++++...  .|+...+..++..+...++...|.+.++.+
T Consensus       118 yd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekl  195 (822)
T PRK14574        118 WDQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEA  195 (822)
T ss_pred             HHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            8888888887765  2 3445566667777788888888888887664  455555544433343445554577777777


Q ss_pred             HHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCCC-ChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCH---H
Q 005476          249 EEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIK-DVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNE---V  324 (695)
Q Consensus       249 ~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~---~  324 (695)
                      .+.. +.+...+..++....+.|-...|.++..+-+.- +...+.- +       +.+.|.+.    ++.+..|+.   .
T Consensus       196 l~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~-l-------~~~~~a~~----vr~a~~~~~~~~~  262 (822)
T PRK14574        196 VRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQ-L-------ERDAAAEQ----VRMAVLPTRSETE  262 (822)
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHH-H-------HHHHHHHH----Hhhcccccccchh
Confidence            7764 445666777777777777777777766654421 1111100 0       01111111    111111110   0


Q ss_pred             HHHHHHHHHhccCChhHHHHHHHHHHHh-CC-CCc-hHHHhHH---hcchhhcCCHHHHHHHHhcCCCC----ChhHHHH
Q 005476          325 TMVSVLSCCAVLGALETGKWVHLYVKKK-RM-ELT-ITLGTAL---MDFYAKCGLIENAVEVFKKMPLK----NVFFWTV  394 (695)
Q Consensus       325 t~~~ll~a~~~~~~~~~a~~i~~~~~~~-~~-~~~-~~~~~~l---i~~y~~~g~~~~A~~~~~~~~~~----~~~~~~~  394 (695)
                      -|.          -.+.+..-++.+... +- ++. .....+.   +-++.+.|++.++.+.|+.+...    ...+-.+
T Consensus       263 r~~----------~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a  332 (822)
T PRK14574        263 RFD----------IADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRW  332 (822)
T ss_pred             hHH----------HHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHH
Confidence            111          123344444444431 11 221 1112233   34567889999999999999853    3345667


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCC-----CCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcC----------CCCC
Q 005476          395 LIQCLASNGQGERALETYYIMREKN-----IEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFD----------LEPR  459 (695)
Q Consensus       395 li~~~~~~g~~~~A~~l~~~m~~~g-----~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~----------~~p~  459 (695)
                      +.++|...+++++|+.+|+++....     ..++......|.-++...+++++|..+++.+.+...          -.|+
T Consensus       333 ~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn  412 (822)
T PRK14574        333 AASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPN  412 (822)
T ss_pred             HHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCC
Confidence            8899999999999999999997643     122333457889999999999999999999975211          0122


Q ss_pred             ---hhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHH
Q 005476          460 ---MEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSD  534 (695)
Q Consensus       460 ---~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  534 (695)
                         ...+..++..+...|++.+|++.++++ ...| |...+..+...+...|++..|++.++.+..++|++..+....+.
T Consensus       413 ~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~  492 (822)
T PRK14574        413 DDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAE  492 (822)
T ss_pred             ccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHH
Confidence               234556788899999999999999998 3344 78888999999999999999999999999999999999999999


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCC
Q 005476          535 IYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       535 ~~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      .+...|+|++|..+.+...+..
T Consensus       493 ~al~l~e~~~A~~~~~~l~~~~  514 (822)
T PRK14574        493 TAMALQEWHQMELLTDDVISRS  514 (822)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhC
Confidence            9999999999999998887653

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=99.74  E-value=7.7e-14  Score=148.43  Aligned_cols=497  Identities=12%  Similarity=0.037  Sum_probs=320.5

Q ss_pred             cCCCCchhHHHHHHHHHccCCCCCHHHHHHHhccCCCCCcchHHHHHHH---HHc---CCCchHHHHHHHHHHhCCCCCC
Q 005476           47 RFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMIRA---FTL---KQSPQEAVMLYKTMLQNSVEPD  120 (695)
Q Consensus        47 g~~~~~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~---~~~---~g~~~~A~~~~~~m~~~g~~p~  120 (695)
                      ...+|+.+...  ..+.++   |+.+.|+..|.+..+-|+..-++++..   -..   ...+..++.++...-... .-|
T Consensus       196 ~~~aD~rIgig--~Cf~kl---~~~~~a~~a~~ralqLdp~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n-~~n  269 (1018)
T KOG2002|consen  196 ACKADVRIGIG--HCFWKL---GMSEKALLAFERALQLDPTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKEN-NEN  269 (1018)
T ss_pred             ccCCCccchhh--hHHHhc---cchhhHHHHHHHHHhcChhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhc-CCC
Confidence            33455544332  344566   777777777776655444333333321   111   123344555554444321 125


Q ss_pred             hhhHHHHHHHHhccCChHHHHHHHHHHHHhCCC--CCccHHHHHHHHHHhcCChhHHHHHHhccCC--CC--eehHHHHH
Q 005476          121 RFTFACTLKACSRIRALEEGEQIHAQILKSGFG--CRQLVTNTLIHLYANCGRIDIARKMFDRMSN--RD--VFSWNSMF  194 (695)
Q Consensus       121 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~--~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~--~~--~~~~~~li  194 (695)
                      +...+.|.+-+...|+++.+..+...++.....  .-...|--+..+|-..|++++|...|.+...  +|  +..+--+.
T Consensus       270 P~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~Glg  349 (1018)
T KOG2002|consen  270 PVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLG  349 (1018)
T ss_pred             cHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchh
Confidence            556666777777777777777777777665311  1123355667777777777777777766544  22  23344466


Q ss_pred             HHHHhCCChhHHHHHHHHHHHcCCCCC-HhHHHHHHHHHhccC----ChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHh
Q 005476          195 SGYVKTECWREIVDLFNEMRDLGVKFD-EVTLINVLMACGRLA----DIELGGWISEYMEEKELNGNVKLMTAVVDMYAK  269 (695)
Q Consensus       195 ~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~ll~a~~~~~----~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  269 (695)
                      ..|.+.|+.+.+...|+...+.  .|| ..|...+...|+..+    ..+.|..+.....+.- +.|...|-.+..+|-.
T Consensus       350 Qm~i~~~dle~s~~~fEkv~k~--~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~  426 (1018)
T KOG2002|consen  350 QMYIKRGDLEESKFCFEKVLKQ--LPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQ  426 (1018)
T ss_pred             HHHHHhchHHHHHHHHHHHHHh--CcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHh
Confidence            7777777777777777777664  343 344445555555443    3344555555554442 4466667666666654


Q ss_pred             cCCHHHHHHHHHhc--------CCCChhHHHHHHHHHHhcCCHHHHHHHHHHhHHC---CCCCCH-----H-HHHHHHHH
Q 005476          270 CGHVDKARRLFEQM--------NIKDVVAWSAMISGYSQARRCKEALGVFHDMQMA---NVVPNE-----V-TMVSVLSC  332 (695)
Q Consensus       270 ~g~~~~A~~~f~~m--------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---g~~pd~-----~-t~~~ll~a  332 (695)
                      ..-+.. +.+|...        ....+...|.+...+...|++++|...|.+....   ...+|.     . +--.+...
T Consensus       427 ~d~~~s-L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl  505 (1018)
T KOG2002|consen  427 TDPWAS-LDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARL  505 (1018)
T ss_pred             cChHHH-HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHH
Confidence            433222 3333322        2345667788888888899999999988887654   122333     1 22233445


Q ss_pred             HhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHH
Q 005476          333 CAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPL---KNVFFWTVLIQCLASNGQGERAL  409 (695)
Q Consensus       333 ~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~  409 (695)
                      ....++.+.|.+.|..+.+... .-+..|-.|.-+-...+...+|...++....   .|+..|+.+...+.....+..|.
T Consensus       506 ~E~l~~~~~A~e~Yk~Ilkehp-~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~  584 (1018)
T KOG2002|consen  506 LEELHDTEVAEEMYKSILKEHP-GYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAK  584 (1018)
T ss_pred             HHhhhhhhHHHHHHHHHHHHCc-hhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccc
Confidence            5667788889999988887641 1122222222222233566788888877653   57788888887888888888888


Q ss_pred             HHHHHHHHCC-CCCCHHHHHHHHHHHhc------------cccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCH
Q 005476          410 ETYYIMREKN-IEPNDVAFIAVLSACSH------------VGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLV  476 (695)
Q Consensus       410 ~l~~~m~~~g-~~p~~~t~~~ll~a~~~------------~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  476 (695)
                      +-|....+.- ..+|..+..+|.+.|..            .+..++|+++|.++++  ..+.|...-|.+.-.++..|++
T Consensus       585 k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~--~dpkN~yAANGIgiVLA~kg~~  662 (1018)
T KOG2002|consen  585 KKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLR--NDPKNMYAANGIGIVLAEKGRF  662 (1018)
T ss_pred             cHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHh--cCcchhhhccchhhhhhhccCc
Confidence            8777665532 34677777777776543            2457888999988875  3455788889999999999999


Q ss_pred             HHHHHHHHhCC--CCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcC--CCCcccHHHHHHHHHHcCCHHHHHHHHHHH
Q 005476          477 EEAYQFIKNMP--IPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLE--PMHSGDYILLSDIYASAGRCEDALRVMNQM  552 (695)
Q Consensus       477 ~~A~~~~~~m~--~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  552 (695)
                      .+|.++|.+..  ...+..+|-.+...|...|++..|+++|+..++..  .+++.....|+.++.+.|+|.+|.+.....
T Consensus       663 ~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a  742 (1018)
T KOG2002|consen  663 SEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKA  742 (1018)
T ss_pred             hHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            99999999872  23356789999999999999999999999999853  355667889999999999999999998877


Q ss_pred             HhCC
Q 005476          553 REQG  556 (695)
Q Consensus       553 ~~~~  556 (695)
                      ....
T Consensus       743 ~~~~  746 (1018)
T KOG2002|consen  743 RHLA  746 (1018)
T ss_pred             HHhC
Confidence            6643

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=99.72  E-value=2.1e-13  Score=145.18  Aligned_cols=478  Identities=13%  Similarity=0.059  Sum_probs=305.8

Q ss_pred             HHHHHHHhccCCCCCcc-hHHHHHHHH--HcCCCchHHHHHHHHHHhC--CCCCChhhHHHHHHHHhccCChHHHHHHHH
Q 005476           71 MDYALSIFHKINEPDSS-AYNIMIRAF--TLKQSPQEAVMLYKTMLQN--SVEPDRFTFACTLKACSRIRALEEGEQIHA  145 (695)
Q Consensus        71 ~~~A~~~f~~~~~~~~~-~~~~li~~~--~~~g~~~~A~~~~~~m~~~--g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  145 (695)
                      ++.|...|..+...++. ..-.|..++  ...+++..|+.+|......  ...||...  .+-.++.+.++.+.|+..|.
T Consensus       146 ~~~A~a~F~~Vl~~sp~Nil~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~rI--gig~Cf~kl~~~~~a~~a~~  223 (1018)
T KOG2002|consen  146 MDDADAQFHFVLKQSPDNILALLGKARIAYNKKDYRGALKYYKKALRINPACKADVRI--GIGHCFWKLGMSEKALLAFE  223 (1018)
T ss_pred             HHHHHHHHHHHHhhCCcchHHHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCccc--hhhhHHHhccchhhHHHHHH
Confidence            46666666655421111 122333332  3356777777777775542  23344332  12234456677777777777


Q ss_pred             HHHHhCCCCCccHHHHHHHHHHhc---CChhHHHHHHhccC---CCCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCC
Q 005476          146 QILKSGFGCRQLVTNTLIHLYANC---GRIDIARKMFDRMS---NRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVK  219 (695)
Q Consensus       146 ~~~~~g~~~~~~~~~~Li~~y~~~---g~~~~A~~~f~~m~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  219 (695)
                      ...+.. +.++.++-.|.-+-...   ..+..+..++.+.-   ..|++..+.|.+.|.-.|+++.++.+...+......
T Consensus       224 ralqLd-p~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~  302 (1018)
T KOG2002|consen  224 RALQLD-PTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKENNENPVALNHLANHFYFKKDYERVWHLAEHAIKNTEN  302 (1018)
T ss_pred             HHHhcC-hhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhh
Confidence            776543 11222222221111111   22334444444332   247778888888888889999999888888764311


Q ss_pred             --CCHhHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhHHHHH
Q 005476          220 --FDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNI---KDVVAWSAM  294 (695)
Q Consensus       220 --pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~l  294 (695)
                        .-...|-.+.+++-..|+++.|.+.|-...+..-..-+..+-.|..+|.+.|+++.|...|+.+..   .+..+...|
T Consensus       303 ~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iL  382 (1018)
T KOG2002|consen  303 KSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKIL  382 (1018)
T ss_pred             hHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHH
Confidence              112237778888888899999999888877764222245566788899999999999999988753   355666777


Q ss_pred             HHHHHhcC----CHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHH----HHhCCCCchHHHhHHhc
Q 005476          295 ISGYSQAR----RCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYV----KKKRMELTITLGTALMD  366 (695)
Q Consensus       295 i~~~~~~g----~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~----~~~~~~~~~~~~~~li~  366 (695)
                      ...|...+    ..+.|..++.+..+.- +.|...|..+-..+... +.......+..+    ...+-.+.+.+.|.+..
T Consensus       383 G~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~-d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvas  460 (1018)
T KOG2002|consen  383 GCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQT-DPWASLDAYGNALDILESKGKQIPPEVLNNVAS  460 (1018)
T ss_pred             HhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhc-ChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHH
Confidence            77777665    4466666666665542 33555666555555443 333335555443    34565678888899999


Q ss_pred             chhhcCCHHHHHHHHhcCCC-------CCh------hHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHH
Q 005476          367 FYAKCGLIENAVEVFKKMPL-------KNV------FFWTVLIQCLASNGQGERALETYYIMREKNIEPNDV-AFIAVLS  432 (695)
Q Consensus       367 ~y~~~g~~~~A~~~~~~~~~-------~~~------~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~  432 (695)
                      .+...|+++.|...|.....       +|.      ..--.+...+-..++.+.|.++|.....  -.|+.+ .|..++.
T Consensus       461 lhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilk--ehp~YId~ylRl~~  538 (1018)
T KOG2002|consen  461 LHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILK--EHPGYIDAYLRLGC  538 (1018)
T ss_pred             HHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHH--HCchhHHHHHHhhH
Confidence            99999999999998876542       222      1222345566677888999999999888  567776 5555553


Q ss_pred             HHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHh----CCCCCCHhhHHHHHHHHH-----
Q 005476          433 ACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKN----MPIPPNPVIWRTLLAACR-----  503 (695)
Q Consensus       433 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~----m~~~p~~~~~~~ll~a~~-----  503 (695)
                      .....+...+|...+.....  ....++..++-+.+.+.+...+.-|.+-|+.    ....+|..+.-+|.+.|.     
T Consensus       539 ma~~k~~~~ea~~~lk~~l~--~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~  616 (1018)
T KOG2002|consen  539 MARDKNNLYEASLLLKDALN--IDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHN  616 (1018)
T ss_pred             HHHhccCcHHHHHHHHHHHh--cccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcc
Confidence            33345778888888888765  4555666677777788887777777774443    333467777666766553     


Q ss_pred             -------hcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCCC
Q 005476          504 -------AHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGI  557 (695)
Q Consensus       504 -------~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  557 (695)
                             ..+..++|+++|.++++.+|.|..+-+.++-+++..|+|.+|..+|.+..+...
T Consensus       617 ~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~  677 (1018)
T KOG2002|consen  617 PSRNPEKEKKHQEKALQLYGKVLRNDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS  677 (1018)
T ss_pred             cccChHHHHHHHHHHHHHHHHHHhcCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHh
Confidence                   223467888888888888888877777888888888888888888888887644

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.67  E-value=2.5e-12  Score=124.82  Aligned_cols=417  Identities=14%  Similarity=0.136  Sum_probs=247.4

Q ss_pred             ChHHHHHHhcc--CCChHHHHHHHHHHhcCCCCchhHHHHHHHHHc--cC------------------------CCCCHH
Q 005476           21 NPKTLIVQQCK--TTKDLNQVHAHLIKSRFHLNPTISENLLEAAAI--LI------------------------PATTMD   72 (695)
Q Consensus        21 ~~~~~~l~~~~--~~~~~~~~~~~~~~~g~~~~~~~~~~ll~~y~~--~~------------------------~~g~~~   72 (695)
                      +|-+.|++.-+  ...+.--++.++...|.+.++-+--.|+..-+-  ..                        +.|.  
T Consensus       117 ~~E~nL~kmIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~--  194 (625)
T KOG4422|consen  117 ETENNLLKMISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGA--  194 (625)
T ss_pred             cchhHHHHHHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccccccc--
Confidence            35566665533  233445678888888888777776666543221  10                        0111  


Q ss_pred             HHHHHhccCCCCCcchHHHHHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCC
Q 005476           73 YALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGF  152 (695)
Q Consensus        73 ~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~  152 (695)
                      -|.-+|+. ..++..+|..||.++++-...+.|.++|++-.....+.+..+||.+|.+.+    +..++.+..+|+...+
T Consensus       195 vAdL~~E~-~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S----~~~~K~Lv~EMisqkm  269 (625)
T KOG4422|consen  195 VADLLFET-LPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASS----YSVGKKLVAEMISQKM  269 (625)
T ss_pred             HHHHHHhh-cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHH----hhccHHHHHHHHHhhc
Confidence            12233333 334556788888888888888888888888888777888888888887765    3344788888888888


Q ss_pred             CCCccHHHHHHHHHHhcCChhHHHHHHhccCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHH
Q 005476          153 GCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMAC  232 (695)
Q Consensus       153 ~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~  232 (695)
                      .||..++|+++++.++.|+++.|++.+                           ++++.+|++-|+.|...+|..+|..+
T Consensus       270 ~Pnl~TfNalL~c~akfg~F~~ar~aa---------------------------lqil~EmKeiGVePsLsSyh~iik~f  322 (625)
T KOG4422|consen  270 TPNLFTFNALLSCAAKFGKFEDARKAA---------------------------LQILGEMKEIGVEPSLSSYHLIIKNF  322 (625)
T ss_pred             CCchHhHHHHHHHHHHhcchHHHHHHH---------------------------HHHHHHHHHhCCCcchhhHHHHHHHh
Confidence            888888888888888888888776543                           44555555566666666655555555


Q ss_pred             hccCChhH-HHHHHHHHHHh----CCC----CchHHHHHHHHHHHhcCCHHHHHHHHHhcCCC-----------ChhHHH
Q 005476          233 GRLADIEL-GGWISEYMEEK----ELN----GNVKLMTAVVDMYAKCGHVDKARRLFEQMNIK-----------DVVAWS  292 (695)
Q Consensus       233 ~~~~~~~~-a~~~~~~~~~~----g~~----~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~-----------~~~~~~  292 (695)
                      .+.++... +..+...+...    .+.    .|...+..-++.+.+..+.+-|.++-.-+...           ...-|.
T Consensus       323 ~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr  402 (625)
T KOG4422|consen  323 KRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYR  402 (625)
T ss_pred             cccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHH
Confidence            55544432 22222222221    111    13334444555555555555555554433211           123455


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcC
Q 005476          293 AMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCG  372 (695)
Q Consensus       293 ~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g  372 (695)
                      .+....++....+.-+.+|+.|.-.-+-|+..+...++++....+.++...+++..++..|.........-+...+++..
T Consensus       403 ~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k  482 (625)
T KOG4422|consen  403 KFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDK  482 (625)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCC
Confidence            56667778888888899999998887889999999999999999999999999988888774433332222221111111


Q ss_pred             CHHHHHHHHhcCCCCChh---HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHH
Q 005476          373 LIENAVEVFKKMPLKNVF---FWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVS  449 (695)
Q Consensus       373 ~~~~A~~~~~~~~~~~~~---~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~  449 (695)
                                  ..|+..   -+.....-++. .-.+.....-.+|++....|.  ..+.++-.+.+.|..++|.++|..
T Consensus       483 ------------~hp~tp~r~Ql~~~~ak~aa-d~~e~~e~~~~R~r~~~~~~t--~l~~ia~Ll~R~G~~qkA~e~l~l  547 (625)
T KOG4422|consen  483 ------------LHPLTPEREQLQVAFAKCAA-DIKEAYESQPIRQRAQDWPAT--SLNCIAILLLRAGRTQKAWEMLGL  547 (625)
T ss_pred             ------------CCCCChHHHHHHHHHHHHHH-HHHHHHHhhHHHHHhccCChh--HHHHHHHHHHHcchHHHHHHHHHH
Confidence                        012211   11111111110 001111222334555444443  444455556788888888888888


Q ss_pred             chhhcCCCCChhHHHHHH---HHHhhcCCHHHHHHHHHhC
Q 005476          450 MSRDFDLEPRMEHYGCMV---DILGRAGLVEEAYQFIKNM  486 (695)
Q Consensus       450 ~~~~~~~~p~~~~~~~li---~~~~~~g~~~~A~~~~~~m  486 (695)
                      +.++..-.|.....++|+   +.-.+......|...++-|
T Consensus       548 ~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a  587 (625)
T KOG4422|consen  548 FLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLA  587 (625)
T ss_pred             HHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            766544455555555443   3444555666666655554

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.66  E-value=1.3e-13  Score=134.17  Aligned_cols=444  Identities=14%  Similarity=0.110  Sum_probs=305.8

Q ss_pred             HHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHH-HHHHHHhccCChHHHHHHHHHHHHhCCCC----CccHHHHHHHHH
Q 005476           92 MIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFA-CTLKACSRIRALEEGEQIHAQILKSGFGC----RQLVTNTLIHLY  166 (695)
Q Consensus        92 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~g~~~----~~~~~~~Li~~y  166 (695)
                      |.+-|..+....+|+..|+-+.+...-||.-.+. .+-+.+.+.+.+..|.+.+...+..-...    .+.+.+.+.-.+
T Consensus       207 laqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvtf  286 (840)
T KOG2003|consen  207 LAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVTF  286 (840)
T ss_pred             HHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCeeE
Confidence            3455777888899999999988877777765433 23345667788899999888777652111    233456666667


Q ss_pred             HhcCChhHHHHHHhccCC--CCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCC------------CCHhHHHHHHH--
Q 005476          167 ANCGRIDIARKMFDRMSN--RDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVK------------FDEVTLINVLM--  230 (695)
Q Consensus       167 ~~~g~~~~A~~~f~~m~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~------------pd~~t~~~ll~--  230 (695)
                      .+.|.+++|...|+...+  |+..+--.|+-++.--|+.++..+.|.+|..--..            |+....+..+.  
T Consensus       287 iq~gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai~nd  366 (840)
T KOG2003|consen  287 IQAGQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIKND  366 (840)
T ss_pred             EecccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHHhhH
Confidence            889999999999998655  66665555566666778999999999999764333            33333332222  


Q ss_pred             ---HHhccCC--hhHHHHHHHHHHHhCCCCchH-------------HH--------HHHHHHHHhcCCHHHHHHHHHhcC
Q 005476          231 ---ACGRLAD--IELGGWISEYMEEKELNGNVK-------------LM--------TAVVDMYAKCGHVDKARRLFEQMN  284 (695)
Q Consensus       231 ---a~~~~~~--~~~a~~~~~~~~~~g~~~~~~-------------~~--------~~li~~~~~~g~~~~A~~~f~~m~  284 (695)
                         -..+.+.  .+.+.-.-..++.--+.|+-.             .+        -.-..-|.+.|+++.|.+++.-..
T Consensus       367 ~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieilkv~~  446 (840)
T KOG2003|consen  367 HLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEILKVFE  446 (840)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHHHHHH
Confidence               1111111  111111111111111122110             00        111234778999999999988887


Q ss_pred             CCChhHHHH-----HHHHHHhcC-CHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCch
Q 005476          285 IKDVVAWSA-----MISGYSQAR-RCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTI  358 (695)
Q Consensus       285 ~~~~~~~~~-----li~~~~~~g-~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~  358 (695)
                      .+|..+-.+     -.--|.+-| ++..|.+.-+...... +-|....+.--+.....|+++.|...+.+.....-....
T Consensus       447 ~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc~e  525 (840)
T KOG2003|consen  447 KKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDASCTE  525 (840)
T ss_pred             hccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHHHH
Confidence            665433222     222233333 4566666555444322 223333333333344578999999999999987766666


Q ss_pred             HHHhHHhcchhhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHH
Q 005476          359 TLGTALMDFYAKCGLIENAVEVFKKMP---LKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEP-NDVAFIAVLSAC  434 (695)
Q Consensus       359 ~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~a~  434 (695)
                      ..|| +.-.+-+.|++++|++.|-.+.   ..++...-.+...|....+..+|++++.+...  +-| |+..+..|...|
T Consensus       526 alfn-iglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~s--lip~dp~ilskl~dly  602 (840)
T KOG2003|consen  526 ALFN-IGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANS--LIPNDPAILSKLADLY  602 (840)
T ss_pred             HHHH-hcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc--cCCCCHHHHHHHHHHh
Confidence            6666 4556788999999999997664   35677777788889999999999999987766  555 556888889999


Q ss_pred             hccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHhhHHHHHHHH-HhcCChhHHH
Q 005476          435 SHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPNPVIWRTLLAAC-RAHKNVKVGE  512 (695)
Q Consensus       435 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~a~-~~~g~~~~a~  512 (695)
                      -+.|+-.+|.+.+-.--+  -++.+.++..-|...|....-+++|+.+|++. -+.|+.+-|..++..| ++.|++++|.
T Consensus       603 dqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgnyqka~  680 (840)
T KOG2003|consen  603 DQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGNYQKAF  680 (840)
T ss_pred             hcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhcccHHHHH
Confidence            999999999998765432  23447888888899999999999999999987 4689999999998875 6789999999


Q ss_pred             HHHHHHHhcCCCCcccHHHHHHHHHHcCC
Q 005476          513 ESLKNLVTLEPMHSGDYILLSDIYASAGR  541 (695)
Q Consensus       513 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  541 (695)
                      .+++..-...|.+....-.|..++...|.
T Consensus       681 d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  681 DLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            99999999999999998899999888885

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.65  E-value=3.5e-12  Score=123.77  Aligned_cols=318  Identities=14%  Similarity=0.163  Sum_probs=222.3

Q ss_pred             cchHHHHHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHh--ccCChHHH-HHHHHHHHHhCCCCCccHHHHH
Q 005476           86 SSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACS--RIRALEEG-EQIHAQILKSGFGCRQLVTNTL  162 (695)
Q Consensus        86 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~--~~~~~~~a-~~~~~~~~~~g~~~~~~~~~~L  162 (695)
                      +++=|.|+. +...|..+++.-+|+.|+..|+..+...-..|++..+  ...+..-+ .+.|-.|.+.| +.+..+|   
T Consensus       116 V~~E~nL~k-mIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~-E~S~~sW---  190 (625)
T KOG4422|consen  116 VETENNLLK-MISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFG-EDSTSSW---  190 (625)
T ss_pred             hcchhHHHH-HHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccc-ccccccc---
Confidence            345566655 4567889999999999999988777766666655433  22333222 23444455554 2223332   


Q ss_pred             HHHHHhcCChhHHHHHHhccCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHH
Q 005476          163 IHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGG  242 (695)
Q Consensus       163 i~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~  242 (695)
                           |.|.+.+  -+| +...++..+|..||.|+++--..+.|.+++++-.....+.+..+|+.+|.+.+-    ..++
T Consensus       191 -----K~G~vAd--L~~-E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~----~~~K  258 (625)
T KOG4422|consen  191 -----KSGAVAD--LLF-ETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSY----SVGK  258 (625)
T ss_pred             -----ccccHHH--HHH-hhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHh----hccH
Confidence                 4455544  344 444457789999999999999999999999999998889999999999987653    3448


Q ss_pred             HHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHH----hcC----CCChhHHHHHHHHHHhcCCHHH-HHHHHHH
Q 005476          243 WISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFE----QMN----IKDVVAWSAMISGYSQARRCKE-ALGVFHD  313 (695)
Q Consensus       243 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~----~m~----~~~~~~~~~li~~~~~~g~~~~-A~~~~~~  313 (695)
                      ++..+|....+.||..++|+++.+..+.|+++.|++.+-    +|.    +|...+|..+|..+.+.++..+ |..++.+
T Consensus       259 ~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~d  338 (625)
T KOG4422|consen  259 KLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWIND  338 (625)
T ss_pred             HHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHH
Confidence            899999999999999999999999999999887766544    443    5677888888888888887754 4555555


Q ss_pred             hHHC--C--C---CC-CHHHHHHHHHHHhccCChhHHHHHHHHHHHhC----CCCc---hHHHhHHhcchhhcCCHHHHH
Q 005476          314 MQMA--N--V---VP-NEVTMVSVLSCCAVLGALETGKWVHLYVKKKR----MELT---ITLGTALMDFYAKCGLIENAV  378 (695)
Q Consensus       314 m~~~--g--~---~p-d~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~----~~~~---~~~~~~li~~y~~~g~~~~A~  378 (695)
                      ++..  |  +   .| |..-|.+.+..|.+..+.+.|.+++.......    +.++   ...|.-+....+....++.-.
T Consensus       339 I~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~  418 (625)
T KOG4422|consen  339 IQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTL  418 (625)
T ss_pred             HHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5432  1  2   23 45577888888988899999988887765421    2222   234455666666777777777


Q ss_pred             HHHhcCCC----CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 005476          379 EVFKKMPL----KNVFFWTVLIQCLASNGQGERALETYYIMREKNI  420 (695)
Q Consensus       379 ~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~  420 (695)
                      ..|+.|..    |+..+...++.+..-.|.++-.-+++..|+..|.
T Consensus       419 ~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~gh  464 (625)
T KOG4422|consen  419 KWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGH  464 (625)
T ss_pred             HHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhh
Confidence            77777653    4555566666666667777766677777666553

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=99.60  E-value=6.3e-11  Score=121.04  Aligned_cols=455  Identities=15%  Similarity=0.120  Sum_probs=250.0

Q ss_pred             cCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHH
Q 005476           98 LKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARK  177 (695)
Q Consensus        98 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~  177 (695)
                      .....+.|+-++.+..+-  -|..   .-|.-++++..-++.|+.++....+. ++.+..+|-+-...=-..|..+...+
T Consensus       388 elE~~~darilL~rAvec--cp~s---~dLwlAlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~k  461 (913)
T KOG0495|consen  388 ELEEPEDARILLERAVEC--CPQS---MDLWLALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEK  461 (913)
T ss_pred             hccChHHHHHHHHHHHHh--ccch---HHHHHHHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHH
Confidence            344555566666665552  2211   12333445555566666666665554 35555555555555555666666655


Q ss_pred             HHhccCC--------CCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCC--HhHHHHHHHHHhcc------------
Q 005476          178 MFDRMSN--------RDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFD--EVTLINVLMACGRL------------  235 (695)
Q Consensus       178 ~f~~m~~--------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd--~~t~~~ll~a~~~~------------  235 (695)
                      +.++-..        -+...|-.=...+-..|..-.+..+....+.-|+.-.  ..||......|.+.            
T Consensus       462 ii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~  541 (913)
T KOG0495|consen  462 IIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAH  541 (913)
T ss_pred             HHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHH
Confidence            5554221        1222233333333333444334444433333333221  12344444444444            


Q ss_pred             ----------------------CChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhH
Q 005476          236 ----------------------ADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNI---KDVVA  290 (695)
Q Consensus       236 ----------------------~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~  290 (695)
                                            |..+.-..+++.++..- +.....|-....-+-..|++..|+.++.+.-+   .+...
T Consensus       542 alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseei  620 (913)
T KOG0495|consen  542 ALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEI  620 (913)
T ss_pred             HHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHH
Confidence                                  44444444554444431 22333444444444555555555555555432   13445


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhh
Q 005476          291 WSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAK  370 (695)
Q Consensus       291 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~  370 (695)
                      |-+-+..-..+.+++.|..+|.+....  .|+...|..-...---++..++|.+++++.++. ++.-...|-.+...|-+
T Consensus       621 wlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~  697 (913)
T KOG0495|consen  621 WLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQ  697 (913)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHH
Confidence            555555555566666666666555543  344444433333333445555666655555543 23334455555555566


Q ss_pred             cCCHHHHHHHHhcCCC--C-ChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHH
Q 005476          371 CGLIENAVEVFKKMPL--K-NVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELF  447 (695)
Q Consensus       371 ~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~  447 (695)
                      .++++.|.+.|..-.+  | .+-.|-.+...=-+.|+...|..++++.+..+ +-|...|...+..-.+.|+.+.|..+.
T Consensus       698 ~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lm  776 (913)
T KOG0495|consen  698 MENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLM  776 (913)
T ss_pred             HHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHH
Confidence            6666666665554433  2 22345555555555556666666666655532 123335555666666666666666666


Q ss_pred             HHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcc
Q 005476          448 VSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSG  527 (695)
Q Consensus       448 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~  527 (695)
                      .+..+  ..+.+...|..-|.+..+.++-..+.+.+++.  +.|..+.-++...+.....++.|.+-|+++++.+|++..
T Consensus       777 akALQ--ecp~sg~LWaEaI~le~~~~rkTks~DALkkc--e~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD  852 (913)
T KOG0495|consen  777 AKALQ--ECPSSGLLWAEAIWLEPRPQRKTKSIDALKKC--EHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGD  852 (913)
T ss_pred             HHHHH--hCCccchhHHHHHHhccCcccchHHHHHHHhc--cCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccch
Confidence            55554  33444555555566666666555555555554  345566666777788888999999999999999999999


Q ss_pred             cHHHHHHHHHHcCCHHHHHHHHHHHHhCCCccCCceeEEEEC
Q 005476          528 DYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELD  569 (695)
Q Consensus       528 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~  569 (695)
                      +|.-+-..+...|.-++-.+++++....  .|..|-.|..+.
T Consensus       853 ~wa~fykfel~hG~eed~kev~~~c~~~--EP~hG~~W~avS  892 (913)
T KOG0495|consen  853 AWAWFYKFELRHGTEEDQKEVLKKCETA--EPTHGELWQAVS  892 (913)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCCCCcHHHHHh
Confidence            9999999999999999999999887653  466677776543

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.58  E-value=9.2e-11  Score=124.65  Aligned_cols=471  Identities=11%  Similarity=0.053  Sum_probs=281.6

Q ss_pred             CCHHHHHHHhccCCC---CCcchHHHHHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHH
Q 005476           69 TTMDYALSIFHKINE---PDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHA  145 (695)
Q Consensus        69 g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  145 (695)
                      |++++|.+++.++..   .+...|.+|...|-+.|+.++++..+-..-... +-|...|..+-.-..+.|.+++|.-.+.
T Consensus       153 g~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~qA~~cy~  231 (895)
T KOG2076|consen  153 GDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQARYCYS  231 (895)
T ss_pred             CCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHHHHHHHH
Confidence            999999999988753   466789999999999999999988776665532 2266788888888889999999999999


Q ss_pred             HHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCCCCe-ehHH-------HHHHHHHhCCChhHHHHHHHHHHHc-
Q 005476          146 QILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDV-FSWN-------SMFSGYVKTECWREIVDLFNEMRDL-  216 (695)
Q Consensus       146 ~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~-~~~~-------~li~~~~~~g~~~~A~~~~~~m~~~-  216 (695)
                      ++++.. +++....-.-..+|-+.|+...|..-|.++-+.+. +.|.       .++..|...++-+.|++.++..... 
T Consensus       232 rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~  310 (895)
T KOG2076|consen  232 RAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKE  310 (895)
T ss_pred             HHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhc
Confidence            999886 56666666677889999999999888887765222 2221       2355666677778888888777652 


Q ss_pred             CCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHH---------------------------hCCCCchHH-HHHHHHHHH
Q 005476          217 GVKFDEVTLINVLMACGRLADIELGGWISEYMEE---------------------------KELNGNVKL-MTAVVDMYA  268 (695)
Q Consensus       217 g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~---------------------------~g~~~~~~~-~~~li~~~~  268 (695)
                      +-..+..+++.++..+.+...++.+.........                           .++.++..+ ...+.-.-.
T Consensus       311 ~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~L  390 (895)
T KOG2076|consen  311 KDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLVHL  390 (895)
T ss_pred             cccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhhcc
Confidence            2233334455556666666666666555544443                           112333333 222222223


Q ss_pred             hcCCHHHHHHHHHhcCC----CChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHH
Q 005476          269 KCGHVDKARRLFEQMNI----KDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKW  344 (695)
Q Consensus       269 ~~g~~~~A~~~f~~m~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~  344 (695)
                      +.+...+++.-|-....    .+...|.-+..+|.+.|++.+|+.+|..+......-+...|..+...+-..|..++|.+
T Consensus       391 ~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e  470 (895)
T KOG2076|consen  391 KERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIE  470 (895)
T ss_pred             cccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHH
Confidence            34444444444433221    24456777778888888888888888888776555566677777888888888888888


Q ss_pred             HHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCCChh------------HHHHHHHHHHhcCChHHHHHHH
Q 005476          345 VHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVF------------FWTVLIQCLASNGQGERALETY  412 (695)
Q Consensus       345 i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~------------~~~~li~~~~~~g~~~~A~~l~  412 (695)
                      .+..++... +.+..+--+|...|.+.|+.++|.+.+..+..+|..            .--.....|.+.|+.++=+.+-
T Consensus       471 ~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t~  549 (895)
T KOG2076|consen  471 FYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFINTA  549 (895)
T ss_pred             HHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            888887754 334455556777788888888888888887655411            1112234456666666544444


Q ss_pred             HHHHHCC----------------------CCCCHHHHHHHHHHHhccccHHHHHHHHH-----HchhhcCCCCC--hhHH
Q 005476          413 YIMREKN----------------------IEPNDVAFIAVLSACSHVGMVDEGRELFV-----SMSRDFDLEPR--MEHY  463 (695)
Q Consensus       413 ~~m~~~g----------------------~~p~~~t~~~ll~a~~~~g~~~~a~~~~~-----~~~~~~~~~p~--~~~~  463 (695)
                      .+|+..+                      ..-...+...++.+-.+.++.....+-..     ......++.-+  -..+
T Consensus       550 ~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Lsiddwfel~  629 (895)
T KOG2076|consen  550 STLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLSIDDWFELF  629 (895)
T ss_pred             HHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCcHHHHHHHH
Confidence            3333211                      11111122222222222222111111000     00011122222  2345


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhCC-----CCCCH---hhHHHHHHHHHhcCChhHHHHHHHHHHhc-----CCCCcccHH
Q 005476          464 GCMVDILGRAGLVEEAYQFIKNMP-----IPPNP---VIWRTLLAACRAHKNVKVGEESLKNLVTL-----EPMHSGDYI  530 (695)
Q Consensus       464 ~~li~~~~~~g~~~~A~~~~~~m~-----~~p~~---~~~~~ll~a~~~~g~~~~a~~~~~~~~~~-----~p~~~~~~~  530 (695)
                      .-++..+.+.|++++|+.+...+-     ..++.   ..=...+.++...+++..|....+.++..     +|.....|+
T Consensus       630 ~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~~~~~q~~l~n  709 (895)
T KOG2076|consen  630 RELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFYLDVYQLNLWN  709 (895)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhhhhHHHHHHH
Confidence            556667777777777777666541     11111   11223444556667777777777766665     444444455


Q ss_pred             HHHHHHHHcCCH
Q 005476          531 LLSDIYASAGRC  542 (695)
Q Consensus       531 ~l~~~~~~~g~~  542 (695)
                      ...+...+.|+-
T Consensus       710 ~~~s~~~~~~q~  721 (895)
T KOG2076|consen  710 LDFSYFSKYGQR  721 (895)
T ss_pred             HHHHHHHHHHHH
Confidence            444444444443

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=99.57  E-value=1e-09  Score=112.44  Aligned_cols=416  Identities=10%  Similarity=0.067  Sum_probs=333.8

Q ss_pred             HHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCC---CCeehHHHHHHHHHhCCChhH
Q 005476          129 KACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSN---RDVFSWNSMFSGYVKTECWRE  205 (695)
Q Consensus       129 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~  205 (695)
                      ++.....+.+.|+-++...++.- +.+..    |.-+|++...++.|.++++...+   .+...|.+-...=-.+|+.+.
T Consensus       384 KaAVelE~~~darilL~rAvecc-p~s~d----LwlAlarLetYenAkkvLNkaRe~iptd~~IWitaa~LEE~ngn~~m  458 (913)
T KOG0495|consen  384 KAAVELEEPEDARILLERAVECC-PQSMD----LWLALARLETYENAKKVLNKAREIIPTDREIWITAAKLEEANGNVDM  458 (913)
T ss_pred             HHHHhccChHHHHHHHHHHHHhc-cchHH----HHHHHHHHHHHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhcCCHHH
Confidence            44445566777888888888763 33333    44556777888999999887765   466778777666678899988


Q ss_pred             HHHHHHH----HHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhCCCC--chHHHHHHHHHHHhcCCHHHHHHH
Q 005476          206 IVDLFNE----MRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNG--NVKLMTAVVDMYAKCGHVDKARRL  279 (695)
Q Consensus       206 A~~~~~~----m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~--~~~~~~~li~~~~~~g~~~~A~~~  279 (695)
                      ..+++.+    +...|+..+...|..=..+|-..|..-.+..+...++..|++.  -..+|+.-.+.+.+.+.++-|+.+
T Consensus       459 v~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAV  538 (913)
T KOG0495|consen  459 VEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAV  538 (913)
T ss_pred             HHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHH
Confidence            8888766    4568999999999999999999999999999999999888765  356889999999999999999999


Q ss_pred             HHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCC-HHHHHHHHHHHhccCChhHHHHHHHHHHHhCCC
Q 005476          280 FEQMNI---KDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPN-EVTMVSVLSCCAVLGALETGKWVHLYVKKKRME  355 (695)
Q Consensus       280 f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~  355 (695)
                      |....+   .+...|...+..--..|..++-..+|++....  .|- ...+.....-.-..|+...|+.++..+..... 
T Consensus       539 ya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~--~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~p-  615 (913)
T KOG0495|consen  539 YAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ--CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANP-  615 (913)
T ss_pred             HHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC-
Confidence            988754   36678888877777889999999999999876  343 33443334455567999999999999998763 


Q ss_pred             CchHHHhHHhcchhhcCCHHHHHHHHhcCCC--CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHH
Q 005476          356 LTITLGTALMDFYAKCGLIENAVEVFKKMPL--KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDV-AFIAVLS  432 (695)
Q Consensus       356 ~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~  432 (695)
                      .+..++-+-+..-.....++.|+.+|.+...  +....|.--+....-.+..++|++++++.++  .-|+-. .|..+..
T Consensus       616 nseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk--~fp~f~Kl~lmlGQ  693 (913)
T KOG0495|consen  616 NSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLDNVEEALRLLEEALK--SFPDFHKLWLMLGQ  693 (913)
T ss_pred             CcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHH--hCCchHHHHHHHhH
Confidence            3788888999999999999999999988754  6777888777777788999999999999988  678766 7778888


Q ss_pred             HHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCC--CCCCHhhHHHHHHHHHhcCChhH
Q 005476          433 ACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMP--IPPNPVIWRTLLAACRAHKNVKV  510 (695)
Q Consensus       433 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~--~~p~~~~~~~ll~a~~~~g~~~~  510 (695)
                      .+.+.++++.|.+.|..=.+  ..+-.+..|-.|.+.=-+.|.+-.|..++++..  .+.|...|-..+..-.+.|+.+.
T Consensus       694 i~e~~~~ie~aR~aY~~G~k--~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~  771 (913)
T KOG0495|consen  694 IEEQMENIEMAREAYLQGTK--KCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQ  771 (913)
T ss_pred             HHHHHHHHHHHHHHHHhccc--cCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHH
Confidence            89999999999999876654  344457788889999999999999999999873  23378899999999999999999


Q ss_pred             HHHHHHHHHhcCCCC------------------------------cccHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 005476          511 GEESLKNLVTLEPMH------------------------------SGDYILLSDIYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       511 a~~~~~~~~~~~p~~------------------------------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      |..+..++++--|.+                              +.....++.++....+++.|++.|.+..+.+
T Consensus       772 a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d  847 (913)
T KOG0495|consen  772 AELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKD  847 (913)
T ss_pred             HHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccC
Confidence            999998888754433                              4455677788888889999999999887754

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.53  E-value=4.1e-11  Score=118.58  Aligned_cols=404  Identities=14%  Similarity=0.097  Sum_probs=244.5

Q ss_pred             HHHHHHHHHcCCCchHHHHHHHHHHhCCCCCC-hhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCC-ccHHHHHHHHH
Q 005476           89 YNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPD-RFTFACTLKACSRIRALEEGEQIHAQILKSGFGCR-QLVTNTLIHLY  166 (695)
Q Consensus        89 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~-~~~~~~Li~~y  166 (695)
                      +-....-|.++|.+++|++.|.+..+  ..|| +..|...-.+|...|+++.+.+--...++.  .|+ +-.+..-.+++
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~--l~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl--~P~Y~KAl~RRA~A~  193 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIE--LCPDEPIFYSNRAACYESLGDWEKVIEDCTKALEL--NPDYVKALLRRASAH  193 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHh--cCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhc--CcHHHHHHHHHHHHH
Confidence            44556668899999999999999998  5677 778888888889999999888877777654  344 34566666777


Q ss_pred             HhcCChhHHHHHHhccCCCCeehHHHHHHHHHhCCChhHHHHHHHHH--------HH-c--CCCCCHhHHHHHHHHHhcc
Q 005476          167 ANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEM--------RD-L--GVKFDEVTLINVLMACGRL  235 (695)
Q Consensus       167 ~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--------~~-~--g~~pd~~t~~~ll~a~~~~  235 (695)
                      -..|++++|+.=         +|-.++..++....-.--+.+++.+.        .+ .  -+-|+.....+.+..+-..
T Consensus       194 E~lg~~~eal~D---------~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~  264 (606)
T KOG0547|consen  194 EQLGKFDEALFD---------VTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHAD  264 (606)
T ss_pred             HhhccHHHHHHh---------hhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhcccc
Confidence            778888877531         23344444444433333333333331        11 1  1334444444444333211


Q ss_pred             CChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhc-CCHHHHHHHHHhcC-------CC---C------hhHHHHHHHHH
Q 005476          236 ADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKC-GHVDKARRLFEQMN-------IK---D------VVAWSAMISGY  298 (695)
Q Consensus       236 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~-g~~~~A~~~f~~m~-------~~---~------~~~~~~li~~~  298 (695)
                      -..        .+...+-..|...-..+=..|... ..+..|...+.+-.       ..   |      ..+.+.-..-+
T Consensus       265 ~~~--------~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~  336 (606)
T KOG0547|consen  265 PKP--------LFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFH  336 (606)
T ss_pred             ccc--------cccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhh
Confidence            000        000000001111111111111111 11233333222210       00   1      11111111122


Q ss_pred             HhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHH
Q 005476          299 SQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAV  378 (695)
Q Consensus       299 ~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~  378 (695)
                      .-.|+...|...|+..+.....++.. |                                   --+..+|....+.++-.
T Consensus       337 fL~g~~~~a~~d~~~~I~l~~~~~~l-y-----------------------------------I~~a~~y~d~~~~~~~~  380 (606)
T KOG0547|consen  337 FLKGDSLGAQEDFDAAIKLDPAFNSL-Y-----------------------------------IKRAAAYADENQSEKMW  380 (606)
T ss_pred             hhcCCchhhhhhHHHHHhcCcccchH-H-----------------------------------HHHHHHHhhhhccHHHH
Confidence            23444445555555544433222221 2                                   22333455555555555


Q ss_pred             HHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHHHHchhhc
Q 005476          379 EVFKKMPL---KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDV-AFIAVLSACSHVGMVDEGRELFVSMSRDF  454 (695)
Q Consensus       379 ~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~  454 (695)
                      +.|+...+   .|..+|..-...+.-.+++++|..=|++.+.  +.|+.+ .|..+--+.-+.+.+++++..|+...+  
T Consensus       381 ~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~--L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk--  456 (606)
T KOG0547|consen  381 KDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAIS--LDPENAYAYIQLCCALYRQHKIAESMKTFEEAKK--  456 (606)
T ss_pred             HHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhh--cChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH--
Confidence            55554432   2444555555555666788999999999888  788655 888887788889999999999999986  


Q ss_pred             CCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC---------HhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 005476          455 DLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPN---------PVIWRTLLAACRAHKNVKVGEESLKNLVTLEPM  524 (695)
Q Consensus       455 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~---------~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~  524 (695)
                      .++.-+++|+-....+...+++++|.+.|+.. .++|+         +.+-..++-.- -.+++..|+.+++++++++|.
T Consensus       457 kFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpk  535 (606)
T KOG0547|consen  457 KFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPK  535 (606)
T ss_pred             hCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCch
Confidence            56667889999999999999999999999875 33333         22233333332 348999999999999999999


Q ss_pred             CcccHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          525 HSGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       525 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      ..-+|..|+.+-...|+.++|+++|++...
T Consensus       536 ce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  536 CEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            999999999999999999999999998654

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.52  E-value=3.8e-14  Score=141.91  Aligned_cols=253  Identities=18%  Similarity=0.166  Sum_probs=111.8

Q ss_pred             HHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHH-HHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHH
Q 005476          297 GYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLS-CCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIE  375 (695)
Q Consensus       297 ~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~-a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~  375 (695)
                      .+.+.|++++|++++++......+|+...|..++. .+...++.+.|...++.+...+.. ++..+..++.. ...++++
T Consensus        17 ~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~~~   94 (280)
T PF13429_consen   17 LLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGDPE   94 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccccccc
Confidence            34445555555555543322221233333332222 333445555555555555554322 34445556665 5778888


Q ss_pred             HHHHHHhcCCC--CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHhccccHHHHHHHHHHchh
Q 005476          376 NAVEVFKKMPL--KNVFFWTVLIQCLASNGQGERALETYYIMREKN-IEPNDVAFIAVLSACSHVGMVDEGRELFVSMSR  452 (695)
Q Consensus       376 ~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~  452 (695)
                      +|.+++...-+  ++...+..++..+.+.++++++.+++++..... .+++...|..+...+.+.|+.++|.+.++...+
T Consensus        95 ~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~  174 (280)
T PF13429_consen   95 EALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALE  174 (280)
T ss_dssp             -----------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            88888776533  466778888888999999999999999987643 344566777888888999999999999999975


Q ss_pred             hcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccH
Q 005476          453 DFDLEP-RMEHYGCMVDILGRAGLVEEAYQFIKNM--PIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDY  529 (695)
Q Consensus       453 ~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~  529 (695)
                         ..| +......++..+...|+.+++.++++..  ..+.|...|..+..++...|+.++|...++++.+.+|+|+...
T Consensus       175 ---~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~~  251 (280)
T PF13429_consen  175 ---LDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLWL  251 (280)
T ss_dssp             ---H-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHHH
T ss_pred             ---cCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccccccccc
Confidence               356 4778889999999999999988877765  1234667889999999999999999999999999999999999


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          530 ILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       530 ~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      ..+++++...|+.++|.+++.+..+
T Consensus       252 ~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  252 LAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHT-----------------
T ss_pred             ccccccccccccccccccccccccc
Confidence            9999999999999999999887643

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.51  E-value=3.4e-12  Score=131.33  Aligned_cols=277  Identities=15%  Similarity=0.108  Sum_probs=219.8

Q ss_pred             CHHHHHHHHHhcCCC--Ch-hHHHHHHHHHHhcCCHHHHHHHHHHhHHCC-C-CCCHHHHHHHHHHHhccCChhHHHHHH
Q 005476          272 HVDKARRLFEQMNIK--DV-VAWSAMISGYSQARRCKEALGVFHDMQMAN-V-VPNEVTMVSVLSCCAVLGALETGKWVH  346 (695)
Q Consensus       272 ~~~~A~~~f~~m~~~--~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~-~pd~~t~~~ll~a~~~~~~~~~a~~i~  346 (695)
                      +..+|...|..++..  |+ ....-+..+|...+++++|.++|+...+.. . .-+..+|+++|..+-+    +.+...+
T Consensus       334 ~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~L  409 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSYL  409 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHHH
Confidence            467888888886543  33 344567788999999999999999987753 1 1255688888775532    1222222


Q ss_pred             HHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCC---ChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 005476          347 LYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLK---NVFFWTVLIQCLASNGQGERALETYYIMREKNIEPN  423 (695)
Q Consensus       347 ~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~  423 (695)
                      .+-.-.--+..+.+|.++.++|.-.++.+.|++.|++..+-   ...+|+.+..-+.....+|.|...|+..+.  +.|.
T Consensus       410 aq~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~--~~~r  487 (638)
T KOG1126|consen  410 AQDLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALG--VDPR  487 (638)
T ss_pred             HHHHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhc--CCch
Confidence            22222223567899999999999999999999999998764   457788888888889999999999999887  7777


Q ss_pred             HH-HHHHHHHHHhccccHHHHHHHHHHchhhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHH
Q 005476          424 DV-AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEP-RMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLL  499 (695)
Q Consensus       424 ~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll  499 (695)
                      .. .|..+...|.+.++++.|.-.|+.+.   .+.| +.....++...+-+.|+.|+|+.++++. ...| |+..----.
T Consensus       488 hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~---~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~  564 (638)
T KOG1126|consen  488 HYNAWYGLGTVYLKQEKLEFAEFHFQKAV---EINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRA  564 (638)
T ss_pred             hhHHHHhhhhheeccchhhHHHHHHHhhh---cCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHH
Confidence            66 88899999999999999999999886   5677 5677788889999999999999999987 3333 333333345


Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCCC
Q 005476          500 AACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGI  557 (695)
Q Consensus       500 ~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  557 (695)
                      ..+...+++++|.+.++++.++-|+++..|..++.+|-+.|+.+.|+.-|.-+.+-+.
T Consensus       565 ~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldp  622 (638)
T KOG1126|consen  565 SILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDP  622 (638)
T ss_pred             HHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCC
Confidence            5567789999999999999999999999999999999999999999999988877543

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.50  E-value=4.5e-11  Score=116.79  Aligned_cols=456  Identities=12%  Similarity=0.061  Sum_probs=286.9

Q ss_pred             CchhHHHHHHHHHccCCCCCHHHHHHHhccCCC----CCcchH-HHHHHHHHcCCCchHHHHHHHHHHhCCCCCChhh--
Q 005476           51 NPTISENLLEAAAILIPATTMDYALSIFHKINE----PDSSAY-NIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFT--  123 (695)
Q Consensus        51 ~~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~----~~~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~--  123 (695)
                      .-.+...|.+-|...   ....+|+..++-+..    ||.-.. -.+...+.+...+..|+.+|+-.+..-...+..+  
T Consensus       200 tfsvl~nlaqqy~~n---dm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~ri  276 (840)
T KOG2003|consen  200 TFSVLFNLAQQYEAN---DMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRI  276 (840)
T ss_pred             hHHHHHHHHHHhhhh---HHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHH
Confidence            344555667777777   788888888876653    332211 1244557777888888888876665422223333  


Q ss_pred             --HHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCC----------------C
Q 005476          124 --FACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSN----------------R  185 (695)
Q Consensus       124 --~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~----------------~  185 (695)
                        .+.+--.+.+.|.++.|..-|+...+.  .|+..+.-.|+-++.--|+-++..+.|..|..                |
T Consensus       277 kil~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp  354 (840)
T KOG2003|consen  277 KILNNIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDP  354 (840)
T ss_pred             HHHhhcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCc
Confidence              233333456778888888888887765  46766666666666667888888888877642                1


Q ss_pred             CeehHHH-----HHHHHHhC--CChhHHHHHHHHHHHcCCCCCHhH-------------HH--------HHHHHHhccCC
Q 005476          186 DVFSWNS-----MFSGYVKT--ECWREIVDLFNEMRDLGVKFDEVT-------------LI--------NVLMACGRLAD  237 (695)
Q Consensus       186 ~~~~~~~-----li~~~~~~--g~~~~A~~~~~~m~~~g~~pd~~t-------------~~--------~ll~a~~~~~~  237 (695)
                      +....|.     ++.-.-+.  .+.++++-.-.++..--+.||-..             +.        .-...+.+.|+
T Consensus       355 ~~~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d  434 (840)
T KOG2003|consen  355 DDNLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGD  434 (840)
T ss_pred             chHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccC
Confidence            2222221     11111111  112222222222222222233211             00        00123567788


Q ss_pred             hhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhc--CCHHHHHHHHHhcCCC---ChhHHHHHHHHHHhcCCHHHHHHHHH
Q 005476          238 IELGGWISEYMEEKELNGNVKLMTAVVDMYAKC--GHVDKARRLFEQMNIK---DVVAWSAMISGYSQARRCKEALGVFH  312 (695)
Q Consensus       238 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~--g~~~~A~~~f~~m~~~---~~~~~~~li~~~~~~g~~~~A~~~~~  312 (695)
                      ++.|.+++....+..-..-....+.|...+.-.  .++.+|...-+.....   +..+...-...-..+|++++|.+.|+
T Consensus       435 ~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~yk  514 (840)
T KOG2003|consen  435 IEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYK  514 (840)
T ss_pred             HHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHH
Confidence            888888888887776554445555555555443  3566777666655432   22222222233346788899999888


Q ss_pred             HhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCC---CCh
Q 005476          313 DMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPL---KNV  389 (695)
Q Consensus       313 ~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~  389 (695)
                      +.....-.-....|+.=+ .+...|++++|...|-.+... +..+..+...+.+.|--..+...|.+++.+...   .|+
T Consensus       515 eal~ndasc~ealfnigl-t~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~slip~dp  592 (840)
T KOG2003|consen  515 EALNNDASCTEALFNIGL-TAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANSLIPNDP  592 (840)
T ss_pred             HHHcCchHHHHHHHHhcc-cHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCCH
Confidence            887654322223333222 346678888888776554332 234566666778888888889999988876643   577


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHH
Q 005476          390 FFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDI  469 (695)
Q Consensus       390 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~  469 (695)
                      ...+.+...|-+.|+-.+|.+.+-+--.- ++-|..|...|...|....-+++++.+|++..   -+.|+..-|..|+..
T Consensus       593 ~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaa---liqp~~~kwqlmias  668 (840)
T KOG2003|consen  593 AILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAA---LIQPNQSKWQLMIAS  668 (840)
T ss_pred             HHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH---hcCccHHHHHHHHHH
Confidence            88888889999999999998876654442 45566788888888888889999999999874   678999999888765


Q ss_pred             H-hhcCCHHHHHHHHHhC--CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHH
Q 005476          470 L-GRAGLVEEAYQFIKNM--PIPPNPVIWRTLLAACRAHKNVKVGEESLKNL  518 (695)
Q Consensus       470 ~-~~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~  518 (695)
                      | .|.|++.+|.++++..  .++.|.....-|+..|...|- ..+.+..+++
T Consensus       669 c~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl-~d~key~~kl  719 (840)
T KOG2003|consen  669 CFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL-KDAKEYADKL  719 (840)
T ss_pred             HHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc-hhHHHHHHHH
Confidence            4 5689999999999887  455578888888888877763 3455554444

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.48  E-value=2.5e-10  Score=120.67  Aligned_cols=354  Identities=12%  Similarity=0.024  Sum_probs=199.7

Q ss_pred             CCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHHHHH
Q 005476          185 RDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVV  264 (695)
Q Consensus       185 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  264 (695)
                      ++..+|.+++..-.-+|+.+.|..++.+|++.|+..+..-|..++-+   .++......+...|...|+.|+..|+..-+
T Consensus       202 ~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyv  278 (1088)
T KOG4318|consen  202 PTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYV  278 (1088)
T ss_pred             CChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHH
Confidence            67778888888888888888888888888888888888877777755   677777888888888888888888888777


Q ss_pred             HHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCC-----HHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCCh
Q 005476          265 DMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARR-----CKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGAL  339 (695)
Q Consensus       265 ~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~-----~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~  339 (695)
                      -.+.++|....+.+..+.-.--....+..+..+...+.+     ..-.+..+++..-.|+......|.... -....|.-
T Consensus       279 ip~l~N~~t~~~~e~sq~~hg~tAavrsaa~rg~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~-~l~hQgk~  357 (1088)
T KOG4318|consen  279 IPQLSNGQTKYGEEGSQLAHGFTAAVRSAACRGLLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCE-KLRHQGKG  357 (1088)
T ss_pred             HhhhcchhhhhcccccchhhhhhHHHHHHHhcccHhHHHHHHHHHHHHHHHhhHHHHhccccchHHHHHHH-HHHHcCCC
Confidence            777665553322221110000011222333332111111     112223333333334333222332222 22335556


Q ss_pred             hHHHHHHHHHHHhCCC---CchHHHhHHhcchhhcCCHHHHHHHHhcCCCCChh-HHHHHHHHHHh---cCChHHHHHHH
Q 005476          340 ETGKWVHLYVKKKRME---LTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVF-FWTVLIQCLAS---NGQGERALETY  412 (695)
Q Consensus       340 ~~a~~i~~~~~~~~~~---~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~-~~~~li~~~~~---~g~~~~A~~l~  412 (695)
                      +...++-..+..-...   .++..+.            +.+.+.|.++..+... .++ .-.+...   .....+..++.
T Consensus       358 e~veqlvg~l~npt~r~s~~~V~a~~------------~~lrqyFrr~e~~~~~~i~~-~~qgls~~l~se~tp~vsell  424 (1088)
T KOG4318|consen  358 EEVEQLVGQLLNPTLRDSGQNVDAFG------------ALLRQYFRRIERHICSRIYY-AGQGLSLNLNSEDTPRVSELL  424 (1088)
T ss_pred             chHHHHHhhhcCCccccCcchHHHHH------------HHHHHHHHHHHhhHHHHHHH-HHHHHHhhhchhhhHHHHHHH
Confidence            6666665555432111   1122222            2234455554443221 111 1122221   11111111211


Q ss_pred             HHH------------HH----CCCCC-------CHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHH
Q 005476          413 YIM------------RE----KNIEP-------NDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDI  469 (695)
Q Consensus       413 ~~m------------~~----~g~~p-------~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~  469 (695)
                      ...            ..    +-..|       -...-+.++..|.+.-+..++...-+... ++-+   ...|..||+.
T Consensus       425 ~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~se~n~lK~l~~~ekye-~~lf---~g~ya~Li~l  500 (1088)
T KOG4318|consen  425 ENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNSEYNKLKILCDEEKYE-DLLF---AGLYALLIKL  500 (1088)
T ss_pred             HHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHh---hhHHHHHhhh
Confidence            111            00    00111       01123344455555555555554443332 1122   2678999999


Q ss_pred             HhhcCCHHHHHHHHHhCC-----CCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcC---CCCcccHHHHHHHHHHcCC
Q 005476          470 LGRAGLVEEAYQFIKNMP-----IPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLE---PMHSGDYILLSDIYASAGR  541 (695)
Q Consensus       470 ~~~~g~~~~A~~~~~~m~-----~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~  541 (695)
                      +....+.++|..+.++..     +.-|..-+..+.+...+++....+..+++++.+.-   |.-..+..-+.+.-+..|+
T Consensus       501 ~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agq  580 (1088)
T KOG4318|consen  501 MDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQ  580 (1088)
T ss_pred             HHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccC
Confidence            999999999999999872     22345556778888888999999999988887732   3334455677777888999


Q ss_pred             HHHHHHHHHHHHhCCCcc
Q 005476          542 CEDALRVMNQMREQGIKK  559 (695)
Q Consensus       542 ~~~a~~~~~~m~~~~~~~  559 (695)
                      .+.-.++++-+...|+.-
T Consensus       581 qe~Lkkl~d~lvslgl~e  598 (1088)
T KOG4318|consen  581 QEKLKKLADILVSLGLSE  598 (1088)
T ss_pred             HHHHHHHHHHHHHhhhhh
Confidence            999999999998888754

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.48  E-value=8.4e-11  Score=124.93  Aligned_cols=330  Identities=15%  Similarity=0.170  Sum_probs=191.8

Q ss_pred             CChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHH
Q 005476          201 ECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLF  280 (695)
Q Consensus       201 g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f  280 (695)
                      |+.++|.+++.+..+.. .-+...|..|...+-..|+.+.+...+-.+--. .+.|...|..+.+...+.|.++.|.-.|
T Consensus       153 g~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL-~p~d~e~W~~ladls~~~~~i~qA~~cy  230 (895)
T KOG2076|consen  153 GDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHL-NPKDYELWKRLADLSEQLGNINQARYCY  230 (895)
T ss_pred             CCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhc-CCCChHHHHHHHHHHHhcccHHHHHHHH
Confidence            66666666666665542 223444666666666666666554443222221 2335556666666666666666666666


Q ss_pred             HhcCCCChhHHHH---HHHHHHhcCCHHHHHHHHHHhHHCCCCCCHH-----HHHHHHHHHhccCChhHHHHHHHHHHH-
Q 005476          281 EQMNIKDVVAWSA---MISGYSQARRCKEALGVFHDMQMANVVPNEV-----TMVSVLSCCAVLGALETGKWVHLYVKK-  351 (695)
Q Consensus       281 ~~m~~~~~~~~~~---li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~-----t~~~ll~a~~~~~~~~~a~~i~~~~~~-  351 (695)
                      .+..+.+..-|..   -+..|-+.|+...|++-|.++..... |...     +.-.++..+...++-+.|.+++..... 
T Consensus       231 ~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p-~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~  309 (895)
T KOG2076|consen  231 SRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDP-PVDIERIEDLIRRVAHYFITHNERERAAKALEGALSK  309 (895)
T ss_pred             HHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCC-chhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhh
Confidence            6654332222222   23445566666666666666655421 1111     111222333333333444333333332 


Q ss_pred             hCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHC-------------
Q 005476          352 KRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREK-------------  418 (695)
Q Consensus       352 ~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-------------  418 (695)
                      .+-..+..                               .+|.++..|.+...++.|......+...             
T Consensus       310 ~~~~~~~e-------------------------------d~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~  358 (895)
T KOG2076|consen  310 EKDEASLE-------------------------------DLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDE  358 (895)
T ss_pred             cccccccc-------------------------------HHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhh
Confidence            11122223                               3444555555555555555555444441             


Q ss_pred             --------------CCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCC--CCChhHHHHHHHHHhhcCCHHHHHHH
Q 005476          419 --------------NIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDL--EPRMEHYGCMVDILGRAGLVEEAYQF  482 (695)
Q Consensus       419 --------------g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~--~p~~~~~~~li~~~~~~g~~~~A~~~  482 (695)
                                    ++.++...+ .+.-+..+....+....+...... ..+  .-+...|.-+.++|.+.|++.+|+++
T Consensus       359 ~~~~~~~~~~~~~~~~s~~l~v~-rl~icL~~L~~~e~~e~ll~~l~~-~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~  436 (895)
T KOG2076|consen  359 RRREEPNALCEVGKELSYDLRVI-RLMICLVHLKERELLEALLHFLVE-DNVWVSDDVDLYLDLADALTNIGKYKEALRL  436 (895)
T ss_pred             hccccccccccCCCCCCccchhH-hHhhhhhcccccchHHHHHHHHHH-hcCChhhhHHHHHHHHHHHHhcccHHHHHHH
Confidence                          122222221 111122333333333223222322 243  33578899999999999999999999


Q ss_pred             HHhCC---CCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCCCcc
Q 005476          483 IKNMP---IPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKK  559 (695)
Q Consensus       483 ~~~m~---~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  559 (695)
                      +..+-   ...+...|--+...+...|.++.|.+.+++++.+.|++..+-+.|+.+|...|+.++|.+++..|...+-+.
T Consensus       437 l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~  516 (895)
T KOG2076|consen  437 LSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRN  516 (895)
T ss_pred             HHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccc
Confidence            99882   223577999999999999999999999999999999999999999999999999999999999887544444


Q ss_pred             CCceeEE
Q 005476          560 TPGCSLI  566 (695)
Q Consensus       560 ~~~~s~~  566 (695)
                      .+++.|-
T Consensus       517 ~e~~a~~  523 (895)
T KOG2076|consen  517 AEACAWE  523 (895)
T ss_pred             hhhcccc
Confidence            4556553

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.45  E-value=8.2e-12  Score=128.58  Aligned_cols=244  Identities=14%  Similarity=0.163  Sum_probs=193.7

Q ss_pred             CCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhC--CCCchHHHhHHhcchhhcCCHHH-HH
Q 005476          302 RRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKR--MELTITLGTALMDFYAKCGLIEN-AV  378 (695)
Q Consensus       302 g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~--~~~~~~~~~~li~~y~~~g~~~~-A~  378 (695)
                      -+.++|+..|.+.... +.-.......+..+|...+++++++.+|+.+.+..  .-.+..+|.+.+--+-+.=.+.- |.
T Consensus       333 y~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq  411 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQ  411 (638)
T ss_pred             HHHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHH
Confidence            3568999999995443 33344667778889999999999999999998854  22456677766644433222211 22


Q ss_pred             HHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCC
Q 005476          379 EVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEP-NDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLE  457 (695)
Q Consensus       379 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~  457 (695)
                      .+.+ +....+.+|-++..+|.-+++.+.|++.|++..+  +.| ...+|+.+..-+.....+|.|...|...+   +  
T Consensus       412 ~Li~-~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQ--ldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al---~--  483 (638)
T KOG1126|consen  412 DLID-TDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQ--LDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL---G--  483 (638)
T ss_pred             HHHh-hCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhc--cCCccchhhhhcCChhhhhHHHHhHHHHHHhhh---c--
Confidence            2222 2234678999999999999999999999999999  888 45688888888888899999999998775   3  


Q ss_pred             CChhHHH---HHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHH
Q 005476          458 PRMEHYG---CMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILL  532 (695)
Q Consensus       458 p~~~~~~---~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  532 (695)
                      .|+.+|+   .|.-.|.|.++++.|+-.|++. .+.| +.+....+...+.+.|+.++|++++++++.++|.|+-.-+..
T Consensus       484 ~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~  563 (638)
T KOG1126|consen  484 VDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHR  563 (638)
T ss_pred             CCchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHH
Confidence            4555555   4667899999999999999987 6677 556666777778999999999999999999999999999999


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHh
Q 005476          533 SDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       533 ~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      +.++...+++++|++.++++++
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~  585 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKE  585 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHH
Confidence            9999999999999999999987

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.45  E-value=6.1e-09  Score=102.94  Aligned_cols=476  Identities=12%  Similarity=0.083  Sum_probs=340.0

Q ss_pred             CCHHHHHHHhccCC---CCCcchHHHHHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHH
Q 005476           69 TTMDYALSIFHKIN---EPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHA  145 (695)
Q Consensus        69 g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  145 (695)
                      +++..|+.+|++..   .++...|---+..=.++.....|..+++.....-+..|.. |---+-.=-..|++..|+++|+
T Consensus        87 ~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdql-WyKY~ymEE~LgNi~gaRqife  165 (677)
T KOG1915|consen   87 KEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQL-WYKYIYMEEMLGNIAGARQIFE  165 (677)
T ss_pred             HHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHH-HHHHHHHHHHhcccHHHHHHHH
Confidence            67778999998875   3667778888888889999999999999988743333433 2222333345689999999999


Q ss_pred             HHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccC--CCCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHh
Q 005476          146 QILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMS--NRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEV  223 (695)
Q Consensus       146 ~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~  223 (695)
                      .-.+.  .|+...|++.|+.=.+-..++.|+.++++..  .|++.+|--...-=.++|....|..+|....+.  -.|..
T Consensus       166 rW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~--~~~d~  241 (677)
T KOG1915|consen  166 RWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEF--LGDDE  241 (677)
T ss_pred             HHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH--hhhHH
Confidence            88765  7999999999999999999999999999854  589999988888888999999999999987663  12233


Q ss_pred             H----HHHHHHHHhccCChhHHHHHHHHHHHhCCCCc--hHHHHHHHHHHHhcCCHHHHHHHH--------HhcCCC---
Q 005476          224 T----LINVLMACGRLADIELGGWISEYMEEKELNGN--VKLMTAVVDMYAKCGHVDKARRLF--------EQMNIK---  286 (695)
Q Consensus       224 t----~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~--~~~~~~li~~~~~~g~~~~A~~~f--------~~m~~~---  286 (695)
                      .    |++....=.+...++.|.-++...++.- +.+  ...|..+...--+-|+.....+..        +.+...   
T Consensus       242 ~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~-pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~np~  320 (677)
T KOG1915|consen  242 EAEILFVAFAEFEERQKEYERARFIYKYALDHI-PKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKNPY  320 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhCCC
Confidence            3    3333333345567888888998888763 333  456666666656667655444332        222222   


Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCH-------HHHHHHHHHH---hccCChhHHHHHHHHHHHhCCCC
Q 005476          287 DVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNE-------VTMVSVLSCC---AVLGALETGKWVHLYVKKKRMEL  356 (695)
Q Consensus       287 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-------~t~~~ll~a~---~~~~~~~~a~~i~~~~~~~~~~~  356 (695)
                      |-.+|--.+..--..|+.+...++|++.... ++|-.       ..|.-+=-+|   ....+.+.++++++..++ -++.
T Consensus       321 nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~-lIPH  398 (677)
T KOG1915|consen  321 NYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLD-LIPH  398 (677)
T ss_pred             CchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh-hcCc
Confidence            5667888888778889999999999999865 56632       1222222222   356788999999998888 3455


Q ss_pred             chHHHhHHhcchh----hcCCHHHHHHHHhcCCC--CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHH
Q 005476          357 TITLGTALMDFYA----KCGLIENAVEVFKKMPL--KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPN-DVAFIA  429 (695)
Q Consensus       357 ~~~~~~~li~~y~----~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~  429 (695)
                      ...++.-+=-+|+    ++.++..|.+++.....  |-...+...|..=.+.++++....+|++.++  ..|. ..+|..
T Consensus       399 kkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle--~~Pe~c~~W~k  476 (677)
T KOG1915|consen  399 KKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLE--FSPENCYAWSK  476 (677)
T ss_pred             ccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHh--cChHhhHHHHH
Confidence            5556555544554    67899999999987653  6667788888888899999999999999999  5664 458888


Q ss_pred             HHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHhhHHHHHHHHH-----
Q 005476          430 VLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPNPVIWRTLLAACR-----  503 (695)
Q Consensus       430 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~a~~-----  503 (695)
                      ....-...|+.+.|..+|..++....+......|.+.|+-=...|.++.|..+++++ ...+...+|-++..--.     
T Consensus       477 yaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~kvWisFA~fe~s~~~~  556 (677)
T KOG1915|consen  477 YAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHVKVWISFAKFEASASEG  556 (677)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccchHHHhHHHHhcccccc
Confidence            777778899999999999999875444445667888888889999999999999987 33445567877765433     


Q ss_pred             hcC-----------ChhHHHHHHHHHHhc----CCCCcc--cHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          504 AHK-----------NVKVGEESLKNLVTL----EPMHSG--DYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       504 ~~g-----------~~~~a~~~~~~~~~~----~p~~~~--~~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      +.+           +...|..+|+++...    +|....  ..-.+.++-...|...+...+-++|.+
T Consensus       557 ~~~~~~~~~e~~~~~~~~AR~iferAn~~~k~~~~KeeR~~LLEaw~~~E~~~G~~~d~~~V~s~mPk  624 (677)
T KOG1915|consen  557 QEDEDLAELEITDENIKRARKIFERANTYLKESTPKEERLMLLEAWKNMEETFGTEGDVERVQSKMPK  624 (677)
T ss_pred             ccccchhhhhcchhHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCchhhHHHHHHhccH
Confidence            334           567888888888763    232211  122333444556666666666666543

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.44  E-value=1e-09  Score=108.19  Aligned_cols=312  Identities=10%  Similarity=0.069  Sum_probs=221.5

Q ss_pred             HHhccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHH-HHHHHHHHhcCCHHHHHH
Q 005476          231 ACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAW-SAMISGYSQARRCKEALG  309 (695)
Q Consensus       231 a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~-~~li~~~~~~g~~~~A~~  309 (695)
                      ...+.|....|...+...+.. .+.....|..|.+   -..+.+.+..+....+..+...- -.+..+|....+.+++++
T Consensus       173 v~k~~~~~s~A~~sfv~~v~~-~P~~W~AWleL~~---lit~~e~~~~l~~~l~~~~h~M~~~F~~~a~~el~q~~e~~~  248 (559)
T KOG1155|consen  173 VLKELGLLSLAIDSFVEVVNR-YPWFWSAWLELSE---LITDIEILSILVVGLPSDMHWMKKFFLKKAYQELHQHEEALQ  248 (559)
T ss_pred             HHHhhchHHHHHHHHHHHHhc-CCcchHHHHHHHH---hhchHHHHHHHHhcCcccchHHHHHHHHHHHHHHHHHHHHHH
Confidence            344556666666666655543 1333344443333   23344444444444443322211 123455666667888888


Q ss_pred             HHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCCC--CchHHHhHHhcchhhcC--CHH-HHHHHHhcC
Q 005476          310 VFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRME--LTITLGTALMDFYAKCG--LIE-NAVEVFKKM  384 (695)
Q Consensus       310 ~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~--~~~~~~~~li~~y~~~g--~~~-~A~~~~~~~  384 (695)
                      -.......|++-+...-+....+.....++++|+.+|+.+.+...-  .|..+|+-++  |.+..  ++. -|..++ .+
T Consensus       249 k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~L--Yv~~~~skLs~LA~~v~-~i  325 (559)
T KOG1155|consen  249 KKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVL--YVKNDKSKLSYLAQNVS-NI  325 (559)
T ss_pred             HHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHH--HHHhhhHHHHHHHHHHH-Hh
Confidence            8888888876555554444445556778999999999999887421  2455665544  33332  221 122222 22


Q ss_pred             CCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHHHHchhhcCCCC-ChhH
Q 005476          385 PLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDV-AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEP-RMEH  462 (695)
Q Consensus       385 ~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~  462 (695)
                      .+--+.|.-.+..-|+-.++.++|...|++..+  +.|... .|+.+..-|....+...|.+-+..++   .+.| |-..
T Consensus       326 dKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALk--LNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAv---di~p~DyRA  400 (559)
T KOG1155|consen  326 DKYRPETCCIIANYYSLRSEHEKAVMYFKRALK--LNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAV---DINPRDYRA  400 (559)
T ss_pred             ccCCccceeeehhHHHHHHhHHHHHHHHHHHHh--cCcchhHHHHHhhHHHHHhcccHHHHHHHHHHH---hcCchhHHH
Confidence            222334444556677888899999999999998  777765 77778888999999999999999987   4445 7889


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcC
Q 005476          463 YGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAG  540 (695)
Q Consensus       463 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  540 (695)
                      |-.|..+|.-.+...-|+-+|++. ..+| |...|.+|...|.+.++.++|++.|++++..+.-+..+|+.|+++|-+.+
T Consensus       401 WYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~  480 (559)
T KOG1155|consen  401 WYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELK  480 (559)
T ss_pred             HhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHH
Confidence            999999999999999999999987 5566 78899999999999999999999999999988777789999999999999


Q ss_pred             CHHHHHHHHHHHHh
Q 005476          541 RCEDALRVMNQMRE  554 (695)
Q Consensus       541 ~~~~a~~~~~~m~~  554 (695)
                      +.++|.+.+++-.+
T Consensus       481 d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  481 DLNEAAQYYEKYVE  494 (559)
T ss_pred             hHHHHHHHHHHHHH
Confidence            99999999998776

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.44  E-value=9.3e-11  Score=122.98  Aligned_cols=286  Identities=12%  Similarity=0.032  Sum_probs=182.6

Q ss_pred             CCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchH--HHHHHHHHHHhcCCHHHHH
Q 005476          200 TECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVK--LMTAVVDMYAKCGHVDKAR  277 (695)
Q Consensus       200 ~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~--~~~~li~~~~~~g~~~~A~  277 (695)
                      .|++++|.+.+....+..-.| ...|.....+..+.|+.+.+...+..+.+.  .|+..  ........+...|+++.|.
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p-~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQP-VVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccch-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            466666665555543321111 222333334445666666666666666554  33332  2223356777788888888


Q ss_pred             HHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCC
Q 005476          278 RLFEQMNI---KDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRM  354 (695)
Q Consensus       278 ~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~  354 (695)
                      ..++++.+   .+......+...|.+.|++++|++++..+.+.+..++. .+..+-.                       
T Consensus       174 ~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~-~~~~l~~-----------------------  229 (398)
T PRK10747        174 HGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEE-HRAMLEQ-----------------------  229 (398)
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHH-HHHHHHH-----------------------
Confidence            88877653   25667777888888888888888888888877644222 1111100                       


Q ss_pred             CCchHHHhHHhcchhhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005476          355 ELTITLGTALMDFYAKCGLIENAVEVFKKMPL---KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVL  431 (695)
Q Consensus       355 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll  431 (695)
                          ..+..++....+..+.+...++++.++.   .++.....+...+...|+.++|.+++++..+  ..||....  ++
T Consensus       230 ----~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~--~~~~~~l~--~l  301 (398)
T PRK10747        230 ----QAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLK--RQYDERLV--LL  301 (398)
T ss_pred             ----HHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCHHHH--HH
Confidence                0001111111222334555555665543   4666777788888888888888888888877  34554221  23


Q ss_pred             HHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHhhHHHHHHHHHhcCChhH
Q 005476          432 SACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPNPVIWRTLLAACRAHKNVKV  510 (695)
Q Consensus       432 ~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~a~~~~g~~~~  510 (695)
                      .+....++.+++.+..+...+.  .+-|...+.++..++.+.|++++|.+.|++. ...|+...+..+...+.+.|+.++
T Consensus       302 ~~~l~~~~~~~al~~~e~~lk~--~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~  379 (398)
T PRK10747        302 IPRLKTNNPEQLEKVLRQQIKQ--HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEE  379 (398)
T ss_pred             HhhccCCChHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHH
Confidence            3344558888888888888753  3345667788888888999999998888886 567888888888888888999999


Q ss_pred             HHHHHHHHHhcC
Q 005476          511 GEESLKNLVTLE  522 (695)
Q Consensus       511 a~~~~~~~~~~~  522 (695)
                      |.+++++.+.+-
T Consensus       380 A~~~~~~~l~~~  391 (398)
T PRK10747        380 AAAMRRDGLMLT  391 (398)
T ss_pred             HHHHHHHHHhhh
Confidence            999888887653

>TIGR00540 hemY_coli hemY protein

Probab=99.41  E-value=4.5e-10  Score=118.50  Aligned_cols=291  Identities=13%  Similarity=0.072  Sum_probs=170.7

Q ss_pred             HhCCChhHHHHHHHHHHHcCCCCCHh-HHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHH
Q 005476          198 VKTECWREIVDLFNEMRDLGVKFDEV-TLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKA  276 (695)
Q Consensus       198 ~~~g~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  276 (695)
                      ...|+++.|.+.+.+..+.  .|+.. .+.....+....|+.+.+.+.+....+..-.+...+.......+...|+++.|
T Consensus        95 ~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHH
Confidence            3578888888888776664  34433 34444566667788888888888876653222233444457777778888888


Q ss_pred             HHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhC
Q 005476          277 RRLFEQMNI---KDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKR  353 (695)
Q Consensus       277 ~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~  353 (695)
                      ...++.+.+   .+...+..+...|.+.|++++|.+++..+.+.++. +...+..+-. .                    
T Consensus       173 l~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~-~--------------------  230 (409)
T TIGR00540       173 RHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQ-K--------------------  230 (409)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHH-H--------------------
Confidence            888777653   25566777777788888888888888887776533 2222211110 0                    


Q ss_pred             CCCchHHHhHHhcchhhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHH---
Q 005476          354 MELTITLGTALMDFYAKCGLIENAVEVFKKMPL---KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAF---  427 (695)
Q Consensus       354 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~---  427 (695)
                            .+..+++.-......+...+.++..+.   .+...+..+...+...|+.++|.+++++..+  ..||....   
T Consensus       231 ------a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~--~~pd~~~~~~~  302 (409)
T TIGR00540       231 ------AEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLK--KLGDDRAISLP  302 (409)
T ss_pred             ------HHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHh--hCCCcccchhH
Confidence                  000001000111223444455555553   3777788888888888888888888888887  44554421   


Q ss_pred             HHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHh---CCCCCCHhhHHHHHHHHHh
Q 005476          428 IAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKN---MPIPPNPVIWRTLLAACRA  504 (695)
Q Consensus       428 ~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~---m~~~p~~~~~~~ll~a~~~  504 (695)
                      ..........++.+.+.+.++...+...-.|+.....++...+.+.|++++|.+.|+.   ....||...+..+...+.+
T Consensus       303 ~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~  382 (409)
T TIGR00540       303 LCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQ  382 (409)
T ss_pred             HHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHH
Confidence            1111112234566666666666654322222214445666666666666666666662   2345666555566666666


Q ss_pred             cCChhHHHHHHHHHHh
Q 005476          505 HKNVKVGEESLKNLVT  520 (695)
Q Consensus       505 ~g~~~~a~~~~~~~~~  520 (695)
                      .|+.++|.+++++.+.
T Consensus       383 ~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       383 AGDKAEAAAMRQDSLG  398 (409)
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            6666666666666544

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.39  E-value=8.1e-09  Score=102.10  Aligned_cols=388  Identities=14%  Similarity=0.144  Sum_probs=263.6

Q ss_pred             HhcCChhHHHHHHhccCC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHH
Q 005476          167 ANCGRIDIARKMFDRMSN---RDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGW  243 (695)
Q Consensus       167 ~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~  243 (695)
                      ...+++..|+.+|++...   +++..|-..+..=.++.....|..++++....=...|..-| --+..=-..|++..|++
T Consensus        84 esq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWy-KY~ymEE~LgNi~gaRq  162 (677)
T KOG1915|consen   84 ESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWY-KYIYMEEMLGNIAGARQ  162 (677)
T ss_pred             HhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHH-HHHHHHHHhcccHHHHH
Confidence            345667778888877654   56666777777777778888888888877664222233222 22223345678888888


Q ss_pred             HHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhc--CCCChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCC
Q 005476          244 ISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQM--NIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVP  321 (695)
Q Consensus       244 ~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  321 (695)
                      +|+.-.+.  .|+...|++.|+.-.+-..++.|+.+++..  ..|++.+|--...--.++|....|..+|....+.  -.
T Consensus       163 iferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~--~~  238 (677)
T KOG1915|consen  163 IFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEF--LG  238 (677)
T ss_pred             HHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH--hh
Confidence            88877764  788888888888888888888888888875  3677778877777777788888888888776543  12


Q ss_pred             CHHHHHHHHHHH----hccCChhHHHHHHHHHHHhCCCC-chHHHhHHhcchhhcCCHHHHHHHH--------hcCCCC-
Q 005476          322 NEVTMVSVLSCC----AVLGALETGKWVHLYVKKKRMEL-TITLGTALMDFYAKCGLIENAVEVF--------KKMPLK-  387 (695)
Q Consensus       322 d~~t~~~ll~a~----~~~~~~~~a~~i~~~~~~~~~~~-~~~~~~~li~~y~~~g~~~~A~~~~--------~~~~~~-  387 (695)
                      |...--.+..++    .....++.|..+++.++..-... ...+|..+...--+-|+.....+..        +.+... 
T Consensus       239 ~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n  318 (677)
T KOG1915|consen  239 DDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN  318 (677)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC
Confidence            222222333333    44567788888888887753222 2344554444444445543333222        222222 


Q ss_pred             --ChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-------HHHHHHHHH---hccccHHHHHHHHHHchhhcC
Q 005476          388 --NVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDV-------AFIAVLSAC---SHVGMVDEGRELFVSMSRDFD  455 (695)
Q Consensus       388 --~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-------t~~~ll~a~---~~~g~~~~a~~~~~~~~~~~~  455 (695)
                        |-.+|--.+..-...|+.+...++|++.+.. ++|-..       .|..+=-+|   ....+++.+.++|+..++   
T Consensus       319 p~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~---  394 (677)
T KOG1915|consen  319 PYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLD---  394 (677)
T ss_pred             CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh---
Confidence              5567777777777788999999999998874 566321       222222222   345788888899988864   


Q ss_pred             CCC-ChhHHHHHHHHH----hhcCCHHHHHHHHHhC-CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccH
Q 005476          456 LEP-RMEHYGCMVDIL----GRAGLVEEAYQFIKNM-PIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDY  529 (695)
Q Consensus       456 ~~p-~~~~~~~li~~~----~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~  529 (695)
                      +.| ...++.-+--+|    .|+.++..|.+++-.. |.-|...++...|..-.+.++++....++++.++-.|.+..++
T Consensus       395 lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe~c~~W  474 (677)
T KOG1915|consen  395 LIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPENCYAW  474 (677)
T ss_pred             hcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChHhhHHH
Confidence            444 445555444444    4788889998888764 7788888888888888888999999999999999999988888


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCCCccCCce
Q 005476          530 ILLSDIYASAGRCEDALRVMNQMREQGIKKTPGC  563 (695)
Q Consensus       530 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  563 (695)
                      ...+..-...|+++.|..+|.....+.....|..
T Consensus       475 ~kyaElE~~LgdtdRaRaifelAi~qp~ldmpel  508 (677)
T KOG1915|consen  475 SKYAELETSLGDTDRARAIFELAISQPALDMPEL  508 (677)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHH
Confidence            8888888889999999999998887654333433

>TIGR00540 hemY_coli hemY protein

Probab=99.39  E-value=2.4e-10  Score=120.63  Aligned_cols=282  Identities=11%  Similarity=0.044  Sum_probs=184.9

Q ss_pred             HhcCChhHHHHHHhccCC--CCe-ehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHh--HHHHHHHHHhccCChhHH
Q 005476          167 ANCGRIDIARKMFDRMSN--RDV-FSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEV--TLINVLMACGRLADIELG  241 (695)
Q Consensus       167 ~~~g~~~~A~~~f~~m~~--~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~--t~~~ll~a~~~~~~~~~a  241 (695)
                      ...|+++.|++.+.+..+  |+. ..+-.....+.+.|+++.|.+.+.+..+..  |+..  .-..........|+++.|
T Consensus        95 ~~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHHH
Confidence            357999999999988765  332 223344566778899999999999987653  4443  333346777889999999


Q ss_pred             HHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCCC---ChhHHHHH----HHHHHhcCCHHHHHHHHHHh
Q 005476          242 GWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIK---DVVAWSAM----ISGYSQARRCKEALGVFHDM  314 (695)
Q Consensus       242 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~---~~~~~~~l----i~~~~~~g~~~~A~~~~~~m  314 (695)
                      ...++.+.+.. +.+..+...+...|...|++++|.+.+..+.+.   +...+..+    ..+....+..+++.+.+..+
T Consensus       173 l~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~  251 (409)
T TIGR00540       173 RHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNW  251 (409)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            99999999986 557788999999999999999999999988754   22222111    11112222222222333333


Q ss_pred             HHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCC--CChhH-
Q 005476          315 QMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPL--KNVFF-  391 (695)
Q Consensus       315 ~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~~~-  391 (695)
                      ....  |+                              ..+.++..+..++..+...|+.++|.+++++..+  ||... 
T Consensus       252 ~~~~--p~------------------------------~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~  299 (409)
T TIGR00540       252 WKNQ--PR------------------------------HRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAI  299 (409)
T ss_pred             HHHC--CH------------------------------HHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccc
Confidence            3221  10                              0012344444455555555555555555555443  22211 


Q ss_pred             --HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH---HHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHH
Q 005476          392 --WTVLIQCLASNGQGERALETYYIMREKNIEPNDV---AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCM  466 (695)
Q Consensus       392 --~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~---t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  466 (695)
                        +..........++.+.+++.+++..+  ..|+..   ...++...|.+.|++++|.+.|+.... +...|+...+..+
T Consensus       300 ~~~~l~~~~~l~~~~~~~~~~~~e~~lk--~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a-~~~~p~~~~~~~L  376 (409)
T TIGR00540       300 SLPLCLPIPRLKPEDNEKLEKLIEKQAK--NVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAA-CKEQLDANDLAMA  376 (409)
T ss_pred             hhHHHHHhhhcCCCChHHHHHHHHHHHH--hCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHH-hhcCCCHHHHHHH
Confidence              11111222334667788888888777  456554   445778888999999999999995322 3567888888899


Q ss_pred             HHHHhhcCCHHHHHHHHHhC
Q 005476          467 VDILGRAGLVEEAYQFIKNM  486 (695)
Q Consensus       467 i~~~~~~g~~~~A~~~~~~m  486 (695)
                      ...+.+.|+.++|.+++++.
T Consensus       377 a~ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       377 ADAFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             HHHHHHcCCHHHHHHHHHHH
Confidence            99999999999999998873

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.37  E-value=1.1e-09  Score=114.88  Aligned_cols=275  Identities=11%  Similarity=0.062  Sum_probs=187.1

Q ss_pred             cCCHHHHHHHHHhcCCC--C-hhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHH--HHHHHHhccCChhHHHH
Q 005476          270 CGHVDKARRLFEQMNIK--D-VVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMV--SVLSCCAVLGALETGKW  344 (695)
Q Consensus       270 ~g~~~~A~~~f~~m~~~--~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~--~ll~a~~~~~~~~~a~~  344 (695)
                      .|+++.|++........  + ...+-.......+.|+++.|.+.|.++.+.  .|+.....  .....+...|+.+.|..
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            46666666666654432  1 222222233335667777777777776653  44443222  22345566677777777


Q ss_pred             HHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCCCh-----------hHHHHHHHHHHhcCChHHHHHHHH
Q 005476          345 VHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNV-----------FFWTVLIQCLASNGQGERALETYY  413 (695)
Q Consensus       345 i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~-----------~~~~~li~~~~~~g~~~~A~~l~~  413 (695)
                      .++.+.+.. +.++.+...+...|.+.|++++|.+++..+.+...           ..|..++.......+.+...++++
T Consensus       175 ~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~  253 (398)
T PRK10747        175 GVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWK  253 (398)
T ss_pred             HHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            777766655 44566666777777777777777777776654211           133334444444555666677777


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-C
Q 005476          414 IMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-N  491 (695)
Q Consensus       414 ~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~  491 (695)
                      .+... .+.+......+..++...|+.++|.++++...+   ..|+....  ++.+....|+.+++.+.+++. ...| |
T Consensus       254 ~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~---~~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~~  327 (398)
T PRK10747        254 NQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLK---RQYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGDT  327 (398)
T ss_pred             hCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCCC
Confidence            66442 344666888899999999999999999988865   34555322  233334559999999999876 4455 4


Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          492 PVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       492 ~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      ...+..+...|...+++++|.+.|+++++.+|++ ..|..|+.++.+.|+.++|.+++++-..
T Consensus       328 ~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~-~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        328 PLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDA-YDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            5567788889999999999999999999999975 5688999999999999999999998754

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.36  E-value=6.2e-12  Score=125.93  Aligned_cols=255  Identities=16%  Similarity=0.142  Sum_probs=96.0

Q ss_pred             HHHHHHcCCCchHHHHHHHHHHhCCCCCCh-hhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcC
Q 005476           92 MIRAFTLKQSPQEAVMLYKTMLQNSVEPDR-FTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCG  170 (695)
Q Consensus        92 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g  170 (695)
                      +...+.+.|++++|++++.........|+. ..|..+...+...++.+.|.+.++.+...+ +.++..+..++.. ...+
T Consensus        14 ~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   14 LARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-cccc
Confidence            355566777888888877554443223333 333344445556677888888888887765 3356666777776 5778


Q ss_pred             ChhHHHHHHhccCC--CCeehHHHHHHHHHhCCChhHHHHHHHHHHHcC-CCCCHhHHHHHHHHHhccCChhHHHHHHHH
Q 005476          171 RIDIARKMFDRMSN--RDVFSWNSMFSGYVKTECWREIVDLFNEMRDLG-VKFDEVTLINVLMACGRLADIELGGWISEY  247 (695)
Q Consensus       171 ~~~~A~~~f~~m~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~  247 (695)
                      ++++|.+++...-+  ++...+..++..+.+.++++++.++++...... .+++...|..+...+.+.|+.+.|...++.
T Consensus        92 ~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~  171 (280)
T PF13429_consen   92 DPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRK  171 (280)
T ss_dssp             --------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             cccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            88888877766533  456667777788888888888888888876432 334555667777777788888888888888


Q ss_pred             HHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcC---CCChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHH
Q 005476          248 MEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMN---IKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEV  324 (695)
Q Consensus       248 ~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~  324 (695)
                      +++.. +.|..+.+.++..+...|+.+++.+++....   ..|...|..+..+|...|+.++|+..|++..... +.|..
T Consensus       172 al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~  249 (280)
T PF13429_consen  172 ALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPL  249 (280)
T ss_dssp             HHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HH
T ss_pred             HHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccccc-ccccc
Confidence            88774 3357778888888888888888776666553   3466778888888888888888888888877642 33566


Q ss_pred             HHHHHHHHHhccCChhHHHHHHHHHH
Q 005476          325 TMVSVLSCCAVLGALETGKWVHLYVK  350 (695)
Q Consensus       325 t~~~ll~a~~~~~~~~~a~~i~~~~~  350 (695)
                      +...+..++...|+.+.|..+..++.
T Consensus       250 ~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  250 WLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHHHHHHHHT----------------
T ss_pred             cccccccccccccccccccccccccc
Confidence            66677777777777777776665543

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.35  E-value=1.8e-08  Score=99.59  Aligned_cols=155  Identities=13%  Similarity=0.065  Sum_probs=73.1

Q ss_pred             HHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHh
Q 005476          325 TMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPL---KNVFFWTVLIQCLAS  401 (695)
Q Consensus       325 t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~  401 (695)
                      |...+.+.++-.++.+.|...|+++.+.+ +....+|+.+.+-|....+...|.+-++...+   +|-..|-.+.++|.-
T Consensus       332 TCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~DyRAWYGLGQaYei  410 (559)
T KOG1155|consen  332 TCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPRDYRAWYGLGQAYEI  410 (559)
T ss_pred             ceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCchhHHHHhhhhHHHHH
Confidence            33334444444444444444444444443 22333444444445555555555555444332   344455555555555


Q ss_pred             cCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHH
Q 005476          402 NGQGERALETYYIMREKNIEPN-DVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAY  480 (695)
Q Consensus       402 ~g~~~~A~~l~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  480 (695)
                      .+.+.=|+-.|++..+  ++|+ ...|.+|..+|.+.++.++|++.|.....  .-..+...+..|.++|-+.++.++|.
T Consensus       411 m~Mh~YaLyYfqkA~~--~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~--~~dte~~~l~~LakLye~l~d~~eAa  486 (559)
T KOG1155|consen  411 MKMHFYALYYFQKALE--LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAIL--LGDTEGSALVRLAKLYEELKDLNEAA  486 (559)
T ss_pred             hcchHHHHHHHHHHHh--cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHh--ccccchHHHHHHHHHHHHHHhHHHHH
Confidence            5555555555555554  4443 23455555555555555555555554443  11223344555555555555555554


Q ss_pred             HHHH
Q 005476          481 QFIK  484 (695)
Q Consensus       481 ~~~~  484 (695)
                      ..++
T Consensus       487 ~~ye  490 (559)
T KOG1155|consen  487 QYYE  490 (559)
T ss_pred             HHHH
Confidence            4444

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.35  E-value=4.9e-09  Score=106.19  Aligned_cols=259  Identities=12%  Similarity=0.094  Sum_probs=203.6

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcch
Q 005476          289 VAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFY  368 (695)
Q Consensus       289 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y  368 (695)
                      ...-.-..-+-..+++.+..++++...+.. ++....+..=|..+...|+...-..+-..+++. .+....+|-++.--|
T Consensus       245 dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YY  322 (611)
T KOG1173|consen  245 DLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYY  322 (611)
T ss_pred             HHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHH
Confidence            333444455677889999999999988753 445555555555667777766655555555554 366677888888888


Q ss_pred             hhcCCHHHHHHHHhcCCCCC---hhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccccHHHHH
Q 005476          369 AKCGLIENAVEVFKKMPLKN---VFFWTVLIQCLASNGQGERALETYYIMREKNIEPN-DVAFIAVLSACSHVGMVDEGR  444 (695)
Q Consensus       369 ~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~  444 (695)
                      .-.|+..+|++.|.+...-|   ...|-.....|+-.|..++|+..+...-+  +-|. ...+.-+..-|.+.++.+.|.
T Consensus       323 l~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAar--l~~G~hlP~LYlgmey~~t~n~kLAe  400 (611)
T KOG1173|consen  323 LMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAAR--LMPGCHLPSLYLGMEYMRTNNLKLAE  400 (611)
T ss_pred             HHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHH--hccCCcchHHHHHHHHHHhccHHHHH
Confidence            88999999999998876533   35799999999999999999999988766  3332 224444555788899999999


Q ss_pred             HHHHHchhhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC--------CCCC-CHhhHHHHHHHHHhcCChhHHHHH
Q 005476          445 ELFVSMSRDFDLEP-RMEHYGCMVDILGRAGLVEEAYQFIKNM--------PIPP-NPVIWRTLLAACRAHKNVKVGEES  514 (695)
Q Consensus       445 ~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m--------~~~p-~~~~~~~ll~a~~~~g~~~~a~~~  514 (695)
                      ++|.+..   ++-| |+.+++-+.-+....+.+.+|..+|+..        +-++ -..+|+.|..+|++.+.+++|+..
T Consensus       401 ~Ff~~A~---ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~  477 (611)
T KOG1173|consen  401 KFFKQAL---AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDY  477 (611)
T ss_pred             HHHHHHH---hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHH
Confidence            9999885   6666 5777788887888889999999999865        1112 345688899999999999999999


Q ss_pred             HHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          515 LKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       515 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      +++.+.+.|.++.+|.+++-+|...|+.+.|...|.+..-
T Consensus       478 ~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~  517 (611)
T KOG1173|consen  478 YQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALA  517 (611)
T ss_pred             HHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999998764

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.32  E-value=1.1e-09  Score=103.17  Aligned_cols=218  Identities=17%  Similarity=0.187  Sum_probs=165.2

Q ss_pred             CCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCC---CccHHHHHHHHHHhcCChhHH
Q 005476           99 KQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGC---RQLVTNTLIHLYANCGRIDIA  175 (695)
Q Consensus        99 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~---~~~~~~~Li~~y~~~g~~~~A  175 (695)
                      ++++++|.++|-+|.+... -+..+-.+|-+.+.+.|..+.|..+|+.+.++.--+   .....-.|..-|...|-+|.|
T Consensus        48 s~Q~dKAvdlF~e~l~~d~-~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRA  126 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDP-ETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcCc-hhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            4689999999999998422 134456677788899999999999999998753111   123456677888899999999


Q ss_pred             HHHHhccCCCCe---ehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhH----HHHHHHHHhccCChhHHHHHHHHH
Q 005476          176 RKMFDRMSNRDV---FSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVT----LINVLMACGRLADIELGGWISEYM  248 (695)
Q Consensus       176 ~~~f~~m~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t----~~~ll~a~~~~~~~~~a~~~~~~~  248 (695)
                      +.+|..+.+...   .+...|+..|-+..+|++|+++-+++.+.|-++..+-    |..+........+++.|...+...
T Consensus       127 E~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kA  206 (389)
T COG2956         127 EDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKA  206 (389)
T ss_pred             HHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            999999877433   3556689999999999999999999998776665543    445555566667788888888887


Q ss_pred             HHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCh----hHHHHHHHHHHhcCCHHHHHHHHHHhHHCC
Q 005476          249 EEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDV----VAWSAMISGYSQARRCKEALGVFHDMQMAN  318 (695)
Q Consensus       249 ~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  318 (695)
                      .+.+ +..+.+--.+.+.+...|+++.|.+.++.+.+.|.    .+...|..+|.+.|+.++.+..+.++.+..
T Consensus       207 lqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~  279 (389)
T COG2956         207 LQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN  279 (389)
T ss_pred             HhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            7764 34555666677788888888888888888876654    356677788888888888888888877654

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.30  E-value=3.2e-09  Score=100.17  Aligned_cols=267  Identities=13%  Similarity=0.111  Sum_probs=157.4

Q ss_pred             CCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhC-CCC--chHHHHHHHHHHHhcCCHHHH
Q 005476          200 TECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKE-LNG--NVKLMTAVVDMYAKCGHVDKA  276 (695)
Q Consensus       200 ~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g-~~~--~~~~~~~li~~~~~~g~~~~A  276 (695)
                      +.+.++|+++|-+|.+.. +-+..+-.++-+.+.+.|..+.|..+|+.+.++- +..  -..+.-.|..-|...|-+|.|
T Consensus        48 s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRA  126 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            467788888888887631 1122234567777788888888998888888763 111  234566778889999999999


Q ss_pred             HHHHHhcCCCCh---hHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHH----HHHHHHHHhccCChhHHHHHHHHH
Q 005476          277 RRLFEQMNIKDV---VAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVT----MVSVLSCCAVLGALETGKWVHLYV  349 (695)
Q Consensus       277 ~~~f~~m~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t----~~~ll~a~~~~~~~~~a~~i~~~~  349 (695)
                      +.+|..+.+.+.   .+...|+..|-+..+|++|++.-+++...+-.+..+-    |.-+........+.+.|..++..+
T Consensus       127 E~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kA  206 (389)
T COG2956         127 EDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKA  206 (389)
T ss_pred             HHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            999999877443   4666789999999999999999999988765544332    222222223334444444444444


Q ss_pred             HHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 005476          350 KKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIA  429 (695)
Q Consensus       350 ~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~  429 (695)
                      .+.+. .                               .+..--.+...+...|++..|++.++...+++..--..+...
T Consensus       207 lqa~~-~-------------------------------cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~  254 (389)
T COG2956         207 LQADK-K-------------------------------CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEM  254 (389)
T ss_pred             HhhCc-c-------------------------------ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHH
Confidence            43321 1                               111222233445556666666666666655332222234555


Q ss_pred             HHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHH-HhCCCCCCHhhHHHHHHHH
Q 005476          430 VLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFI-KNMPIPPNPVIWRTLLAAC  502 (695)
Q Consensus       430 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~-~~m~~~p~~~~~~~ll~a~  502 (695)
                      |..+|.+.|+.+++...+..+.+.   .+....-..+.+.-....-.++|...+ +.+.-+|+...+.-|+...
T Consensus       255 L~~~Y~~lg~~~~~~~fL~~~~~~---~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~  325 (389)
T COG2956         255 LYECYAQLGKPAEGLNFLRRAMET---NTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYH  325 (389)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHc---cCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhh
Confidence            556666666666666666555432   233333344444444444444444333 3345566666666666553

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.30  E-value=9.6e-10  Score=116.37  Aligned_cols=435  Identities=12%  Similarity=0.052  Sum_probs=223.6

Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCCCC
Q 005476          107 MLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRD  186 (695)
Q Consensus       107 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~  186 (695)
                      .++-.+...|+.||.+||..++..|+..|+.+.|- +|..|.-..++.+..+++.++....+.++.+.+.       +|.
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~   82 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPL   82 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCc
Confidence            45566777788888888888888888888887777 7887777777777778888888877777776664       567


Q ss_pred             eehHHHHHHHHHhCCChhHHHHHHHH-HH-------HcCCCCCHhHHHHHHHHHhccC-ChhH------HHHHHHHHHHh
Q 005476          187 VFSWNSMFSGYVKTECWREIVDLFNE-MR-------DLGVKFDEVTLINVLMACGRLA-DIEL------GGWISEYMEEK  251 (695)
Q Consensus       187 ~~~~~~li~~~~~~g~~~~A~~~~~~-m~-------~~g~~pd~~t~~~ll~a~~~~~-~~~~------a~~~~~~~~~~  251 (695)
                      ..+|+.|..+|.+.||... ++..++ |.       ..|+......+...+.+|-..- +...      -+.++...++.
T Consensus        83 aDtyt~Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkl  161 (1088)
T KOG4318|consen   83 ADTYTNLLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKL  161 (1088)
T ss_pred             hhHHHHHHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHH
Confidence            7788888888888887654 222222 21       1222222222222222221110 0000      01112222222


Q ss_pred             CCCCchHHHHH----HHHHH-HhcCCHHHHHHHHHhcCC-CChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHH
Q 005476          252 ELNGNVKLMTA----VVDMY-AKCGHVDKARRLFEQMNI-KDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVT  325 (695)
Q Consensus       252 g~~~~~~~~~~----li~~~-~~~g~~~~A~~~f~~m~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t  325 (695)
                      +....+..++.    .+.-. .....+++-........+ ++..++.+.+.+-..+|+.+.|..++.+|.+.|++.+.+-
T Consensus       162 l~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~Hy  241 (1088)
T KOG4318|consen  162 LAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHY  241 (1088)
T ss_pred             HhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCccccc
Confidence            20000000000    01100 011122222222222222 4566666666666666666666666666666666666655


Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHH------------------------HHHHH
Q 005476          326 MVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIEN------------------------AVEVF  381 (695)
Q Consensus       326 ~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~------------------------A~~~~  381 (695)
                      |-.++-+   .++......+..-|...|+.|+..|+.-.+-...+.|....                        |.+.+
T Consensus       242 FwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAavrsaa~rg~~a~k~l  318 (1088)
T KOG4318|consen  242 FWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAVRSAACRGLLANKRL  318 (1088)
T ss_pred             chhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccccchhhhhhHHHHHHHhcccHhHHHH
Confidence            5555533   55555566666666666666666655544333333222111                        11111


Q ss_pred             h---------cCCC-------CChhHHHHHHHHHHhcCChHHHHHHHHHHHHC--CCCCCHH-HHHHHHHHHhcccc---
Q 005476          382 K---------KMPL-------KNVFFWTVLIQCLASNGQGERALETYYIMREK--NIEPNDV-AFIAVLSACSHVGM---  439 (695)
Q Consensus       382 ~---------~~~~-------~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~--g~~p~~~-t~~~ll~a~~~~g~---  439 (695)
                      +         ..++       ....+|...+. ...+|..++..++-..|..-  ...|+.+ .|..++.-|.+.-.   
T Consensus       319 ~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~-l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lrqyFrr~e~~~  397 (1088)
T KOG4318|consen  319 RQNLRKSVIGSTKKLFLLGTDILEAIWSMCEK-LRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLRQYFRRIERHI  397 (1088)
T ss_pred             HHHHHHHHHHHhhHHHHhccccchHHHHHHHH-HHHcCCCchHHHHHhhhcCCccccCcchHHHHHHHHHHHHHHHHhhH
Confidence            1         1111       11233443332 23367777777777777542  1334433 55555544433211   


Q ss_pred             -------------------HHHHHHHHHHchhhc---------------CCCC-------ChhHHHHHHHHHhhcCCHHH
Q 005476          440 -------------------VDEGRELFVSMSRDF---------------DLEP-------RMEHYGCMVDILGRAGLVEE  478 (695)
Q Consensus       440 -------------------~~~a~~~~~~~~~~~---------------~~~p-------~~~~~~~li~~~~~~g~~~~  478 (695)
                                         ..+..+......+..               ...|       -...-+.++..+.+.-+..+
T Consensus       398 ~~~i~~~~qgls~~l~se~tp~vsell~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~se~n~lK  477 (1088)
T KOG4318|consen  398 CSRIYYAGQGLSLNLNSEDTPRVSELLENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNSEYNKLK  477 (1088)
T ss_pred             HHHHHHHHHHHHhhhchhhhHHHHHHHHHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence                               111111111110000               0000       01112333444444444444


Q ss_pred             HHHHHHhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCC---CCcccHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          479 AYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEP---MHSGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       479 A~~~~~~m~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p---~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      ++...++..-.-=...|..|+.-+..+...+.|....++....+.   -+..-+..+.+.+.+.+...++..+.+++++
T Consensus       478 ~l~~~ekye~~lf~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~tiL~e~ks  556 (1088)
T KOG4318|consen  478 ILCDEEKYEDLLFAGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTILYEDKS  556 (1088)
T ss_pred             HHHHHHHHHHHHhhhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHHHhhhhH
Confidence            443333321000124677888888888888988888888766441   2344678999999999999999999999987

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.27  E-value=5.3e-10  Score=108.64  Aligned_cols=198  Identities=16%  Similarity=0.072  Sum_probs=162.3

Q ss_pred             CchHHHhHHhcchhhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005476          356 LTITLGTALMDFYAKCGLIENAVEVFKKMPL---KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLS  432 (695)
Q Consensus       356 ~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~  432 (695)
                      .....+..+...|.+.|++++|.+.|++...   .+...+..+...|...|++++|.+.|++..+.. +.+...+..+..
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~  107 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGT  107 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHH
Confidence            3355667778888899999999999987643   356678888889999999999999999998843 234457777888


Q ss_pred             HHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhH
Q 005476          433 ACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKV  510 (695)
Q Consensus       433 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~  510 (695)
                      .+...|++++|.+.++.+............+..+...+.+.|++++|.+.+++. ...| +...|..+...+...|++++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHH
Confidence            889999999999999998763222234567778889999999999999999886 3334 46678888889999999999


Q ss_pred             HHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          511 GEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       511 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      |...++++++..|.++..+..++.++...|+.++|..+.+.+..
T Consensus       188 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       188 ARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            99999999999888888888899999999999999999888765

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.26  E-value=1.6e-08  Score=98.61  Aligned_cols=279  Identities=11%  Similarity=0.062  Sum_probs=190.1

Q ss_pred             CCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHH
Q 005476          200 TECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRL  279 (695)
Q Consensus       200 ~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~  279 (695)
                      .|++.+|.++..+-.+.+-.| ...|..-..+.-..|+.+.+-..+.++-+.--.++..+.-+........|+++.|+.-
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            578888888888866665433 3346666777778888888888888887764466777788888888888998888887


Q ss_pred             HHhc---CCCChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHH-------HHHHHHHHHhccCChhHHHHHHHHH
Q 005476          280 FEQM---NIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEV-------TMVSVLSCCAVLGALETGKWVHLYV  349 (695)
Q Consensus       280 f~~m---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~-------t~~~ll~a~~~~~~~~~a~~i~~~~  349 (695)
                      .+++   ..++.........+|.+.|++.+...++.+|.+.|+--|+.       ++..+++-+..              
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~--------------  241 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARD--------------  241 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhc--------------
Confidence            7764   45678888889999999999999999999999888654432       23333322222              


Q ss_pred             HHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHH
Q 005476          350 KKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPL---KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVA  426 (695)
Q Consensus       350 ~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t  426 (695)
                                           .+..+.-...++..+.   .++..-.+++.-+.+.|+.++|.++.++..+.+..|+..+
T Consensus       242 ---------------------~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~  300 (400)
T COG3071         242 ---------------------DNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCR  300 (400)
T ss_pred             ---------------------cccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHH
Confidence                                 2222233334455443   3455556667777788888888888888888777776222


Q ss_pred             HHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHhhHHHHHHHHHhc
Q 005476          427 FIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPNPVIWRTLLAACRAH  505 (695)
Q Consensus       427 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~a~~~~  505 (695)
                          +-.+.+.++...-.+..+.-.+.++..|  ..+.+|...|.+.+.+.+|.+.|+.. +..|+..+|+-+..++.+.
T Consensus       301 ----~~~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~  374 (400)
T COG3071         301 ----LIPRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQL  374 (400)
T ss_pred             ----HHhhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHc
Confidence                2345566666666666666555444444  55666777777777777777777654 5566777777777777777


Q ss_pred             CChhHHHHHHHHHHh
Q 005476          506 KNVKVGEESLKNLVT  520 (695)
Q Consensus       506 g~~~~a~~~~~~~~~  520 (695)
                      |+.+.|.+..++.+.
T Consensus       375 g~~~~A~~~r~e~L~  389 (400)
T COG3071         375 GEPEEAEQVRREALL  389 (400)
T ss_pred             CChHHHHHHHHHHHH
Confidence            777777777766664

>PF13041 PPR_2: PPR repeat family

Probab=99.24  E-value=2.3e-11  Score=85.44  Aligned_cols=50  Identities=20%  Similarity=0.404  Sum_probs=47.7

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc
Q 005476          387 KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSH  436 (695)
Q Consensus       387 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~  436 (695)
                      ||+++||++|.+|++.|++++|.++|++|.+.|++||..||+.+|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            68999999999999999999999999999999999999999999999875

>PF13041 PPR_2: PPR repeat family

Probab=99.23  E-value=2e-11  Score=85.76  Aligned_cols=50  Identities=32%  Similarity=0.537  Sum_probs=47.8

Q ss_pred             CCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhc
Q 005476          185 RDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGR  234 (695)
Q Consensus       185 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~  234 (695)
                      ||+++||++|.+|++.|++++|+++|++|.+.|++||..||+.++++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            78999999999999999999999999999999999999999999999874

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.20  E-value=3.6e-07  Score=89.27  Aligned_cols=301  Identities=10%  Similarity=-0.017  Sum_probs=210.9

Q ss_pred             CCHhHHHHHHHHHhc--cCChhHHHHHHHHHHHhC-CCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHH---
Q 005476          220 FDEVTLINVLMACGR--LADIELGGWISEYMEEKE-LNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSA---  293 (695)
Q Consensus       220 pd~~t~~~ll~a~~~--~~~~~~a~~~~~~~~~~g-~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~---  293 (695)
                      |+..+...-+.+++.  .++-..+.+.+..+.+.. ++-|+....++.+.|...|+.++|+..|++...-|..+...   
T Consensus       192 ~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~  271 (564)
T KOG1174|consen  192 DHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDL  271 (564)
T ss_pred             CCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHH
Confidence            333343334444433  344444555555555443 66789999999999999999999999999976554433332   


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCC
Q 005476          294 MISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGL  373 (695)
Q Consensus       294 li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~  373 (695)
                      ..-.+.+.|+++....+...+.... .-....|..-+...-...+++.|..+-+..++.+ +.+...+-.-...+...|+
T Consensus       272 Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R  349 (564)
T KOG1174|consen  272 YAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALER  349 (564)
T ss_pred             HHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccc
Confidence            2334567899998888887776532 1122222222333345667777777777666654 2233333333455667899


Q ss_pred             HHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH-HHHh-ccccHHHHHHHHH
Q 005476          374 IENAVEVFKKMPL---KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVL-SACS-HVGMVDEGRELFV  448 (695)
Q Consensus       374 ~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll-~a~~-~~g~~~~a~~~~~  448 (695)
                      +++|.-.|+....   -+..+|..++.+|...|++.+|.-+-+..... +.-+..+...+. ..|. ....-++|.++++
T Consensus       350 ~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~e  428 (564)
T KOG1174|consen  350 HTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAE  428 (564)
T ss_pred             hHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHH
Confidence            9999999987543   37899999999999999999999887765542 333444554442 2332 2334578999988


Q ss_pred             HchhhcCCCCC-hhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCc
Q 005476          449 SMSRDFDLEPR-MEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHS  526 (695)
Q Consensus       449 ~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~  526 (695)
                      +..   .+.|+ ....+.+...+.+.|+.+++..++++. ...||....+.|...++..+.+++|...|..++.++|++.
T Consensus       429 k~L---~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~~  505 (564)
T KOG1174|consen  429 KSL---KINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKSK  505 (564)
T ss_pred             hhh---ccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccch
Confidence            775   56776 556778889999999999999999886 5678999999999999999999999999999999999874

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.19  E-value=1.6e-07  Score=95.97  Aligned_cols=434  Identities=15%  Similarity=0.160  Sum_probs=245.7

Q ss_pred             HHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHH--HHHHHH--hc
Q 005476           94 RAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNT--LIHLYA--NC  169 (695)
Q Consensus        94 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~--Li~~y~--~~  169 (695)
                      .-+..+|++++|.....+++..+ +-|...+..-+-++.+.+.++.|..+...   .+.   ..+++.  +=.+|+  +.
T Consensus        20 n~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk---~~~---~~~~~~~~fEKAYc~Yrl   92 (652)
T KOG2376|consen   20 NRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKK---NGA---LLVINSFFFEKAYCEYRL   92 (652)
T ss_pred             HHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHh---cch---hhhcchhhHHHHHHHHHc
Confidence            34556677777777777777643 22445566666666777777777643332   111   011111  233444  66


Q ss_pred             CChhHHHHHHhccCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHh-HHHHHHHHHhccCChhHHHHHHHHH
Q 005476          170 GRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEV-TLINVLMACGRLADIELGGWISEYM  248 (695)
Q Consensus       170 g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~a~~~~~~~~~a~~~~~~~  248 (695)
                      +..|+|...++.....|..+...-...+.+.|++++|+++|+.+.+.+..--.. .-..++.+-...       .. ..+
T Consensus        93 nk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l-------~~-~~~  164 (652)
T KOG2376|consen   93 NKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAAL-------QV-QLL  164 (652)
T ss_pred             ccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhh-------hH-HHH
Confidence            788888888775444444344444566777888888888888887665332111 112222221110       00 011


Q ss_pred             HHhCCCC--chHHHHHHHHHHHhcCCHHHHHHHHHhc--------CCCC-----hh-----HHHHHHHHHHhcCCHHHHH
Q 005476          249 EEKELNG--NVKLMTAVVDMYAKCGHVDKARRLFEQM--------NIKD-----VV-----AWSAMISGYSQARRCKEAL  308 (695)
Q Consensus       249 ~~~g~~~--~~~~~~~li~~~~~~g~~~~A~~~f~~m--------~~~~-----~~-----~~~~li~~~~~~g~~~~A~  308 (695)
                      ......|  +-..+-.....+...|++.+|+++++..        .+.|     ..     .---|.-.+...|+-++|.
T Consensus       165 q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~  244 (652)
T KOG2376|consen  165 QSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEAS  244 (652)
T ss_pred             HhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHH
Confidence            1111222  1112222344566778888888888766        1111     11     1122444567789999999


Q ss_pred             HHHHHhHHCCCCCCHHHHHHH---HHHHhccCChhHH--HHHHHHH-----------HHhCCCCchHHHhHHhcchhhcC
Q 005476          309 GVFHDMQMANVVPNEVTMVSV---LSCCAVLGALETG--KWVHLYV-----------KKKRMELTITLGTALMDFYAKCG  372 (695)
Q Consensus       309 ~~~~~m~~~g~~pd~~t~~~l---l~a~~~~~~~~~a--~~i~~~~-----------~~~~~~~~~~~~~~li~~y~~~g  372 (695)
                      .++...+... .+|......+   |.+...-.++-.+  ...++..           ...........-+.++.+|.  +
T Consensus       245 ~iy~~~i~~~-~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~t--n  321 (652)
T KOG2376|consen  245 SIYVDIIKRN-PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFT--N  321 (652)
T ss_pred             HHHHHHHHhc-CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHh--h
Confidence            9999988775 4555332222   2222222222221  1111110           00111112222345555554  5


Q ss_pred             CHHHHHHHHhcCCCCC-hhHHHHHHHHHH--hcCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHhccccHHHHHHHH
Q 005476          373 LIENAVEVFKKMPLKN-VFFWTVLIQCLA--SNGQGERALETYYIMREKNIEPND--VAFIAVLSACSHVGMVDEGRELF  447 (695)
Q Consensus       373 ~~~~A~~~~~~~~~~~-~~~~~~li~~~~--~~g~~~~A~~l~~~m~~~g~~p~~--~t~~~ll~a~~~~g~~~~a~~~~  447 (695)
                      ..+.+.++-...+... ...+.+++....  +...+.+|.+++...-+.  .|..  +.....+......|+++.|.+++
T Consensus       322 k~~q~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s~~v~L~~aQl~is~gn~~~A~~il  399 (652)
T KOG2376|consen  322 KMDQVRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADG--HPEKSKVVLLLRAQLKISQGNPEVALEIL  399 (652)
T ss_pred             hHHHHHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchhHHHHHHHHHHHHhcCCHHHHHHHH
Confidence            5677777777776533 344455544332  233577888888777663  4544  34445556677889999999999


Q ss_pred             H--------HchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC--------CCCCC-HhhHHHHHHHHHhcCChhH
Q 005476          448 V--------SMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM--------PIPPN-PVIWRTLLAACRAHKNVKV  510 (695)
Q Consensus       448 ~--------~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m--------~~~p~-~~~~~~ll~a~~~~g~~~~  510 (695)
                      .        .+.. .+..  +.+..+++.+|.+.++-+.|..++.+.        ...+. ..+|.-+..--.++|+-++
T Consensus       400 ~~~~~~~~ss~~~-~~~~--P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~e  476 (652)
T KOG2376|consen  400 SLFLESWKSSILE-AKHL--PGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEE  476 (652)
T ss_pred             HHHhhhhhhhhhh-hccC--hhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHH
Confidence            8        4432 2333  445567888999888866666666543        22222 2344445555567899999


Q ss_pred             HHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHH
Q 005476          511 GEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQ  551 (695)
Q Consensus       511 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  551 (695)
                      |...++++++.+|++....+.++.+|++. +.+.|..+-+.
T Consensus       477 a~s~leel~k~n~~d~~~l~~lV~a~~~~-d~eka~~l~k~  516 (652)
T KOG2376|consen  477 ASSLLEELVKFNPNDTDLLVQLVTAYARL-DPEKAESLSKK  516 (652)
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHhc-CHHHHHHHhhc
Confidence            99999999999999999999999999875 35666655443

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.19  E-value=8.4e-07  Score=91.44  Aligned_cols=491  Identities=13%  Similarity=0.127  Sum_probs=286.0

Q ss_pred             chhHHHHHHHHHccCCCCCHHHHHHHhccCCC-----CCcchHHHHHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHH
Q 005476           52 PTISENLLEAAAILIPATTMDYALSIFHKINE-----PDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFAC  126 (695)
Q Consensus        52 ~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~  126 (695)
                      +.+|-..+....+.   |++..-+..|++...     .....|...+.-....+-++-++.+|+..++  +.|..  -.-
T Consensus       102 pRIwl~Ylq~l~~Q---~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk--~~P~~--~ee  174 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQ---GLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLK--VAPEA--REE  174 (835)
T ss_pred             CHHHHHHHHHHHhc---chHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHh--cCHHH--HHH
Confidence            45566666666667   888888888876532     2344688888888888999999999998877  33432  455


Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhC------CCCCccHHHHHHHHHHhcCC---hhHHHHHHhccCC--CC--eehHHHH
Q 005476          127 TLKACSRIRALEEGEQIHAQILKSG------FGCRQLVTNTLIHLYANCGR---IDIARKMFDRMSN--RD--VFSWNSM  193 (695)
Q Consensus       127 ll~~~~~~~~~~~a~~~~~~~~~~g------~~~~~~~~~~Li~~y~~~g~---~~~A~~~f~~m~~--~~--~~~~~~l  193 (695)
                      -+..++..+++++|.+.++.++...      -+.+...|+-+.+..++.-+   --....+++.+..  +|  ...|++|
T Consensus       175 yie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SL  254 (835)
T KOG2047|consen  175 YIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSL  254 (835)
T ss_pred             HHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHH
Confidence            6667778888888888888776432      14556677777777665533   2234455555544  23  3478999


Q ss_pred             HHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccC----------------------ChhHHHHHHHHHHHh
Q 005476          194 FSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLA----------------------DIELGGWISEYMEEK  251 (695)
Q Consensus       194 i~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~----------------------~~~~a~~~~~~~~~~  251 (695)
                      ...|.+.|.++.|.++|++-...-..  ..-|+.+..+|+.-.                      +++....-++.+...
T Consensus       255 AdYYIr~g~~ekarDvyeeai~~v~t--vrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~r  332 (835)
T KOG2047|consen  255 ADYYIRSGLFEKARDVYEEAIQTVMT--VRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNR  332 (835)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHhhee--hhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhc
Confidence            99999999999999999887664222  222444444443211                      111222223332222


Q ss_pred             C-----------CCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCC---C------ChhHHHHHHHHHHhcCCHHHHHHHH
Q 005476          252 E-----------LNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNI---K------DVVAWSAMISGYSQARRCKEALGVF  311 (695)
Q Consensus       252 g-----------~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~------~~~~~~~li~~~~~~g~~~~A~~~~  311 (695)
                      .           -+.++..|..-+..  ..|+..+-...|.+...   |      -...|..+..-|-.+|+.+.|..+|
T Consensus       333 r~~~lNsVlLRQn~~nV~eW~kRV~l--~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvif  410 (835)
T KOG2047|consen  333 RPLLLNSVLLRQNPHNVEEWHKRVKL--YEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIF  410 (835)
T ss_pred             cchHHHHHHHhcCCccHHHHHhhhhh--hcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHH
Confidence            1           01122222222221  12344444444444321   1      1235777777777777777777777


Q ss_pred             HHhHHCCCCCC---HHHHHHHHHHHhccCChhHHHHHHHHHHHh-----------CCCC------chHHHhHHhcchhhc
Q 005476          312 HDMQMANVVPN---EVTMVSVLSCCAVLGALETGKWVHLYVKKK-----------RMEL------TITLGTALMDFYAKC  371 (695)
Q Consensus       312 ~~m~~~g~~pd---~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~-----------~~~~------~~~~~~~li~~y~~~  371 (695)
                      ++..+...+--   ..+|..-...=.+..+++.|..+.+.+...           +.++      +..+|...++.--..
T Consensus       411 eka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~  490 (835)
T KOG2047|consen  411 EKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESL  490 (835)
T ss_pred             HHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHh
Confidence            77665432211   112222222223344555666555544321           1111      223444555555566


Q ss_pred             CCHHHHHHHHhcCCCCChhHHHHHH---HHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhc---cccHHHHH
Q 005476          372 GLIENAVEVFKKMPLKNVFFWTVLI---QCLASNGQGERALETYYIMREKNIEPNDV-AFIAVLSACSH---VGMVDEGR  444 (695)
Q Consensus       372 g~~~~A~~~~~~~~~~~~~~~~~li---~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~a~~~---~g~~~~a~  444 (695)
                      |-++....+++++.+--+.+=..++   ..+-.+.-++++.+.|++-+..=-.|+.. .|+..|.-+.+   ...++.|.
T Consensus       491 gtfestk~vYdriidLriaTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraR  570 (835)
T KOG2047|consen  491 GTFESTKAVYDRIIDLRIATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERAR  570 (835)
T ss_pred             ccHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHH
Confidence            7777777777777542222211111   22334556777877777655443345544 55555544433   34688999


Q ss_pred             HHHHHchhhcCCCCChh--HHHHHHHHHhhcCCHHHHHHHHHhC--CCCCC--HhhHHHHHHHHHhcCChhHHHHHHHHH
Q 005476          445 ELFVSMSRDFDLEPRME--HYGCMVDILGRAGLVEEAYQFIKNM--PIPPN--PVIWRTLLAACRAHKNVKVGEESLKNL  518 (695)
Q Consensus       445 ~~~~~~~~~~~~~p~~~--~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~--~~~~~~ll~a~~~~g~~~~a~~~~~~~  518 (695)
                      .+|++.++  +.+|...  .|-.....=-+-|....|++++++.  .+++.  ...||..|.--...=-+.....+++++
T Consensus       571 dLFEqaL~--~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~v~~a~~l~myni~I~kaae~yGv~~TR~iYeka  648 (835)
T KOG2047|consen  571 DLFEQALD--GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSAVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKA  648 (835)
T ss_pred             HHHHHHHh--cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHH
Confidence            99999886  6666432  2333333334568888899999887  33332  346777776544444456677889999


Q ss_pred             HhcCCCCcc--cHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 005476          519 VTLEPMHSG--DYILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       519 ~~~~p~~~~--~~~~l~~~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      ++.-|++..  .....+++=.+.|..+.|..++..-.+.
T Consensus       649 Ie~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~  687 (835)
T KOG2047|consen  649 IESLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQI  687 (835)
T ss_pred             HHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhc
Confidence            988775533  3345677778899999999998776553

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.19  E-value=8.6e-08  Score=97.38  Aligned_cols=278  Identities=11%  Similarity=0.021  Sum_probs=209.0

Q ss_pred             CCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCC---hhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHH
Q 005476          252 ELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKD---VVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVS  328 (695)
Q Consensus       252 g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~  328 (695)
                      +...+..+.....+-+...+++.+..++++.+.+.|   ...+..-|.++...|+..+-..+=.+|.+. .+-...+|-+
T Consensus       239 ~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~a  317 (611)
T KOG1173|consen  239 GLAENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFA  317 (611)
T ss_pred             hhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhh
Confidence            345567777778888889999999999999987654   445666677888999988888888888875 2445678888


Q ss_pred             HHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCC--C-ChhHHHHHHHHHHhcCCh
Q 005476          329 VLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPL--K-NVFFWTVLIQCLASNGQG  405 (695)
Q Consensus       329 ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~  405 (695)
                      +.--|...|..++|++.+......+ +.-...|-.+...|+-.|..|+|...+....+  + ...-+--+..-|.+.+..
T Consensus       318 Vg~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~  396 (611)
T KOG1173|consen  318 VGCYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNL  396 (611)
T ss_pred             HHHHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccH
Confidence            8888888899999999998876644 22245677788889989999998877765432  1 111111233457788899


Q ss_pred             HHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHHHHchhhc---C--CCCChhHHHHHHHHHhhcCCHHHH
Q 005476          406 ERALETYYIMREKNIEPNDV-AFIAVLSACSHVGMVDEGRELFVSMSRDF---D--LEPRMEHYGCMVDILGRAGLVEEA  479 (695)
Q Consensus       406 ~~A~~l~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~--~~p~~~~~~~li~~~~~~g~~~~A  479 (695)
                      +.|.+.|.+...  +.|+.. ..+-+.-...+.+.+.+|..+|+.....-   +  ......+++.|..+|.+++++++|
T Consensus       397 kLAe~Ff~~A~a--i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eA  474 (611)
T KOG1173|consen  397 KLAEKFFKQALA--IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEA  474 (611)
T ss_pred             HHHHHHHHHHHh--cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHH
Confidence            999999999887  777654 55555555556788999999998776210   0  111455688999999999999999


Q ss_pred             HHHHHhC-CC-CCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHH
Q 005476          480 YQFIKNM-PI-PPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLS  533 (695)
Q Consensus       480 ~~~~~~m-~~-~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  533 (695)
                      +..+++. .. +.|..++.++.-.+...|+++.|...|.+++.+.|++..+-..|.
T Consensus       475 I~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~  530 (611)
T KOG1173|consen  475 IDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLK  530 (611)
T ss_pred             HHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHH
Confidence            9999986 33 347888999999999999999999999999999999865444443

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.19  E-value=5.3e-09  Score=109.31  Aligned_cols=231  Identities=16%  Similarity=0.163  Sum_probs=167.9

Q ss_pred             HHHHHHHHHHhccCChhHHHHHHHHHHHh-----CC-CCch-HHHhHHhcchhhcCCHHHHHHHHhcCCC-------C-C
Q 005476          324 VTMVSVLSCCAVLGALETGKWVHLYVKKK-----RM-ELTI-TLGTALMDFYAKCGLIENAVEVFKKMPL-------K-N  388 (695)
Q Consensus       324 ~t~~~ll~a~~~~~~~~~a~~i~~~~~~~-----~~-~~~~-~~~~~li~~y~~~g~~~~A~~~~~~~~~-------~-~  388 (695)
                      .|...+...|...|+++.|..+++..++.     |. .+.+ ...+.+..+|...+++++|..+|+++..       + +
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            35555677777778888887777776654     21 1222 2334466778888888888888877642       1 2


Q ss_pred             ---hhHHHHHHHHHHhcCChHHHHHHHHHHHH-----CCCCCCHH--HHHHHHHHHhccccHHHHHHHHHHchhhcC--C
Q 005476          389 ---VFFWTVLIQCLASNGQGERALETYYIMRE-----KNIEPNDV--AFIAVLSACSHVGMVDEGRELFVSMSRDFD--L  456 (695)
Q Consensus       389 ---~~~~~~li~~~~~~g~~~~A~~l~~~m~~-----~g~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~--~  456 (695)
                         ..+++.|...|...|++++|...+++..+     .|..+..+  .++.+...|...+.+++|..++....+.+.  .
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence               24577777788999998888887776543     23333333  566777789999999999999987766444  2


Q ss_pred             CCC----hhHHHHHHHHHhhcCCHHHHHHHHHhC---------CCCCC-HhhHHHHHHHHHhcCChhHHHHHHHHHHh--
Q 005476          457 EPR----MEHYGCMVDILGRAGLVEEAYQFIKNM---------PIPPN-PVIWRTLLAACRAHKNVKVGEESLKNLVT--  520 (695)
Q Consensus       457 ~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m---------~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~--  520 (695)
                      .++    ..+++.|...|...|++++|.+++++.         ...+. ...++.|..+|.+.+++++|.++|.+.+.  
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~  439 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIM  439 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence            222    467999999999999999999999876         11222 44567788899999999999999988875  


Q ss_pred             --cCCCC---cccHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          521 --LEPMH---SGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       521 --~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                        .+|+.   ..+|..|+.+|.+.|++++|.++.+....
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence              34554   44688999999999999999999988763

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.17  E-value=3.8e-06  Score=86.75  Aligned_cols=484  Identities=12%  Similarity=0.106  Sum_probs=290.0

Q ss_pred             cCCCCchhHHHHHHHHHccCCCCCHHHHHHHhccCCCCCcchHHHHHHHHHcCCCchHHHHHHHHHHhCC------CCCC
Q 005476           47 RFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNS------VEPD  120 (695)
Q Consensus        47 g~~~~~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g------~~p~  120 (695)
                      .+.....+|.-.+......   |-++-+.+++++-..-++..-+--|..+...+++++|-+.+...+...      -+.+
T Consensus       133 pvtqH~rIW~lyl~Fv~~~---~lPets~rvyrRYLk~~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn  209 (835)
T KOG2047|consen  133 PVTQHDRIWDLYLKFVESH---GLPETSIRVYRRYLKVAPEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSN  209 (835)
T ss_pred             chHhhccchHHHHHHHHhC---CChHHHHHHHHHHHhcCHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccch
Confidence            3344556777777777777   888999999998776666678888999999999999999998876432      1234


Q ss_pred             hhhHHHHHHHHhccCChHHHHHHHHHHHHhCC--CCC--ccHHHHHHHHHHhcCChhHHHHHHhccCC--CCeehHHHHH
Q 005476          121 RFTFACTLKACSRIRALEEGEQIHAQILKSGF--GCR--QLVTNTLIHLYANCGRIDIARKMFDRMSN--RDVFSWNSMF  194 (695)
Q Consensus       121 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~--~~~--~~~~~~Li~~y~~~g~~~~A~~~f~~m~~--~~~~~~~~li  194 (695)
                      ...|.-+-...++..+.-....+ +.+++.|+  -+|  ...|++|.+-|.+.|.++.|+.+|++...  -.+.-++.+.
T Consensus       210 ~qlw~elcdlis~~p~~~~slnv-daiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v~tvrDFt~if  288 (835)
T KOG2047|consen  210 HQLWLELCDLISQNPDKVQSLNV-DAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTVMTVRDFTQIF  288 (835)
T ss_pred             hhHHHHHHHHHHhCcchhcccCH-HHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhheehhhHHHHH
Confidence            45566666666655544333322 22333332  234  36889999999999999999999997654  2333344444


Q ss_pred             HHHHhC----------------CC------hhHHHHHHHHHHHcCC----------CC-CHhHHHHHHHHHhccCChhHH
Q 005476          195 SGYVKT----------------EC------WREIVDLFNEMRDLGV----------KF-DEVTLINVLMACGRLADIELG  241 (695)
Q Consensus       195 ~~~~~~----------------g~------~~~A~~~~~~m~~~g~----------~p-d~~t~~~ll~a~~~~~~~~~a  241 (695)
                      ++|++-                |+      ++-.+.-|+.+...+.          .| +..+|..-..  ...|+..+-
T Consensus       289 d~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~  366 (835)
T KOG2047|consen  289 DAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQ  366 (835)
T ss_pred             HHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhh--hhcCChHHH
Confidence            444331                11      2222333444333210          01 1112222211  223455566


Q ss_pred             HHHHHHHHHhCCCC------chHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCh-------hHHHHHHHHHHhcCCHHHHH
Q 005476          242 GWISEYMEEKELNG------NVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDV-------VAWSAMISGYSQARRCKEAL  308 (695)
Q Consensus       242 ~~~~~~~~~~g~~~------~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~-------~~~~~li~~~~~~g~~~~A~  308 (695)
                      ...+.++++.- .|      -...|..+...|-..|+++.|+.+|++...-+-       .+|-.-...=.+..+++.|+
T Consensus       367 i~tyteAv~~v-dP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al  445 (835)
T KOG2047|consen  367 INTYTEAVKTV-DPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAAL  445 (835)
T ss_pred             HHHHHHHHHcc-CcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHH
Confidence            66777776642 22      235688999999999999999999999765322       35555555566778889999


Q ss_pred             HHHHHhHHCCCC-----------CCH------HHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhc
Q 005476          309 GVFHDMQMANVV-----------PNE------VTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKC  371 (695)
Q Consensus       309 ~~~~~m~~~g~~-----------pd~------~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~  371 (695)
                      ++.++.....-.           +..      ..|+..+..-...|-++..+.+++.++...+.....+.| ....+-..
T Consensus       446 ~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLriaTPqii~N-yAmfLEeh  524 (835)
T KOG2047|consen  446 KLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIATPQIIIN-YAMFLEEH  524 (835)
T ss_pred             HHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHHHHHH-HHHHHHhh
Confidence            988776532111           111      223334444456688899999999999877554333333 22234455


Q ss_pred             CCHHHHHHHHhcCCC----CCh-hHHHHHHHHHHh---cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH--HhccccHH
Q 005476          372 GLIENAVEVFKKMPL----KNV-FFWTVLIQCLAS---NGQGERALETYYIMREKNIEPNDVAFIAVLSA--CSHVGMVD  441 (695)
Q Consensus       372 g~~~~A~~~~~~~~~----~~~-~~~~~li~~~~~---~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a--~~~~g~~~  441 (695)
                      .-++++.+++++-..    |++ ..||+.+.-+.+   ....+.|..+|++..+ |.+|...-+.-|+-+  =.+-|...
T Consensus       525 ~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar  603 (835)
T KOG2047|consen  525 KYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLAR  603 (835)
T ss_pred             HHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHH
Confidence            668999999987643    454 468888776654   2368899999999999 788877644444333  23458888


Q ss_pred             HHHHHHHHchhhcCCCCC--hhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHhhHH---HHHHHHHhcCChhHHHHHH
Q 005476          442 EGRELFVSMSRDFDLEPR--MEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPNPVIWR---TLLAACRAHKNVKVGEESL  515 (695)
Q Consensus       442 ~a~~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~---~ll~a~~~~g~~~~a~~~~  515 (695)
                      .|+.+++++..  ++++.  ...|+..|.--...=-+..-..++++. ..-||...-.   -+...-.+.|..+.|..++
T Consensus       604 ~amsiyerat~--~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~Lp~~~~r~mclrFAdlEtklGEidRARaIy  681 (835)
T KOG2047|consen  604 HAMSIYERATS--AVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIESLPDSKAREMCLRFADLETKLGEIDRARAIY  681 (835)
T ss_pred             HHHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHH
Confidence            99999988754  45543  345655553222111111112222221 1112222211   1122235566777777777


Q ss_pred             HHHHhcC-CC-CcccHHHHHHHHHHcCC
Q 005476          516 KNLVTLE-PM-HSGDYILLSDIYASAGR  541 (695)
Q Consensus       516 ~~~~~~~-p~-~~~~~~~l~~~~~~~g~  541 (695)
                      ...-++- |. +...|...-..=.+.|+
T Consensus       682 a~~sq~~dPr~~~~fW~twk~FEvrHGn  709 (835)
T KOG2047|consen  682 AHGSQICDPRVTTEFWDTWKEFEVRHGN  709 (835)
T ss_pred             HhhhhcCCCcCChHHHHHHHHHHHhcCC
Confidence            6666643 32 22334455555556666

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.13  E-value=4e-08  Score=95.91  Aligned_cols=251  Identities=10%  Similarity=0.017  Sum_probs=167.9

Q ss_pred             cCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHH
Q 005476          301 ARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEV  380 (695)
Q Consensus       301 ~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~  380 (695)
                      .|++.+|.++..+-.+.+-.| ...|.....+.-+.|+.+.+..+..++.+..-+++..+.-+........|+.+.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            577777777777766555332 2344455556667777777777777777765566666666667777777777777766


Q ss_pred             HhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHhccccHHHHHHHHHHc
Q 005476          381 FKKMP---LKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPND-------VAFIAVLSACSHVGMVDEGRELFVSM  450 (695)
Q Consensus       381 ~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-------~t~~~ll~a~~~~g~~~~a~~~~~~~  450 (695)
                      .++..   ..+.........+|.+.|++.+...+..+|.+.|+--|.       .++..++.-+...+..+.-...++..
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~  255 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQ  255 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhc
Confidence            65443   356677777778888888888888888888877755443       36777777777766666666777776


Q ss_pred             hhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccH
Q 005476          451 SRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDY  529 (695)
Q Consensus       451 ~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~  529 (695)
                      .+  ..+-++..-.+++.-+.++|+.++|.+++++. +-.-|..  -..+-.+.+-++.+.-++..++.++..|+++..+
T Consensus       256 pr--~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~--L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~  331 (400)
T COG3071         256 PR--KLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR--LCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLL  331 (400)
T ss_pred             cH--HhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh--HHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHH
Confidence            54  44555666667777788888888887777664 2112222  1223345566777777777777777777777777


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 005476          530 ILLSDIYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       530 ~~l~~~~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      ..|+..|.+.+.|.+|...|+...+.+
T Consensus       332 ~tLG~L~~k~~~w~kA~~~leaAl~~~  358 (400)
T COG3071         332 STLGRLALKNKLWGKASEALEAALKLR  358 (400)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHhcC
Confidence            777777777777777777777665543

>PRK12370 invasion protein regulator; Provisional

Probab=99.13  E-value=9.8e-09  Score=112.64  Aligned_cols=244  Identities=15%  Similarity=0.054  Sum_probs=174.6

Q ss_pred             CHHHHHHHHHHhHHCCCCCCHH-HHHHHHHHHh---------ccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcC
Q 005476          303 RCKEALGVFHDMQMANVVPNEV-TMVSVLSCCA---------VLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCG  372 (695)
Q Consensus       303 ~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~a~~---------~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g  372 (695)
                      ..++|+.+|++..+.  .|+.. .+..+..++.         ..++.++|...++.+++.+ +.+...+..+..++...|
T Consensus       276 ~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g  352 (553)
T PRK12370        276 SLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHS  352 (553)
T ss_pred             HHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcc
Confidence            356888888888765  45433 4433333322         2234678888888888765 445677777888888999


Q ss_pred             CHHHHHHHHhcCCC--C-ChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHHH
Q 005476          373 LIENAVEVFKKMPL--K-NVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDV-AFIAVLSACSHVGMVDEGRELFV  448 (695)
Q Consensus       373 ~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~  448 (695)
                      ++++|...|++..+  | +...|..+...+...|++++|+..+++..+  +.|+.. .+..++..+...|++++|...++
T Consensus       353 ~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~--l~P~~~~~~~~~~~~~~~~g~~eeA~~~~~  430 (553)
T PRK12370        353 EYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLK--LDPTRAAAGITKLWITYYHTGIDDAIRLGD  430 (553)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCChhhHHHHHHHHHhccCHHHHHHHHH
Confidence            99999999988754  3 456788888999999999999999999998  667643 33344445666899999999999


Q ss_pred             HchhhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCH-hhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC
Q 005476          449 SMSRDFDLEP-RMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPNP-VIWRTLLAACRAHKNVKVGEESLKNLVTLEPMH  525 (695)
Q Consensus       449 ~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~  525 (695)
                      ++.+.  ..| +...+..+...|...|+.++|...++++ +..|+. ..++.+...+...|  +.|...++.+++..-..
T Consensus       431 ~~l~~--~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~  506 (553)
T PRK12370        431 ELRSQ--HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRI  506 (553)
T ss_pred             HHHHh--ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHh
Confidence            88652  234 4556778888999999999999999887 344543 34555555667777  47888888877743222


Q ss_pred             cccHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 005476          526 SGDYILLSDIYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       526 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      +..+..+...|.-.|+-+.+..+ +++.+.|
T Consensus       507 ~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        507 DNNPGLLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             hcCchHHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            22233377778888888888877 7777654

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.11  E-value=8.1e-07  Score=93.72  Aligned_cols=399  Identities=14%  Similarity=0.120  Sum_probs=255.3

Q ss_pred             hCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhH-H
Q 005476          150 SGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSN---RDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVT-L  225 (695)
Q Consensus       150 ~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t-~  225 (695)
                      ..+..|..+|..|.-+..++|+++.+-+.|++...   .....|+.+-..|.-.|.-..|+.+++.-....-.|+..+ +
T Consensus       317 ~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~  396 (799)
T KOG4162|consen  317 KKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVL  396 (799)
T ss_pred             hhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHH
Confidence            34567889999999999999999999999998654   3455799999999999999999999988765544465444 4


Q ss_pred             HHHHHHHh-ccCChhHHHHHHHHHHHh--CC--CCchHHHHHHHHHHHhc-----------CCHHHHHHHHHhcCCC---
Q 005476          226 INVLMACG-RLADIELGGWISEYMEEK--EL--NGNVKLMTAVVDMYAKC-----------GHVDKARRLFEQMNIK---  286 (695)
Q Consensus       226 ~~ll~a~~-~~~~~~~a~~~~~~~~~~--g~--~~~~~~~~~li~~~~~~-----------g~~~~A~~~f~~m~~~---  286 (695)
                      ...-+.|. +.+..+++..+-..+++.  +.  ......+..+.-+|...           ....++...+++..+.   
T Consensus       397 Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~  476 (799)
T KOG4162|consen  397 LMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPT  476 (799)
T ss_pred             HHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC
Confidence            44444444 456777777766666652  11  11233444444444322           1234455666665322   


Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHh-CCCCchHHHhHHh
Q 005476          287 DVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKK-RMELTITLGTALM  365 (695)
Q Consensus       287 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~-~~~~~~~~~~~li  365 (695)
                      |..+---+.--|+..++.+.|++..++....+-.-+...+..+.-.+...+++..|..+.+..... |...  .....-+
T Consensus       477 dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~--~l~~~~~  554 (799)
T KOG4162|consen  477 DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNH--VLMDGKI  554 (799)
T ss_pred             CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhh--hhchhhh
Confidence            332222233346677888999999888888765667777777777778888888888887766552 2110  0000111


Q ss_pred             cchhhcCCHHHHHHHHhcCC------------------------------C-CChhHHHHHHHHHHhcCChHHHHHHHHH
Q 005476          366 DFYAKCGLIENAVEVFKKMP------------------------------L-KNVFFWTVLIQCLASNGQGERALETYYI  414 (695)
Q Consensus       366 ~~y~~~g~~~~A~~~~~~~~------------------------------~-~~~~~~~~li~~~~~~g~~~~A~~l~~~  414 (695)
                      ..-.+.++.++|......+.                              + .|...-..-+.+... -+...+..-. .
T Consensus       555 ~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a-~~~~~~~se~-~  632 (799)
T KOG4162|consen  555 HIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVA-SQLKSAGSEL-K  632 (799)
T ss_pred             hhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHH-hhhhhccccc-c
Confidence            11122344444433222111                              0 011111111111111 0110000000 0


Q ss_pred             HHHCCCCCCH--------HHHHHHHHHHhccccHHHHHHHHHHchhhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHh
Q 005476          415 MREKNIEPND--------VAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEP-RMEHYGCMVDILGRAGLVEEAYQFIKN  485 (695)
Q Consensus       415 m~~~g~~p~~--------~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~  485 (695)
                      |...-+.|+.        ..|......+.+.+..++|...+.+..   ++.| ....|.-....+...|.+++|.+.|..
T Consensus       633 Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~---~~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~  709 (799)
T KOG4162|consen  633 LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEAS---KIDPLSASVYYLRGLLLEVKGQLEEAKEAFLV  709 (799)
T ss_pred             cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHH---hcchhhHHHHHHhhHHHHHHHhhHHHHHHHHH
Confidence            1211222322        133445556778888888887777764   3344 566777788889999999999988876


Q ss_pred             C-CCCCC-HhhHHHHHHHHHhcCChhHHHH--HHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 005476          486 M-PIPPN-PVIWRTLLAACRAHKNVKVGEE--SLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       486 m-~~~p~-~~~~~~ll~a~~~~g~~~~a~~--~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      . .+.|+ +.+..++...+.+.|+...|..  ++..+++++|.+...|..|+.++.+.|+.++|.+.|+...+-
T Consensus       710 Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  710 ALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQL  783 (799)
T ss_pred             HHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhh
Confidence            5 66775 6688899999999999999988  999999999999999999999999999999999999988763

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.09  E-value=1e-07  Score=99.77  Aligned_cols=236  Identities=17%  Similarity=0.161  Sum_probs=156.3

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHhcCCC----------Chh-HHHHHHHHHHhcCCHHHHHHHHHHhHHC-----C-C
Q 005476          257 VKLMTAVVDMYAKCGHVDKARRLFEQMNIK----------DVV-AWSAMISGYSQARRCKEALGVFHDMQMA-----N-V  319 (695)
Q Consensus       257 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~----------~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g-~  319 (695)
                      ..+...|..+|...|+++.|..+|....+.          .+. ..+.+...|...+++.+|..+|+++...     | .
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~  278 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED  278 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC
Confidence            445555777777777777777777654321          111 2334666788888899998888888542     1 1


Q ss_pred             CCC-HHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCC---CCChh-HHHH
Q 005476          320 VPN-EVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMP---LKNVF-FWTV  394 (695)
Q Consensus       320 ~pd-~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~-~~~~  394 (695)
                      .|. ..++..|-.+|.+.|++++|...++.+.+                            +++...   .+.+. ..+.
T Consensus       279 h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~----------------------------I~~~~~~~~~~~v~~~l~~  330 (508)
T KOG1840|consen  279 HPAVAATLNNLAVLYYKQGKFAEAEEYCERALE----------------------------IYEKLLGASHPEVAAQLSE  330 (508)
T ss_pred             CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHH----------------------------HHHHhhccChHHHHHHHHH
Confidence            121 22455555566666777666665544332                            222211   12222 2455


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHC---CCCCCH----HHHHHHHHHHhccccHHHHHHHHHHchhhc---CC--CC-Chh
Q 005476          395 LIQCLASNGQGERALETYYIMREK---NIEPND----VAFIAVLSACSHVGMVDEGRELFVSMSRDF---DL--EP-RME  461 (695)
Q Consensus       395 li~~~~~~g~~~~A~~l~~~m~~~---g~~p~~----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~---~~--~p-~~~  461 (695)
                      ++..+...+++++|..++++..+.   -+.++.    -+++.+...+.+.|++++|.++|++++...   +-  .+ ...
T Consensus       331 ~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~  410 (508)
T KOG1840|consen  331 LAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGK  410 (508)
T ss_pred             HHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhH
Confidence            666777788888888887765431   123333    278888899999999999999998876532   11  22 245


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhC--------CCCCC-HhhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 005476          462 HYGCMVDILGRAGLVEEAYQFIKNM--------PIPPN-PVIWRTLLAACRAHKNVKVGEESLKNLVT  520 (695)
Q Consensus       462 ~~~~li~~~~~~g~~~~A~~~~~~m--------~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~  520 (695)
                      .++.|...|.+.+++.+|.++|.+.        +..|+ ..+|..|...|...|+++.|+++.+.+..
T Consensus       411 ~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  411 PLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            6788888899999999888888774        33455 45899999999999999999999999875

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.08  E-value=1.4e-07  Score=94.01  Aligned_cols=336  Identities=10%  Similarity=0.037  Sum_probs=162.4

Q ss_pred             HHHHccCCCCCHHHHHHHhccCC--CCC-cchHHHHHHHHHcCCCchHHHHHHHHHHhCCCCCChh-hHHHHHHHHhccC
Q 005476           60 EAAAILIPATTMDYALSIFHKIN--EPD-SSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRF-TFACTLKACSRIR  135 (695)
Q Consensus        60 ~~y~~~~~~g~~~~A~~~f~~~~--~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~  135 (695)
                      +-|-+.   |.+++|++.++...  .|| ++-|...-.+|...|++++..+.-...++  +.|+-. .+.--.++.-..|
T Consensus       123 N~~f~~---kkY~eAIkyY~~AI~l~p~epiFYsNraAcY~~lgd~~~Vied~TkALE--l~P~Y~KAl~RRA~A~E~lg  197 (606)
T KOG0547|consen  123 NKFFRN---KKYDEAIKYYTQAIELCPDEPIFYSNRAACYESLGDWEKVIEDCTKALE--LNPDYVKALLRRASAHEQLG  197 (606)
T ss_pred             hhhhhc---ccHHHHHHHHHHHHhcCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhh--cCcHHHHHHHHHHHHHHhhc
Confidence            344556   99999999998875  366 77789999999999999999998888877  556532 3444445566677


Q ss_pred             ChHHHHHHHHHH-HHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCCCCeehHHHHHHHHHhC------------CC
Q 005476          136 ALEEGEQIHAQI-LKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKT------------EC  202 (695)
Q Consensus       136 ~~~~a~~~~~~~-~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~------------g~  202 (695)
                      ++.++..=..-+ +-.|+....  -..++.-..+.--...+.+-+.+=..|...+ .+.|..|...            ++
T Consensus       198 ~~~eal~D~tv~ci~~~F~n~s--~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS-~~fi~syf~sF~~~~~~~~~~~~~  274 (606)
T KOG0547|consen  198 KFDEALFDVTVLCILEGFQNAS--IEPMAERVLKKQAMKKAKEKLKENRPPVLPS-ATFIASYFGSFHADPKPLFDNKSD  274 (606)
T ss_pred             cHHHHHHhhhHHHHhhhcccch--hHHHHHHHHHHHHHHHHHHhhcccCCCCCCc-HHHHHHHHhhccccccccccCCCc
Confidence            777665322211 112221111  1111111111111223333333211222211 2222222211            00


Q ss_pred             -----hhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhCCCC----chHHHHHHHHHHHhcCCH
Q 005476          203 -----WREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNG----NVKLMTAVVDMYAKCGHV  273 (695)
Q Consensus       203 -----~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~----~~~~~~~li~~~~~~g~~  273 (695)
                           ..++++.+..-...|       |......+.....     ..+...-...+..    -..+...-...+.-+|+.
T Consensus       275 ksDa~l~~~l~~l~~~~~e~-------Y~~a~~~~te~~~-----~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~  342 (606)
T KOG0547|consen  275 KSDAALAEALEALEKGLEEG-------YLKAYDKATEECL-----GSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDS  342 (606)
T ss_pred             cchhhHHHHHHHHHhhCchh-------HHHHHHHHHHHhh-----hhhhhccccccchhHHHHHHHHHHhhhhhhhcCCc
Confidence                 111111111111111       1111111100000     0000000000000    011122222334567888


Q ss_pred             HHHHHHHHhcCCC---ChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHH
Q 005476          274 DKARRLFEQMNIK---DVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVK  350 (695)
Q Consensus       274 ~~A~~~f~~m~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~  350 (695)
                      -.|..-|+....-   +...|--+...|.+..+.++.++.|.+....+ +-|+.+|..-.....-+++++.|..=|+..+
T Consensus       343 ~~a~~d~~~~I~l~~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai  421 (606)
T KOG0547|consen  343 LGAQEDFDAAIKLDPAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADFQKAI  421 (606)
T ss_pred             hhhhhhHHHHHhcCcccchHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHHHHHh
Confidence            8888888876532   33337777778888888888888888887654 2244455444444444455555555555555


Q ss_pred             HhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCC--C-ChhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 005476          351 KKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPL--K-NVFFWTVLIQCLASNGQGERALETYYIMRE  417 (695)
Q Consensus       351 ~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~  417 (695)
                      +.. +.+...|--+.-+..|.++++++...|++..+  | -+..||-....+..++++++|.+.|+..++
T Consensus       422 ~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  422 SLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKKFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             hcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            433 22233333333344455555556665555543  1 334455555555566666666666665554

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.08  E-value=1.2e-08  Score=102.29  Aligned_cols=211  Identities=14%  Similarity=0.080  Sum_probs=151.0

Q ss_pred             ChhHHHHHHHHHHHhC-CCC--chHHHhHHhcchhhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHH
Q 005476          338 ALETGKWVHLYVKKKR-MEL--TITLGTALMDFYAKCGLIENAVEVFKKMPL---KNVFFWTVLIQCLASNGQGERALET  411 (695)
Q Consensus       338 ~~~~a~~i~~~~~~~~-~~~--~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l  411 (695)
                      ..+.+..-+.+++... ..|  ....+..+...|.+.|+.++|...|++..+   .+...|+.+...|...|++++|++.
T Consensus        41 ~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~  120 (296)
T PRK11189         41 QQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEA  120 (296)
T ss_pred             HHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4455555555555422 222  235577777889999999999999987754   4678899999999999999999999


Q ss_pred             HHHHHHCCCCCCH-HHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC--CC
Q 005476          412 YYIMREKNIEPND-VAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM--PI  488 (695)
Q Consensus       412 ~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~  488 (695)
                      |++..+  +.|+. .++..+..++...|++++|.+.|+...+   ..|+..........+...++.++|.+.+++.  ..
T Consensus       121 ~~~Al~--l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~---~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~  195 (296)
T PRK11189        121 FDSVLE--LDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQ---DDPNDPYRALWLYLAESKLDPKQAKENLKQRYEKL  195 (296)
T ss_pred             HHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC
Confidence            999998  77864 4778888888899999999999998874   3454332222233345678899999999664  22


Q ss_pred             CCCHhhHHHHHHHHHhcCChhHHHHHHHHHH-------hcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCCC
Q 005476          489 PPNPVIWRTLLAACRAHKNVKVGEESLKNLV-------TLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGI  557 (695)
Q Consensus       489 ~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~-------~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  557 (695)
                      .|+  .|.. .......|+...+ +.++.+.       ++.|....+|..++.+|.+.|++++|...|++..+.++
T Consensus       196 ~~~--~~~~-~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        196 DKE--QWGW-NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             Ccc--ccHH-HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            333  3331 2223345665544 3444444       44566677999999999999999999999999987553

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.03  E-value=4.8e-08  Score=94.77  Aligned_cols=199  Identities=13%  Similarity=0.065  Sum_probs=115.1

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcc
Q 005476          288 VVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDF  367 (695)
Q Consensus       288 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~  367 (695)
                      ...+..+...|...|++++|++.+++..... +.+...+..+...+...|+++.|...+....+...             
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~-------------   96 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNP-------------   96 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-------------
Confidence            4567777777888888888888888776542 22344555555555666666666666655554331             


Q ss_pred             hhhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccccHHHHHHH
Q 005476          368 YAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPN-DVAFIAVLSACSHVGMVDEGREL  446 (695)
Q Consensus       368 y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~  446 (695)
                                         .+...+..+...+...|++++|.+.|++.......|. ...+..+...+...|++++|.+.
T Consensus        97 -------------------~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  157 (234)
T TIGR02521        97 -------------------NNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKY  157 (234)
T ss_pred             -------------------CCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHH
Confidence                               1233444455555566666666666666655322222 22444455556666666666666


Q ss_pred             HHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 005476          447 FVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PI-PPNPVIWRTLLAACRAHKNVKVGEESLKNLVTL  521 (695)
Q Consensus       447 ~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~  521 (695)
                      +....+.  .+.+...+..+...+...|++++|.+.+++. .. +.+...+..+...+...|+.+.|....+.+.+.
T Consensus       158 ~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       158 LTRALQI--DPQRPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHh--CcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            6666532  1223455666666666777777776666654 11 223445555556666667777777766665544

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.03  E-value=1e-05  Score=77.73  Aligned_cols=446  Identities=11%  Similarity=0.047  Sum_probs=206.7

Q ss_pred             HHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCCh
Q 005476           93 IRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRI  172 (695)
Q Consensus        93 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~  172 (695)
                      +.-+..+.++..|+.+++--...+-+-...+-.-+..++...|++++|...+..+.... .++..++-.|.-.+.-.|.+
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y  107 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQY  107 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHH
Confidence            34445556666666666655433222111122223334456667777777666666543 45555555555555556666


Q ss_pred             hHHHHHHhccCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhC
Q 005476          173 DIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKE  252 (695)
Q Consensus       173 ~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g  252 (695)
                      .+|..+-...++ +...-..|...--+.++-++-+.+-+.+.+.-  -|   -.++.+..-....+.+|..++..++..+
T Consensus       108 ~eA~~~~~ka~k-~pL~~RLlfhlahklndEk~~~~fh~~LqD~~--Ed---qLSLAsvhYmR~HYQeAIdvYkrvL~dn  181 (557)
T KOG3785|consen  108 IEAKSIAEKAPK-TPLCIRLLFHLAHKLNDEKRILTFHSSLQDTL--ED---QLSLASVHYMRMHYQEAIDVYKRVLQDN  181 (557)
T ss_pred             HHHHHHHhhCCC-ChHHHHHHHHHHHHhCcHHHHHHHHHHHhhhH--HH---HHhHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            666666554432 11122223333334444444444433333210  01   1111111122223445555555544332


Q ss_pred             CCCchHHHHH-HHHHHHhcCCHHHHHHHHHhcC---CCChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHH
Q 005476          253 LNGNVKLMTA-VVDMYAKCGHVDKARRLFEQMN---IKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVS  328 (695)
Q Consensus       253 ~~~~~~~~~~-li~~~~~~g~~~~A~~~f~~m~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~  328 (695)
                        |+-...|. +.-.|.+..-++-+.++++--.   ..++++-|.......+.=....|.+-.+.+...+-..  +.+..
T Consensus       182 --~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~--~~f~~  257 (557)
T KOG3785|consen  182 --PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQE--YPFIE  257 (557)
T ss_pred             --hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhccccc--chhHH
Confidence              12111111 1223445555554444443321   1123333333333322222222222233332221100  00000


Q ss_pred             -HHH-HHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCC--
Q 005476          329 -VLS-CCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQ--  404 (695)
Q Consensus       329 -ll~-a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~--  404 (695)
                       +++ -+.--..-+.|.+++--+.+.  -|  ..--.|+-.|.+.+++++|..+.+.+....+.-|-.-.-.++..|+  
T Consensus       258 ~l~rHNLVvFrngEgALqVLP~L~~~--IP--EARlNL~iYyL~q~dVqeA~~L~Kdl~PttP~EyilKgvv~aalGQe~  333 (557)
T KOG3785|consen  258 YLCRHNLVVFRNGEGALQVLPSLMKH--IP--EARLNLIIYYLNQNDVQEAISLCKDLDPTTPYEYILKGVVFAALGQET  333 (557)
T ss_pred             HHHHcCeEEEeCCccHHHhchHHHhh--Ch--HhhhhheeeecccccHHHHHHHHhhcCCCChHHHHHHHHHHHHhhhhc
Confidence             000 001112234444444333322  11  1222356667888888888888877754433333222222333332  


Q ss_pred             -----hHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHH
Q 005476          405 -----GERALETYYIMREKNIEPNDV-AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEE  478 (695)
Q Consensus       405 -----~~~A~~l~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  478 (695)
                           ..-|.+.|+-.-+++..-|.+ .--++.+++.-.-.+++...++..+. .|=...|...+ .+..+++..|++.+
T Consensus       334 gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~-sYF~NdD~Fn~-N~AQAk~atgny~e  411 (557)
T KOG3785|consen  334 GSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIE-SYFTNDDDFNL-NLAQAKLATGNYVE  411 (557)
T ss_pred             CcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHH-HHhcCcchhhh-HHHHHHHHhcChHH
Confidence                 233444454443444443333 22334444555566777777777774 33444444444 46777888888888


Q ss_pred             HHHHHHhCCC-C-CCHhhHHHHHHH-HHhcCChhHHHHHHHHHHhcC-CCCccc-HHHHHHHHHHcCCHHHHHHHHHHHH
Q 005476          479 AYQFIKNMPI-P-PNPVIWRTLLAA-CRAHKNVKVGEESLKNLVTLE-PMHSGD-YILLSDIYASAGRCEDALRVMNQMR  553 (695)
Q Consensus       479 A~~~~~~m~~-~-p~~~~~~~ll~a-~~~~g~~~~a~~~~~~~~~~~-p~~~~~-~~~l~~~~~~~g~~~~a~~~~~~m~  553 (695)
                      |+++|-.+.- + .|..+|.+++.- |.+.+.++.|..+   +++.+ |.+..+ .-.+++-|.+++.+=-|.+.|+.+.
T Consensus       412 aEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~---~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE  488 (557)
T KOG3785|consen  412 AEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDM---MLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELE  488 (557)
T ss_pred             HHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHH---HHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Confidence            8888876621 1 356667666554 4566677766554   34433 322222 2356677788888888888888776


Q ss_pred             hCCCc
Q 005476          554 EQGIK  558 (695)
Q Consensus       554 ~~~~~  558 (695)
                      ..+..
T Consensus       489 ~lDP~  493 (557)
T KOG3785|consen  489 ILDPT  493 (557)
T ss_pred             ccCCC
Confidence            65443

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.99  E-value=8.1e-07  Score=85.05  Aligned_cols=408  Identities=12%  Similarity=0.030  Sum_probs=251.1

Q ss_pred             HHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCC---CCeehHHHHHHHHHhCCChh
Q 005476          128 LKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSN---RDVFSWNSMFSGYVKTECWR  204 (695)
Q Consensus       128 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~  204 (695)
                      +.-+...+++..|..+++.-...+-+....+---+..+|.+.|++++|...+..+.+   ++...|-.+.-.+.-.|.+.
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~  108 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYI  108 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHH
Confidence            344556678888888888776554333334445566788899999999999987654   45556777777777778888


Q ss_pred             HHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 005476          205 EIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMN  284 (695)
Q Consensus       205 ~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~  284 (695)
                      +|..+-.+..     -++-....++...-+.++-+.-..+++.+...     ..-..+|..+....-.+++|++++.++.
T Consensus       109 eA~~~~~ka~-----k~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL  178 (557)
T KOG3785|consen  109 EAKSIAEKAP-----KTPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVL  178 (557)
T ss_pred             HHHHHHhhCC-----CChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            8887755532     23333445555566778888777777776543     2233455555555567999999999987


Q ss_pred             CC--ChhHHHH-HHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHh--ccCChhHHHHHHHHHHHhCCCCchH
Q 005476          285 IK--DVVAWSA-MISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCA--VLGALETGKWVHLYVKKKRMELTIT  359 (695)
Q Consensus       285 ~~--~~~~~~~-li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~--~~~~~~~a~~i~~~~~~~~~~~~~~  359 (695)
                      ..  +....|. |.-+|.+..-++-+.++++--.+.  -||+. +..=+.+|.  +.=.-..+.+-...+.+.+-..-+.
T Consensus       179 ~dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q--~pdSt-iA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f  255 (557)
T KOG3785|consen  179 QDNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ--FPDST-IAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPF  255 (557)
T ss_pred             hcChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh--CCCcH-HHHHHHHHHHhhhhccchhHHHHHHHHhcccccchh
Confidence            54  4455565 445678888888888888777664  45543 333333442  2222223333333333332211111


Q ss_pred             HHhHHhcchhhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH-----H
Q 005476          360 LGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSA-----C  434 (695)
Q Consensus       360 ~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a-----~  434 (695)
                      .-..+-.-+.--.+-+.|++++-.+.+.=+..--.++--|.+.++..+|..+.+++.-  ..|-....-.+..+     .
T Consensus       256 ~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~aalGQe~  333 (557)
T KOG3785|consen  256 IEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVFAALGQET  333 (557)
T ss_pred             HHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhcCC--CChHHHHHHHHHHHHhhhhc
Confidence            1111111111122335677766554432223333455568899999999998877533  34443333333322     2


Q ss_pred             hccccHHHHHHHHHHchhhcCCCCC-hhHHHHHHHHHhhcCCHHHHHHHHHhCC--C-CCCHhhHHHHHHHHHhcCChhH
Q 005476          435 SHVGMVDEGRELFVSMSRDFDLEPR-MEHYGCMVDILGRAGLVEEAYQFIKNMP--I-PPNPVIWRTLLAACRAHKNVKV  510 (695)
Q Consensus       435 ~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~--~-~p~~~~~~~ll~a~~~~g~~~~  510 (695)
                      .....++-|.+.|...-. .+.+-| +..-.++...+.-..++++.+-+++...  + ..|...+ .+..+....|++.+
T Consensus       334 gSreHlKiAqqffqlVG~-Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~e  411 (557)
T KOG3785|consen  334 GSREHLKIAQQFFQLVGE-SALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVE  411 (557)
T ss_pred             CcHHHHHHHHHHHHHhcc-cccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHH
Confidence            222345667777765533 244433 3445567777777788999988888762  2 2344444 47888999999999


Q ss_pred             HHHHHHHHHhcCCCCcccHH-HHHHHHHHcCCHHHHHHHHHHH
Q 005476          511 GEESLKNLVTLEPMHSGDYI-LLSDIYASAGRCEDALRVMNQM  552 (695)
Q Consensus       511 a~~~~~~~~~~~p~~~~~~~-~l~~~~~~~g~~~~a~~~~~~m  552 (695)
                      |+++|-++...+..|..+|- .|+.+|.++|+.+-|..++-++
T Consensus       412 aEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~  454 (557)
T KOG3785|consen  412 AEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKT  454 (557)
T ss_pred             HHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhc
Confidence            99999988776655656665 6888999999999887766544

>PRK12370 invasion protein regulator; Provisional

Probab=98.99  E-value=1.1e-07  Score=104.41  Aligned_cols=144  Identities=12%  Similarity=0.027  Sum_probs=62.5

Q ss_pred             hHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCC--C-CeehHHHHHHHHHhCCChhHHHHHHHHH
Q 005476          137 LEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSN--R-DVFSWNSMFSGYVKTECWREIVDLFNEM  213 (695)
Q Consensus       137 ~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m  213 (695)
                      +++|...++.+++.. +.+...+..+...+...|++++|...|++..+  | +...|..+...+...|++++|+..+++.
T Consensus       320 ~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~A  398 (553)
T PRK12370        320 MIKAKEHAIKATELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINEC  398 (553)
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            445555555554443 33344444444455555555555555554332  2 2233444444555555555555555555


Q ss_pred             HHcCCCCCHh-HHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhc
Q 005476          214 RDLGVKFDEV-TLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQM  283 (695)
Q Consensus       214 ~~~g~~pd~~-t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m  283 (695)
                      .+..  |+.. .+..++..+...|++++|...+..+.+...+.+...+..+...|...|+.++|...+.++
T Consensus       399 l~l~--P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~  467 (553)
T PRK12370        399 LKLD--PTRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEI  467 (553)
T ss_pred             HhcC--CCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHh
Confidence            4432  2211 111222223334444445444444443321222333444444444455555555544443

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.98  E-value=1.5e-08  Score=95.59  Aligned_cols=228  Identities=14%  Similarity=0.082  Sum_probs=141.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhc
Q 005476          292 SAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKC  371 (695)
Q Consensus       292 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~  371 (695)
                      +-|..+|.+.|.+.+|.+.|+.-...  .|-..||..+-.+|.+..+.+.|..++.+-++. ++.++....-....+-..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHH
Confidence            44556666666666666666655554  333445544555555555555555544443332 122333333333444444


Q ss_pred             CCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHH
Q 005476          372 GLIENAVEVFKKMPL---KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFV  448 (695)
Q Consensus       372 g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~  448 (695)
                      ++.++|.++++...+   .|+.+...+..+|.-.++++-|+..|+++.+.|+. +...|+.+.-+|.-.+.+|-+..-|.
T Consensus       304 ~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             HhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            555555555555443   23444444455566666666666666666666643 44455555556666666666555555


Q ss_pred             HchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCC--CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCc
Q 005476          449 SMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPP--NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHS  526 (695)
Q Consensus       449 ~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p--~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~  526 (695)
                      +....                                + -.|  -..+|-.|.......||+..|.+.|+-++..+|++.
T Consensus       383 RAlst--------------------------------a-t~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~  429 (478)
T KOG1129|consen  383 RALST--------------------------------A-TQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHG  429 (478)
T ss_pred             HHHhh--------------------------------c-cCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchH
Confidence            44321                                1 112  245677777777788999999999999999999999


Q ss_pred             ccHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 005476          527 GDYILLSDIYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       527 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      .+++.|+-+-.+.|+.++|..+++......
T Consensus       430 ealnNLavL~~r~G~i~~Arsll~~A~s~~  459 (478)
T KOG1129|consen  430 EALNNLAVLAARSGDILGARSLLNAAKSVM  459 (478)
T ss_pred             HHHHhHHHHHhhcCchHHHHHHHHHhhhhC
Confidence            999999999999999999999999887643

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.98  E-value=3.4e-05  Score=81.85  Aligned_cols=421  Identities=16%  Similarity=0.114  Sum_probs=264.9

Q ss_pred             HHcCCCchHHHHH----HHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCC
Q 005476           96 FTLKQSPQEAVML----YKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGR  171 (695)
Q Consensus        96 ~~~~g~~~~A~~~----~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~  171 (695)
                      +.-..+.+++.-.    +.++....+..|...|..+--+....|+++.+.+.|++....- -.....|+.+-..|.-+|.
T Consensus       294 ~i~Re~~~d~ilslm~~~~k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~-~~~~e~w~~~als~saag~  372 (799)
T KOG4162|consen  294 LIPRENIEDAILSLMLLLRKLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFS-FGEHERWYQLALSYSAAGS  372 (799)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhh-hhhHHHHHHHHHHHHHhcc
Confidence            3334455555443    3334444566788889999888999999999999999987654 3456788999999999999


Q ss_pred             hhHHHHHHhccCC----CCeehHHHHHH-HHH-hCCChhHHHHHHHHHHHc--C----CCCCHhHHHHHHHHHhc----c
Q 005476          172 IDIARKMFDRMSN----RDVFSWNSMFS-GYV-KTECWREIVDLFNEMRDL--G----VKFDEVTLINVLMACGR----L  235 (695)
Q Consensus       172 ~~~A~~~f~~m~~----~~~~~~~~li~-~~~-~~g~~~~A~~~~~~m~~~--g----~~pd~~t~~~ll~a~~~----~  235 (695)
                      -..|..+.+.-..    |+..+--.|+. .|. +.+..++++++-.+....  +    ++|-  .|..+.-+|..    .
T Consensus       373 ~s~Av~ll~~~~~~~~~ps~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~--~~l~lGi~y~~~A~~a  450 (799)
T KOG4162|consen  373 DSKAVNLLRESLKKSEQPSDISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPR--GYLFLGIAYGFQARQA  450 (799)
T ss_pred             chHHHHHHHhhcccccCCCcchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhh--HHHHHHHHHHhHhhcC
Confidence            9999999986543    33333333333 232 457778888877776652  1    2222  23333333321    1


Q ss_pred             CC-------hhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcC----CCChhHHHHHHHHHHhcCCH
Q 005476          236 AD-------IELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMN----IKDVVAWSAMISGYSQARRC  304 (695)
Q Consensus       236 ~~-------~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~----~~~~~~~~~li~~~~~~g~~  304 (695)
                      ..       ..++.+.++..++.+ +.|..+.--+.--|+..++++.|.+...+..    ..+..+|..+.-.+...+++
T Consensus       451 ~~~seR~~~h~kslqale~av~~d-~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~  529 (799)
T KOG4162|consen  451 NLKSERDALHKKSLQALEEAVQFD-PTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRL  529 (799)
T ss_pred             CChHHHHHHHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhh
Confidence            11       234556667776665 2233443445556788889999988877753    44788999999999999999


Q ss_pred             HHHHHHHHHhHHCCCCCC-HHHHHHHHHHHhccCChhHHHHH-------HH----------HHHH----hCC-------C
Q 005476          305 KEALGVFHDMQMANVVPN-EVTMVSVLSCCAVLGALETGKWV-------HL----------YVKK----KRM-------E  355 (695)
Q Consensus       305 ~~A~~~~~~m~~~g~~pd-~~t~~~ll~a~~~~~~~~~a~~i-------~~----------~~~~----~~~-------~  355 (695)
                      .+|+.+.+.....  .|+ ..-...-+..-...++.+++...       ++          +...    .|+       .
T Consensus       530 ~~Al~vvd~al~E--~~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~  607 (799)
T KOG4162|consen  530 KEALDVVDAALEE--FGDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPT  607 (799)
T ss_pred             HHHHHHHHHHHHH--hhhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCccccc
Confidence            9999998876653  122 00000000000112222222111       11          1111    111       1


Q ss_pred             CchHHHhHHhcchh---hcCCHHHHHHHHhcCCCCC------hhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-
Q 005476          356 LTITLGTALMDFYA---KCGLIENAVEVFKKMPLKN------VFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDV-  425 (695)
Q Consensus       356 ~~~~~~~~li~~y~---~~g~~~~A~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-  425 (695)
                      ..+.++..+.....   +.-..+.....+...+.++      ...|......+.+.+..++|...+.+...  +.|-.. 
T Consensus       608 ~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~  685 (799)
T KOG4162|consen  608 DAISTSRYLSSLVASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK--IDPLSAS  685 (799)
T ss_pred             ccchhhHHHHHHHHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchhhHH
Confidence            11222222211111   1111111112222222233      23466677788889999999988888776  555444 


Q ss_pred             HHHHHHHHHhccccHHHHHHHHHHchhhcCCCCC-hhHHHHHHHHHhhcCCHHHHHH--HHHhC-CCCC-CHhhHHHHHH
Q 005476          426 AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPR-MEHYGCMVDILGRAGLVEEAYQ--FIKNM-PIPP-NPVIWRTLLA  500 (695)
Q Consensus       426 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~--~~~~m-~~~p-~~~~~~~ll~  500 (695)
                      .|......+...|..++|.+.|....   -+.|+ +....++..++.+.|+..-|..  ++..+ .+.| +...|-.+..
T Consensus       686 ~~~~~G~~~~~~~~~~EA~~af~~Al---~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~  762 (799)
T KOG4162|consen  686 VYYLRGLLLEVKGQLEEAKEAFLVAL---ALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGE  762 (799)
T ss_pred             HHHHhhHHHHHHHhhHHHHHHHHHHH---hcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHH
Confidence            55555567778899999999998875   56674 6788999999999998777776  77766 5566 6789999999


Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCCCcc
Q 005476          501 ACRAHKNVKVGEESLKNLVTLEPMHSG  527 (695)
Q Consensus       501 a~~~~g~~~~a~~~~~~~~~~~p~~~~  527 (695)
                      .+.+.|+.+.|-+.|..++++++.+|.
T Consensus       763 v~k~~Gd~~~Aaecf~aa~qLe~S~PV  789 (799)
T KOG4162|consen  763 VFKKLGDSKQAAECFQAALQLEESNPV  789 (799)
T ss_pred             HHHHccchHHHHHHHHHHHhhccCCCc
Confidence            999999999999999999999876654

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.97  E-value=5.4e-08  Score=88.07  Aligned_cols=161  Identities=19%  Similarity=0.149  Sum_probs=142.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHHHHchhhcCCCC-ChhHHHHHHHH
Q 005476          392 WTVLIQCLASNGQGERALETYYIMREKNIEPNDV-AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEP-RMEHYGCMVDI  469 (695)
Q Consensus       392 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~  469 (695)
                      .-.+..+|.+.|+...|..-+++.++  ..|+.. ++..+...|.+.|..+.|.+.|+...   .+.| +..+.|....-
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~--~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAl---sl~p~~GdVLNNYG~F  112 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALE--HDPSYYLAHLVRAHYYQKLGENDLADESYRKAL---SLAPNNGDVLNNYGAF  112 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHcCChhhHHHHHHHHH---hcCCCccchhhhhhHH
Confidence            44566789999999999999999999  788776 89999999999999999999999987   4555 57888999999


Q ss_pred             HhhcCCHHHHHHHHHhCCCCC----CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHH
Q 005476          470 LGRAGLVEEAYQFIKNMPIPP----NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDA  545 (695)
Q Consensus       470 ~~~~g~~~~A~~~~~~m~~~p----~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  545 (695)
                      ++..|++++|...|++.-..|    -..+|..+..+..+.|+.+.|++.+++.++++|+.+.+...+.....+.|++-+|
T Consensus       113 LC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~A  192 (250)
T COG3063         113 LCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPA  192 (250)
T ss_pred             HHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHH
Confidence            999999999999999872233    2457888888888999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCCC
Q 005476          546 LRVMNQMREQGI  557 (695)
Q Consensus       546 ~~~~~~m~~~~~  557 (695)
                      ..+++.....+.
T Consensus       193 r~~~~~~~~~~~  204 (250)
T COG3063         193 RLYLERYQQRGG  204 (250)
T ss_pred             HHHHHHHHhccc
Confidence            999999887654

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.92  E-value=4.9e-06  Score=86.88  Aligned_cols=441  Identities=14%  Similarity=0.120  Sum_probs=228.8

Q ss_pred             CchhHHHHHHHHHccCCCCCHHHHHHHhccCCCCCcchHHHHHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 005476           51 NPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKA  130 (695)
Q Consensus        51 ~~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  130 (695)
                      +-+-..+++.+..     .++.+|..+|-+-.  +   -..-|..|....++++|+.+-+..   |.+.-...-.+-+++
T Consensus       532 ~fykvra~lail~-----kkfk~ae~ifleqn--~---te~aigmy~~lhkwde~i~lae~~---~~p~~eklk~sy~q~  598 (1636)
T KOG3616|consen  532 DFYKVRAMLAILE-----KKFKEAEMIFLEQN--A---TEEAIGMYQELHKWDEAIALAEAK---GHPALEKLKRSYLQA  598 (1636)
T ss_pred             hHHHHHHHHHHHH-----hhhhHHHHHHHhcc--c---HHHHHHHHHHHHhHHHHHHHHHhc---CChHHHHHHHHHHHH
Confidence            4444455555554     34888888885521  1   123455666667888888775432   222222233344566


Q ss_pred             HhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccC--CCCeehHHHHHHHHHhCCChhHHHH
Q 005476          131 CSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMS--NRDVFSWNSMFSGYVKTECWREIVD  208 (695)
Q Consensus       131 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~--~~~~~~~~~li~~~~~~g~~~~A~~  208 (695)
                      +...|+-+.|-++-         .+.--.-+-|..|.+.|....|.+....-.  ..|......+..++.+..-+++|-+
T Consensus       599 l~dt~qd~ka~elk---------~sdgd~laaiqlyika~~p~~a~~~a~n~~~l~~de~il~~ia~alik~elydkagd  669 (1636)
T KOG3616|consen  599 LMDTGQDEKAAELK---------ESDGDGLAAIQLYIKAGKPAKAARAALNDEELLADEEILEHIAAALIKGELYDKAGD  669 (1636)
T ss_pred             HHhcCchhhhhhhc---------cccCccHHHHHHHHHcCCchHHHHhhcCHHHhhccHHHHHHHHHHHHhhHHHHhhhh
Confidence            66666665554332         111112345777888888777766543221  1343344444444444444555555


Q ss_pred             HHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHH----------------HHhCCCCch--------HHHHHHH
Q 005476          209 LFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYM----------------EEKELNGNV--------KLMTAVV  264 (695)
Q Consensus       209 ~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~----------------~~~g~~~~~--------~~~~~li  264 (695)
                      +|+++..    ||     ..+..+-+-..+..|.++-+..                ...| +.|.        .....-+
T Consensus       670 lfeki~d----~d-----kale~fkkgdaf~kaielarfafp~evv~lee~wg~hl~~~~-q~daainhfiea~~~~kai  739 (1636)
T KOG3616|consen  670 LFEKIHD----FD-----KALECFKKGDAFGKAIELARFAFPEEVVKLEEAWGDHLEQIG-QLDAAINHFIEANCLIKAI  739 (1636)
T ss_pred             HHHHhhC----HH-----HHHHHHHcccHHHHHHHHHHhhCcHHHhhHHHHHhHHHHHHH-hHHHHHHHHHHhhhHHHHH
Confidence            5555432    11     1111111111122222211110                0000 0000        0001122


Q ss_pred             HHHHhcCCHHHHHHHHHhcCCCChh--HHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHH
Q 005476          265 DMYAKCGHVDKARRLFEQMNIKDVV--AWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETG  342 (695)
Q Consensus       265 ~~~~~~g~~~~A~~~f~~m~~~~~~--~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a  342 (695)
                      .+-....++.+|+.+++.+..+++.  -|..+...|...|+++.|.++|.+.-         .++-.+..|.+.|.++.|
T Consensus       740 eaai~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da  810 (1636)
T KOG3616|consen  740 EAAIGAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDA  810 (1636)
T ss_pred             HHHhhhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHH
Confidence            2333445555555555555544332  24445555666666666666654321         123344555666666655


Q ss_pred             HHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC
Q 005476          343 KWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEP  422 (695)
Q Consensus       343 ~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p  422 (695)
                      ..+-.+.  .|.+.....|-+-..-.-+.|++.+|+++|-.+..|+.     -|..|-++|..++.+++.++     ..|
T Consensus       811 ~kla~e~--~~~e~t~~~yiakaedldehgkf~eaeqlyiti~~p~~-----aiqmydk~~~~ddmirlv~k-----~h~  878 (1636)
T KOG3616|consen  811 FKLAEEC--HGPEATISLYIAKAEDLDEHGKFAEAEQLYITIGEPDK-----AIQMYDKHGLDDDMIRLVEK-----HHG  878 (1636)
T ss_pred             HHHHHHh--cCchhHHHHHHHhHHhHHhhcchhhhhheeEEccCchH-----HHHHHHhhCcchHHHHHHHH-----hCh
Confidence            4443222  23344444444444455556666666666666655553     35566666766666666554     234


Q ss_pred             CH--HHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCC----CHhhHH
Q 005476          423 ND--VAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPP----NPVIWR  496 (695)
Q Consensus       423 ~~--~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p----~~~~~~  496 (695)
                      +.  .|...+..-+...|+++.|...|-+.-          -|.+-+++|-..+.+++|.++-+.-+-..    -...|.
T Consensus       879 d~l~dt~~~f~~e~e~~g~lkaae~~flea~----------d~kaavnmyk~s~lw~dayriaktegg~n~~k~v~flwa  948 (1636)
T KOG3616|consen  879 DHLHDTHKHFAKELEAEGDLKAAEEHFLEAG----------DFKAAVNMYKASELWEDAYRIAKTEGGANAEKHVAFLWA  948 (1636)
T ss_pred             hhhhHHHHHHHHHHHhccChhHHHHHHHhhh----------hHHHHHHHhhhhhhHHHHHHHHhccccccHHHHHHHHHH
Confidence            43  366666777778899999888886653          25677888999999999998887653110    122332


Q ss_pred             HH------HHHHHhcCChhHHHH-------------HHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 005476          497 TL------LAACRAHKNVKVGEE-------------SLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       497 ~l------l~a~~~~g~~~~a~~-------------~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      .-      +..+-++|-++.|..             +.+-..+  ..-+..+..++..+...|++++|.+-+-+..+.+
T Consensus       949 ksiggdaavkllnk~gll~~~id~a~d~~afd~afdlari~~k--~k~~~vhlk~a~~ledegk~edaskhyveaikln 1025 (1636)
T KOG3616|consen  949 KSIGGDAAVKLLNKHGLLEAAIDFAADNCAFDFAFDLARIAAK--DKMGEVHLKLAMFLEDEGKFEDASKHYVEAIKLN 1025 (1636)
T ss_pred             HhhCcHHHHHHHHhhhhHHHHhhhhhcccchhhHHHHHHHhhh--ccCccchhHHhhhhhhccchhhhhHhhHHHhhcc
Confidence            11      122334444444433             3332222  2234577788888999999999998887777654

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.91  E-value=1.8e-05  Score=85.69  Aligned_cols=570  Identities=12%  Similarity=0.154  Sum_probs=301.7

Q ss_pred             HHHHHHHHHccCCCCCHHHHHHHhccCCC--CCcchHHHH-----HHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHH
Q 005476           55 SENLLEAAAILIPATTMDYALSIFHKINE--PDSSAYNIM-----IRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACT  127 (695)
Q Consensus        55 ~~~ll~~y~~~~~~g~~~~A~~~f~~~~~--~~~~~~~~l-----i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  127 (695)
                      +..+.+.+.+.   |-...|++.|..+..  +.++ .+.+     +..|.-.-.++++++.++.|...+++-|..+...+
T Consensus       609 ra~IAqLCEKA---GL~qraLehytDl~DIKR~vV-hth~L~pEwLv~yFg~lsve~s~eclkaml~~NirqNlQi~VQv  684 (1666)
T KOG0985|consen  609 RAEIAQLCEKA---GLLQRALEHYTDLYDIKRVVV-HTHLLNPEWLVNYFGSLSVEDSLECLKAMLSANIRQNLQIVVQV  684 (1666)
T ss_pred             HHHHHHHHHhc---chHHHHHHhcccHHHHHHHHH-HhccCCHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence            55666777777   888888888877642  1111 1111     22344444678889999999888777776666555


Q ss_pred             HHHHhccCChHHHHHHHHHHHH-----------hCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCC------------
Q 005476          128 LKACSRIRALEEGEQIHAQILK-----------SGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSN------------  184 (695)
Q Consensus       128 l~~~~~~~~~~~a~~~~~~~~~-----------~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~------------  184 (695)
                      ..-|...=..+.-.++|+....           .++.-|+.+.-..|.+.++.|++.+.+++.++-.-            
T Consensus       685 atky~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicresn~YdpErvKNfLke  764 (1666)
T KOG0985|consen  685 ATKYHEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRESNCYDPERVKNFLKE  764 (1666)
T ss_pred             HHHHHHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhccccCCHHHHHHHHHh
Confidence            5555544344444555554432           13467888888899999999999998888765420            


Q ss_pred             -------C------------CeehHH------HHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHH-------------H
Q 005476          185 -------R------------DVFSWN------SMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTL-------------I  226 (695)
Q Consensus       185 -------~------------~~~~~~------~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~-------------~  226 (695)
                             |            |.+.|-      ..|..|.+.-++...-.+...+.+..  -+....             .
T Consensus       765 AkL~DqlPLiiVCDRf~fVhdlvlYLyrnn~~kyIE~yVQkvNps~~p~VvG~LLD~d--C~E~~ik~Li~~v~gq~~~d  842 (1666)
T KOG0985|consen  765 AKLTDQLPLIIVCDRFDFVHDLVLYLYRNNLQKYIEIYVQKVNPSRTPQVVGALLDVD--CSEDFIKNLILSVRGQFPVD  842 (1666)
T ss_pred             ccccccCceEEEecccccHHHHHHHHHHhhHHHHHHHHHhhcCCcccchhhhhhhcCC--CcHHHHHHHHHHHhccCChH
Confidence                   1            111111      12444544433333322222222211  111111             1


Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHH------------------------------
Q 005476          227 NVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKA------------------------------  276 (695)
Q Consensus       227 ~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A------------------------------  276 (695)
                      .+..-+.+.+++..-...++..+..| ..|..++|+|...|...++-.+-                              
T Consensus       843 eLv~EvEkRNRLklLlp~LE~~i~eG-~~d~a~hnAlaKIyIDSNNnPE~fLkeN~yYDs~vVGkYCEKRDP~lA~vaYe  921 (1666)
T KOG0985|consen  843 ELVEEVEKRNRLKLLLPWLESLIQEG-SQDPATHNALAKIYIDSNNNPERFLKENPYYDSKVVGKYCEKRDPHLACVAYE  921 (1666)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHhcc-CcchHHHhhhhheeecCCCChHHhcccCCcchhhHHhhhhcccCCceEEEeec
Confidence            12223334444555555555556666 34667777777766544321110                              


Q ss_pred             ----------------------------------HHHH-----------HhcC------CCChhHHHHHHHHHHhcCCHH
Q 005476          277 ----------------------------------RRLF-----------EQMN------IKDVVAWSAMISGYSQARRCK  305 (695)
Q Consensus       277 ----------------------------------~~~f-----------~~m~------~~~~~~~~~li~~~~~~g~~~  305 (695)
                                                        .+++           ++..      ..|+..-..-+.++...+.+.
T Consensus       922 rGqcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~ 1001 (1666)
T KOG0985|consen  922 RGQCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPN 1001 (1666)
T ss_pred             ccCCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcH
Confidence                                              0010           0000      012223334445555566666


Q ss_pred             HHHHHHHHhHHCCCCC-CHHHHHHHHHHHhccCChhHHHHHHHHHHHh-----------------------CCCCchHHH
Q 005476          306 EALGVFHDMQMANVVP-NEVTMVSVLSCCAVLGALETGKWVHLYVKKK-----------------------RMELTITLG  361 (695)
Q Consensus       306 ~A~~~~~~m~~~g~~p-d~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~-----------------------~~~~~~~~~  361 (695)
                      +-+++++++.-..-.. .......++-.-+-..+.....++..++-..                       .+..+....
T Consensus      1002 eLIELLEKIvL~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyDa~~ia~iai~~~LyEEAF~ifkkf~~n~~A~ 1081 (1666)
T KOG0985|consen 1002 ELIELLEKIVLDNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIAEIAIENQLYEEAFAIFKKFDMNVSAI 1081 (1666)
T ss_pred             HHHHHHHHHhcCCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccCCchhHHHHHhhhhHHHHHHHHHHHhcccHHHH
Confidence            6666666654322110 0011111111001111111111111111100                       011111222


Q ss_pred             hHHhcchhhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHH
Q 005476          362 TALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVD  441 (695)
Q Consensus       362 ~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~  441 (695)
                      +.||+   .-++++.|.+.-++..  ....|+.+..+-.+.|...+|++-|-+      .-|+..|.-++..+++.|.++
T Consensus      1082 ~VLie---~i~~ldRA~efAe~~n--~p~vWsqlakAQL~~~~v~dAieSyik------adDps~y~eVi~~a~~~~~~e 1150 (1666)
T KOG0985|consen 1082 QVLIE---NIGSLDRAYEFAERCN--EPAVWSQLAKAQLQGGLVKDAIESYIK------ADDPSNYLEVIDVASRTGKYE 1150 (1666)
T ss_pred             HHHHH---HhhhHHHHHHHHHhhC--ChHHHHHHHHHHHhcCchHHHHHHHHh------cCCcHHHHHHHHHHHhcCcHH
Confidence            22221   1233344443333332  345799999999999999999988743      235668999999999999999


Q ss_pred             HHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 005476          442 EGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTL  521 (695)
Q Consensus       442 ~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~  521 (695)
                      +-.+++....++ .-+|.++  +.|+-+|++.+++.+-++++.    .||..-...+..-|...|.++.|.-++..+   
T Consensus      1151 dLv~yL~MaRkk-~~E~~id--~eLi~AyAkt~rl~elE~fi~----gpN~A~i~~vGdrcf~~~~y~aAkl~y~~v--- 1220 (1666)
T KOG0985|consen 1151 DLVKYLLMARKK-VREPYID--SELIFAYAKTNRLTELEEFIA----GPNVANIQQVGDRCFEEKMYEAAKLLYSNV--- 1220 (1666)
T ss_pred             HHHHHHHHHHHh-hcCccch--HHHHHHHHHhchHHHHHHHhc----CCCchhHHHHhHHHhhhhhhHHHHHHHHHh---
Confidence            999999877654 5566655  579999999999999888764    467777788888999999999998888765   


Q ss_pred             CCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCCCccCCceeEEEECCEEEEeecCCCCCcchHHHHHHHHHHHHHHHH
Q 005476          522 EPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKS  601 (695)
Q Consensus       522 ~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~l~~~m~~  601 (695)
                           +.|..|+..+...|.+..|...-++......-|..+...  +++.-.++..-...|-  --..+.+++|...-++
T Consensus      1221 -----SN~a~La~TLV~LgeyQ~AVD~aRKAns~ktWK~VcfaC--vd~~EFrlAQiCGL~i--ivhadeLeeli~~Yq~ 1291 (1666)
T KOG0985|consen 1221 -----SNFAKLASTLVYLGEYQGAVDAARKANSTKTWKEVCFAC--VDKEEFRLAQICGLNI--IVHADELEELIEYYQD 1291 (1666)
T ss_pred             -----hhHHHHHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHH--hchhhhhHHHhcCceE--EEehHhHHHHHHHHHh
Confidence                 567788888888888777765544332211111111111  1111111100000010  0012456677777778


Q ss_pred             cCcccCCCccccc-CC-hhhhhhhh--------hhchHHHHHHHhhhcCCCCCcEEEEccccccCCccchhhhh
Q 005476          602 AGYVPNTADARLD-AE-EDDKEASV--------AHHSEKLAIAFGLIRASPGTTIRISKNLRVCTDCHNATKII  665 (695)
Q Consensus       602 ~g~~pd~~~~~~~-~~-~~~~~~~~--------~~~~~~la~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  665 (695)
                      .||.-+-+..+.. +. |..|-+..        .+.++||-.-..|.-+.    +.|-|-+|.|..-|-+-+++
T Consensus      1292 rGyFeElIsl~Ea~LGLERAHMgmfTELaiLYskykp~km~EHl~LFwsR----vNipKviRA~eqahlW~Elv 1361 (1666)
T KOG0985|consen 1292 RGYFEELISLLEAGLGLERAHMGMFTELAILYSKYKPEKMMEHLKLFWSR----VNIPKVIRAAEQAHLWSELV 1361 (1666)
T ss_pred             cCcHHHHHHHHHhhhchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh----cchHHHHHHHHHHHHHHHHH
Confidence            8876554443311 11 11111111        13334443333333332    45568888888877666554

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.91  E-value=4.6e-05  Score=79.29  Aligned_cols=323  Identities=12%  Similarity=0.135  Sum_probs=180.9

Q ss_pred             CeehHHHHHHHHHhCCChhHHHHHHHHHHHcC-CCCCHhHHHHHHH------HHhccCChhHHHHHHHHHHHhCCCCchH
Q 005476          186 DVFSWNSMFSGYVKTECWREIVDLFNEMRDLG-VKFDEVTLINVLM------ACGRLADIELGGWISEYMEEKELNGNVK  258 (695)
Q Consensus       186 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~pd~~t~~~ll~------a~~~~~~~~~a~~~~~~~~~~g~~~~~~  258 (695)
                      ....|..+..++--.|+...|..++++..+.. -.|+...|.....      .....|.++.+.+.+..-... +.....
T Consensus       142 ~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkla  220 (700)
T KOG1156|consen  142 QRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKLA  220 (700)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHHH
Confidence            44567777777777777777777777776543 2355554433222      233455656655554433222 122233


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCCC--ChhHHHH-HHHHHHhcCCHHHHH-HHHHHhHHCC---CCCCHHHHHHHHH
Q 005476          259 LMTAVVDMYAKCGHVDKARRLFEQMNIK--DVVAWSA-MISGYSQARRCKEAL-GVFHDMQMAN---VVPNEVTMVSVLS  331 (695)
Q Consensus       259 ~~~~li~~~~~~g~~~~A~~~f~~m~~~--~~~~~~~-li~~~~~~g~~~~A~-~~~~~m~~~g---~~pd~~t~~~ll~  331 (695)
                      .--.-.+.+.+.+++++|..++..+..+  |...|+- +..++.+-.+.-+++ .+|....+.-   -.|-....    +
T Consensus       221 ~~e~ka~l~~kl~~lEeA~~~y~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlpl----s  296 (700)
T KOG1156|consen  221 FEETKADLLMKLGQLEEAVKVYRRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPL----S  296 (700)
T ss_pred             HhhhHHHHHHHHhhHHhHHHHHHHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccH----H
Confidence            3344556778888888888888887654  4444443 334443333344444 5555544321   11111111    1


Q ss_pred             HHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHH---H-HHHHHhcC--------------CCCChhHHH
Q 005476          332 CCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIE---N-AVEVFKKM--------------PLKNVFFWT  393 (695)
Q Consensus       332 a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~---~-A~~~~~~~--------------~~~~~~~~~  393 (695)
                      ......-.+....++....+.|+++-   +..+...|-.-...+   + +..+...+              ..|....|.
T Consensus       297 vl~~eel~~~vdkyL~~~l~Kg~p~v---f~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt  373 (700)
T KOG1156|consen  297 VLNGEELKEIVDKYLRPLLSKGVPSV---FKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWT  373 (700)
T ss_pred             HhCcchhHHHHHHHHHHHhhcCCCch---hhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHH
Confidence            11112222333444555555665443   222333232211111   0 11111111              123444555


Q ss_pred             H--HHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHH
Q 005476          394 V--LIQCLASNGQGERALETYYIMREKNIEPNDV-AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDIL  470 (695)
Q Consensus       394 ~--li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~  470 (695)
                      .  ++..|-..|+++.|+.+.+....  -.|+.+ -|..=.+.+.+.|++++|..++++..+  --.||...-.--+.-.
T Consensus       374 ~y~laqh~D~~g~~~~A~~yId~AId--HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~e--lD~aDR~INsKcAKYm  449 (700)
T KOG1156|consen  374 LYFLAQHYDKLGDYEVALEYIDLAID--HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQE--LDTADRAINSKCAKYM  449 (700)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHhc--cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHh--ccchhHHHHHHHHHHH
Confidence            4  55677889999999999999887  678877 666666788999999999999998864  3346666555667778


Q ss_pred             hhcCCHHHHHHHHHhCCCCC-C--------HhhHHHHH--HHHHhcCChhHHHHHHHHHHh
Q 005476          471 GRAGLVEEAYQFIKNMPIPP-N--------PVIWRTLL--AACRAHKNVKVGEESLKNLVT  520 (695)
Q Consensus       471 ~~~g~~~~A~~~~~~m~~~p-~--------~~~~~~ll--~a~~~~g~~~~a~~~~~~~~~  520 (695)
                      .|+.+.++|.++.....-.. +        .-.|-.+-  .+|.++|++.+|.+-|..+-+
T Consensus       450 LrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~k  510 (700)
T KOG1156|consen  450 LRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIEK  510 (700)
T ss_pred             HHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHHH
Confidence            89999999988877652111 1        12344433  457788888888776665544

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.90  E-value=2.1e-05  Score=81.78  Aligned_cols=430  Identities=12%  Similarity=0.074  Sum_probs=235.2

Q ss_pred             hHHHHHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHH
Q 005476           88 AYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYA  167 (695)
Q Consensus        88 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~  167 (695)
                      .+..++..| ..+++...+.+.+.+++. .+-...|....--.+...|+.++|.......++.. ..+.+.|..+.-.+.
T Consensus        10 lF~~~lk~y-E~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R   86 (700)
T KOG1156|consen   10 LFRRALKCY-ETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQR   86 (700)
T ss_pred             HHHHHHHHH-HHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHHh
Confidence            344444444 456777777777777663 22233444444344456677777777776666543 345566666666666


Q ss_pred             hcCChhHHHHHHhccCC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCH-hHHHHHHHHHhccCChhHHHH
Q 005476          168 NCGRIDIARKMFDRMSN---RDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDE-VTLINVLMACGRLADIELGGW  243 (695)
Q Consensus       168 ~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~a~~~~~~~~~a~~  243 (695)
                      ...++++|.+.|.....   .|...|.-+.---++.|+++.....-.++.+.  .|.. ..|.....+.--.|+...|..
T Consensus        87 ~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql--~~~~ra~w~~~Avs~~L~g~y~~A~~  164 (700)
T KOG1156|consen   87 SDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQL--RPSQRASWIGFAVAQHLLGEYKMALE  164 (700)
T ss_pred             hhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh--hhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            66778888888876533   35556666666666777777777776666653  3333 346666666667778888888


Q ss_pred             HHHHHHHhCC-CCchHHHHHHHH------HHHhcCCHHHHHHHHHhcCCC--C-hhHHHHHHHHHHhcCCHHHHHHHHHH
Q 005476          244 ISEYMEEKEL-NGNVKLMTAVVD------MYAKCGHVDKARRLFEQMNIK--D-VVAWSAMISGYSQARRCKEALGVFHD  313 (695)
Q Consensus       244 ~~~~~~~~g~-~~~~~~~~~li~------~~~~~g~~~~A~~~f~~m~~~--~-~~~~~~li~~~~~~g~~~~A~~~~~~  313 (695)
                      +.+...+... .|+...+.-...      ...+.|..+.|.+.+......  | ...-......+.+.++.++|..++..
T Consensus       165 il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~  244 (700)
T KOG1156|consen  165 ILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAFEETKADLLMKLGQLEEAVKVYRR  244 (700)
T ss_pred             HHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHH
Confidence            8777777652 344444332222      234567777777766655432  2 22233445566777788888888877


Q ss_pred             hHHCCCCCCHHHHHHHHHHHhc-cCChhHH-HHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCCChhH
Q 005476          314 MQMANVVPNEVTMVSVLSCCAV-LGALETG-KWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFF  391 (695)
Q Consensus       314 m~~~g~~pd~~t~~~ll~a~~~-~~~~~~a-~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~  391 (695)
                      ++..  .||..-|.-.+..+.- ..+.-++ ..++...-+.-....                            .|--..
T Consensus       245 Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e----------------------------~p~Rlp  294 (700)
T KOG1156|consen  245 LLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHE----------------------------CPRRLP  294 (700)
T ss_pred             HHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccc----------------------------cchhcc
Confidence            7765  4676666655554431 1111111 123322221100000                            000000


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHH-HHHHHHHchhhcC----------CCCCh
Q 005476          392 WTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDE-GRELFVSMSRDFD----------LEPRM  460 (695)
Q Consensus       392 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~-a~~~~~~~~~~~~----------~~p~~  460 (695)
                      .+.    .....-.+..-+++..+.+.|++|--..+.++..-=-+..-+++ +..+...+... |          -+|+.
T Consensus       295 lsv----l~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~-~~f~~~D~~~~E~Ptt  369 (700)
T KOG1156|consen  295 LSV----LNGEELKEIVDKYLRPLLSKGVPSVFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGT-GMFNFLDDGKQEPPTT  369 (700)
T ss_pred             HHH----hCcchhHHHHHHHHHHHhhcCCCchhhhhHHHHhchhHhHHHHHHHHHHHhhcccc-cCCCcccccccCCchH
Confidence            000    00011122233455556666665433333333211001111111 12222222111 1          13443


Q ss_pred             --hHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHh-hHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHH
Q 005476          461 --EHYGCMVDILGRAGLVEEAYQFIKNM-PIPPNPV-IWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIY  536 (695)
Q Consensus       461 --~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~-~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  536 (695)
                        .++-.++..|-+.|+++.|..+++.. +-.|+.+ .|..-...+...|+++.|-..++++.+++-.|...-.--++-.
T Consensus       370 llWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYm  449 (700)
T KOG1156|consen  370 LLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYM  449 (700)
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHH
Confidence              34456777788888888888888876 4344433 3334445677788888888888888888865543333455556


Q ss_pred             HHcCCHHHHHHHHHHHHhCCC
Q 005476          537 ASAGRCEDALRVMNQMREQGI  557 (695)
Q Consensus       537 ~~~g~~~~a~~~~~~m~~~~~  557 (695)
                      .++.+.++|.++.......|.
T Consensus       450 LrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  450 LRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHccccHHHHHHHHHhhhccc
Confidence            678888888888888776653

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.89  E-value=6.3e-07  Score=90.03  Aligned_cols=217  Identities=11%  Similarity=-0.008  Sum_probs=135.5

Q ss_pred             CCHHHHHHHHHHhHHCC-CCCC--HHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHH
Q 005476          302 RRCKEALGVFHDMQMAN-VVPN--EVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAV  378 (695)
Q Consensus       302 g~~~~A~~~~~~m~~~g-~~pd--~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~  378 (695)
                      +..+.++.-+.++.... ..|+  ...|......+...|+.+.|...+..+++.. +.+...++.+...|...|++++|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            34455555555554321 1121  1234444445556666666666666666544 334566777777777788888888


Q ss_pred             HHHhcCCC--C-ChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcC
Q 005476          379 EVFKKMPL--K-NVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFD  455 (695)
Q Consensus       379 ~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  455 (695)
                      ..|++..+  | +...|..+...+...|++++|++.|++..+  ..|+..........+...++.++|.+.|.....  .
T Consensus       119 ~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~--~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~--~  194 (296)
T PRK11189        119 EAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQ--DDPNDPYRALWLYLAESKLDPKQAKENLKQRYE--K  194 (296)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh--h
Confidence            87777643  2 456778888888889999999999999888  566554222222234456789999999976543  3


Q ss_pred             CCCChhHHHHHHHHHhhcCCHH--HHHHHHHhC-CC----CC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCc
Q 005476          456 LEPRMEHYGCMVDILGRAGLVE--EAYQFIKNM-PI----PP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHS  526 (695)
Q Consensus       456 ~~p~~~~~~~li~~~~~~g~~~--~A~~~~~~m-~~----~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~  526 (695)
                      ..|+...+ .++..+  .|+..  ++.+.+.+- ..    .| ....|..+...+.+.|++++|+..|+++++.+|.+.
T Consensus       195 ~~~~~~~~-~~~~~~--lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~  270 (296)
T PRK11189        195 LDKEQWGW-NIVEFY--LGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNF  270 (296)
T ss_pred             CCccccHH-HHHHHH--ccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchH
Confidence            34443322 333333  44443  333333321 11    12 235788899999999999999999999999997553

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.89  E-value=1.1e-05  Score=84.33  Aligned_cols=195  Identities=17%  Similarity=0.241  Sum_probs=134.2

Q ss_pred             HHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHH
Q 005476          330 LSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERAL  409 (695)
Q Consensus       330 l~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  409 (695)
                      +.+......+..|..|.+.+.....  ....|.-+.+-|+..|+++.|+++|.+..     .++--|..|.+.|++++|.
T Consensus       739 ieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~~-----~~~dai~my~k~~kw~da~  811 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEAD-----LFKDAIDMYGKAGKWEDAF  811 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhcc-----hhHHHHHHHhccccHHHHH
Confidence            4444556677777777776665432  23345667788889999999999987653     3455678889999999988


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCC
Q 005476          410 ETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIP  489 (695)
Q Consensus       410 ~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  489 (695)
                      ++-++..  |.......|..-..-.-..|++.+|.+++-.+-     .|+.     -|.+|-+.|..++.+++.++-.-.
T Consensus       812 kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~-----~p~~-----aiqmydk~~~~ddmirlv~k~h~d  879 (1636)
T KOG3616|consen  812 KLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG-----EPDK-----AIQMYDKHGLDDDMIRLVEKHHGD  879 (1636)
T ss_pred             HHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc-----CchH-----HHHHHHhhCcchHHHHHHHHhChh
Confidence            8866543  334444566666666777888888888775442     3543     467888899999988888875211


Q ss_pred             CCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHH
Q 005476          490 PNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQ  551 (695)
Q Consensus       490 p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  551 (695)
                      .-..|..-+..-+-..|+++.|+.-|-++        .-|-.-.++|-..+.|++|.++-+.
T Consensus       880 ~l~dt~~~f~~e~e~~g~lkaae~~flea--------~d~kaavnmyk~s~lw~dayriakt  933 (1636)
T KOG3616|consen  880 HLHDTHKHFAKELEAEGDLKAAEEHFLEA--------GDFKAAVNMYKASELWEDAYRIAKT  933 (1636)
T ss_pred             hhhHHHHHHHHHHHhccChhHHHHHHHhh--------hhHHHHHHHhhhhhhHHHHHHHHhc
Confidence            12335555666677888888888776654        3455677888888888888776553

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=98.88  E-value=1.5e-05  Score=84.93  Aligned_cols=45  Identities=22%  Similarity=0.326  Sum_probs=40.2

Q ss_pred             ChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHH
Q 005476          507 NVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQ  551 (695)
Q Consensus       507 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  551 (695)
                      =+++|.++++-+.+..|++..+|..--.+|.+.|++--|++.+.+
T Consensus       472 PLe~A~kfl~pL~~~a~~~~et~~laFeVy~Rk~K~LLaLqaL~k  516 (517)
T PF12569_consen  472 PLEEAMKFLKPLLELAPDNIETHLLAFEVYLRKGKYLLALQALKK  516 (517)
T ss_pred             HHHHHHHHHHHHHHhCccchhhHHHHhHHHHhcCcHHHHHHHHHh
Confidence            468899999999999999999999999999999999988887653

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.88  E-value=1.3e-07  Score=89.51  Aligned_cols=231  Identities=12%  Similarity=0.098  Sum_probs=187.5

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHHHhcC--CCChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHH-HHHHH
Q 005476          256 NVKLMTAVVDMYAKCGHVDKARRLFEQMN--IKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMV-SVLSC  332 (695)
Q Consensus       256 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~-~ll~a  332 (695)
                      |..--+.+..+|.+.|.+.+|.+.|.+-.  .+-+.+|-.|-..|.+..+++.|+.+|.+-.+.  .|-.+||. .+.+.
T Consensus       222 dwwWk~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi  299 (478)
T KOG1129|consen  222 DWWWKQQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARI  299 (478)
T ss_pred             hHHHHHHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHH
Confidence            33444778899999999999999998864  356788999999999999999999999988764  67777664 45567


Q ss_pred             HhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHH
Q 005476          333 CAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPL---KNVFFWTVLIQCLASNGQGERAL  409 (695)
Q Consensus       333 ~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~  409 (695)
                      +...++.+.+.++++...+.. +.++....++...|.-.++++.|...++++.+   .+...|+.+.-+|.-.++++-++
T Consensus       300 ~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~speLf~NigLCC~yaqQ~D~~L  378 (478)
T KOG1129|consen  300 HEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPELFCNIGLCCLYAQQIDLVL  378 (478)
T ss_pred             HHHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChHHHhhHHHHHHhhcchhhhH
Confidence            788899999999999998865 45666667777888889999999999998764   57788999999999999999999


Q ss_pred             HHHHHHHHCCCCCCHH--HHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-
Q 005476          410 ETYYIMREKNIEPNDV--AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-  486 (695)
Q Consensus       410 ~l~~~m~~~g~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-  486 (695)
                      .-|++....--.|+..  .|..+-......|++..|.+.|.....  .-..+.+.++.|.-.-.|.|++++|..+++.. 
T Consensus       379 ~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~--~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~  456 (478)
T KOG1129|consen  379 PSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALT--SDAQHGEALNNLAVLAARSGDILGARSLLNAAK  456 (478)
T ss_pred             HHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhc--cCcchHHHHHhHHHHHhhcCchHHHHHHHHHhh
Confidence            9999998866667654  666777777788999999999988764  33345678888888888999999999998876 


Q ss_pred             CCCCC
Q 005476          487 PIPPN  491 (695)
Q Consensus       487 ~~~p~  491 (695)
                      ...|+
T Consensus       457 s~~P~  461 (478)
T KOG1129|consen  457 SVMPD  461 (478)
T ss_pred             hhCcc
Confidence            23444

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.84  E-value=9.8e-06  Score=85.83  Aligned_cols=385  Identities=15%  Similarity=0.107  Sum_probs=235.7

Q ss_pred             CCchhHHHHHH--HHHccCCCCCHHHHHHHhccCCCCCcchHHHHHHHHHcCCCchHHHHHHHHHHhC-C--------CC
Q 005476           50 LNPTISENLLE--AAAILIPATTMDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQN-S--------VE  118 (695)
Q Consensus        50 ~~~~~~~~ll~--~y~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g--------~~  118 (695)
                      -|+.+-.++++  +|..-   |+.|.|.+-.+.+..  -..|..|.+.+++..+.+-|.-.+..|... |        -.
T Consensus       724 Cd~~TRkaml~FSfyvti---G~MD~AfksI~~IkS--~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~  798 (1416)
T KOG3617|consen  724 CDESTRKAMLDFSFYVTI---GSMDAAFKSIQFIKS--DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQN  798 (1416)
T ss_pred             cCHHHHHhhhceeEEEEe---ccHHHHHHHHHHHhh--hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhC
Confidence            46667777764  57777   999999888777653  456999999999999998888777666431 1        12


Q ss_pred             CChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCC-CCeehHHHHHHHH
Q 005476          119 PDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSN-RDVFSWNSMFSGY  197 (695)
Q Consensus       119 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~-~~~~~~~~li~~~  197 (695)
                      |+ .+=..+.-.....|.+++|+.++.+..+.+         .|=..|-..|.+++|.++-+.-.. .=..||..-...+
T Consensus       799 ~~-e~eakvAvLAieLgMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~L  868 (1416)
T KOG3617|consen  799 GE-EDEAKVAVLAIELGMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYL  868 (1416)
T ss_pred             Cc-chhhHHHHHHHHHhhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHH
Confidence            22 222233333457789999999999988753         355667788999999888754322 1112455555566


Q ss_pred             HhCCChhHHHHHHHHH----------HHcC---------CCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchH
Q 005476          198 VKTECWREIVDLFNEM----------RDLG---------VKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVK  258 (695)
Q Consensus       198 ~~~g~~~~A~~~~~~m----------~~~g---------~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~  258 (695)
                      -..++.+.|++.|++-          +...         -+-|...|..-..-.-..|+.+.|..++.....        
T Consensus       869 ear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D--------  940 (1416)
T KOG3617|consen  869 EARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD--------  940 (1416)
T ss_pred             HhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh--------
Confidence            6677888888877653          2211         112333344444445556777777777665543        


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccC-
Q 005476          259 LMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLG-  337 (695)
Q Consensus       259 ~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~-  337 (695)
                       |-+++...|-.|+.++|-++-++-  .|..+.-.+..-|-..|++.+|+..|.+.+         +|...|+.|-..+ 
T Consensus       941 -~fs~VrI~C~qGk~~kAa~iA~es--gd~AAcYhlaR~YEn~g~v~~Av~FfTrAq---------afsnAIRlcKEnd~ 1008 (1416)
T KOG3617|consen  941 -YFSMVRIKCIQGKTDKAARIAEES--GDKAACYHLARMYENDGDVVKAVKFFTRAQ---------AFSNAIRLCKENDM 1008 (1416)
T ss_pred             -hhhheeeEeeccCchHHHHHHHhc--ccHHHHHHHHHHhhhhHHHHHHHHHHHHHH---------HHHHHHHHHHhcCH
Confidence             345566666778888887776653  355667778888999999999999998765         3444444332221 


Q ss_pred             --------------ChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCC--------------CCCh
Q 005476          338 --------------ALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMP--------------LKNV  389 (695)
Q Consensus       338 --------------~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~--------------~~~~  389 (695)
                                    +.-.|-.+|++   .|..     ....+..|-|.|.+.+|+++--+-.              ..|+
T Consensus      1009 ~d~L~nlal~s~~~d~v~aArYyEe---~g~~-----~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp 1080 (1416)
T KOG3617|consen 1009 KDRLANLALMSGGSDLVSAARYYEE---LGGY-----AHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDP 1080 (1416)
T ss_pred             HHHHHHHHhhcCchhHHHHHHHHHH---cchh-----hhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCH
Confidence                          12222222222   2211     1223456778888888776532221              1355


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCC----hhHHHH
Q 005476          390 FFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPR----MEHYGC  465 (695)
Q Consensus       390 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~  465 (695)
                      ...+--...++.+.++++|..++-..++         |...+..|...+ +.-..++-+.|.-...-.|+    ......
T Consensus      1081 ~ll~RcadFF~~~~qyekAV~lL~~ar~---------~~~AlqlC~~~n-v~vtee~aE~mTp~Kd~~~~e~~R~~vLeq 1150 (1416)
T KOG3617|consen 1081 KLLRRCADFFENNQQYEKAVNLLCLARE---------FSGALQLCKNRN-VRVTEEFAELMTPTKDDMPNEQERKQVLEQ 1150 (1416)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHH---------HHHHHHHHhcCC-CchhHHHHHhcCcCcCCCccHHHHHHHHHH
Confidence            5556556667778888888888776654         444555555433 22233333334322112232    345666


Q ss_pred             HHHHHhhcCCHHHHHHHHHhCC
Q 005476          466 MVDILGRAGLVEEAYQFIKNMP  487 (695)
Q Consensus       466 li~~~~~~g~~~~A~~~~~~m~  487 (695)
                      +.+.+.++|.+..|-+-|.+.+
T Consensus      1151 vae~c~qQG~Yh~AtKKfTQAG 1172 (1416)
T KOG3617|consen 1151 VAELCLQQGAYHAATKKFTQAG 1172 (1416)
T ss_pred             HHHHHHhccchHHHHHHHhhhh
Confidence            7778888888888887777765

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.83  E-value=0.00029  Score=76.76  Aligned_cols=493  Identities=13%  Similarity=0.142  Sum_probs=256.5

Q ss_pred             cCCChHHHHHHHHHHhcCCCCchhHHHHHHHHHccCCCCCHHHHHHHhccCCC--CCcchHHHHHHHHHcCCCchHHHHH
Q 005476           31 KTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINE--PDSSAYNIMIRAFTLKQSPQEAVML  108 (695)
Q Consensus        31 ~~~~~~~~~~~~~~~~g~~~~~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~  108 (695)
                      +..+.++.+--...+.|..||.   -.+++-..+    -.++.+.++...+++  +...-.+.+...+...+....+..+
T Consensus       492 AE~Gqf~KiilY~kKvGyTPdy---mflLq~l~r----~sPD~~~qFa~~l~Q~~~~~~die~I~DlFme~N~iQq~TSF  564 (1666)
T KOG0985|consen  492 AETGQFKKIILYAKKVGYTPDY---MFLLQQLKR----SSPDQALQFAMMLVQDEEPLADIEQIVDLFMELNLIQQCTSF  564 (1666)
T ss_pred             HHhcchhHHHHHHHHcCCCccH---HHHHHHHHc----cChhHHHHHHHHhhccCCCcccHHHHHHHHHHHHhhhhhHHH
Confidence            3334444444445555665553   233333333    245555555555443  2333455556666555555566555


Q ss_pred             HHHHHhCCCCCChhhHHH-HHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCC--C
Q 005476          109 YKTMLQNSVEPDRFTFAC-TLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSN--R  185 (695)
Q Consensus       109 ~~~m~~~g~~p~~~~~~~-ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~--~  185 (695)
                      +-..++. ..|+....-+ +|..     ++-.|-++-+.+.-.+. -...-+..+.+.|.+.|-+..|++.+..+.+  +
T Consensus       565 LLdaLK~-~~Pd~g~LQTrLLE~-----NL~~aPqVADAILgN~m-FtHyDra~IAqLCEKAGL~qraLehytDl~DIKR  637 (1666)
T KOG0985|consen  565 LLDALKL-NSPDEGHLQTRLLEM-----NLVHAPQVADAILGNDM-FTHYDRAEIAQLCEKAGLLQRALEHYTDLYDIKR  637 (1666)
T ss_pred             HHHHhcC-CChhhhhHHHHHHHH-----HhccchHHHHHHHhccc-cccccHHHHHHHHHhcchHHHHHHhcccHHHHHH
Confidence            5555442 3344332221 1111     11122233333333321 2222367788899999999999998887764  2


Q ss_pred             CeehHHH----HHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHH-----------
Q 005476          186 DVFSWNS----MFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEE-----------  250 (695)
Q Consensus       186 ~~~~~~~----li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~-----------  250 (695)
                      .++.-+.    -+-.|.-.-.++++++.++.|...+++.|..+...+..-|...=..+.-.++|+....           
T Consensus       638 ~vVhth~L~pEwLv~yFg~lsve~s~eclkaml~~NirqNlQi~VQvatky~eqlg~~~li~lFE~fks~eGL~yfLgSi  717 (1666)
T KOG0985|consen  638 VVVHTHLLNPEWLVNYFGSLSVEDSLECLKAMLSANIRQNLQIVVQVATKYHEQLGAQALIELFESFKSYEGLYYFLGSI  717 (1666)
T ss_pred             HHHHhccCCHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCHHHHHHHHHhhccchhHHHHHHHH
Confidence            2221111    1234444556889999999999999888887776666666554444444445544332           


Q ss_pred             hCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCC-------------------C------------ChhHH------HH
Q 005476          251 KELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNI-------------------K------------DVVAW------SA  293 (695)
Q Consensus       251 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~-------------------~------------~~~~~------~~  293 (695)
                      -++..|+.+.--.|.+-++.|++.+.+++.++-.-                   |            |.+.|      --
T Consensus       718 vn~seDpevh~KYIqAA~kt~QikEvERicresn~YdpErvKNfLkeAkL~DqlPLiiVCDRf~fVhdlvlYLyrnn~~k  797 (1666)
T KOG0985|consen  718 VNFSEDPEVHFKYIQAACKTGQIKEVERICRESNCYDPERVKNFLKEAKLTDQLPLIIVCDRFDFVHDLVLYLYRNNLQK  797 (1666)
T ss_pred             hccccCchHHHHHHHHHHhhccHHHHHHHHhccccCCHHHHHHHHHhccccccCceEEEecccccHHHHHHHHHHhhHHH
Confidence            13456777777889999999999999988775420                   0            11211      11


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHH-H------------HHHHHHhccCChhHHHHHHHHHHHhCCCCchHH
Q 005476          294 MISGYSQARRCKEALGVFHDMQMANVVPNEVTM-V------------SVLSCCAVLGALETGKWVHLYVKKKRMELTITL  360 (695)
Q Consensus       294 li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~-~------------~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~  360 (695)
                      .|..|++.-++...-.+...+....  -+.... +            -+..-+.+.+++..-..+++..+..| ..|+.+
T Consensus       798 yIE~yVQkvNps~~p~VvG~LLD~d--C~E~~ik~Li~~v~gq~~~deLv~EvEkRNRLklLlp~LE~~i~eG-~~d~a~  874 (1666)
T KOG0985|consen  798 YIEIYVQKVNPSRTPQVVGALLDVD--CSEDFIKNLILSVRGQFPVDELVEEVEKRNRLKLLLPWLESLIQEG-SQDPAT  874 (1666)
T ss_pred             HHHHHHhhcCCcccchhhhhhhcCC--CcHHHHHHHHHHHhccCChHHHHHHHHhhhhHHHHHHHHHHHHhcc-CcchHH
Confidence            3445555444333333332222221  111111 1            12222334444444455555555555 456777


Q ss_pred             HhHHhcchhhcCCHHHH----------------------------------------------------HHHHhcC----
Q 005476          361 GTALMDFYAKCGLIENA----------------------------------------------------VEVFKKM----  384 (695)
Q Consensus       361 ~~~li~~y~~~g~~~~A----------------------------------------------------~~~~~~~----  384 (695)
                      +|+|...|....+-.+-                                                    +-+.++.    
T Consensus       875 hnAlaKIyIDSNNnPE~fLkeN~yYDs~vVGkYCEKRDP~lA~vaYerGqcD~elI~vcNeNSlfK~~aRYlv~R~D~~L  954 (1666)
T KOG0985|consen  875 HNALAKIYIDSNNNPERFLKENPYYDSKVVGKYCEKRDPHLACVAYERGQCDLELINVCNENSLFKSQARYLVERSDPDL  954 (1666)
T ss_pred             HhhhhheeecCCCChHHhcccCCcchhhHHhhhhcccCCceEEEeecccCCcHHHHHhcCchhHHHHHHHHHHhccChHH
Confidence            77777777654332111                                                    0000000    


Q ss_pred             ------------------------C-CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-----------------C
Q 005476          385 ------------------------P-LKNVFFWTVLIQCLASNGQGERALETYYIMREKNIE-----------------P  422 (695)
Q Consensus       385 ------------------------~-~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-----------------p  422 (695)
                                              + ..|+..-+.-+.++...+-+.+-++++++..-..-.                 .
T Consensus       955 W~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAika 1034 (1666)
T KOG0985|consen  955 WAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKA 1034 (1666)
T ss_pred             HHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhc
Confidence                                    0 012222233334444444455555555554421100                 0


Q ss_pred             CHH---HHHH---------HHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCC
Q 005476          423 NDV---AFIA---------VLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPP  490 (695)
Q Consensus       423 ~~~---t~~~---------ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p  490 (695)
                      |..   .|..         +...+...+.+++|..+|+..-      .+....+.|+   -..+.++.|.++-++..   
T Consensus      1035 d~trVm~YI~rLdnyDa~~ia~iai~~~LyEEAF~ifkkf~------~n~~A~~VLi---e~i~~ldRA~efAe~~n--- 1102 (1666)
T KOG0985|consen 1035 DRTRVMEYINRLDNYDAPDIAEIAIENQLYEEAFAIFKKFD------MNVSAIQVLI---ENIGSLDRAYEFAERCN--- 1102 (1666)
T ss_pred             ChHHHHHHHHHhccCCchhHHHHHhhhhHHHHHHHHHHHhc------ccHHHHHHHH---HHhhhHHHHHHHHHhhC---
Confidence            000   0000         0011222334444444443321      1122222222   13345555555555542   


Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCCC
Q 005476          491 NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGI  557 (695)
Q Consensus       491 ~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  557 (695)
                      .+..|..+..|-.+.|.+.+|++.+-++     +|++.|...++...+.|+|++-.+++...+++.-
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyika-----dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~ 1164 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYIKA-----DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVR 1164 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHHhc-----CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhc
Confidence            4567999999999999998888776543     6788999999999999999999999887776543

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.79  E-value=3e-05  Score=76.26  Aligned_cols=159  Identities=12%  Similarity=0.021  Sum_probs=73.7

Q ss_pred             CCCCccHHHHHHHHHHhcCChhHHHHHHhccCCCCeehHHHH---HHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHH
Q 005476          152 FGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSM---FSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINV  228 (695)
Q Consensus       152 ~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~l---i~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~l  228 (695)
                      ++.|+.....+...|...|+.++|...|++...-|..+...|   .-.+.+.|+++....+...+.... +-....|..-
T Consensus       228 lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~  306 (564)
T KOG1174|consen  228 LRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVH  306 (564)
T ss_pred             CCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhh
Confidence            344555666666666666666666666665443333222222   112334555555555555543321 1111112222


Q ss_pred             HHHHhccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcC--C-CChhHHHHHHHHHHhcCCHH
Q 005476          229 LMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMN--I-KDVVAWSAMISGYSQARRCK  305 (695)
Q Consensus       229 l~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~--~-~~~~~~~~li~~~~~~g~~~  305 (695)
                      +...-...+++.|..+-+..++.. +.++..+-.-...+...|+.++|.-.|+...  . -+..+|.-|+.+|...|...
T Consensus       307 ~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~k  385 (564)
T KOG1174|consen  307 AQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFK  385 (564)
T ss_pred             hhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHH
Confidence            222233344555554444444432 2223333333344455555555555555432  2 24555555666666555555


Q ss_pred             HHHHHHH
Q 005476          306 EALGVFH  312 (695)
Q Consensus       306 ~A~~~~~  312 (695)
                      +|.-+-+
T Consensus       386 EA~~~An  392 (564)
T KOG1174|consen  386 EANALAN  392 (564)
T ss_pred             HHHHHHH
Confidence            5554433

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.79  E-value=5.2e-05  Score=82.48  Aligned_cols=509  Identities=14%  Similarity=0.025  Sum_probs=281.5

Q ss_pred             HHHHHHHHHhcCCCC-chhHHHHHHHHHccCCCCCHHHHHHHhccCCC---CCcchHHHHHHHHHcCCCchHHHHHHHHH
Q 005476           37 NQVHAHLIKSRFHLN-PTISENLLEAAAILIPATTMDYALSIFHKINE---PDSSAYNIMIRAFTLKQSPQEAVMLYKTM  112 (695)
Q Consensus        37 ~~~~~~~~~~g~~~~-~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m  112 (695)
                      ..+|..+....++++ ...|..|-..|...   .+...|.+-|+..-+   .|..+|-.....|++...++.|..+.-..
T Consensus       476 ~al~ali~alrld~~~apaf~~LG~iYrd~---~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~  552 (1238)
T KOG1127|consen  476 LALHALIRALRLDVSLAPAFAFLGQIYRDS---DDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRA  552 (1238)
T ss_pred             HHHHHHHHHHhcccchhHHHHHHHHHHHHH---HHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHH
Confidence            566776666666554 34577777888777   788889999987654   56678999999999999999999884333


Q ss_pred             HhCCC-CCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCCCCeehHH
Q 005476          113 LQNSV-EPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWN  191 (695)
Q Consensus       113 ~~~g~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~  191 (695)
                      -+... ..-...|...--.+...++...+..-|+...+.. +.|...|..|..+|.++|++..|.++|.+...-++.+|-
T Consensus       553 ~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y  631 (1238)
T KOG1127|consen  553 AQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKY  631 (1238)
T ss_pred             hhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHH
Confidence            22211 0011223333334556778888888888888775 668889999999999999999999999887764444333


Q ss_pred             H---HHHHHHhCCChhHHHHHHHHHHHc------CCCCCHhHHHHHHHHHhccCC-------hhHHHHHHHHHHHhCCCC
Q 005476          192 S---MFSGYVKTECWREIVDLFNEMRDL------GVKFDEVTLINVLMACGRLAD-------IELGGWISEYMEEKELNG  255 (695)
Q Consensus       192 ~---li~~~~~~g~~~~A~~~~~~m~~~------g~~pd~~t~~~ll~a~~~~~~-------~~~a~~~~~~~~~~g~~~  255 (695)
                      .   .....+..|.+.+|+..+......      +..--..++..+...+...|-       ++.+.+.+..........
T Consensus       632 ~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~  711 (1238)
T KOG1127|consen  632 GRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQS  711 (1238)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhh
Confidence            2   123345678899999888876532      111112223222222222222       222333333333222222


Q ss_pred             chHHHHHHHHHHHhcCCHH------HHHHH----HHhcC---------------------CCChhHHHHHHHHHHh----
Q 005476          256 NVKLMTAVVDMYAKCGHVD------KARRL----FEQMN---------------------IKDVVAWSAMISGYSQ----  300 (695)
Q Consensus       256 ~~~~~~~li~~~~~~g~~~------~A~~~----f~~m~---------------------~~~~~~~~~li~~~~~----  300 (695)
                      +...|-.+-+++.-.-..+      .-..+    ++.+.                     ..+..+|..++..|.+    
T Consensus       712 ~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~~  791 (1238)
T KOG1127|consen  712 DRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFLL  791 (1238)
T ss_pred             hHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHHH
Confidence            3333322222211100000      00000    11111                     0134566666665544    


Q ss_pred             ----cCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCC-CCchHHHhHHhcchhhcCCHH
Q 005476          301 ----ARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRM-ELTITLGTALMDFYAKCGLIE  375 (695)
Q Consensus       301 ----~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~-~~~~~~~~~li~~y~~~g~~~  375 (695)
                          ..+...|+..+.+..+.  ..|...+-..+......|++..+  .|..+...-. +....+|..+.-.+.+..+++
T Consensus       792 l~et~~~~~~Ai~c~KkaV~L--~ann~~~WnaLGVlsg~gnva~a--QHCfIks~~sep~~~~~W~NlgvL~l~n~d~E  867 (1238)
T KOG1127|consen  792 LGETMKDACTAIRCCKKAVSL--CANNEGLWNALGVLSGIGNVACA--QHCFIKSRFSEPTCHCQWLNLGVLVLENQDFE  867 (1238)
T ss_pred             cCCcchhHHHHHHHHHHHHHH--hhccHHHHHHHHHhhccchhhhh--hhhhhhhhhccccchhheeccceeEEecccHH
Confidence                12234677777777654  33433333444444444554444  4444444332 445667777888889999999


Q ss_pred             HHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHH--HH--CCCC---------------------------
Q 005476          376 NAVEVFKKMPL---KNVFFWTVLIQCLASNGQGERALETYYIM--RE--KNIE---------------------------  421 (695)
Q Consensus       376 ~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m--~~--~g~~---------------------------  421 (695)
                      .|...|.....   .|...|-.+.......|+.-+++.+|..-  ..  .|--                           
T Consensus       868 ~A~~af~~~qSLdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~  947 (1238)
T KOG1127|consen  868 HAEPAFSSVQSLDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTAR  947 (1238)
T ss_pred             HhhHHHHhhhhcCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhh
Confidence            99999988764   25566655555555566666666655541  11  1111                           


Q ss_pred             ----------------CC-HHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHH----HHHHHhhcCCHHHHH
Q 005476          422 ----------------PN-DVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGC----MVDILGRAGLVEEAY  480 (695)
Q Consensus       422 ----------------p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~----li~~~~~~g~~~~A~  480 (695)
                                      |+ ...|........+.+.+..|.+...+...-...+-+...|+.    +...+...|.++.|.
T Consensus       948 ki~sAs~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~ 1027 (1238)
T KOG1127|consen  948 KISSASLALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAK 1027 (1238)
T ss_pred             hhhhhHHHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHh
Confidence                            22 223444444444444444444444333221111223333332    223344456666665


Q ss_pred             HHHHhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcc---cHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          481 QFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSG---DYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       481 ~~~~~m~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      .-+...+...|..+-.+-+.. .-.++++.+.+.|++++.+-..+..   ....++..-...+.-+.|...+-+...
T Consensus      1028 ~a~~~~~~evdEdi~gt~l~l-Ffkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~~~ 1103 (1238)
T KOG1127|consen 1028 KASWKEWMEVDEDIRGTDLTL-FFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEVKS 1103 (1238)
T ss_pred             hhhcccchhHHHHHhhhhHHH-HHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHHHH
Confidence            555544444444444443333 3357899999999999986543333   222444455667777888877666554

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.77  E-value=0.0001  Score=75.98  Aligned_cols=408  Identities=11%  Similarity=0.066  Sum_probs=242.9

Q ss_pred             HHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCCCCeehHHH--HHHHHH--hCCCh
Q 005476          128 LKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNS--MFSGYV--KTECW  203 (695)
Q Consensus       128 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~--li~~~~--~~g~~  203 (695)
                      ++-....+++++|.+....++..+ +.|...+..=+-+..+.+++++|+.+.+.-...  .+++.  +=.+|+  +.+..
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk~   95 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNKL   95 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcccH
Confidence            455667789999999999998876 666777777778888999999999777654321  12222  234554  78999


Q ss_pred             hHHHHHHHHHHHcCCCCCHh-HHHHHHHHHhccCChhHHHHHHHHHHHhCCCC-chHHHHHHHHHHHhcCCHHHHHHHHH
Q 005476          204 REIVDLFNEMRDLGVKFDEV-TLINVLMACGRLADIELGGWISEYMEEKELNG-NVKLMTAVVDMYAKCGHVDKARRLFE  281 (695)
Q Consensus       204 ~~A~~~~~~m~~~g~~pd~~-t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~-~~~~~~~li~~~~~~g~~~~A~~~f~  281 (695)
                      ++|+..++     |..++.. +...-...|-+.++++++..+|+.+.+.+.+. +...-..++..-.    .-.+. +.+
T Consensus        96 Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a----~l~~~-~~q  165 (652)
T KOG2376|consen   96 DEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAA----ALQVQ-LLQ  165 (652)
T ss_pred             HHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHH----hhhHH-HHH
Confidence            99999988     3444433 55556677889999999999999999887543 3333333332211    11121 344


Q ss_pred             hcCCCChhHHHHH---HHHHHhcCCHHHHHHHHHHhHHCC-------------CCCCHH-HHHHHHHHHhccCChhHHHH
Q 005476          282 QMNIKDVVAWSAM---ISGYSQARRCKEALGVFHDMQMAN-------------VVPNEV-TMVSVLSCCAVLGALETGKW  344 (695)
Q Consensus       282 ~m~~~~~~~~~~l---i~~~~~~g~~~~A~~~~~~m~~~g-------------~~pd~~-t~~~ll~a~~~~~~~~~a~~  344 (695)
                      ..+.....+|..+   ...+...|++.+|++++....+.+             +.-+.. .-.-+.-++-..|+.+++..
T Consensus       166 ~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~  245 (652)
T KOG2376|consen  166 SVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASS  245 (652)
T ss_pred             hccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHH
Confidence            4444333333333   445778999999999998883211             111111 11223335567899999999


Q ss_pred             HHHHHHHhCCCCchH---HHhHHhcchhhcCCHH-HHHHHHhcCCCCChh--------------HHH-HHHHHHHhcCCh
Q 005476          345 VHLYVKKKRMELTIT---LGTALMDFYAKCGLIE-NAVEVFKKMPLKNVF--------------FWT-VLIQCLASNGQG  405 (695)
Q Consensus       345 i~~~~~~~~~~~~~~---~~~~li~~y~~~g~~~-~A~~~~~~~~~~~~~--------------~~~-~li~~~~~~g~~  405 (695)
                      ++..+++......+.   ..|-|+.+-....-++ .++..++........              ..| .++..|.  +..
T Consensus       246 iy~~~i~~~~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~t--nk~  323 (652)
T KOG2376|consen  246 IYVDIIKRNPADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFT--NKM  323 (652)
T ss_pred             HHHHHHHhcCCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHh--hhH
Confidence            999999987543322   2333333222111111 233334333222221              122 2222222  222


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc--ccHHHHHHHHHHchhhcCCCCC-hhHHHHHHHHHhhcCCHHHHHHH
Q 005476          406 ERALETYYIMREKNIEPNDVAFIAVLSACSHV--GMVDEGRELFVSMSRDFDLEPR-MEHYGCMVDILGRAGLVEEAYQF  482 (695)
Q Consensus       406 ~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~--g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~  482 (695)
                      +.+.++-....  +..|. ..+..++..+.+.  ....++.+++.....  +.+-. ..+.-.++......|+++.|.++
T Consensus       324 ~q~r~~~a~lp--~~~p~-~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~--~~p~~s~~v~L~~aQl~is~gn~~~A~~i  398 (652)
T KOG2376|consen  324 DQVRELSASLP--GMSPE-SLFPILLQEATKVREKKHKKAIELLLQFAD--GHPEKSKVVLLLRAQLKISQGNPEVALEI  398 (652)
T ss_pred             HHHHHHHHhCC--ccCch-HHHHHHHHHHHHHHHHHHhhhHHHHHHHhc--cCCchhHHHHHHHHHHHHhcCCHHHHHHH
Confidence            33333322211  12333 2444555554332  246777777776654  22222 45666778888999999999999


Q ss_pred             HH--------hC-CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhc----CC---CCcccHHHHHHHHHHcCCHHHHH
Q 005476          483 IK--------NM-PIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTL----EP---MHSGDYILLSDIYASAGRCEDAL  546 (695)
Q Consensus       483 ~~--------~m-~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~----~p---~~~~~~~~l~~~~~~~g~~~~a~  546 (695)
                      +.        .. .+.-.+.+..++..-+.+.++.+.|..++..++.-    .+   .-...+-.++..-.+.|+-++|.
T Consensus       399 l~~~~~~~~ss~~~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~  478 (652)
T KOG2376|consen  399 LSLFLESWKSSILEAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEAS  478 (652)
T ss_pred             HHHHhhhhhhhhhhhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHH
Confidence            98        33 12223344566777777888888888888887762    12   11223444555556779999999


Q ss_pred             HHHHHHHhC
Q 005476          547 RVMNQMREQ  555 (695)
Q Consensus       547 ~~~~~m~~~  555 (695)
                      .+++++.+.
T Consensus       479 s~leel~k~  487 (652)
T KOG2376|consen  479 SLLEELVKF  487 (652)
T ss_pred             HHHHHHHHh
Confidence            999999873

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.75  E-value=0.00057  Score=80.91  Aligned_cols=258  Identities=16%  Similarity=0.088  Sum_probs=134.8

Q ss_pred             HHhcCCHHHHHHHHHHhHHCCCCCCH----HHHHHHHHHHhccCChhHHHHHHHHHHHhCCC-----CchHHHhHHhcch
Q 005476          298 YSQARRCKEALGVFHDMQMANVVPNE----VTMVSVLSCCAVLGALETGKWVHLYVKKKRME-----LTITLGTALMDFY  368 (695)
Q Consensus       298 ~~~~g~~~~A~~~~~~m~~~g~~pd~----~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~-----~~~~~~~~li~~y  368 (695)
                      +...|++++|...+++....-...+.    ...+.+...+...|+++.|...+.......-.     ........+...+
T Consensus       462 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~  541 (903)
T PRK04841        462 AINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEIL  541 (903)
T ss_pred             HHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHH
Confidence            34455555555555554432111111    12233333444555666655555554432110     1112333344455


Q ss_pred             hhcCCHHHHHHHHhcCCC-------C----ChhHHHHHHHHHHhcCChHHHHHHHHHHHHC--CCCCC--HHHHHHHHHH
Q 005476          369 AKCGLIENAVEVFKKMPL-------K----NVFFWTVLIQCLASNGQGERALETYYIMREK--NIEPN--DVAFIAVLSA  433 (695)
Q Consensus       369 ~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~--g~~p~--~~t~~~ll~a  433 (695)
                      ...|+++.|...+++...       +    ....+..+...+...|++++|...+++....  ...+.  ...+..+...
T Consensus       542 ~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  621 (903)
T PRK04841        542 FAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKI  621 (903)
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHH
Confidence            556666666665544321       0    1122334444556667888887777776442  11122  1234444555


Q ss_pred             HhccccHHHHHHHHHHchhhcCCCCChhHH-----HHHHHHHhhcCCHHHHHHHHHhCCCC--CCH----hhHHHHHHHH
Q 005476          434 CSHVGMVDEGRELFVSMSRDFDLEPRMEHY-----GCMVDILGRAGLVEEAYQFIKNMPIP--PNP----VIWRTLLAAC  502 (695)
Q Consensus       434 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~-----~~li~~~~~~g~~~~A~~~~~~m~~~--p~~----~~~~~ll~a~  502 (695)
                      ....|+.++|.+.+...............+     ......+...|+.+.|.+.+......  ...    ..+..+..++
T Consensus       622 ~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~  701 (903)
T PRK04841        622 SLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQ  701 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHH
Confidence            667788888877777664311111111111     11123445578888888887665211  111    1134555667


Q ss_pred             HhcCChhHHHHHHHHHHhcC------CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 005476          503 RAHKNVKVGEESLKNLVTLE------PMHSGDYILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       503 ~~~g~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      ...|++++|...++++++..      +....++..++.+|.+.|+.++|...+.+..+.
T Consensus       702 ~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        702 ILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            77888888888888887642      112235667788888888888888888888764

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.73  E-value=1.3e-06  Score=86.57  Aligned_cols=158  Identities=15%  Similarity=0.166  Sum_probs=113.6

Q ss_pred             hHHhcchhhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----c
Q 005476          362 TALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSH----V  437 (695)
Q Consensus       362 ~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~----~  437 (695)
                      .....+|...|++++|.+++...  .+.......+..|.+.++++.|.+.++.|.+  +..|.. ...+..++..    .
T Consensus       106 ~~~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~--~~eD~~-l~qLa~awv~l~~g~  180 (290)
T PF04733_consen  106 LLAATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQ--IDEDSI-LTQLAEAWVNLATGG  180 (290)
T ss_dssp             HHHHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC--CSCCHH-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCcHH-HHHHHHHHHHHHhCc
Confidence            33345677789999999888775  5666677788899999999999999999987  555544 3344444332    3


Q ss_pred             ccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCCh-hHHHHH
Q 005476          438 GMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNV-KVGEES  514 (695)
Q Consensus       438 g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~-~~a~~~  514 (695)
                      ..+++|..+|+++..  ...+++.+.+.+.-+....|++++|.+++++. ...| |..++-.++......|+. +.+.+.
T Consensus       181 e~~~~A~y~f~El~~--~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~  258 (290)
T PF04733_consen  181 EKYQDAFYIFEELSD--KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERY  258 (290)
T ss_dssp             TCCCHHHHHHHHHHC--CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             hhHHHHHHHHHHHHh--ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHH
Confidence            468899999999865  45677888888888888999999998888774 3344 455666677777777777 667788


Q ss_pred             HHHHHhcCCCCc
Q 005476          515 LKNLVTLEPMHS  526 (695)
Q Consensus       515 ~~~~~~~~p~~~  526 (695)
                      +.++....|+.+
T Consensus       259 l~qL~~~~p~h~  270 (290)
T PF04733_consen  259 LSQLKQSNPNHP  270 (290)
T ss_dssp             HHHCHHHTTTSH
T ss_pred             HHHHHHhCCCCh
Confidence            888888888754

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=98.70  E-value=2.1e-05  Score=83.81  Aligned_cols=282  Identities=13%  Similarity=0.065  Sum_probs=147.3

Q ss_pred             HHHhcCCHHHHHHHHHhcCCC--Chh-HHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHh----c--c
Q 005476          266 MYAKCGHVDKARRLFEQMNIK--DVV-AWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCA----V--L  336 (695)
Q Consensus       266 ~~~~~g~~~~A~~~f~~m~~~--~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~----~--~  336 (695)
                      .+...|++++|++.++.-...  |.. ........+.+.|+.++|..+|+.++..+  ||...|-..+..|.    .  .
T Consensus        13 il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~~~~   90 (517)
T PF12569_consen   13 ILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQLSD   90 (517)
T ss_pred             HHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhccccc
Confidence            345556666666666554322  322 33444555666666666666666666653  55555444444433    1  1


Q ss_pred             CChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHH-HHHHHHhcCCCCCh-hHHHHHHHHHHhcCChHHHHHHHHH
Q 005476          337 GALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIE-NAVEVFKKMPLKNV-FFWTVLIQCLASNGQGERALETYYI  414 (695)
Q Consensus       337 ~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~-~A~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~l~~~  414 (695)
                      .+.+.-..+++.+...-...+  ....+.-.+.....+. .+...+..+..+.+ ..++.+-..|.......-..+++..
T Consensus        91 ~~~~~~~~~y~~l~~~yp~s~--~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~  168 (517)
T PF12569_consen   91 EDVEKLLELYDELAEKYPRSD--APRRLPLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVEE  168 (517)
T ss_pred             ccHHHHHHHHHHHHHhCcccc--chhHhhcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHHH
Confidence            134444555555544321111  1111111111111222 22223333333333 3344444445444444444444444


Q ss_pred             HHHC----C----------CCCCHH--HHHHHHHHHhccccHHHHHHHHHHchhhcCCCCC-hhHHHHHHHHHhhcCCHH
Q 005476          415 MREK----N----------IEPNDV--AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPR-MEHYGCMVDILGRAGLVE  477 (695)
Q Consensus       415 m~~~----g----------~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~  477 (695)
                      ....    |          -.|...  ++.-+...|...|++++|.++.+..+.   ..|+ ++.|..-...|-+.|+++
T Consensus       169 ~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~---htPt~~ely~~KarilKh~G~~~  245 (517)
T PF12569_consen  169 YVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIE---HTPTLVELYMTKARILKHAGDLK  245 (517)
T ss_pred             HHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHh---cCCCcHHHHHHHHHHHHHCCCHH
Confidence            4321    1          122222  334445556777888888888777763   3454 667777777777888888


Q ss_pred             HHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcC--CCC-------cccHHHHHHHHHHcCCHHHHH
Q 005476          478 EAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLE--PMH-------SGDYILLSDIYASAGRCEDAL  546 (695)
Q Consensus       478 ~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~--p~~-------~~~~~~l~~~~~~~g~~~~a~  546 (695)
                      +|.+.++.. ...+ |..+=+-....+.+.|++++|++.+....+.+  |..       .......+.+|.+.|++..|+
T Consensus       246 ~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~AL  325 (517)
T PF12569_consen  246 EAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLAL  325 (517)
T ss_pred             HHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence            887777765 2222 44444445555677788888877777765544  211       001235677788888888888


Q ss_pred             HHHHHHHh
Q 005476          547 RVMNQMRE  554 (695)
Q Consensus       547 ~~~~~m~~  554 (695)
                      +.|..+.+
T Consensus       326 k~~~~v~k  333 (517)
T PF12569_consen  326 KRFHAVLK  333 (517)
T ss_pred             HHHHHHHH
Confidence            77766554

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.69  E-value=2.9e-05  Score=72.97  Aligned_cols=404  Identities=11%  Similarity=0.077  Sum_probs=202.7

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCC--CCeehHHH-HHHHHHhC
Q 005476          124 FACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSN--RDVFSWNS-MFSGYVKT  200 (695)
Q Consensus       124 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~--~~~~~~~~-li~~~~~~  200 (695)
                      |.+++..+.+..+++.+.+++..-.+.. +.+..-.+.|..+|-+..++..|-..++++..  |...-|.. -...+.+.
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY~A   91 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSLYKA   91 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHHh
Confidence            3444444444445555555554444332 22333444445555555555555555555433  22111211 12334455


Q ss_pred             CChhHHHHHHHHHHHcCCCCCHhHHHHHHHHH--hccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHH
Q 005476          201 ECWREIVDLFNEMRDLGVKFDEVTLINVLMAC--GRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARR  278 (695)
Q Consensus       201 g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~--~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  278 (695)
                      +.+..|+++...|.+.   |+...-..-+.+.  -+.+|+..++.+.++.-..   .+..+.+...-...+.|+++.|.+
T Consensus        92 ~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~e---n~Ad~~in~gCllykegqyEaAvq  165 (459)
T KOG4340|consen   92 CIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSE---NEADGQINLGCLLYKEGQYEAAVQ  165 (459)
T ss_pred             cccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCC---CccchhccchheeeccccHHHHHH
Confidence            6666666666665432   1111111111111  1345555555555544321   234444455555567777777777


Q ss_pred             HHHhcCCC----ChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHH----HHHHHHHHhccCChhHHHHHHHHHH
Q 005476          279 LFEQMNIK----DVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVT----MVSVLSCCAVLGALETGKWVHLYVK  350 (695)
Q Consensus       279 ~f~~m~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t----~~~ll~a~~~~~~~~~a~~i~~~~~  350 (695)
                      -|....+-    ...+||.-+..| +.|++..|+++..++.+.|++-.+..    .+-.+.+    ..+..-..++... 
T Consensus       166 kFqaAlqvsGyqpllAYniALaHy-~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDv----rsvgNt~~lh~Sa-  239 (459)
T KOG4340|consen  166 KFQAALQVSGYQPLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDV----RSVGNTLVLHQSA-  239 (459)
T ss_pred             HHHHHHhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCch----hcccchHHHHHHH-
Confidence            77766532    455666655444 55677777777777777765421110    0000000    0000000111100 


Q ss_pred             HhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCC-----ChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-H
Q 005476          351 KKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLK-----NVFFWTVLIQCLASNGQGERALETYYIMREKNIEPN-D  424 (695)
Q Consensus       351 ~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~  424 (695)
                            -+..+|.-...+.+.|+.+.|.+.+-.|+.+     |+++...+.-. -..+++.+..+-+.-+.+  +.|- .
T Consensus       240 ------l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~--~nPfP~  310 (459)
T KOG4340|consen  240 ------LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQ--QNPFPP  310 (459)
T ss_pred             ------HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHh--cCCCCh
Confidence                  1123344445577889999999999999853     66765544322 124556566666666666  3453 4


Q ss_pred             HHHHHHHHHHhccccHHHHHHHHHHchhhcCCC-CChhHHHHHHHHHh-hcCCHHHHHHHHHhCCCCCCHhhHHHHHHH-
Q 005476          425 VAFIAVLSACSHVGMVDEGRELFVSMSRDFDLE-PRMEHYGCMVDILG-RAGLVEEAYQFIKNMPIPPNPVIWRTLLAA-  501 (695)
Q Consensus       425 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~-p~~~~~~~li~~~~-~~g~~~~A~~~~~~m~~~p~~~~~~~ll~a-  501 (695)
                      .||..++-.|++..-++.|-.++.+-.. +... .+...|+ |++++. -.-..++|.+-++.+...-....-..-+.. 
T Consensus       311 ETFANlLllyCKNeyf~lAADvLAEn~~-lTyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~La~~l~~kLRklAi~vQ  388 (459)
T KOG4340|consen  311 ETFANLLLLYCKNEYFDLAADVLAENAH-LTYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGLAGMLTEKLRKLAIQVQ  388 (459)
T ss_pred             HHHHHHHHHHhhhHHHhHHHHHHhhCcc-hhHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5999999999999999988888754321 0111 1233343 334443 344677776665554100000000011111 


Q ss_pred             HHhcCC----hhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          502 CRAHKN----VKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       502 ~~~~g~----~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      -.++.+    ...+.+-+++.+++.-   .....-++.|.+..++..+.++|..-.+
T Consensus       389 e~r~~~dd~a~R~ai~~Yd~~LE~YL---PVlMa~AkiyW~~~Dy~~vEk~Fr~Sve  442 (459)
T KOG4340|consen  389 EARHNRDDEAIRKAVNEYDETLEKYL---PVLMAQAKIYWNLEDYPMVEKIFRKSVE  442 (459)
T ss_pred             HHHhcccHHHHHHHHHHHHHHHHHHH---HHHHHHHHhhccccccHHHHHHHHHHHh
Confidence            112222    2233344445554431   1455677888999999999999987665

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.69  E-value=4.5e-07  Score=92.71  Aligned_cols=218  Identities=13%  Similarity=0.108  Sum_probs=162.5

Q ss_pred             hccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHH
Q 005476          334 AVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPL---KNVFFWTVLIQCLASNGQGERALE  410 (695)
Q Consensus       334 ~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~  410 (695)
                      .+.|++..|.-.|+..++.. +.+...|.-|.......++=..|+..+.+..+   .|....-+|.-.|...|.-.+|+.
T Consensus       296 m~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~  374 (579)
T KOG1125|consen  296 MKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALK  374 (579)
T ss_pred             HhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHH
Confidence            45566666666666666654 44556666666666666666666666665543   355666667777888888888888


Q ss_pred             HHHHHHHCCCCCCHHHHHH--------HHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHH
Q 005476          411 TYYIMREKNIEPNDVAFIA--------VLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQF  482 (695)
Q Consensus       411 l~~~m~~~g~~p~~~t~~~--------ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  482 (695)
                      .+++-+...  |-..-...        .-........+....++|-.+....+..+|.+++.+|.-+|.-.|.+++|.+-
T Consensus       375 ~L~~Wi~~~--p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDc  452 (579)
T KOG1125|consen  375 MLDKWIRNK--PKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDC  452 (579)
T ss_pred             HHHHHHHhC--ccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHH
Confidence            888765522  11100000        00122333445666777777777667678999999999999999999999999


Q ss_pred             HHhC-CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          483 IKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       483 ~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      |+.. ..+| |..+||-|...++...+.++|+..|.+++++.|.-..+...|+-.|...|.++||.+.|-....
T Consensus       453 f~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  453 FEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            9986 6677 6789999999999999999999999999999999888999999999999999999999887765

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.69  E-value=3.2e-06  Score=76.82  Aligned_cols=199  Identities=12%  Similarity=0.033  Sum_probs=108.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCC-HHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcch
Q 005476          290 AWSAMISGYSQARRCKEALGVFHDMQMANVVPN-EVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFY  368 (695)
Q Consensus       290 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y  368 (695)
                      +..-|.-+|.+.|+...|..-+++.++..  |+ ..++..+...|...|..+.|.+-|+.+++..               
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D--Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~---------------   99 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD--PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA---------------   99 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC---------------
Confidence            34445556666666666666666666542  32 2244444444444444444444444433322               


Q ss_pred             hhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhccccHHHHHHHH
Q 005476          369 AKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPND-VAFIAVLSACSHVGMVDEGRELF  447 (695)
Q Consensus       369 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~  447 (695)
                                       ..+-...|....-+|.+|++++|...|++....-.-|.. .||..+.-+..+.|+.+.|..+|
T Consensus       100 -----------------p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l  162 (250)
T COG3063         100 -----------------PNNGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYL  162 (250)
T ss_pred             -----------------CCccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHH
Confidence                             123344555555566666666666666666653222222 25666655556666666666666


Q ss_pred             HHchhhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 005476          448 VSMSRDFDLEP-RMEHYGCMVDILGRAGLVEEAYQFIKNM--PIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPM  524 (695)
Q Consensus       448 ~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~  524 (695)
                      ++..+   +.| .......+.....+.|++-.|..+++..  ...++..+....+..-...||.+.+-+.=.++.+..|.
T Consensus       163 ~raL~---~dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~  239 (250)
T COG3063         163 KRALE---LDPQFPPALLELARLHYKAGDYAPARLYLERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPY  239 (250)
T ss_pred             HHHHH---hCcCCChHHHHHHHHHHhcccchHHHHHHHHHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC
Confidence            66553   223 2445556666666666666666666654  22345555545555556667766666666666666665


Q ss_pred             C
Q 005476          525 H  525 (695)
Q Consensus       525 ~  525 (695)
                      .
T Consensus       240 s  240 (250)
T COG3063         240 S  240 (250)
T ss_pred             c
Confidence            4

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.67  E-value=3.1e-05  Score=80.63  Aligned_cols=256  Identities=11%  Similarity=-0.024  Sum_probs=138.9

Q ss_pred             HHHhcCCHHHHHHHHHHhHHCCCCCCH-HHHHHHHHHHhc----cCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhc
Q 005476          297 GYSQARRCKEALGVFHDMQMANVVPNE-VTMVSVLSCCAV----LGALETGKWVHLYVKKKRMELTITLGTALMDFYAKC  371 (695)
Q Consensus       297 ~~~~~g~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~a~~~----~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~  371 (695)
                      .+...|++++|.+.+++..+.  .|+. ..+.. ...+..    .+..+.+.+.... .....+........+...+...
T Consensus        52 ~~~~~g~~~~A~~~~~~~l~~--~P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~~~~~~a~~~~~~  127 (355)
T cd05804          52 SAWIAGDLPKALALLEQLLDD--YPRDLLALKL-HLGAFGLGDFSGMRDHVARVLPL-WAPENPDYWYLLGMLAFGLEEA  127 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHH-hHHHHHhcccccCchhHHHHHhc-cCcCCCCcHHHHHHHHHHHHHc
Confidence            445667777777777776654  2332 22221 111112    2333333333322 1111122223334455667777


Q ss_pred             CCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-CCCHH--HHHHHHHHHhccccHHHHHH
Q 005476          372 GLIENAVEVFKKMPL---KNVFFWTVLIQCLASNGQGERALETYYIMREKNI-EPNDV--AFIAVLSACSHVGMVDEGRE  445 (695)
Q Consensus       372 g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-~p~~~--t~~~ll~a~~~~g~~~~a~~  445 (695)
                      |++++|.+.+++...   .+...+..+...|...|++++|+.++++.....- .|+..  .|..+...+...|++++|..
T Consensus       128 G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~  207 (355)
T cd05804         128 GQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALA  207 (355)
T ss_pred             CCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHH
Confidence            788888777776643   3455667777777788888888888877766321 12222  34456666777888888888


Q ss_pred             HHHHchhhcCCCCChhHH-H--HHHHHHhhcCCHHHHHHH---HHh---C-CCCCCHhhHHHHHHHHHhcCChhHHHHHH
Q 005476          446 LFVSMSRDFDLEPRMEHY-G--CMVDILGRAGLVEEAYQF---IKN---M-PIPPNPVIWRTLLAACRAHKNVKVGEESL  515 (695)
Q Consensus       446 ~~~~~~~~~~~~p~~~~~-~--~li~~~~~~g~~~~A~~~---~~~---m-~~~p~~~~~~~ll~a~~~~g~~~~a~~~~  515 (695)
                      +++.........+..... +  .+..-+...|..+.+.+.   ...   . +.............++...|+.+.|...+
T Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L  287 (355)
T cd05804         208 IYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLL  287 (355)
T ss_pred             HHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHH
Confidence            887764321111111111 1  222233333422222221   111   1 11111122234555677888889898888


Q ss_pred             HHHHhcC-C--------CCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 005476          516 KNLVTLE-P--------MHSGDYILLSDIYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       516 ~~~~~~~-p--------~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      +.+.... .        .........+.++...|++++|.+.+......+
T Consensus       288 ~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         288 AALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            8876632 1        123345677778899999999999999887644

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.64  E-value=3.8e-05  Score=78.36  Aligned_cols=216  Identities=12%  Similarity=0.051  Sum_probs=126.1

Q ss_pred             HHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCCCh----------hHHHHHH
Q 005476          327 VSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNV----------FFWTVLI  396 (695)
Q Consensus       327 ~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~----------~~~~~li  396 (695)
                      ..+.++..+..+++.+.+-+...+...  .+...++....+|...|...+....-+...+..-          .+..-+.
T Consensus       228 k~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g  305 (539)
T KOG0548|consen  228 KELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLG  305 (539)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhh
Confidence            344445555555555555555555544  4444444555555555555444433332221110          0111233


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChh-HHHHHHHHHhhcCC
Q 005476          397 QCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRME-HYGCMVDILGRAGL  475 (695)
Q Consensus       397 ~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~-~~~~li~~~~~~g~  475 (695)
                      .+|.+.++++.|+..|++.......||..+         +....+++....+...   -+.|... -...=...+.+.|+
T Consensus       306 ~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls---------~lk~~Ek~~k~~e~~a---~~~pe~A~e~r~kGne~Fk~gd  373 (539)
T KOG0548|consen  306 NAYTKREDYEGAIKYYQKALTEHRTPDLLS---------KLKEAEKALKEAERKA---YINPEKAEEEREKGNEAFKKGD  373 (539)
T ss_pred             hhhhhHHhHHHHHHHHHHHhhhhcCHHHHH---------HHHHHHHHHHHHHHHH---hhChhHHHHHHHHHHHHHhccC
Confidence            456666778888888887666544544221         2223344444333321   2233321 11112556677788


Q ss_pred             HHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Q 005476          476 VEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMR  553 (695)
Q Consensus       476 ~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  553 (695)
                      +.+|.+.+.++ ...| |...|.....+|.+.|++..|+.-.+..++++|+....|..=+-++....+|++|.+.|++-.
T Consensus       374 y~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eal  453 (539)
T KOG0548|consen  374 YPEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEAL  453 (539)
T ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888776 3344 567777777778888888888888888888888887788877777888888888888888776


Q ss_pred             hCC
Q 005476          554 EQG  556 (695)
Q Consensus       554 ~~~  556 (695)
                      +.+
T Consensus       454 e~d  456 (539)
T KOG0548|consen  454 ELD  456 (539)
T ss_pred             hcC
Confidence            644

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.61  E-value=0.00029  Score=71.92  Aligned_cols=130  Identities=14%  Similarity=0.149  Sum_probs=86.0

Q ss_pred             CCCchhHHHHHHHHHccCCCCCHHHHHHHhccCCC--C-CcchHHHHHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHH
Q 005476           49 HLNPTISENLLEAAAILIPATTMDYALSIFHKINE--P-DSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFA  125 (695)
Q Consensus        49 ~~~~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  125 (695)
                      +-|...|+.||.-+. .   ...++++..++++..  | ....|..-|..-....+++....+|.+.+..-.  +...|.
T Consensus        17 P~di~sw~~lire~q-t---~~~~~~R~~YEq~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvL--nlDLW~   90 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQ-T---QPIDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVL--NLDLWK   90 (656)
T ss_pred             CccHHHHHHHHHHHc-c---CCHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHh--hHhHHH
Confidence            457888999997765 3   578999999998863  3 455799999999999999999999999887533  445555


Q ss_pred             HHHHHHhcc-CChHHH----HHHHHHH-HHhCCCCC-ccHHHHHHHHH---------HhcCChhHHHHHHhccCC
Q 005476          126 CTLKACSRI-RALEEG----EQIHAQI-LKSGFGCR-QLVTNTLIHLY---------ANCGRIDIARKMFDRMSN  184 (695)
Q Consensus       126 ~ll~~~~~~-~~~~~a----~~~~~~~-~~~g~~~~-~~~~~~Li~~y---------~~~g~~~~A~~~f~~m~~  184 (695)
                      .-|.-..+. ++....    .+.|+.. .+.|+++- ...|+..+..+         ....+++..+++++++..
T Consensus        91 lYl~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~  165 (656)
T KOG1914|consen   91 LYLSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALV  165 (656)
T ss_pred             HHHHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhc
Confidence            555433322 233332    2333333 34455443 34566666554         334567788888888764

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.60  E-value=8.8e-05  Score=71.24  Aligned_cols=288  Identities=13%  Similarity=0.115  Sum_probs=164.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHH---HHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHH-HHHHHHhccC
Q 005476          262 AVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMI---SGYSQARRCKEALGVFHDMQMANVVPNEVTMV-SVLSCCAVLG  337 (695)
Q Consensus       262 ~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li---~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~-~ll~a~~~~~  337 (695)
                      .|...+...|++.+|+.-|....+-|+..|-++.   ..|...|+...|+.-|.+.++.  +||-..-. .-...+.+.|
T Consensus        43 ElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK~G  120 (504)
T KOG0624|consen   43 ELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLKQG  120 (504)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhhcc
Confidence            3444455556666666666666555555554443   3455666666666666655543  45533211 1112345566


Q ss_pred             ChhHHHHHHHHHHHhCCCCch--H------------HHhHHhcchhhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHH
Q 005476          338 ALETGKWVHLYVKKKRMELTI--T------------LGTALMDFYAKCGLIENAVEVFKKMPL---KNVFFWTVLIQCLA  400 (695)
Q Consensus       338 ~~~~a~~i~~~~~~~~~~~~~--~------------~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~  400 (695)
                      .++.|..=|+.+++.......  .            .....+..+.-.|+...|+.....+.+   -|...+..-..+|.
T Consensus       121 ele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~Wda~l~~~Rakc~i  200 (504)
T KOG0624|consen  121 ELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQPWDASLRQARAKCYI  200 (504)
T ss_pred             cHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCcchhHHHHHHHHHHH
Confidence            666666666666554321110  0            111122233445666777766666543   25555666666777


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhH----HHHH---------
Q 005476          401 SNGQGERALETYYIMREKNIEPND-VAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEH----YGCM---------  466 (695)
Q Consensus       401 ~~g~~~~A~~l~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~----~~~l---------  466 (695)
                      ..|++..|+.=++..-+  +.-|. .++.-+-..+...|+.+.++....+..   .+.||...    |..|         
T Consensus       201 ~~~e~k~AI~Dlk~ask--Ls~DnTe~~ykis~L~Y~vgd~~~sL~~iRECL---KldpdHK~Cf~~YKklkKv~K~les  275 (504)
T KOG0624|consen  201 AEGEPKKAIHDLKQASK--LSQDNTEGHYKISQLLYTVGDAENSLKEIRECL---KLDPDHKLCFPFYKKLKKVVKSLES  275 (504)
T ss_pred             hcCcHHHHHHHHHHHHh--ccccchHHHHHHHHHHHhhhhHHHHHHHHHHHH---ccCcchhhHHHHHHHHHHHHHHHHH
Confidence            77777777766655544  33332 344455555666677766666655554   45555322    2211         


Q ss_pred             HHHHhhcCCHHHHHHHHHhC-CCCCCH-----hhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcC
Q 005476          467 VDILGRAGLVEEAYQFIKNM-PIPPNP-----VIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAG  540 (695)
Q Consensus       467 i~~~~~~g~~~~A~~~~~~m-~~~p~~-----~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  540 (695)
                      +....+.++|.++++-.++. ...|..     ..+..+-..++..+++.+|++...+++..+|+|..++..-+.+|.-..
T Consensus       276 ~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE  355 (504)
T KOG0624|consen  276 AEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDE  355 (504)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhH
Confidence            11233456666666555543 334431     223344455677788888888888888888888888888888888888


Q ss_pred             CHHHHHHHHHHHHhCC
Q 005476          541 RCEDALRVMNQMREQG  556 (695)
Q Consensus       541 ~~~~a~~~~~~m~~~~  556 (695)
                      .+++|+.-|+...+.+
T Consensus       356 ~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  356 MYDDAIHDYEKALELN  371 (504)
T ss_pred             HHHHHHHHHHHHHhcC
Confidence            8888888888876643

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.59  E-value=7.6e-07  Score=88.13  Aligned_cols=150  Identities=14%  Similarity=0.129  Sum_probs=114.1

Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChh---HHHHHHHHHhhc
Q 005476          397 QCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRME---HYGCMVDILGRA  473 (695)
Q Consensus       397 ~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~---~~~~li~~~~~~  473 (695)
                      ..+...|++++|++++++-      .+.......+..+.+.++++.|.+.++.|.+   +..|..   ...+.+..+.-.
T Consensus       110 ~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~---~~eD~~l~qLa~awv~l~~g~  180 (290)
T PF04733_consen  110 TILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQ---IDEDSILTQLAEAWVNLATGG  180 (290)
T ss_dssp             HHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC---CSCCHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCcHHHHHHHHHHHHHHhCc
Confidence            3455679999999988642      3455666778889999999999999999963   344432   233334444334


Q ss_pred             CCHHHHHHHHHhC--CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCH-HHHHHHHH
Q 005476          474 GLVEEAYQFIKNM--PIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRC-EDALRVMN  550 (695)
Q Consensus       474 g~~~~A~~~~~~m--~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~-~~a~~~~~  550 (695)
                      ..+.+|..+|+++  ...+++.+.+.+..++...|++++|+.+++++++.+|.++.+...++-+....|+. +.+.+++.
T Consensus       181 e~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~  260 (290)
T PF04733_consen  181 EKYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLS  260 (290)
T ss_dssp             TCCCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHH
Confidence            5799999999998  34567888899999999999999999999999999999999999999999999998 66778888


Q ss_pred             HHHhC
Q 005476          551 QMREQ  555 (695)
Q Consensus       551 ~m~~~  555 (695)
                      +++..
T Consensus       261 qL~~~  265 (290)
T PF04733_consen  261 QLKQS  265 (290)
T ss_dssp             HCHHH
T ss_pred             HHHHh
Confidence            87763

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.57  E-value=6.9e-05  Score=81.58  Aligned_cols=441  Identities=13%  Similarity=0.074  Sum_probs=223.0

Q ss_pred             hHHHHHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhC-CCCCccHHHHHHHHH
Q 005476           88 AYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSG-FGCRQLVTNTLIHLY  166 (695)
Q Consensus        88 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g-~~~~~~~~~~Li~~y  166 (695)
                      .|..|...|....+...|...|....+.+. -|......+.+.++...+++.|..+.-..-+.. ...-..-|..+.-.|
T Consensus       494 af~~LG~iYrd~~Dm~RA~kCf~KAFeLDa-tdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yy  572 (1238)
T KOG1127|consen  494 AFAFLGQIYRDSDDMKRAKKCFDKAFELDA-TDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYY  572 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCCc-hhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccc
Confidence            455555555555555556666665555321 144455555566666666666655521111100 000111222233334


Q ss_pred             HhcCChhHHHHHHhccCC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHH--HHhccCChhHH
Q 005476          167 ANCGRIDIARKMFDRMSN---RDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLM--ACGRLADIELG  241 (695)
Q Consensus       167 ~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~--a~~~~~~~~~a  241 (695)
                      .+.++...|..-|+....   .|...|..+..+|...|++..|+++|.+...  +.|+.. |.....  .-+..|.+.++
T Consensus       573 Lea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~--LrP~s~-y~~fk~A~~ecd~GkYkea  649 (1238)
T KOG1127|consen  573 LEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASL--LRPLSK-YGRFKEAVMECDNGKYKEA  649 (1238)
T ss_pred             cCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHh--cCcHhH-HHHHHHHHHHHHhhhHHHH
Confidence            455556666655654433   3556677777777777777777777777654  344332 222111  12345666666


Q ss_pred             HHHHHHHHHhCCCCchHHHHHHHHHHHh-------cCCHHHHHHHHHhcCC-----------CChhHHHHHHHHHHhcCC
Q 005476          242 GWISEYMEEKELNGNVKLMTAVVDMYAK-------CGHVDKARRLFEQMNI-----------KDVVAWSAMISGYSQARR  303 (695)
Q Consensus       242 ~~~~~~~~~~g~~~~~~~~~~li~~~~~-------~g~~~~A~~~f~~m~~-----------~~~~~~~~li~~~~~~g~  303 (695)
                      ...++.++..- ..-....+.|...+.+       .|-..+|..+|+.-.+           .+...|-.+.        
T Consensus       650 ld~l~~ii~~~-s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~as--------  720 (1238)
T KOG1127|consen  650 LDALGLIIYAF-SLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVAS--------  720 (1238)
T ss_pred             HHHHHHHHHHH-HHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHh--------
Confidence            66666655431 1111112222222222       2223333333332211           1112222221        


Q ss_pred             HHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCCh---h---HHHHHHHHHHHhCCCCchHHHhHHhcchhh----cC-
Q 005476          304 CKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGAL---E---TGKWVHLYVKKKRMELTITLGTALMDFYAK----CG-  372 (695)
Q Consensus       304 ~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~---~---~a~~i~~~~~~~~~~~~~~~~~~li~~y~~----~g-  372 (695)
                        .|..+|.... .. .|+......+..-....+..   +   .|-+.+  .....+..+...|.-|+.-|.+    +| 
T Consensus       721 --dac~~f~q~e-~~-~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~--~~hlsl~~~~~~WyNLGinylr~f~~l~e  794 (1238)
T KOG1127|consen  721 --DACYIFSQEE-PS-IVNMHYLIILSKQLEKTGALKKNDLLFLGYECG--IAHLSLAIHMYPWYNLGINYLRYFLLLGE  794 (1238)
T ss_pred             --HHHHHHHHhc-cc-chHHHHHHHHHHHHHhcccCcchhHHHHHHHHh--hHHHHHhhccchHHHHhHHHHHHHHHcCC
Confidence              2233333322 11 22222222222212223322   1   011111  1111112223333333333322    22 


Q ss_pred             ---CHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccccHHHHHH
Q 005476          373 ---LIENAVEVFKKMP---LKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEP-NDVAFIAVLSACSHVGMVDEGRE  445 (695)
Q Consensus       373 ---~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~  445 (695)
                         +...|...+....   ..+...||+|.-. ...|.+.-|.-.|-+-+.  ..| +..+|..+.-.|....+++.|..
T Consensus       795 t~~~~~~Ai~c~KkaV~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~--sep~~~~~W~NlgvL~l~n~d~E~A~~  871 (1238)
T KOG1127|consen  795 TMKDACTAIRCCKKAVSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRF--SEPTCHCQWLNLGVLVLENQDFEHAEP  871 (1238)
T ss_pred             cchhHHHHHHHHHHHHHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhh--ccccchhheeccceeEEecccHHHhhH
Confidence               2234555555443   3577788877655 556777777777766655  344 44588888778888889999999


Q ss_pred             HHHHchhhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-------CCCCCHhhHHHHHHHHHhcCChhHHHH----
Q 005476          446 LFVSMSRDFDLEP-RMEHYGCMVDILGRAGLVEEAYQFIKNM-------PIPPNPVIWRTLLAACRAHKNVKVGEE----  513 (695)
Q Consensus       446 ~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~~~~~~~ll~a~~~~g~~~~a~~----  513 (695)
                      .|....   .+.| +...|-...-.....|+.-++..+|..-       +..|+...|-.-..-...+|+.+.-+.    
T Consensus       872 af~~~q---SLdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~k  948 (1238)
T KOG1127|consen  872 AFSSVQ---SLDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARK  948 (1238)
T ss_pred             HHHhhh---hcCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhh
Confidence            988775   4555 4555655555556678777777777652       334566666555555566666554433    


Q ss_pred             ------HHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Q 005476          514 ------SLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMR  553 (695)
Q Consensus       514 ------~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  553 (695)
                            ..++.+.-.|+...+|...+......+.+++|..+..+..
T Consensus       949 i~sAs~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~Rli  994 (1238)
T KOG1127|consen  949 ISSASLALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLI  994 (1238)
T ss_pred             hhhhHHHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence                  4444455568888888888888888888888877766653

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.56  E-value=7.7e-05  Score=76.16  Aligned_cols=412  Identities=14%  Similarity=0.104  Sum_probs=214.6

Q ss_pred             CCHHHHHHHhccC---CCCCcchHHHHHHHHHcCCCchHHHHHHHHHHhCCCCCCh-hhHHHHHHHHhccCChHHHHHHH
Q 005476           69 TTMDYALSIFHKI---NEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDR-FTFACTLKACSRIRALEEGEQIH  144 (695)
Q Consensus        69 g~~~~A~~~f~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~  144 (695)
                      |++++|...|-..   .++|.+.|..-..+|+..|++++|++=-.+-++  +.|+- -.|+-.-.++...|++++|..-|
T Consensus        16 ~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~~lg~~~eA~~ay   93 (539)
T KOG0548|consen   16 GDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALFGLGDYEEAILAY   93 (539)
T ss_pred             ccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHHhcccHHHHHHHH
Confidence            8999999998654   346777888888899999999998877666665  55653 46788888888889999999988


Q ss_pred             HHHHHhCCCCCccHHHHHHHHHHhcCChhHH-HHHHhccCCCCeehHHHH-----HHHHHhCCChhHHHHHHHHHHH-cC
Q 005476          145 AQILKSGFGCRQLVTNTLIHLYANCGRIDIA-RKMFDRMSNRDVFSWNSM-----FSGYVKTECWREIVDLFNEMRD-LG  217 (695)
Q Consensus       145 ~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A-~~~f~~m~~~~~~~~~~l-----i~~~~~~g~~~~A~~~~~~m~~-~g  217 (695)
                      ..-++.. +.+...++-|.+++.    .+.+ ...|.     +...|..+     .+++...-.+..-++.++.-.. .+
T Consensus        94 ~~GL~~d-~~n~~L~~gl~~a~~----~~~~~~~~~~-----~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~  163 (539)
T KOG0548|consen   94 SEGLEKD-PSNKQLKTGLAQAYL----EDYAADQLFT-----KPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLK  163 (539)
T ss_pred             HHHhhcC-CchHHHHHhHHHhhh----HHHHhhhhcc-----CcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhh
Confidence            8877764 556677777777771    1111 11111     11111111     1111111111111111111000 00


Q ss_pred             CCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhC-------CCC----------------------chHHHHHHHHHHH
Q 005476          218 VKFDEVTLINVLMACGRLADIELGGWISEYMEEKE-------LNG----------------------NVKLMTAVVDMYA  268 (695)
Q Consensus       218 ~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g-------~~~----------------------~~~~~~~li~~~~  268 (695)
                      ...+   ...++.+.......+..     .....|       ..|                      -..-...+.++..
T Consensus       164 ~~l~---d~r~m~a~~~l~~~~~~-----~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaay  235 (539)
T KOG0548|consen  164 LYLN---DPRLMKADGQLKGVDEL-----LFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAY  235 (539)
T ss_pred             cccc---cHHHHHHHHHHhcCccc-----cccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHH
Confidence            0000   00011111100000000     000000       000                      0011222333333


Q ss_pred             hcCCHHHHHHHHHhcCC--CChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHH
Q 005476          269 KCGHVDKARRLFEQMNI--KDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVH  346 (695)
Q Consensus       269 ~~g~~~~A~~~f~~m~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~  346 (695)
                      +..+++.|.+-++...+  .++.-++....+|...|.+.+....-.+..+.|-. ...-|+.+                 
T Consensus       236 kkk~f~~a~q~y~~a~el~~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klI-----------------  297 (539)
T KOG0548|consen  236 KKKDFETAIQHYAKALELATDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLI-----------------  297 (539)
T ss_pred             HhhhHHHHHHHHHHHHhHhhhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHH-----------------
Confidence            33444444444433321  12222333333444444444443333332222200 00001110                 


Q ss_pred             HHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-
Q 005476          347 LYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDV-  425 (695)
Q Consensus       347 ~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-  425 (695)
                                 ......+...|.+.++.+.|...|.+...+...     -....+....++++...+...-  +.|+.. 
T Consensus       298 -----------ak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~--~~pe~A~  359 (539)
T KOG0548|consen  298 -----------AKALARLGNAYTKREDYEGAIKYYQKALTEHRT-----PDLLSKLKEAEKALKEAERKAY--INPEKAE  359 (539)
T ss_pred             -----------HHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcC-----HHHHHHHHHHHHHHHHHHHHHh--hChhHHH
Confidence                       011122445777778888888888774321110     1122233445556555555444  455543 


Q ss_pred             HHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HhhHHHHHHHHH
Q 005476          426 AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPN-PVIWRTLLAACR  503 (695)
Q Consensus       426 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~a~~  503 (695)
                      -.-.-...+.+.|++..|...|.++++.  .+-|...|....-+|.+.|.+..|++=.+.. ...|+ ...|.-=..++.
T Consensus       360 e~r~kGne~Fk~gdy~~Av~~YteAIkr--~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~  437 (539)
T KOG0548|consen  360 EEREKGNEAFKKGDYPEAVKHYTEAIKR--DPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALR  437 (539)
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhc--CCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence            1222255677889999999999998763  3446788999999999999999888766554 33443 333444445566


Q ss_pred             hcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHH
Q 005476          504 AHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYAS  538 (695)
Q Consensus       504 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  538 (695)
                      ...+++.|.+.|.+.++.+|++......+.+++..
T Consensus       438 ~mk~ydkAleay~eale~dp~~~e~~~~~~rc~~a  472 (539)
T KOG0548|consen  438 AMKEYDKALEAYQEALELDPSNAEAIDGYRRCVEA  472 (539)
T ss_pred             HHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHH
Confidence            66789999999999999999887666666555544

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.55  E-value=0.00022  Score=84.41  Aligned_cols=321  Identities=10%  Similarity=-0.006  Sum_probs=183.3

Q ss_pred             HHhcCChhHHHHHHhccCC----CCeehHHHHHHHHHhCCChhHHHHHHHHHHHcC--C----CCCHhH--HHHHHHHHh
Q 005476          166 YANCGRIDIARKMFDRMSN----RDVFSWNSMFSGYVKTECWREIVDLFNEMRDLG--V----KFDEVT--LINVLMACG  233 (695)
Q Consensus       166 y~~~g~~~~A~~~f~~m~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~----~pd~~t--~~~ll~a~~  233 (695)
                      ....|+++.+...++.++.    .+..........+...|++++|...+......-  .    .|....  ...+-..+.
T Consensus       384 l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~  463 (903)
T PRK04841        384 LFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAI  463 (903)
T ss_pred             HHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHH
Confidence            3445677777777766642    222222333444556778888877777664321  0    111111  112223345


Q ss_pred             ccCChhHHHHHHHHHHHhCCCCc----hHHHHHHHHHHHhcCCHHHHHHHHHhcCC-------CC--hhHHHHHHHHHHh
Q 005476          234 RLADIELGGWISEYMEEKELNGN----VKLMTAVVDMYAKCGHVDKARRLFEQMNI-------KD--VVAWSAMISGYSQ  300 (695)
Q Consensus       234 ~~~~~~~a~~~~~~~~~~g~~~~----~~~~~~li~~~~~~g~~~~A~~~f~~m~~-------~~--~~~~~~li~~~~~  300 (695)
                      ..|+++.+...++...+.--..+    ....+.+...+...|++++|...+++...       ..  ..++..+...+..
T Consensus       464 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~  543 (903)
T PRK04841        464 NDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFA  543 (903)
T ss_pred             hCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHH
Confidence            67788888887777665311111    12445566667778888888877776542       11  2244455666777


Q ss_pred             cCCHHHHHHHHHHhHHC----CCC--C-CHHHHHHHHHHHhccCChhHHHHHHHHHHHhC--CCC--chHHHhHHhcchh
Q 005476          301 ARRCKEALGVFHDMQMA----NVV--P-NEVTMVSVLSCCAVLGALETGKWVHLYVKKKR--MEL--TITLGTALMDFYA  369 (695)
Q Consensus       301 ~g~~~~A~~~~~~m~~~----g~~--p-d~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~--~~~--~~~~~~~li~~y~  369 (695)
                      .|++++|...+++....    +..  + ....+..+...+...|+++.|...+.......  ..+  ....+..+...+.
T Consensus       544 ~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~  623 (903)
T PRK04841        544 QGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISL  623 (903)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHH
Confidence            88888888877765432    211  1 12233344445566788888887777665421  111  2334444566777


Q ss_pred             hcCCHHHHHHHHhcCCC----C-ChhHHH-----HHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH---HHHHHHHHHhc
Q 005476          370 KCGLIENAVEVFKKMPL----K-NVFFWT-----VLIQCLASNGQGERALETYYIMREKNIEPNDV---AFIAVLSACSH  436 (695)
Q Consensus       370 ~~g~~~~A~~~~~~~~~----~-~~~~~~-----~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~---t~~~ll~a~~~  436 (695)
                      ..|+.+.|.+.+++...    . ....|.     ..+..+...|+.+.|.+++.+...........   .+..+..++..
T Consensus       624 ~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~  703 (903)
T PRK04841        624 ARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQIL  703 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHH
Confidence            78888888777766521    1 111111     12234455788888888876654321111111   13455666777


Q ss_pred             cccHHHHHHHHHHchhh---cCCCCC-hhHHHHHHHHHhhcCCHHHHHHHHHhC
Q 005476          437 VGMVDEGRELFVSMSRD---FDLEPR-MEHYGCMVDILGRAGLVEEAYQFIKNM  486 (695)
Q Consensus       437 ~g~~~~a~~~~~~~~~~---~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m  486 (695)
                      .|+.++|...++.....   .+..++ ..+...+..+|.+.|+.++|.+.+.+.
T Consensus       704 ~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~A  757 (903)
T PRK04841        704 LGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEA  757 (903)
T ss_pred             cCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            88888888888776542   233332 345667778888899988888888775

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.52  E-value=6.8e-06  Score=91.97  Aligned_cols=200  Identities=15%  Similarity=0.149  Sum_probs=165.0

Q ss_pred             CCchHHHhHHhcchhhcCCHHHHHHHHhcCCCC--------ChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHH
Q 005476          355 ELTITLGTALMDFYAKCGLIENAVEVFKKMPLK--------NVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVA  426 (695)
Q Consensus       355 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~--------~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t  426 (695)
                      +.+...|-..+......++++.|++++++....        -...|-+++..-...|.-+...++|+++.+  ..--...
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcq--ycd~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQ--YCDAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHH--hcchHHH
Confidence            344556666777777888888888888876531        345788888888888888899999999988  3333447


Q ss_pred             HHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC---CHhhHHHHHHHH
Q 005476          427 FIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP---NPVIWRTLLAAC  502 (695)
Q Consensus       427 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p---~~~~~~~ll~a~  502 (695)
                      |..|+..|.+.+..++|.++++.|.++++  -....|..+++.+.+..+-++|..++++. ..-|   ......-.+..-
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHH
Confidence            88999999999999999999999999766  66788999999999999999999999875 2223   344445555666


Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCCCc
Q 005476          503 RAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIK  558 (695)
Q Consensus       503 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  558 (695)
                      .++|+.+++..+|+..+...|.....|..++++-.+.|..+.++.+|++....++.
T Consensus      1611 Fk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~ 1666 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLS 1666 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCC
Confidence            78999999999999999999999999999999999999999999999999988764

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.52  E-value=6.7e-06  Score=79.98  Aligned_cols=178  Identities=11%  Similarity=-0.005  Sum_probs=102.4

Q ss_pred             hHHHhHHhcchhhcCCHHHHHHHHhcCCC--C-Ch---hHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH----HH
Q 005476          358 ITLGTALMDFYAKCGLIENAVEVFKKMPL--K-NV---FFWTVLIQCLASNGQGERALETYYIMREKNIEPNDV----AF  427 (695)
Q Consensus       358 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~~---~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~----t~  427 (695)
                      ...+..+...|.+.|++++|...|+++..  | +.   ..|..+..+|.+.|++++|+..|+++.+  ..|+..    ++
T Consensus        33 ~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~--~~p~~~~~~~a~  110 (235)
T TIGR03302        33 AEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIR--LHPNHPDADYAY  110 (235)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH--HCcCCCchHHHH
Confidence            34444555556666666666666665433  1 11   2445555566666666666666666655  233211    23


Q ss_pred             HHHHHHHhcc--------ccHHHHHHHHHHchhhcCCCCCh-hHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhhHHHH
Q 005476          428 IAVLSACSHV--------GMVDEGRELFVSMSRDFDLEPRM-EHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTL  498 (695)
Q Consensus       428 ~~ll~a~~~~--------g~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~l  498 (695)
                      ..+..++...        |+.++|.+.|+.+.+.   .|+. ..+..+...    +......           ......+
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~----~~~~~~~-----------~~~~~~~  172 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRM----DYLRNRL-----------AGKELYV  172 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHH----HHHHHHH-----------HHHHHHH
Confidence            3333333332        4555666666655432   2221 111111100    0000000           0011244


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCC---cccHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 005476          499 LAACRAHKNVKVGEESLKNLVTLEPMH---SGDYILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       499 l~a~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      ...+...|+++.|...++++++..|++   +..+..++.+|.+.|++++|..+++.+..+
T Consensus       173 a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       173 ARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            556888999999999999999987765   468889999999999999999999988764

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.49  E-value=0.0017  Score=69.48  Aligned_cols=201  Identities=10%  Similarity=0.103  Sum_probs=118.9

Q ss_pred             CHHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHh
Q 005476          322 NEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLAS  401 (695)
Q Consensus       322 d~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~  401 (695)
                      |...|.-....+...|+++.|..+|..+..         |-+++...+-.|+.++|-++-++-  .|......+...|-.
T Consensus       911 d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~es--gd~AAcYhlaR~YEn  979 (1416)
T KOG3617|consen  911 DESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEES--GDKAACYHLARMYEN  979 (1416)
T ss_pred             chHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHhc--ccHHHHHHHHHHhhh
Confidence            334455555556677888888887776654         346777777788888888877663  455555667777888


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc---------------ccHHHHHHHHHHchhhcCCCCChhHHHHH
Q 005476          402 NGQGERALETYYIMREKNIEPNDVAFIAVLSACSHV---------------GMVDEGRELFVSMSRDFDLEPRMEHYGCM  466 (695)
Q Consensus       402 ~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~---------------g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  466 (695)
                      .|++.+|...|-+.+.         |...|+.|-..               .+.-.|-++|++.    |..     ...-
T Consensus       980 ~g~v~~Av~FfTrAqa---------fsnAIRlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~----g~~-----~~~A 1041 (1416)
T KOG3617|consen  980 DGDVVKAVKFFTRAQA---------FSNAIRLCKENDMKDRLANLALMSGGSDLVSAARYYEEL----GGY-----AHKA 1041 (1416)
T ss_pred             hHHHHHHHHHHHHHHH---------HHHHHHHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHc----chh-----hhHH
Confidence            8888888888876543         33334333332               2333444455443    111     1223


Q ss_pred             HHHHhhcCCHHHHHHHHHhC-----------CCC--CCHhhHHHHHHHHHhcCChhHHHHHHHHHHhc------------
Q 005476          467 VDILGRAGLVEEAYQFIKNM-----------PIP--PNPVIWRTLLAACRAHKNVKVGEESLKNLVTL------------  521 (695)
Q Consensus       467 i~~~~~~g~~~~A~~~~~~m-----------~~~--p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~------------  521 (695)
                      +.+|-++|.+.+|+++-=+-           .+.  .|+...+--..-+..+.++++|..++-...+.            
T Consensus      1042 VmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar~~~~AlqlC~~~nv 1121 (1416)
T KOG3617|consen 1042 VMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLAREFSGALQLCKNRNV 1121 (1416)
T ss_pred             HHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            55677888888877653211           122  24444444444455666777776655443221            


Q ss_pred             ----------CCCC---------cccHHHHHHHHHHcCCHHHHHHHHHH
Q 005476          522 ----------EPMH---------SGDYILLSDIYASAGRCEDALRVMNQ  551 (695)
Q Consensus       522 ----------~p~~---------~~~~~~l~~~~~~~g~~~~a~~~~~~  551 (695)
                                -|..         ......++..|.++|.+..|.+-|..
T Consensus      1122 ~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~AtKKfTQ 1170 (1416)
T KOG3617|consen 1122 RVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAATKKFTQ 1170 (1416)
T ss_pred             chhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHHHHHHhh
Confidence                      1211         12466889999999988887765543

>PF12854 PPR_1: PPR repeat

Probab=98.48  E-value=1.7e-07  Score=58.96  Aligned_cols=33  Identities=39%  Similarity=0.566  Sum_probs=26.1

Q ss_pred             CCCCCccHHHHHHHHHHhcCChhHHHHHHhccC
Q 005476          151 GFGCRQLVTNTLIHLYANCGRIDIARKMFDRMS  183 (695)
Q Consensus       151 g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~  183 (695)
                      |+.||..+||+||++|++.|++++|.++|++|+
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            677888888888888888888888888887774

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.48  E-value=1.1e-05  Score=75.32  Aligned_cols=147  Identities=8%  Similarity=0.073  Sum_probs=111.4

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCC
Q 005476          396 IQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGL  475 (695)
Q Consensus       396 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  475 (695)
                      +..|...|+++.+....+.+..    |.        ..+...++.+++...++...+  .-+.+...|..|...|...|+
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~----~~--------~~~~~~~~~~~~i~~l~~~L~--~~P~~~~~w~~Lg~~~~~~g~   88 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD----PL--------HQFASQQTPEAQLQALQDKIR--ANPQNSEQWALLGEYYLWRND   88 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC----cc--------ccccCchhHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCC
Confidence            3467788887776544432221    11        012235666777777777664  334578889999999999999


Q ss_pred             HHHHHHHHHhC-CCCC-CHhhHHHHHHH-HHhcCC--hhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHH
Q 005476          476 VEEAYQFIKNM-PIPP-NPVIWRTLLAA-CRAHKN--VKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMN  550 (695)
Q Consensus       476 ~~~A~~~~~~m-~~~p-~~~~~~~ll~a-~~~~g~--~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  550 (695)
                      +++|...+++. ...| +...+..+..+ +...|+  .++|.++++++++.+|++..++..++..+...|++++|...|+
T Consensus        89 ~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~  168 (198)
T PRK10370         89 YDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQ  168 (198)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999886 4455 56677777776 467677  5999999999999999999999999999999999999999999


Q ss_pred             HHHhCC
Q 005476          551 QMREQG  556 (695)
Q Consensus       551 ~m~~~~  556 (695)
                      ++.+..
T Consensus       169 ~aL~l~  174 (198)
T PRK10370        169 KVLDLN  174 (198)
T ss_pred             HHHhhC
Confidence            998754

>PF12854 PPR_1: PPR repeat

Probab=98.46  E-value=2.7e-07  Score=58.05  Aligned_cols=34  Identities=32%  Similarity=0.568  Sum_probs=28.0

Q ss_pred             hCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 005476          251 KELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMN  284 (695)
Q Consensus       251 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~  284 (695)
                      .|+.||..+||+||++|++.|++++|.++|++|+
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            3678888888888888888888888888888874

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.45  E-value=0.00035  Score=72.76  Aligned_cols=20  Identities=20%  Similarity=-0.026  Sum_probs=14.1

Q ss_pred             HHhcCChhHHHHHHHHHHhc
Q 005476          502 CRAHKNVKVGEESLKNLVTL  521 (695)
Q Consensus       502 ~~~~g~~~~a~~~~~~~~~~  521 (695)
                      +...|+.+.|.+.+..++.+
T Consensus       317 ~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         317 AFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            45677777777777777654

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.45  E-value=4.1e-05  Score=71.98  Aligned_cols=311  Identities=17%  Similarity=0.124  Sum_probs=175.3

Q ss_pred             CCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCCC--ChhHHHH-
Q 005476          217 GVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIK--DVVAWSA-  293 (695)
Q Consensus       217 g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~--~~~~~~~-  293 (695)
                      |+....--+.+++....+..++..+.+++..-.+.. +.+....+.|..+|....++..|-..++++...  ...-|.. 
T Consensus         5 g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY   83 (459)
T KOG4340|consen    5 GAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLY   83 (459)
T ss_pred             cccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHH
Confidence            333344446666666666777777777776665553 235566677777788888888888888777542  2222222 


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHH--HhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhc
Q 005476          294 MISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSC--CAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKC  371 (695)
Q Consensus       294 li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a--~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~  371 (695)
                      -..++-+.+.+.+|+++...|...   |+...-..-+.+  ....+++..++.+.++.-..   .+..+.+-..-...+.
T Consensus        84 ~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~e---n~Ad~~in~gCllyke  157 (459)
T KOG4340|consen   84 QAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSE---NEADGQINLGCLLYKE  157 (459)
T ss_pred             HHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCC---Cccchhccchheeecc
Confidence            134455677777777777776542   222221111221  12344555555544443221   2223333333344556


Q ss_pred             CCHHHHHHHHhcCCC----CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHH
Q 005476          372 GLIENAVEVFKKMPL----KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELF  447 (695)
Q Consensus       372 g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~  447 (695)
                      |+.+.|.+-|+...+    .....||.-+. ..+.|+++.|+++..+++++|++--+.. +        .|..-++..+ 
T Consensus       158 gqyEaAvqkFqaAlqvsGyqpllAYniALa-Hy~~~qyasALk~iSEIieRG~r~HPEl-g--------IGm~tegiDv-  226 (459)
T KOG4340|consen  158 GQYEAAVQKFQAALQVSGYQPLLAYNLALA-HYSSRQYASALKHISEIIERGIRQHPEL-G--------IGMTTEGIDV-  226 (459)
T ss_pred             ccHHHHHHHHHHHHhhcCCCchhHHHHHHH-HHhhhhHHHHHHHHHHHHHhhhhcCCcc-C--------ccceeccCch-
Confidence            666666666665543    23344544333 2344566666666666666654321110 0        0000000000 


Q ss_pred             HHchhhcCCCCChhHHHHH-------HHHHhhcCCHHHHHHHHHhCCC----CCCHhhHHHHHHHHHhcCChhHHHHHHH
Q 005476          448 VSMSRDFDLEPRMEHYGCM-------VDILGRAGLVEEAYQFIKNMPI----PPNPVIWRTLLAACRAHKNVKVGEESLK  516 (695)
Q Consensus       448 ~~~~~~~~~~p~~~~~~~l-------i~~~~~~g~~~~A~~~~~~m~~----~p~~~~~~~ll~a~~~~g~~~~a~~~~~  516 (695)
                          +.-| .|-.-+-+.+       ...+.+.|+++.|.+.+..||-    +.|++|...+.-. -..+++..+.+-+.
T Consensus       227 ----rsvg-Nt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLq  300 (459)
T KOG4340|consen  227 ----RSVG-NTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQ  300 (459)
T ss_pred             ----hccc-chHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHH
Confidence                0000 0111122233       3446788999999999999952    3477777654322 23567788888889


Q ss_pred             HHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHH
Q 005476          517 NLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQ  551 (695)
Q Consensus       517 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  551 (695)
                      -+++++|-...+|..++-+|++..-++-|..++-+
T Consensus       301 FLL~~nPfP~ETFANlLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  301 FLLQQNPFPPETFANLLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             HHHhcCCCChHHHHHHHHHHhhhHHHhHHHHHHhh
Confidence            99999998889999999999999999988887754

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.43  E-value=9.4e-06  Score=85.45  Aligned_cols=219  Identities=16%  Similarity=0.148  Sum_probs=121.5

Q ss_pred             CCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHH
Q 005476          253 LNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSC  332 (695)
Q Consensus       253 ~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a  332 (695)
                      ++|-...-..+...+.++|-...|..+|+++     ..|.-.|.+|...|+..+|..+..+-.+.  +||...|..+.+.
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv  466 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDV  466 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhh
Confidence            3455556666777777777777777777764     45666777777777777777777666652  5666665555444


Q ss_pred             HhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHH
Q 005476          333 CAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETY  412 (695)
Q Consensus       333 ~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~  412 (695)
                      ..+                                   ..-+++|.++++....+-...|+..   ...+++++++.+.|
T Consensus       467 ~~d-----------------------------------~s~yEkawElsn~~sarA~r~~~~~---~~~~~~fs~~~~hl  508 (777)
T KOG1128|consen  467 LHD-----------------------------------PSLYEKAWELSNYISARAQRSLALL---ILSNKDFSEADKHL  508 (777)
T ss_pred             ccC-----------------------------------hHHHHHHHHHhhhhhHHHHHhhccc---cccchhHHHHHHHH
Confidence            333                                   2334444444444322211111111   12256677777777


Q ss_pred             HHHHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHHHHchhhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-
Q 005476          413 YIMREKNIEPNDV-AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEP-RMEHYGCMVDILGRAGLVEEAYQFIKNM-PI-  488 (695)
Q Consensus       413 ~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-  488 (695)
                      +.-.+  +.|-.. ||-.+..+..+.++++.|.+.|...+   .+.| +...||.+-.+|.+.|+..+|...+++. .. 
T Consensus       509 e~sl~--~nplq~~~wf~~G~~ALqlek~q~av~aF~rcv---tL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn  583 (777)
T KOG1128|consen  509 ERSLE--INPLQLGTWFGLGCAALQLEKEQAAVKAFHRCV---TLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN  583 (777)
T ss_pred             HHHhh--cCccchhHHHhccHHHHHHhhhHHHHHHHHHHh---hcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC
Confidence            76555  444333 66666666666677777776666554   2333 2445555555555555555555555554 11 


Q ss_pred             CCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 005476          489 PPNPVIWRTLLAACRAHKNVKVGEESLKNLVTL  521 (695)
Q Consensus       489 ~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~  521 (695)
                      .-+-..|...+-...+-|.++.|++++.++..+
T Consensus       584 ~~~w~iWENymlvsvdvge~eda~~A~~rll~~  616 (777)
T KOG1128|consen  584 YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDL  616 (777)
T ss_pred             CCCCeeeechhhhhhhcccHHHHHHHHHHHHHh
Confidence            112334545555555555555555555555543

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.42  E-value=6.3e-06  Score=72.78  Aligned_cols=121  Identities=8%  Similarity=-0.003  Sum_probs=80.2

Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-C
Q 005476          410 ETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEP-RMEHYGCMVDILGRAGLVEEAYQFIKNM-P  487 (695)
Q Consensus       410 ~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~  487 (695)
                      .+|++..+  +.|+.  +.....++...|++++|...|+....   +.| +...|..+..++.+.|++++|...|++. .
T Consensus        14 ~~~~~al~--~~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~   86 (144)
T PRK15359         14 DILKQLLS--VDPET--VYASGYASWQEGDYSRAVIDFSWLVM---AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALM   86 (144)
T ss_pred             HHHHHHHH--cCHHH--HHHHHHHHHHcCCHHHHHHHHHHHHH---cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            45555555  45554  33445566677777777777777653   333 5666777777777777777777777765 3


Q ss_pred             CCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHH
Q 005476          488 IPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYA  537 (695)
Q Consensus       488 ~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  537 (695)
                      ..| +...|..+..++...|++++|+..+++++++.|+++..+...+.+..
T Consensus        87 l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~  137 (144)
T PRK15359         87 LDASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQI  137 (144)
T ss_pred             cCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Confidence            334 55667777777777778888888888887777777776666555543

>PLN02789 farnesyltranstransferase

Probab=98.41  E-value=5.4e-05  Score=76.03  Aligned_cols=178  Identities=12%  Similarity=0.104  Sum_probs=117.3

Q ss_pred             CHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCCh--HHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccccHHHHHHH
Q 005476          373 LIENAVEVFKKMPL---KNVFFWTVLIQCLASNGQG--ERALETYYIMREKNIEPN-DVAFIAVLSACSHVGMVDEGREL  446 (695)
Q Consensus       373 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~--~~A~~l~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~  446 (695)
                      .+++++..++++..   ++...|+.....+.+.|+.  ++++++++++.+  ..|. ..+|.....++.+.|+++++++.
T Consensus        87 ~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~--~dpkNy~AW~~R~w~l~~l~~~~eeL~~  164 (320)
T PLN02789         87 DLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEFTRKILS--LDAKNYHAWSHRQWVLRTLGGWEDELEY  164 (320)
T ss_pred             hHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHhhhHHHHHHH
Confidence            34556665555432   3445566554445555542  567777777777  5554 44777777777777888888888


Q ss_pred             HHHchhhcCCCCChhHHHHHHHHHhhc---CCH----HHHHHHHHh-CCCCC-CHhhHHHHHHHHHhc----CChhHHHH
Q 005476          447 FVSMSRDFDLEPRMEHYGCMVDILGRA---GLV----EEAYQFIKN-MPIPP-NPVIWRTLLAACRAH----KNVKVGEE  513 (695)
Q Consensus       447 ~~~~~~~~~~~p~~~~~~~li~~~~~~---g~~----~~A~~~~~~-m~~~p-~~~~~~~ll~a~~~~----g~~~~a~~  513 (695)
                      ++++++.  -..+...|+.....+.+.   |..    +++.++..+ +...| |...|+-+...+...    ++..+|..
T Consensus       165 ~~~~I~~--d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~  242 (320)
T PLN02789        165 CHQLLEE--DVRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSS  242 (320)
T ss_pred             HHHHHHH--CCCchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHH
Confidence            8888753  223455555555555443   222    456666644 34455 678899888888773    44567889


Q ss_pred             HHHHHHhcCCCCcccHHHHHHHHHHcC------------------CHHHHHHHHHHHHh
Q 005476          514 SLKNLVTLEPMHSGDYILLSDIYASAG------------------RCEDALRVMNQMRE  554 (695)
Q Consensus       514 ~~~~~~~~~p~~~~~~~~l~~~~~~~g------------------~~~~a~~~~~~m~~  554 (695)
                      .+.+++..+|.++.+...|+++|+...                  ..++|.++++.+.+
T Consensus       243 ~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~~  301 (320)
T PLN02789        243 VCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEELSDSTLAQAVCSELEV  301 (320)
T ss_pred             HHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhccccccccHHHHHHHHHHHHh
Confidence            999998889998888899999998643                  34678888888743

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.37  E-value=8.8e-06  Score=70.59  Aligned_cols=97  Identities=9%  Similarity=0.032  Sum_probs=86.1

Q ss_pred             ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHH
Q 005476          459 RMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIY  536 (695)
Q Consensus       459 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  536 (695)
                      +....-.+...+...|++++|..+|+-. .+.| +..-|-.|...|...|++++|+..+.++..++|+++.++..++.+|
T Consensus        34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~  113 (157)
T PRK15363         34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECY  113 (157)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            4555666777888999999999999987 3455 5778899999999999999999999999999999999999999999


Q ss_pred             HHcCCHHHHHHHHHHHHhC
Q 005476          537 ASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       537 ~~~g~~~~a~~~~~~m~~~  555 (695)
                      ...|+.+.|.+.|+.....
T Consensus       114 L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        114 LACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            9999999999999988763

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.36  E-value=5.3e-06  Score=73.25  Aligned_cols=99  Identities=10%  Similarity=-0.052  Sum_probs=88.1

Q ss_pred             CCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHH
Q 005476          456 LEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLS  533 (695)
Q Consensus       456 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  533 (695)
                      +.|+  .+..+...+...|++++|...|+.. ...| +...|..+..++...|++++|...++++++++|+++..+..++
T Consensus        22 ~~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg   99 (144)
T PRK15359         22 VDPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTG   99 (144)
T ss_pred             cCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHH
Confidence            3454  3556788899999999999999986 4445 6788999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCC
Q 005476          534 DIYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       534 ~~~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      .++...|+.++|...++...+..
T Consensus       100 ~~l~~~g~~~eAi~~~~~Al~~~  122 (144)
T PRK15359        100 VCLKMMGEPGLAREAFQTAIKMS  122 (144)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999999988754

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.33  E-value=0.0017  Score=62.74  Aligned_cols=330  Identities=14%  Similarity=0.071  Sum_probs=192.8

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHH---HHHhccCChhHHHHHHHHHHHhCCCCchHH-HHHHHHH
Q 005476          191 NSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVL---MACGRLADIELGGWISEYMEEKELNGNVKL-MTAVVDM  266 (695)
Q Consensus       191 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll---~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~-~~~li~~  266 (695)
                      --+...+...|++..|+.-|....+.    |+..|.++.   ..|...|.-..|..-+..+++.  .||-.. ...-...
T Consensus        42 lElGk~lla~~Q~sDALt~yHaAve~----dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~v  115 (504)
T KOG0624|consen   42 LELGKELLARGQLSDALTHYHAAVEG----DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVV  115 (504)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHcC----CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchh
Confidence            34556666777777777777776552    233333333   3455566666666666666554  444221 1122334


Q ss_pred             HHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHH
Q 005476          267 YAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVH  346 (695)
Q Consensus       267 ~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~  346 (695)
                      +.+.|.++.|..-|+.+.+.+..           +|...+|..-+....      ........+......|+...+....
T Consensus       116 llK~Gele~A~~DF~~vl~~~~s-----------~~~~~eaqskl~~~~------e~~~l~~ql~s~~~~GD~~~ai~~i  178 (504)
T KOG0624|consen  116 LLKQGELEQAEADFDQVLQHEPS-----------NGLVLEAQSKLALIQ------EHWVLVQQLKSASGSGDCQNAIEMI  178 (504)
T ss_pred             hhhcccHHHHHHHHHHHHhcCCC-----------cchhHHHHHHHHhHH------HHHHHHHHHHHHhcCCchhhHHHHH
Confidence            56677777777777666433210           000111110000000      0011122233344456666666666


Q ss_pred             HHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcC---CCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 005476          347 LYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKM---PLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPN  423 (695)
Q Consensus       347 ~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~  423 (695)
                      ..+++.. +.|...+..-..+|...|++..|..-++..   ...+....--+-..+...|+.+.++...++-.+  +.||
T Consensus       179 ~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ldpd  255 (504)
T KOG0624|consen  179 THLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLK--LDPD  255 (504)
T ss_pred             HHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCcc
Confidence            6666543 556667777777788888888777655544   334556666666677778888888888777776  7777


Q ss_pred             HH-HHH---HH---H------HHHhccccHHHHHHHHHHchhhcCCCCC-----hhHHHHHHHHHhhcCCHHHHHHHHHh
Q 005476          424 DV-AFI---AV---L------SACSHVGMVDEGRELFVSMSRDFDLEPR-----MEHYGCMVDILGRAGLVEEAYQFIKN  485 (695)
Q Consensus       424 ~~-t~~---~l---l------~a~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~  485 (695)
                      .. .|.   .|   .      ......+.+.++.+..+...+   ..|.     ...+..+-..+...|++.+|+....+
T Consensus       256 HK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk---~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~e  332 (504)
T KOG0624|consen  256 HKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLK---NEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKE  332 (504)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh---cCCcccceeeeeeheeeecccccCCHHHHHHHHHH
Confidence            64 221   11   0      112334556666666666553   2343     22344455667778999999988877


Q ss_pred             C-CCCCC-HhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCCCcc
Q 005476          486 M-PIPPN-PVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKK  559 (695)
Q Consensus       486 m-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  559 (695)
                      . .+.|| +.++.--..+|.....++.|+.-|+++.+.++++..+-.         | .+.|.++.+...+++.-+
T Consensus       333 vL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~~~re---------G-le~Akrlkkqs~kRDYYK  398 (504)
T KOG0624|consen  333 VLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNTRARE---------G-LERAKRLKKQSGKRDYYK  398 (504)
T ss_pred             HHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccHHHHH---------H-HHHHHHHHHHhccchHHH
Confidence            5 56665 777877788899999999999999999999998754322         2 356666666555554433

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.33  E-value=1.7e-05  Score=81.57  Aligned_cols=214  Identities=14%  Similarity=0.145  Sum_probs=156.6

Q ss_pred             hccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCHHHHHH
Q 005476          233 GRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNI---KDVVAWSAMISGYSQARRCKEALG  309 (695)
Q Consensus       233 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~  309 (695)
                      .+.|++..|.-.|+..++.. +.+...|.-|...-...++-..|+..+.+..+   .|..+.-+|.-.|...|.-.+|++
T Consensus       296 m~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~  374 (579)
T KOG1125|consen  296 MKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALK  374 (579)
T ss_pred             HhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHH
Confidence            45677888888888887774 45777888888888888887778877777643   366778888888999999999999


Q ss_pred             HHHHhHHCCCC--------CCHHHHHHHHHHHhccCChhHHHHHHHHHHH-hCCCCchHHHhHHhcchhhcCCHHHHHHH
Q 005476          310 VFHDMQMANVV--------PNEVTMVSVLSCCAVLGALETGKWVHLYVKK-KRMELTITLGTALMDFYAKCGLIENAVEV  380 (695)
Q Consensus       310 ~~~~m~~~g~~--------pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~-~~~~~~~~~~~~li~~y~~~g~~~~A~~~  380 (695)
                      .|++.+....+        ++..+-..  ........+....++|-.+.. .+...|+.+...|.-.|--.|++++|...
T Consensus       375 ~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDc  452 (579)
T KOG1125|consen  375 MLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDC  452 (579)
T ss_pred             HHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHH
Confidence            99888654310        00000000  111112223344445544444 55568888888898899999999999999


Q ss_pred             HhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHHHHch
Q 005476          381 FKKMPL---KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDV-AFIAVLSACSHVGMVDEGRELFVSMS  451 (695)
Q Consensus       381 ~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~  451 (695)
                      |+....   .|...||-|...++...+.++|+..|++.++  ++|+.+ ....|.-+|...|.+++|.+.|-.++
T Consensus       453 f~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  453 FEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHH
Confidence            998754   3778899999999999999999999999999  899977 55556668999999999998886654

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.28  E-value=2.2e-05  Score=82.69  Aligned_cols=189  Identities=18%  Similarity=0.228  Sum_probs=140.6

Q ss_pred             CCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005476          353 RMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLS  432 (695)
Q Consensus       353 ~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~  432 (695)
                      +++|--..-..+.+.+.++|-...|..+|+++     ..|.-.|.+|...|+..+|.++..+-.+  -+||..-|..+..
T Consensus       393 ~lpp~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGD  465 (777)
T KOG1128|consen  393 HLPPIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGD  465 (777)
T ss_pred             CCCCcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhh
Confidence            34555566677888899999999999999885     4688889999999999999999888877  6889999999998


Q ss_pred             HHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhH
Q 005476          433 ACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKV  510 (695)
Q Consensus       433 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~  510 (695)
                      .......+++|.++++.....        .-..+.....+.++++++.+.++.- .+.| ...+|-.+..+..+.++.+.
T Consensus       466 v~~d~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~  537 (777)
T KOG1128|consen  466 VLHDPSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQA  537 (777)
T ss_pred             hccChHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHH
Confidence            888888888999888766432        1111222233467777777777653 3344 45567777666777777777


Q ss_pred             HHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 005476          511 GEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       511 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      |.+.|.+.+.++|++...|+.++.+|.+.|+..+|...+++..+-+
T Consensus       538 av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn  583 (777)
T KOG1128|consen  538 AVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN  583 (777)
T ss_pred             HHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC
Confidence            7777777777777777777777777777777777777777776654

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.25  E-value=0.00013  Score=82.06  Aligned_cols=227  Identities=12%  Similarity=0.148  Sum_probs=146.9

Q ss_pred             HHHHHHHHHHhccCChhHHHHHHHHHHHh-CCC---CchHHHhHHhcchhhcCCHHHHHHHHhcCCCC-C-hhHHHHHHH
Q 005476          324 VTMVSVLSCCAVLGALETGKWVHLYVKKK-RME---LTITLGTALMDFYAKCGLIENAVEVFKKMPLK-N-VFFWTVLIQ  397 (695)
Q Consensus       324 ~t~~~ll~a~~~~~~~~~a~~i~~~~~~~-~~~---~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~-~-~~~~~~li~  397 (695)
                      ..|..-|....+.++.+.|+.+.+++.+. ++.   --..+|.+++++-..-|.-+...++|++..+- | ...|..|..
T Consensus      1459 i~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~L~~ 1538 (1710)
T KOG1070|consen 1459 ILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLKLLG 1538 (1710)
T ss_pred             hHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence            34555555556667777777777666652 111   12345666666666667777777888777652 3 355777888


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHH
Q 005476          398 CLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVE  477 (695)
Q Consensus       398 ~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  477 (695)
                      .|.+.+.+++|.++|+.|.+. +.-....|...+....+...-+.|..++.++.+...-.-......-.+++-.+.|+.+
T Consensus      1539 iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GDae 1617 (1710)
T KOG1070|consen 1539 IYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGDAE 1617 (1710)
T ss_pred             HHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCCch
Confidence            888888888888888888774 3444457777777888888888888888877652111113555666677777888888


Q ss_pred             HHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcC--CCCcc-cHHHHHHHHHHcCCHHHHHHHHHH
Q 005476          478 EAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLE--PMHSG-DYILLSDIYASAGRCEDALRVMNQ  551 (695)
Q Consensus       478 ~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~--p~~~~-~~~~l~~~~~~~g~~~~a~~~~~~  551 (695)
                      .+..+|+.. .-.| -...|+.++..-.++|+.+.++.+|++++.+.  |.... .|-.++..--..|+-+.+..+-.+
T Consensus      1618 RGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~VKar 1696 (1710)
T KOG1070|consen 1618 RGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEYVKAR 1696 (1710)
T ss_pred             hhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHHHHHH
Confidence            888888876 2222 45678888888888888888888888888865  33322 222333333334544444444333

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.23  E-value=5.9e-05  Score=70.51  Aligned_cols=152  Identities=11%  Similarity=0.079  Sum_probs=110.3

Q ss_pred             hcchhhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccccHHHH
Q 005476          365 MDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPN-DVAFIAVLSACSHVGMVDEG  443 (695)
Q Consensus       365 i~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a  443 (695)
                      +-.|.+.|+++......+.+..+.        ..|...++.++++..+++..+  ..|+ ...|..+...+...|++++|
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~--------~~~~~~~~~~~~i~~l~~~L~--~~P~~~~~w~~Lg~~~~~~g~~~~A   92 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL--------HQFASQQTPEAQLQALQDKIR--ANPQNSEQWALLGEYYLWRNDYDNA   92 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc--------ccccCchhHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            345667777766554443322211        012235667788888888777  4554 45888888889999999999


Q ss_pred             HHHHHHchhhcCCCC-ChhHHHHHHHH-HhhcCC--HHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHH
Q 005476          444 RELFVSMSRDFDLEP-RMEHYGCMVDI-LGRAGL--VEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKN  517 (695)
Q Consensus       444 ~~~~~~~~~~~~~~p-~~~~~~~li~~-~~~~g~--~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~  517 (695)
                      ...|+...+   +.| +...+..+..+ +.+.|+  .++|.+++++. ...| +...+..+...+...|++++|+..+++
T Consensus        93 ~~a~~~Al~---l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~  169 (198)
T PRK10370         93 LLAYRQALQ---LRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQK  169 (198)
T ss_pred             HHHHHHHHH---hCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999998864   445 67778888886 467777  58999999887 4455 567888888889999999999999999


Q ss_pred             HHhcCCCCcccH
Q 005476          518 LVTLEPMHSGDY  529 (695)
Q Consensus       518 ~~~~~p~~~~~~  529 (695)
                      +++++|++..-+
T Consensus       170 aL~l~~~~~~r~  181 (198)
T PRK10370        170 VLDLNSPRVNRT  181 (198)
T ss_pred             HHhhCCCCccHH
Confidence            999998776443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.23  E-value=9.3e-05  Score=69.03  Aligned_cols=136  Identities=16%  Similarity=0.102  Sum_probs=108.2

Q ss_pred             CCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHhhHHH
Q 005476          420 IEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM--PIPPNPVIWRT  497 (695)
Q Consensus       420 ~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~  497 (695)
                      ..|+......+-.++...|+-+....+......  ....|......++....+.|++.+|...+++.  +-++|...|+.
T Consensus        62 ~~p~d~~i~~~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~  139 (257)
T COG5010          62 RNPEDLSIAKLATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNL  139 (257)
T ss_pred             cCcchHHHHHHHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhH
Confidence            455444335556667777877777777766542  33446666777888999999999999999887  34568889999


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCCC
Q 005476          498 LLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGI  557 (695)
Q Consensus       498 ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  557 (695)
                      +.-+|.+.|+++.|...+.+++++.|.++..+..|+-.|.-.|+.++|..++......+.
T Consensus       140 lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~  199 (257)
T COG5010         140 LGAALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA  199 (257)
T ss_pred             HHHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC
Confidence            999999999999999999999999999999999999999999999999999988776543

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.22  E-value=4.8e-05  Score=73.98  Aligned_cols=182  Identities=11%  Similarity=-0.021  Sum_probs=127.6

Q ss_pred             CCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCC--chHHHhHHhcchhhcCCHHHHHHHHhcCCC--C-Chh---HH
Q 005476          321 PNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMEL--TITLGTALMDFYAKCGLIENAVEVFKKMPL--K-NVF---FW  392 (695)
Q Consensus       321 pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~--~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~~~---~~  392 (695)
                      .....+......+...|+++.|...++.+.+.....  ....+..+...|.+.|++++|...|+++..  | +..   .+
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            345567777788899999999999999988865321  124667788999999999999999998854  2 222   45


Q ss_pred             HHHHHHHHhc--------CChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHH
Q 005476          393 TVLIQCLASN--------GQGERALETYYIMREKNIEPNDV-AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHY  463 (695)
Q Consensus       393 ~~li~~~~~~--------g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~  463 (695)
                      ..+..++.+.        |+.++|.+.|+++..  ..|+.. ....+... .   ....      .. .        ...
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~--~~p~~~~~~~a~~~~-~---~~~~------~~-~--------~~~  169 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIR--RYPNSEYAPDAKKRM-D---YLRN------RL-A--------GKE  169 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHH--HCCCChhHHHHHHHH-H---HHHH------HH-H--------HHH
Confidence            5555666654        788999999999988  466653 22221111 0   0100      00 0        112


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhC----CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCC
Q 005476          464 GCMVDILGRAGLVEEAYQFIKNM----PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEP  523 (695)
Q Consensus       464 ~~li~~~~~~g~~~~A~~~~~~m----~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p  523 (695)
                      ..+.+.|.+.|++++|...+++.    |..| ....|..+..++...|++++|...++.+....|
T Consensus       170 ~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       170 LYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            35667788999999999988876    2233 356788899999999999999998888776555

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.21  E-value=6.7e-05  Score=83.09  Aligned_cols=138  Identities=11%  Similarity=0.074  Sum_probs=114.2

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHHHHchhhcCCCC-ChhHHHH
Q 005476          388 NVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDV-AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEP-RMEHYGC  465 (695)
Q Consensus       388 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~  465 (695)
                      ++..+-.|.....+.|++++|..+++...+  +.||.. ....+...+.+.+.+++|....++...   ..| +......
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~---~~p~~~~~~~~  159 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS---GGSSSAREILL  159 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh---cCCCCHHHHHH
Confidence            567778888888999999999999999998  889877 777788889999999999999998874   345 5677888


Q ss_pred             HHHHHhhcCCHHHHHHHHHhCC-CCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHH
Q 005476          466 MVDILGRAGLVEEAYQFIKNMP-IPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYI  530 (695)
Q Consensus       466 li~~~~~~g~~~~A~~~~~~m~-~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  530 (695)
                      +..++.+.|++++|.++|++.- ..| +..+|.++..++...|+.++|...|+++++...+-...|.
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~  226 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLT  226 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHH
Confidence            8899999999999999999872 234 3678888889999999999999999999987654444444

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.15  E-value=0.022  Score=62.27  Aligned_cols=65  Identities=22%  Similarity=0.257  Sum_probs=50.1

Q ss_pred             HHHHHHHHHhcCCh---hHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCCCcc
Q 005476          495 WRTLLAACRAHKNV---KVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIKK  559 (695)
Q Consensus       495 ~~~ll~a~~~~g~~---~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  559 (695)
                      -+.|+..|++.++.   -+|+-+++..+...|.|...-..|+.+|.-.|-...|.++++.+.-+.|..
T Consensus       439 v~~Lid~~rktnd~~~l~eaI~LLE~glt~s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~  506 (932)
T KOG2053|consen  439 VNHLIDLWRKTNDLTDLFEAITLLENGLTKSPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQT  506 (932)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHHhhcCCccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhh
Confidence            45677788888764   466677777777888887777788899998899999999988886655544

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.14  E-value=4.1e-06  Score=53.52  Aligned_cols=34  Identities=38%  Similarity=0.566  Sum_probs=32.0

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 005476          390 FFWTVLIQCLASNGQGERALETYYIMREKNIEPN  423 (695)
Q Consensus       390 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~  423 (695)
                      ++||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            4799999999999999999999999999999998

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.11  E-value=4.8e-06  Score=53.20  Aligned_cols=35  Identities=29%  Similarity=0.531  Sum_probs=32.6

Q ss_pred             ehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCH
Q 005476          188 FSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDE  222 (695)
Q Consensus       188 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~  222 (695)
                      ++||++|.+|++.|++++|.++|++|.+.|++||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            47999999999999999999999999999999973

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.10  E-value=0.00037  Score=77.35  Aligned_cols=143  Identities=10%  Similarity=0.075  Sum_probs=114.5

Q ss_pred             CCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCC--C-ChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHH
Q 005476          353 RMELTITLGTALMDFYAKCGLIENAVEVFKKMPL--K-NVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDV-AFI  428 (695)
Q Consensus       353 ~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~  428 (695)
                      ....++..+..|.......|.+++|+.+++...+  | +...+..+...+.+.+++++|+..+++...  ..|+.. ...
T Consensus        81 ~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~--~~p~~~~~~~  158 (694)
T PRK15179         81 RYPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS--GGSSSAREIL  158 (694)
T ss_pred             hccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh--cCCCCHHHHH
Confidence            3456688888899999999999999999998865  4 556788888999999999999999999998  678776 555


Q ss_pred             HHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHhhHHHHH
Q 005476          429 AVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM--PIPPNPVIWRTLL  499 (695)
Q Consensus       429 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~ll  499 (695)
                      .+..++.+.|.+++|..+|+++..  ...-+...+..+...+-..|+.++|...|++.  ...|....|+.++
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~--~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~  229 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSR--QHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRL  229 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHh--cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHH
Confidence            666778889999999999999975  22334778889999999999999999999886  2234455555444

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.07  E-value=4.8e-05  Score=66.63  Aligned_cols=101  Identities=21%  Similarity=0.325  Sum_probs=80.2

Q ss_pred             CCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHH
Q 005476          456 LEP-RMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILL  532 (695)
Q Consensus       456 ~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  532 (695)
                      ..| +......+...+.+.|++++|.+.++.. ...| +...|..+...+...|+++.|...++++++.+|+++..+..+
T Consensus        12 ~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l   91 (135)
T TIGR02552        12 LDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHA   91 (135)
T ss_pred             CChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHH
Confidence            344 3455666777788888888888888776 3334 567777888888888999999999999989999888888899


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCC
Q 005476          533 SDIYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       533 ~~~~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      +.+|...|++++|...++...+..
T Consensus        92 a~~~~~~g~~~~A~~~~~~al~~~  115 (135)
T TIGR02552        92 AECLLALGEPESALKALDLAIEIC  115 (135)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhc
Confidence            999999999999999998877643

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.06  E-value=0.00049  Score=77.10  Aligned_cols=45  Identities=13%  Similarity=0.075  Sum_probs=25.6

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHH
Q 005476          493 VIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYA  537 (695)
Q Consensus       493 ~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  537 (695)
                      .+|-.+-.-|...++++.+..+++.+++.+|.|..+...++..|.
T Consensus       224 ~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        224 GLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence            344444455555566666666666666666666555555555554

>PLN02789 farnesyltranstransferase

Probab=98.06  E-value=0.00028  Score=70.92  Aligned_cols=183  Identities=11%  Similarity=0.101  Sum_probs=130.6

Q ss_pred             hhhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcC-ChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcccc--H
Q 005476          368 YAKCGLIENAVEVFKKMPL---KNVFFWTVLIQCLASNG-QGERALETYYIMREKNIEPNDV-AFIAVLSACSHVGM--V  440 (695)
Q Consensus       368 y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g-~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~a~~~~g~--~  440 (695)
                      +.+.++.++|..+.+.+..   .+..+|+.--..+...| ++++++..++++.+  ..|+.. +|..-...+.+.|.  .
T Consensus        47 l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~--~npknyqaW~~R~~~l~~l~~~~~  124 (320)
T PLN02789         47 YASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAE--DNPKNYQIWHHRRWLAEKLGPDAA  124 (320)
T ss_pred             HHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHH--HCCcchHHhHHHHHHHHHcCchhh
Confidence            4445677788887777654   24456776666667777 57999999999998  455543 56655445555565  3


Q ss_pred             HHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhc---CCh----hHH
Q 005476          441 DEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAH---KNV----KVG  511 (695)
Q Consensus       441 ~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~---g~~----~~a  511 (695)
                      +++..+++.+.+  .-+.+...|+...-++.+.|++++|++.++++ ...| |...|+.....+.+.   |..    +.+
T Consensus       125 ~~el~~~~kal~--~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~e  202 (320)
T PLN02789        125 NKELEFTRKILS--LDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEAMRDSE  202 (320)
T ss_pred             HHHHHHHHHHHH--hCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhccccccccccHHHH
Confidence            677888888874  22346788888888899999999999999987 3333 677888777666554   222    467


Q ss_pred             HHHHHHHHhcCCCCcccHHHHHHHHHHc----CCHHHHHHHHHHHHh
Q 005476          512 EESLKNLVTLEPMHSGDYILLSDIYASA----GRCEDALRVMNQMRE  554 (695)
Q Consensus       512 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~----g~~~~a~~~~~~m~~  554 (695)
                      .....++++.+|+|.++|..+..+|...    ++..+|.+...+..+
T Consensus       203 l~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~  249 (320)
T PLN02789        203 LKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLS  249 (320)
T ss_pred             HHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhc
Confidence            7888899999999999999999999873    344566666665443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.05  E-value=0.00035  Score=65.29  Aligned_cols=152  Identities=16%  Similarity=0.105  Sum_probs=93.7

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhc
Q 005476          395 LIQCLASNGQGERALETYYIMREKNIEP-NDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRA  473 (695)
Q Consensus       395 li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~  473 (695)
                      +-..+...|+.+....+..+...  ..| |.......+....+.|++.+|...|.+...  .-++|...|+.+.-.|.+.
T Consensus        72 ~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq~  147 (257)
T COG5010          72 LATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHHc
Confidence            34455556666665555555333  222 222333455666666777777777766653  4455666777777777777


Q ss_pred             CCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHH
Q 005476          474 GLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMN  550 (695)
Q Consensus       474 g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  550 (695)
                      |++++|..-|.+. .+.| +....+.|.-.+.-.|+.+.|+.++.......+.++.+-..|.-+....|++++|..+..
T Consensus       148 Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         148 GRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             cChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            7777776665554 3333 345566666667777777777777777776666666666677777777777777766543

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.05  E-value=0.00043  Score=70.26  Aligned_cols=115  Identities=22%  Similarity=0.213  Sum_probs=59.9

Q ss_pred             ccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HhhHHHHHHHHHhcCChhHHHH
Q 005476          436 HVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPN-PVIWRTLLAACRAHKNVKVGEE  513 (695)
Q Consensus       436 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~a~~~~g~~~~a~~  513 (695)
                      ..|.+++|+..+..+.+  ..+-|+.......+.+.+.|+.++|.+.++++ ...|+ ...+-++..++.+.|++++|+.
T Consensus       318 ~~~~~d~A~~~l~~L~~--~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai~  395 (484)
T COG4783         318 LAGQYDEALKLLQPLIA--AQPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIR  395 (484)
T ss_pred             HhcccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHHH
Confidence            34555555555555543  22233444445555555555555555555554 33443 3344455555555555555555


Q ss_pred             HHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHH
Q 005476          514 SLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQM  552 (695)
Q Consensus       514 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  552 (695)
                      +++..+..+|+|+..|..|+.+|...|+..++...+.++
T Consensus       396 ~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~  434 (484)
T COG4783         396 ILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEG  434 (484)
T ss_pred             HHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHH
Confidence            555555555555555555555555555555555544444

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.04  E-value=0.0026  Score=59.56  Aligned_cols=175  Identities=15%  Similarity=0.081  Sum_probs=94.8

Q ss_pred             HHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 005476          344 WVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPN  423 (695)
Q Consensus       344 ~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~  423 (695)
                      .+.+.+.......+......-...|...|++++|.+.......-+....|  +..+.+..+.+-|.+.+++|.+  + -+
T Consensus        94 ~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~~lE~~Al~--VqI~lk~~r~d~A~~~lk~mq~--i-de  168 (299)
T KOG3081|consen   94 SLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGENLEAAALN--VQILLKMHRFDLAEKELKKMQQ--I-DE  168 (299)
T ss_pred             HHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccchHHHHHHH--HHHHHHHHHHHHHHHHHHHHHc--c-ch
Confidence            34444444444444333344445677778888888777763322222222  3344566677777777777776  2 24


Q ss_pred             HHHHHHHHHHHhc----cccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHhhHHH
Q 005476          424 DVAFIAVLSACSH----VGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM--PIPPNPVIWRT  497 (695)
Q Consensus       424 ~~t~~~ll~a~~~----~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~  497 (695)
                      ..|.+.|..++.+    .+.+..|.-+|++|..  +..|+..+.+.+..+....|++++|..++++.  ....++.+...
T Consensus       169 d~tLtQLA~awv~la~ggek~qdAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~N  246 (299)
T KOG3081|consen  169 DATLTQLAQAWVKLATGGEKIQDAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLAN  246 (299)
T ss_pred             HHHHHHHHHHHHHHhccchhhhhHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHH
Confidence            4456555555443    3456667777777754  35566666666666666666666666666654  11223444433


Q ss_pred             HHHHHHhcC-ChhHHHHHHHHHHhcCCCC
Q 005476          498 LLAACRAHK-NVKVGEESLKNLVTLEPMH  525 (695)
Q Consensus       498 ll~a~~~~g-~~~~a~~~~~~~~~~~p~~  525 (695)
                      ++-.-...| +.+--.+...++....|..
T Consensus       247 liv~a~~~Gkd~~~~~r~l~QLk~~~p~h  275 (299)
T KOG3081|consen  247 LIVLALHLGKDAEVTERNLSQLKLSHPEH  275 (299)
T ss_pred             HHHHHHHhCCChHHHHHHHHHHHhcCCcc
Confidence            333333333 3334445555555555544

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.98  E-value=0.03  Score=57.83  Aligned_cols=428  Identities=12%  Similarity=0.099  Sum_probs=243.3

Q ss_pred             ChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCC--CCeehHHHHHHHH
Q 005476          120 DRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSN--RDVFSWNSMFSGY  197 (695)
Q Consensus       120 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~--~~~~~~~~li~~~  197 (695)
                      |..+|..|++-+... ..+++++.++++... ++.....|..-|..-.+..+++..+++|.+...  -++..|..-|+.-
T Consensus        19 di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvLnlDLW~lYl~YV   96 (656)
T KOG1914|consen   19 DIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVLNLDLWKLYLSYV   96 (656)
T ss_pred             cHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHhHHHHHHHHH
Confidence            778899999877665 899999999999875 466778888889999999999999999988654  4677888777644


Q ss_pred             Hh-CCChh----HHHHHHHHH-HHcCCCCCHhH----HHHHHHHHhccCCh------hHHHHHHHHHHHhCCCCchHHHH
Q 005476          198 VK-TECWR----EIVDLFNEM-RDLGVKFDEVT----LINVLMACGRLADI------ELGGWISEYMEEKELNGNVKLMT  261 (695)
Q Consensus       198 ~~-~g~~~----~A~~~~~~m-~~~g~~pd~~t----~~~ll~a~~~~~~~------~~a~~~~~~~~~~g~~~~~~~~~  261 (695)
                      -+ +|+..    ...+.|+-. .+.|+.+-...    |...+..--..|.+      +..+++++.++..-+..=...|+
T Consensus        97 R~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlEkLW~  176 (656)
T KOG1914|consen   97 RETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLEKLWK  176 (656)
T ss_pred             HHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHHHHHH
Confidence            33 23332    233334333 34565554433    33344433333443      34455555555433222233343


Q ss_pred             HHHHHH-------------HhcCCHHHHHHHHHhcCC------CChh---------------HHHHHHHHHHhcCCH---
Q 005476          262 AVVDMY-------------AKCGHVDKARRLFEQMNI------KDVV---------------AWSAMISGYSQARRC---  304 (695)
Q Consensus       262 ~li~~~-------------~~~g~~~~A~~~f~~m~~------~~~~---------------~~~~li~~~~~~g~~---  304 (695)
                      -....-             -+...+..|+++++++..      ++..               .|-.+|.-=..++.-   
T Consensus       177 DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL~t~~  256 (656)
T KOG1914|consen  177 DYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPLRTLD  256 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCccccc
Confidence            221110             011234445555554421      1111               133333321111110   


Q ss_pred             -----HHHHHHHH-HhHHCCCCCCHHH-HHHHH----HHHhccCC-------hhHHHHHHHHHHHhCCCCchHHHhHHhc
Q 005476          305 -----KEALGVFH-DMQMANVVPNEVT-MVSVL----SCCAVLGA-------LETGKWVHLYVKKKRMELTITLGTALMD  366 (695)
Q Consensus       305 -----~~A~~~~~-~m~~~g~~pd~~t-~~~ll----~a~~~~~~-------~~~a~~i~~~~~~~~~~~~~~~~~~li~  366 (695)
                           ....=.++ -|.-.+..|+..- +..-+    +.+...|+       .+++..+++..+..-...+..+|.++.+
T Consensus       257 ~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~~~a~  336 (656)
T KOG1914|consen  257 GTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYFALAD  336 (656)
T ss_pred             ccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence                 00000111 1111223333221 11111    11222333       3344555555554433344444444433


Q ss_pred             chhhcC---CHHHHHHHHhcCCC----CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccc
Q 005476          367 FYAKCG---LIENAVEVFKKMPL----KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEP-NDVAFIAVLSACSHVG  438 (695)
Q Consensus       367 ~y~~~g---~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~a~~~~g  438 (695)
                      ---..-   ..+.....+++...    .-..+|-..+..-.+..-...|..+|.+.++.+..+ +....++++.-++ .+
T Consensus       337 ~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-sk  415 (656)
T KOG1914|consen  337 YEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SK  415 (656)
T ss_pred             hHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cC
Confidence            211111   12333333333322    223456677777777777889999999999988888 4446666665544 57


Q ss_pred             cHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC---CCCCC--HhhHHHHHHHHHhcCChhHHHH
Q 005476          439 MVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM---PIPPN--PVIWRTLLAACRAHKNVKVGEE  513 (695)
Q Consensus       439 ~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~p~--~~~~~~ll~a~~~~g~~~~a~~  513 (695)
                      +..-|.++|+.=.+.+|-  ++.--.+.++-+...++-..|..+|++.   .+.||  ..+|..+|.--..-||.....+
T Consensus       416 D~~~AfrIFeLGLkkf~d--~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~  493 (656)
T KOG1914|consen  416 DKETAFRIFELGLKKFGD--SPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILK  493 (656)
T ss_pred             ChhHHHHHHHHHHHhcCC--ChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHH
Confidence            889999999987775543  3445567888999999999999999887   23343  4689999999999999999999


Q ss_pred             HHHHHHhcCCCCc----ccHHHHHHHHHHcCCHHHHHHHHHHH
Q 005476          514 SLKNLVTLEPMHS----GDYILLSDIYASAGRCEDALRVMNQM  552 (695)
Q Consensus       514 ~~~~~~~~~p~~~----~~~~~l~~~~~~~g~~~~a~~~~~~m  552 (695)
                      +-++....-|.+.    ..-..+.+.|.-.+.+..-..-++.|
T Consensus       494 lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~c~~~elk~l  536 (656)
T KOG1914|consen  494 LEKRRFTAFPADQEYEGNETALFVDRYGILDLYPCSLDELKFL  536 (656)
T ss_pred             HHHHHHHhcchhhcCCCChHHHHHHHHhhcccccccHHHHHhh
Confidence            9988887666221    23345666677677665555444444

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=97.98  E-value=0.00013  Score=74.83  Aligned_cols=123  Identities=19%  Similarity=0.188  Sum_probs=95.6

Q ss_pred             HHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHH
Q 005476          426 AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACR  503 (695)
Q Consensus       426 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~  503 (695)
                      -..+|+..+...+.++.|.++|+++.+.   .|+  ....|+..+...++-.+|.+++++. ...| |...+......|.
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~---~pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRER---DPE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhc---CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            3445566666677788888888877643   244  3445677777777778888877765 2233 5556666666788


Q ss_pred             hcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Q 005476          504 AHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMR  553 (695)
Q Consensus       504 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  553 (695)
                      ..++++.|+.+++++.++.|++..+|..|+.+|...|++++|+..++.+.
T Consensus       246 ~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             hcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99999999999999999999999999999999999999999999998875

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=97.98  E-value=0.00069  Score=68.84  Aligned_cols=144  Identities=19%  Similarity=0.137  Sum_probs=115.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHhccccHHHHHHHHHHchhhcCCCCC-hhHHHHHHH
Q 005476          391 FWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFI-AVLSACSHVGMVDEGRELFVSMSRDFDLEPR-MEHYGCMVD  468 (695)
Q Consensus       391 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~-~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~  468 (695)
                      .+-...-.+.+.|++++|+..++.++.  -.||..-|. .....+...++.++|.+.++.++.   ..|+ ....-.+.+
T Consensus       308 a~YG~A~~~~~~~~~d~A~~~l~~L~~--~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~---l~P~~~~l~~~~a~  382 (484)
T COG4783         308 AQYGRALQTYLAGQYDEALKLLQPLIA--AQPDNPYYLELAGDILLEANKAKEAIERLKKALA---LDPNSPLLQLNLAQ  382 (484)
T ss_pred             HHHHHHHHHHHhcccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCCccHHHHHHHH
Confidence            333344456678999999999999988  577776555 445678899999999999999974   4666 566778899


Q ss_pred             HHhhcCCHHHHHHHHHhC--CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHH
Q 005476          469 ILGRAGLVEEAYQFIKNM--PIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDAL  546 (695)
Q Consensus       469 ~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  546 (695)
                      +|.+.|++.+|..+++..  ..+-|+..|..|..+|...|+..++....                 +..|.-.|+|++|+
T Consensus       383 all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~-----------------AE~~~~~G~~~~A~  445 (484)
T COG4783         383 ALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLAR-----------------AEGYALAGRLEQAI  445 (484)
T ss_pred             HHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHH-----------------HHHHHhCCCHHHHH
Confidence            999999999999999886  33447889999999999999988776554                 44578899999999


Q ss_pred             HHHHHHHhCC
Q 005476          547 RVMNQMREQG  556 (695)
Q Consensus       547 ~~~~~m~~~~  556 (695)
                      .......++.
T Consensus       446 ~~l~~A~~~~  455 (484)
T COG4783         446 IFLMRASQQV  455 (484)
T ss_pred             HHHHHHHHhc
Confidence            9999988753

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.95  E-value=1.5e-05  Score=50.47  Aligned_cols=33  Identities=24%  Similarity=0.513  Sum_probs=29.6

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC
Q 005476          390 FFWTVLIQCLASNGQGERALETYYIMREKNIEP  422 (695)
Q Consensus       390 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p  422 (695)
                      .+||++|.+|++.|+++.|.++|++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            578999999999999999999999999998887

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=97.95  E-value=0.0002  Score=62.61  Aligned_cols=113  Identities=12%  Similarity=0.040  Sum_probs=86.6

Q ss_pred             HHHHHHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC
Q 005476          411 TYYIMREKNIEPNDV-AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PI  488 (695)
Q Consensus       411 l~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~  488 (695)
                      +|++...  ..|+.. ....+...+...|++++|.+.|+.+...  .+.+...+..+...|.+.|++++|...+++. ..
T Consensus         5 ~~~~~l~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLG--LDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHc--CChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            4555555  556543 4556667778889999999999888652  2346778888888999999999999888876 33


Q ss_pred             CC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcc
Q 005476          489 PP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSG  527 (695)
Q Consensus       489 ~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~  527 (695)
                      .| +...|..+...+...|+++.|...++++++++|++..
T Consensus        81 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  120 (135)
T TIGR02552        81 DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPE  120 (135)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccch
Confidence            44 5667777888899999999999999999999997754

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.93  E-value=1.6e-05  Score=50.36  Aligned_cols=34  Identities=29%  Similarity=0.483  Sum_probs=30.2

Q ss_pred             eehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCC
Q 005476          187 VFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKF  220 (695)
Q Consensus       187 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  220 (695)
                      +.+||.+|.+|++.|+++.|.++|++|++.|++|
T Consensus         1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    1 VHTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             CcHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            3589999999999999999999999999999887

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=97.88  E-value=0.00022  Score=73.17  Aligned_cols=113  Identities=16%  Similarity=0.175  Sum_probs=49.4

Q ss_pred             CCHHHHHHHhccCCCCCcchHHHHHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHH
Q 005476           69 TTMDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQIL  148 (695)
Q Consensus        69 g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  148 (695)
                      ++++.|..+|+++.+.++..+-.|+..+...++..+|++++++..+.. +-|...+..-.+.|.+.++.+.|.++..++.
T Consensus       183 ~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~~~lAL~iAk~av  261 (395)
T PF09295_consen  183 QRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKKYELALEIAKKAV  261 (395)
T ss_pred             ccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            444555555544444443344444444444444444444444444321 1123333333333444444444444444444


Q ss_pred             HhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccC
Q 005476          149 KSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMS  183 (695)
Q Consensus       149 ~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~  183 (695)
                      +.. +.+..+|..|..+|.+.|+++.|+..++.+|
T Consensus       262 ~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  262 ELS-PSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            432 2223344444444444444444444444443

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.82  E-value=0.088  Score=57.86  Aligned_cols=181  Identities=16%  Similarity=0.091  Sum_probs=113.8

Q ss_pred             CCHHHHHHHhccCC---CCCcchHHHHHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHH
Q 005476           69 TTMDYALSIFHKIN---EPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHA  145 (695)
Q Consensus        69 g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  145 (695)
                      |+.++|..+++...   ..|..+...+-..|...|+.++|..+|+....  .-|+......++.++.+.+++.+-.++--
T Consensus        57 gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~--~~P~eell~~lFmayvR~~~yk~qQkaa~  134 (932)
T KOG2053|consen   57 GKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAVHLYERANQ--KYPSEELLYHLFMAYVREKSYKKQQKAAL  134 (932)
T ss_pred             cCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHHHHHHHHHh--hCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888887777653   24666777888888888888888888888876  35667777777888888777766555555


Q ss_pred             HHHHhCCCCCccHHHHHHHHHHhcCC----------hhHHHHHHhccCCCC--eehHH---HHHHHHHhCCChhHHHHHH
Q 005476          146 QILKSGFGCRQLVTNTLIHLYANCGR----------IDIARKMFDRMSNRD--VFSWN---SMFSGYVKTECWREIVDLF  210 (695)
Q Consensus       146 ~~~~~g~~~~~~~~~~Li~~y~~~g~----------~~~A~~~f~~m~~~~--~~~~~---~li~~~~~~g~~~~A~~~~  210 (695)
                      ++.+. ++.+.+.+-+.++.+...-.          ..-|.+.++.+.+.+  ..+-.   .-...+...|++++|++++
T Consensus       135 ~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l  213 (932)
T KOG2053|consen  135 QLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFL  213 (932)
T ss_pred             HHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHH
Confidence            55543 45666777777777665321          234555666555433  11111   1123344567788888877


Q ss_pred             -HHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhC
Q 005476          211 -NEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKE  252 (695)
Q Consensus       211 -~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g  252 (695)
                       ....+.-...+...-+--+..+...+++.+..++-..+...|
T Consensus       214 ~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  214 AITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKG  256 (932)
T ss_pred             HHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhC
Confidence             333333333344444455666667777777777777777775

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=97.80  E-value=0.0046  Score=69.59  Aligned_cols=147  Identities=12%  Similarity=0.119  Sum_probs=90.7

Q ss_pred             hHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcC
Q 005476          223 VTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQAR  302 (695)
Q Consensus       223 ~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g  302 (695)
                      ..+..+..+|.+.|+.+++..+++.+++.. +.|+.+.|.+...|... ++++|++++.+..           ..|...+
T Consensus       117 ~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV-----------~~~i~~k  183 (906)
T PRK14720        117 LALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAI-----------YRFIKKK  183 (906)
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHH-----------HHHHhhh
Confidence            355566666666677777777777777665 55777788888888877 8888887766543           2366677


Q ss_pred             CHHHHHHHHHHhHHCCCCCCHH-HHHHHHHHHhccCChhHHHHHHHHHHHh-CCCCchHHHhHHhcchhhcCCHHHHHHH
Q 005476          303 RCKEALGVFHDMQMANVVPNEV-TMVSVLSCCAVLGALETGKWVHLYVKKK-RMELTITLGTALMDFYAKCGLIENAVEV  380 (695)
Q Consensus       303 ~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~a~~~~~~~~~a~~i~~~~~~~-~~~~~~~~~~~li~~y~~~g~~~~A~~~  380 (695)
                      ++.++.+++.++...  .|+.+ .+..+++                .+... |..--+.++-.|-..|-+..+++++..+
T Consensus       184 q~~~~~e~W~k~~~~--~~~d~d~f~~i~~----------------ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~i  245 (906)
T PRK14720        184 QYVGIEEIWSKLVHY--NSDDFDFFLRIER----------------KVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYI  245 (906)
T ss_pred             cchHHHHHHHHHHhc--CcccchHHHHHHH----------------HHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHH
Confidence            888888888888765  23332 2222222                12211 2223334444555667777777777777


Q ss_pred             HhcCCC---CChhHHHHHHHHHH
Q 005476          381 FKKMPL---KNVFFWTVLIQCLA  400 (695)
Q Consensus       381 ~~~~~~---~~~~~~~~li~~~~  400 (695)
                      |+.+.+   .|.....-++.+|.
T Consensus       246 LK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        246 LKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHhcCCcchhhHHHHHHHHH
Confidence            777654   35555566666665

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.77  E-value=0.00027  Score=56.83  Aligned_cols=93  Identities=20%  Similarity=0.269  Sum_probs=75.9

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcC
Q 005476          463 YGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAG  540 (695)
Q Consensus       463 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  540 (695)
                      +..+...+.+.|++++|...+++. ...| +...|..+...+...++++.|.+.++++++..|.+...+..++.++...|
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            455677788888999998888875 3334 34667777888888899999999999999999888888889999999999


Q ss_pred             CHHHHHHHHHHHHhC
Q 005476          541 RCEDALRVMNQMREQ  555 (695)
Q Consensus       541 ~~~~a~~~~~~m~~~  555 (695)
                      ++++|...++...+.
T Consensus        83 ~~~~a~~~~~~~~~~   97 (100)
T cd00189          83 KYEEALEAYEKALEL   97 (100)
T ss_pred             hHHHHHHHHHHHHcc
Confidence            999999998887653

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.74  E-value=8.2e-05  Score=56.24  Aligned_cols=64  Identities=19%  Similarity=0.288  Sum_probs=59.7

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcC-CHHHHHHHHHHHHh
Q 005476          491 NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAG-RCEDALRVMNQMRE  554 (695)
Q Consensus       491 ~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~a~~~~~~m~~  554 (695)
                      ++.+|..+...+...|++++|+..|+++++++|+++..|..++.+|...| ++++|++.+++..+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            56789999999999999999999999999999999999999999999999 79999999998765

...

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.73  E-value=0.049  Score=57.80  Aligned_cols=147  Identities=14%  Similarity=0.141  Sum_probs=67.4

Q ss_pred             hcchhhcCCHHHHHHHHhcCCCCCh---hHHHHHHHHHH----hcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc
Q 005476          365 MDFYAKCGLIENAVEVFKKMPLKNV---FFWTVLIQCLA----SNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHV  437 (695)
Q Consensus       365 i~~y~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~----~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~  437 (695)
                      |.++.+.|+.-+|.+++.+|.++..   +-+.-+-..|.    -..+..++++-.++....|...|...       +...
T Consensus       930 Ie~~Rka~~~~daarll~qmae~e~~K~~p~lr~KklYVL~AlLvE~h~~~ik~~~~~~~~g~~~dat~-------lles 1002 (1189)
T KOG2041|consen  930 IEKDRKAGRHLDAARLLSQMAEREQEKYVPYLRLKKLYVLGALLVENHRQTIKELRKIDKHGFLEDATD-------LLES 1002 (1189)
T ss_pred             HHHhhhcccchhHHHHHHHHhHHHhhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCcchhhhh-------hhhh
Confidence            4566677777777777777754211   11111111111    11223344444444444444333221       1222


Q ss_pred             ccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC----CCCCCHhhHHHHHHHHHhcCChhHHHH
Q 005476          438 GMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM----PIPPNPVIWRTLLAACRAHKNVKVGEE  513 (695)
Q Consensus       438 g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~~~~~~~ll~a~~~~g~~~~a~~  513 (695)
                      |...++-++.+..-+  |  ....|+-.|..--..-|+++.|+..--.+    .+-|-..+|..|.-+.+....+...-+
T Consensus      1003 ~~l~~~~ri~~n~Wr--g--AEAyHFmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaaca~raFGtCSK 1078 (1189)
T KOG2041|consen 1003 GLLAEQSRILENTWR--G--AEAYHFMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALAACAVRAFGTCSK 1078 (1189)
T ss_pred             hhhhhHHHHHHhhhh--h--HHHHHHHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHhhhhhhhhhHH
Confidence            333344444433322  1  23344555555556678888887654333    233445556555444344444555555


Q ss_pred             HHHHHHhcC
Q 005476          514 SLKNLVTLE  522 (695)
Q Consensus       514 ~~~~~~~~~  522 (695)
                      +|-++...+
T Consensus      1079 AfmkLe~~e 1087 (1189)
T KOG2041|consen 1079 AFMKLEAFE 1087 (1189)
T ss_pred             HHHHHHhhh
Confidence            555554443

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.70  E-value=4.5e-05  Score=47.01  Aligned_cols=31  Identities=39%  Similarity=0.469  Sum_probs=26.9

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 005476          390 FFWTVLIQCLASNGQGERALETYYIMREKNI  420 (695)
Q Consensus       390 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~  420 (695)
                      ++||+||++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4789999999999999999999999988774

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.70  E-value=4.6e-05  Score=46.96  Aligned_cols=31  Identities=39%  Similarity=0.823  Sum_probs=25.9

Q ss_pred             ehHHHHHHHHHhCCChhHHHHHHHHHHHcCC
Q 005476          188 FSWNSMFSGYVKTECWREIVDLFNEMRDLGV  218 (695)
Q Consensus       188 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  218 (695)
                      ++||+||++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4788888888888888888888888888764

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.69  E-value=4.9e-05  Score=60.08  Aligned_cols=78  Identities=21%  Similarity=0.351  Sum_probs=54.7

Q ss_pred             cCCHHHHHHHHHhC----CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHH
Q 005476          473 AGLVEEAYQFIKNM----PIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRV  548 (695)
Q Consensus       473 ~g~~~~A~~~~~~m----~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  548 (695)
                      .|++++|+.+++++    +..|+...|-.+..++.+.|++++|..++++ .+.+|.+......++.+|.+.|++++|+++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            46677777777766    2122445566677778888888888888888 666666666666778888888888888888


Q ss_pred             HHH
Q 005476          549 MNQ  551 (695)
Q Consensus       549 ~~~  551 (695)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            765

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.67  E-value=0.0011  Score=58.59  Aligned_cols=114  Identities=16%  Similarity=0.179  Sum_probs=52.3

Q ss_pred             cccHHHHHHHHHHchhhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCH----hhHHHHHHHHHhcCChhH
Q 005476          437 VGMVDEGRELFVSMSRDFDLEP-RMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPNP----VIWRTLLAACRAHKNVKV  510 (695)
Q Consensus       437 ~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~----~~~~~ll~a~~~~g~~~~  510 (695)
                      .++...+...++.+.++++-.| .....-.+...+...|++++|...|+.. ...||.    .....|...+...|++++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~  103 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDE  103 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            4444445444555444322111 1122223344455555555555555544 111221    122234444555555555


Q ss_pred             HHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHH
Q 005476          511 GEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQ  551 (695)
Q Consensus       511 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  551 (695)
                      |+..++.. .-.+-.+..+..++++|.+.|++++|...|+.
T Consensus       104 Al~~L~~~-~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  104 ALATLQQI-PDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHhc-cCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            55555442 11222333455666666666666666666654

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.65  E-value=0.00061  Score=57.90  Aligned_cols=94  Identities=18%  Similarity=0.122  Sum_probs=58.9

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC---cccHHHHH
Q 005476          462 HYGCMVDILGRAGLVEEAYQFIKNM-PIPPN----PVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMH---SGDYILLS  533 (695)
Q Consensus       462 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~  533 (695)
                      ++..++..+.+.|++++|.+.++++ ...|+    ...+..+..++...|+++.|...++.++...|++   +.++..++
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            3445555666666666666666655 11222    2344556666777777777777777777766654   33566677


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhC
Q 005476          534 DIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       534 ~~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      .++.+.|++++|.+.++++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            7777777777777777776664

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.63  E-value=0.00073  Score=69.62  Aligned_cols=86  Identities=10%  Similarity=0.056  Sum_probs=49.0

Q ss_pred             HHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHH
Q 005476          469 ILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDAL  546 (695)
Q Consensus       469 ~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  546 (695)
                      .+...|++++|++.+++. ...| +...|..+..++...|++++|+..++++++++|+++..|..++.+|...|++++|.
T Consensus        11 ~a~~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~eA~   90 (356)
T PLN03088         11 EAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQTAK   90 (356)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHHHHH
Confidence            344455555555555554 2233 34455555555566666666666666666666666666666666666666666666


Q ss_pred             HHHHHHHh
Q 005476          547 RVMNQMRE  554 (695)
Q Consensus       547 ~~~~~m~~  554 (695)
                      ..+++..+
T Consensus        91 ~~~~~al~   98 (356)
T PLN03088         91 AALEKGAS   98 (356)
T ss_pred             HHHHHHHH
Confidence            66665554

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.59  E-value=0.0047  Score=57.47  Aligned_cols=182  Identities=14%  Similarity=0.158  Sum_probs=138.0

Q ss_pred             cCCHHHHHHHHhcCCC--------CCh-hHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH-HHHhccccH
Q 005476          371 CGLIENAVEVFKKMPL--------KNV-FFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVL-SACSHVGMV  440 (695)
Q Consensus       371 ~g~~~~A~~~~~~~~~--------~~~-~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll-~a~~~~g~~  440 (695)
                      ..+.++..+++.++..        ++. ..|..++-+....|+.+.|...++++..+ + |.+.-...+= .-+...|.+
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-f-p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-F-PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-C-CCChhHHHHHHHHHHHhhch
Confidence            4678888888887742        222 23455556667789999999999998885 3 6554322221 124457899


Q ss_pred             HHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHH
Q 005476          441 DEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM--PIPPNPVIWRTLLAACRAHKNVKVGEESLKNL  518 (695)
Q Consensus       441 ~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~  518 (695)
                      ++|.++++.+..+  -+.|..+|--=+-+.-..|+--+|++-+.+.  .+..|...|.-+...|...|+++.|.-.++++
T Consensus       103 ~~A~e~y~~lL~d--dpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  103 KEAIEYYESLLED--DPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hhHHHHHHHHhcc--CcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            9999999999874  3456777777777777788887887766654  34568999999999999999999999999999


Q ss_pred             HhcCCCCcccHHHHHHHHHHcC---CHHHHHHHHHHHHhCC
Q 005476          519 VTLEPMHSGDYILLSDIYASAG---RCEDALRVMNQMREQG  556 (695)
Q Consensus       519 ~~~~p~~~~~~~~l~~~~~~~g---~~~~a~~~~~~m~~~~  556 (695)
                      +-..|.++-.+..+++.+...|   +.+-|.+++.+..+..
T Consensus       181 ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  181 LLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            9999999988889999887666   4566888888877744

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.55  E-value=0.0035  Score=55.48  Aligned_cols=123  Identities=15%  Similarity=0.169  Sum_probs=81.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCC--hhHHHH
Q 005476          392 WTVLIQCLASNGQGERALETYYIMREKNIEPND----VAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPR--MEHYGC  465 (695)
Q Consensus       392 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~  465 (695)
                      |..++..+ ..++...+.+.++++...  .|+.    .....+...+...|++++|...|+.+... .-.|.  ......
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~--~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~   90 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKD--YPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLR   90 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHH
Confidence            34444444 477778888888888774  3332    23334456677788888888888888764 22222  123445


Q ss_pred             HHHHHhhcCCHHHHHHHHHhCCCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHH
Q 005476          466 MVDILGRAGLVEEAYQFIKNMPIPP-NPVIWRTLLAACRAHKNVKVGEESLKNL  518 (695)
Q Consensus       466 li~~~~~~g~~~~A~~~~~~m~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~  518 (695)
                      |...+...|++++|+..++..+..+ ....+......+...|+.++|...|+++
T Consensus        91 LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            6777888888888888887763222 3455666777788888888888888775

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.55  E-value=0.0033  Score=67.69  Aligned_cols=140  Identities=16%  Similarity=0.101  Sum_probs=75.5

Q ss_pred             CCChhHHHHHHHHHHhcC-----ChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHHHHchhhcCCCCC
Q 005476          386 LKNVFFWTVLIQCLASNG-----QGERALETYYIMREKNIEPNDV-AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPR  459 (695)
Q Consensus       386 ~~~~~~~~~li~~~~~~g-----~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~  459 (695)
                      ..|...|...+.+.....     +...|..+|++..+  ..||.. .+..+..++...                ++..|.
T Consensus       334 ~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~--ldP~~a~a~A~la~~~~~~----------------~~~~~~  395 (517)
T PRK10153        334 PHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK--SEPDFTYAQAEKALADIVR----------------HSQQPL  395 (517)
T ss_pred             CCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHH----------------HhcCCc
Confidence            356677777777654322     25678888888888  678754 343332222110                011110


Q ss_pred             hhHHHHHHHHHhhcCCHHHHHHHHHhC---C-CCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHH
Q 005476          460 MEHYGCMVDILGRAGLVEEAYQFIKNM---P-IPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDI  535 (695)
Q Consensus       460 ~~~~~~li~~~~~~g~~~~A~~~~~~m---~-~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  535 (695)
                      ..            +++..+.+..++.   + ...+...|..+.-.....|++++|...++++++++| +...|..++.+
T Consensus       396 ~~------------~~l~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~  462 (517)
T PRK10153        396 DE------------KQLAALSTELDNIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKV  462 (517)
T ss_pred             cH------------HHHHHHHHHHHHhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHH
Confidence            00            1112222222221   1 122344555554445556777777777777777776 35566777777


Q ss_pred             HHHcCCHHHHHHHHHHHHhCC
Q 005476          536 YASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       536 ~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      |...|+.++|...+++....+
T Consensus       463 ~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        463 YELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             HHHcCCHHHHHHHHHHHHhcC
Confidence            777777777777776665543

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.54  E-value=0.00022  Score=53.07  Aligned_cols=58  Identities=19%  Similarity=0.267  Sum_probs=48.7

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 005476          498 LLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       498 ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      +...+...|++++|+..++++++.+|+++..+..++.++...|++++|..+++++.+.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4456778889999999999999999988888899999999999999999999888764

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.52  E-value=0.0012  Score=56.10  Aligned_cols=102  Identities=10%  Similarity=0.075  Sum_probs=64.5

Q ss_pred             HHHHHHHHhccccHHHHHHHHHHchhhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HhhHHHHHH
Q 005476          427 FIAVLSACSHVGMVDEGRELFVSMSRDFDLEP-RMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPN----PVIWRTLLA  500 (695)
Q Consensus       427 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~ll~  500 (695)
                      +..+...+...|++++|.+.|..+...+.-.+ ....+..+...+.+.|++++|.+.++++ ...|+    ..++..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            34444555566666666666666654321111 1234555667777777777777777765 22232    345667777


Q ss_pred             HHHhcCChhHHHHHHHHHHhcCCCCccc
Q 005476          501 ACRAHKNVKVGEESLKNLVTLEPMHSGD  528 (695)
Q Consensus       501 a~~~~g~~~~a~~~~~~~~~~~p~~~~~  528 (695)
                      ++...|+.+.|...++++++..|+++..
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~  112 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKRYPGSSAA  112 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHHCcCChhH
Confidence            7888888888888888888888876543

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.49  E-value=0.011  Score=55.14  Aligned_cols=174  Identities=16%  Similarity=0.127  Sum_probs=124.8

Q ss_pred             CCCchH-HHhHHhcchhhcCCHHHHHHHHhcCCCCChhHHHHHH---HHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 005476          354 MELTIT-LGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLI---QCLASNGQGERALETYYIMREKNIEPNDVAFIA  429 (695)
Q Consensus       354 ~~~~~~-~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li---~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~  429 (695)
                      ..++.. ++.-++-+...+|+.+.|...++++..+=+.++....   .-+-..|++++|+++++.+.+.. +-|.+++-.
T Consensus        47 ~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KR  125 (289)
T KOG3060|consen   47 LGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDD-PTDTVIRKR  125 (289)
T ss_pred             cCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhHHHHHHHHhccC-cchhHHHHH
Confidence            445543 3444555566789999999999887653222222221   23456789999999999999865 345557766


Q ss_pred             HHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhc--
Q 005476          430 VLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAH--  505 (695)
Q Consensus       430 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~--  505 (695)
                      =+...-..|+--+|++-+....+  .+..|.+.|.-|.+.|...|++++|.--++++ -..| +...+..+...+...  
T Consensus       126 KlAilka~GK~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg  203 (289)
T KOG3060|consen  126 KLAILKAQGKNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGG  203 (289)
T ss_pred             HHHHHHHcCCcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhh
Confidence            56566667777788888777766  56789999999999999999999999999997 3345 455566666654333  


Q ss_pred             -CChhHHHHHHHHHHhcCCCCcccHH
Q 005476          506 -KNVKVGEESLKNLVTLEPMHSGDYI  530 (695)
Q Consensus       506 -g~~~~a~~~~~~~~~~~p~~~~~~~  530 (695)
                       .|.+.+.+.+.+.+++.|.+...+.
T Consensus       204 ~eN~~~arkyy~~alkl~~~~~ral~  229 (289)
T KOG3060|consen  204 AENLELARKYYERALKLNPKNLRALF  229 (289)
T ss_pred             HHHHHHHHHHHHHHHHhChHhHHHHH
Confidence             4788999999999999996544333

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.49  E-value=0.14  Score=51.44  Aligned_cols=118  Identities=17%  Similarity=0.218  Sum_probs=81.6

Q ss_pred             hcchhhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHH
Q 005476          365 MDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGR  444 (695)
Q Consensus       365 i~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~  444 (695)
                      |.-+...|+...|.++-.+..-||-..|-..+.+|+..+++++-.++...      +-.++.|-..+.+|...|...+|.
T Consensus       184 i~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~eA~  257 (319)
T PF04840_consen  184 IRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKKEAS  257 (319)
T ss_pred             HHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHHHHH
Confidence            34445667888888888888778888888888888888888776654321      223467777788888888888888


Q ss_pred             HHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 005476          445 ELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAAC  502 (695)
Q Consensus       445 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~a~  502 (695)
                      .+...+.           +..-+.+|.++|++.+|.+.--+.+   |...+..+...|
T Consensus       258 ~yI~k~~-----------~~~rv~~y~~~~~~~~A~~~A~~~k---d~~~L~~i~~~~  301 (319)
T PF04840_consen  258 KYIPKIP-----------DEERVEMYLKCGDYKEAAQEAFKEK---DIDLLKQILKRC  301 (319)
T ss_pred             HHHHhCC-----------hHHHHHHHHHCCCHHHHHHHHHHcC---CHHHHHHHHHHC
Confidence            7776531           2456778888888888877655542   555444444444

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.48  E-value=0.00065  Score=64.79  Aligned_cols=91  Identities=18%  Similarity=0.182  Sum_probs=66.3

Q ss_pred             HHhccccHHHHHHHHHHchhhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HhhHHHHHHHHHhcCChh
Q 005476          433 ACSHVGMVDEGRELFVSMSRDFDLEP-RMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPN-PVIWRTLLAACRAHKNVK  509 (695)
Q Consensus       433 a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~a~~~~g~~~  509 (695)
                      -..+.+++++|+..|..++   .+.| |...|..=..+|.+.|.++.|.+-.+.. .+.|. ..+|..|..+|...|+++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI---~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAI---ELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHH---hcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHH
Confidence            4566788888888888776   4555 4555666677788888888887766654 45554 447777777888888888


Q ss_pred             HHHHHHHHHHhcCCCCc
Q 005476          510 VGEESLKNLVTLEPMHS  526 (695)
Q Consensus       510 ~a~~~~~~~~~~~p~~~  526 (695)
                      +|++.|+++++++|++.
T Consensus       167 ~A~~aykKaLeldP~Ne  183 (304)
T KOG0553|consen  167 EAIEAYKKALELDPDNE  183 (304)
T ss_pred             HHHHHHHhhhccCCCcH
Confidence            88888888888888775

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.43  E-value=0.0035  Score=57.37  Aligned_cols=130  Identities=18%  Similarity=0.198  Sum_probs=81.0

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCC-ChhHHH
Q 005476          388 NVFFWTVLIQCLASNGQGERALETYYIMREKNIEPN--DVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEP-RMEHYG  464 (695)
Q Consensus       388 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~  464 (695)
                      ....+..+...+...|++++|+..|++....+..+.  ...+..+...+.+.|++++|...+.+..+   ..| +...+.
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~  110 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE---LNPKQPSALN  110 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCcccHHHHH
Confidence            344566666777777888888888887776433222  24566666777777888888877777764   233 345555


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCC
Q 005476          465 CMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGR  541 (695)
Q Consensus       465 ~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  541 (695)
                      .+...|...|+...+..-++..                  ...++.|.+.++++++.+|++   |..++..+...|+
T Consensus       111 ~lg~~~~~~g~~~~a~~~~~~A------------------~~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~~  166 (172)
T PRK02603        111 NIAVIYHKRGEKAEEAGDQDEA------------------EALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHHHHcCChHhHhhCHHHH------------------HHHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcCc
Confidence            6666666666655544322221                  112577888888888888865   5555555554443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.41  E-value=0.0017  Score=59.50  Aligned_cols=82  Identities=13%  Similarity=0.062  Sum_probs=61.5

Q ss_pred             hhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHH
Q 005476          460 MEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPN----PVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSD  534 (695)
Q Consensus       460 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  534 (695)
                      ...+..+...|.+.|++++|...+++. ...|+    ...|..+...+...|+++.|...++++++..|.+...+..++.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~  114 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHH
Confidence            345566666777777777777777665 11222    3567778888888899999999999999998888888888888


Q ss_pred             HHHHcCC
Q 005476          535 IYASAGR  541 (695)
Q Consensus       535 ~~~~~g~  541 (695)
                      +|...|+
T Consensus       115 ~~~~~g~  121 (172)
T PRK02603        115 IYHKRGE  121 (172)
T ss_pred             HHHHcCC
Confidence            8888776

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.41  E-value=0.0015  Score=59.55  Aligned_cols=95  Identities=14%  Similarity=-0.022  Sum_probs=75.1

Q ss_pred             ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHH
Q 005476          459 RMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPN----PVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLS  533 (695)
Q Consensus       459 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  533 (695)
                      ....|..++..+...|++++|...+++. ...|+    ..+|..+...+...|++++|+..+++++++.|.....+..++
T Consensus        34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la  113 (168)
T CHL00033         34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHH
Confidence            3556677777788888999988888876 22222    347888888999999999999999999999998888888888


Q ss_pred             HHHH-------HcCCHHHHHHHHHHHH
Q 005476          534 DIYA-------SAGRCEDALRVMNQMR  553 (695)
Q Consensus       534 ~~~~-------~~g~~~~a~~~~~~m~  553 (695)
                      .+|.       ..|++++|...+++..
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~~a~  140 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFDQAA  140 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHHHHH
Confidence            8888       8888887776666543

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.34  E-value=0.005  Score=61.15  Aligned_cols=133  Identities=12%  Similarity=0.155  Sum_probs=100.7

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HhccccHHHHHHHHHHchhhcCCCCChhHHHHHHH
Q 005476          390 FFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSA-CSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVD  468 (695)
Q Consensus       390 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a-~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  468 (695)
                      .+|-.++....+.+..+.|..+|.+.++.+ ..+...|...... +...++.+.|.++|+...+.  +..+...|...++
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~--f~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK--FPSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH--HTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHH
Confidence            468888888888888999999999998643 2233344433333 33457777799999999875  4567788999999


Q ss_pred             HHhhcCCHHHHHHHHHhC-CCCCC----HhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC
Q 005476          469 ILGRAGLVEEAYQFIKNM-PIPPN----PVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMH  525 (695)
Q Consensus       469 ~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~  525 (695)
                      .+.+.|+.+.|..+|++. ..-|.    ...|...+.--.+.|+.+....+.+++.+.-|++
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~  140 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPED  140 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhh
Confidence            999999999999999986 22233    3599999999999999999999999999988764

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PRK15331 chaperone protein SicA; Provisional

Probab=97.33  E-value=0.0055  Score=53.72  Aligned_cols=91  Identities=15%  Similarity=0.087  Sum_probs=78.5

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhCC-CCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCC
Q 005476          464 GCMVDILGRAGLVEEAYQFIKNMP-IPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGR  541 (695)
Q Consensus       464 ~~li~~~~~~g~~~~A~~~~~~m~-~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  541 (695)
                      -....-+...|++++|..+|+-+- ..| |..-|..|...|...++++.|...+..+..++++|+.++...+.+|...|+
T Consensus        41 Y~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~  120 (165)
T PRK15331         41 YAHAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCC
Confidence            344455668899999999998761 223 566788899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh
Q 005476          542 CEDALRVMNQMRE  554 (695)
Q Consensus       542 ~~~a~~~~~~m~~  554 (695)
                      .+.|...|....+
T Consensus       121 ~~~A~~~f~~a~~  133 (165)
T PRK15331        121 AAKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999998776

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.32  E-value=0.025  Score=53.25  Aligned_cols=148  Identities=11%  Similarity=0.139  Sum_probs=106.3

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHh----
Q 005476          396 IQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILG----  471 (695)
Q Consensus       396 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~----  471 (695)
                      ...|...|++++|++..+..    -..+....+  .....+..+++-|.+..+.|..   + .+..+.+-|..++.    
T Consensus       115 a~i~~~~~~~deAl~~~~~~----~~lE~~Al~--VqI~lk~~r~d~A~~~lk~mq~---i-ded~tLtQLA~awv~la~  184 (299)
T KOG3081|consen  115 AIIYMHDGDFDEALKALHLG----ENLEAAALN--VQILLKMHRFDLAEKELKKMQQ---I-DEDATLTQLAQAWVKLAT  184 (299)
T ss_pred             hHHhhcCCChHHHHHHHhcc----chHHHHHHH--HHHHHHHHHHHHHHHHHHHHHc---c-chHHHHHHHHHHHHHHhc
Confidence            34678889999999888762    122222222  2334566778889999998864   2 33444554555444    


Q ss_pred             hcCCHHHHHHHHHhC--CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHH-HH
Q 005476          472 RAGLVEEAYQFIKNM--PIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDAL-RV  548 (695)
Q Consensus       472 ~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~-~~  548 (695)
                      -.+.+.+|.-+|++|  ...|+..+.+....++...|++++|+.+++.++..+++++.+...++-.-...|+-.++. +.
T Consensus       185 ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r~  264 (299)
T KOG3081|consen  185 GGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKDAEVTERN  264 (299)
T ss_pred             cchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCChHHHHHH
Confidence            456799999999999  357888888888888999999999999999999999999988888888777788775554 33


Q ss_pred             HHHHH
Q 005476          549 MNQMR  553 (695)
Q Consensus       549 ~~~m~  553 (695)
                      ...++
T Consensus       265 l~QLk  269 (299)
T KOG3081|consen  265 LSQLK  269 (299)
T ss_pred             HHHHH
Confidence            44433

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.30  E-value=0.0025  Score=50.95  Aligned_cols=58  Identities=22%  Similarity=0.242  Sum_probs=30.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhccccHHHHHHHHHHch
Q 005476          392 WTVLIQCLASNGQGERALETYYIMREKNIEPND-VAFIAVLSACSHVGMVDEGRELFVSMS  451 (695)
Q Consensus       392 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~~~  451 (695)
                      |..+...+...|++++|+..|++..+  ..|+. ..+..+...+...+++++|.+.|+...
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~   61 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALE--LDPDNADAYYNLAAAYYKLGKYEEALEDYEKAL   61 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHh--cCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455555566666666666666555  23332 344444445555555555555555543

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.27  E-value=0.0034  Score=64.73  Aligned_cols=100  Identities=14%  Similarity=0.055  Sum_probs=59.0

Q ss_pred             HhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhHH
Q 005476          434 CSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVG  511 (695)
Q Consensus       434 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a  511 (695)
                      ....|++++|.+.|..+++  .-+.+...|..+..+|.+.|++++|+..+++. .+.| +...|..+..+|...|+++.|
T Consensus        12 a~~~~~~~~Ai~~~~~Al~--~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~eA   89 (356)
T PLN03088         12 AFVDDDFALAVDLYTQAID--LDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQTA   89 (356)
T ss_pred             HHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHHHH
Confidence            3344555555555555543  11223445555556666666666666666554 3334 455666666677777777777


Q ss_pred             HHHHHHHHhcCCCCcccHHHHHHH
Q 005476          512 EESLKNLVTLEPMHSGDYILLSDI  535 (695)
Q Consensus       512 ~~~~~~~~~~~p~~~~~~~~l~~~  535 (695)
                      +..++++++++|+++.....+..+
T Consensus        90 ~~~~~~al~l~P~~~~~~~~l~~~  113 (356)
T PLN03088         90 KAALEKGASLAPGDSRFTKLIKEC  113 (356)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHH
Confidence            777777777777776655554444

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.25  E-value=0.001  Score=50.78  Aligned_cols=58  Identities=17%  Similarity=0.206  Sum_probs=52.4

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 005476          499 LAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       499 l~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      ...+.+.++++.|.+.++++++++|+++..+...+.+|.+.|++++|.+.++...+.+
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            3567889999999999999999999999999999999999999999999999988754

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.24  E-value=0.00041  Score=52.15  Aligned_cols=53  Identities=17%  Similarity=0.302  Sum_probs=46.1

Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 005476          503 RAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       503 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      ...|++++|+..++++++.+|++...+..++.+|.+.|++++|.++++++...
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            46788999999999999999999999999999999999999999999877664

...

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.21  E-value=0.0028  Score=60.61  Aligned_cols=98  Identities=21%  Similarity=0.280  Sum_probs=80.1

Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCC-hhHHHHHHHHHhhcC
Q 005476          397 QCLASNGQGERALETYYIMREKNIEPN-DVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPR-MEHYGCMVDILGRAG  474 (695)
Q Consensus       397 ~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g  474 (695)
                      .-+.+.+++.+|+..|.+.++  +.|+ .+-|..=..+|++.|.++.|++-.+..+   .+.|. ...|..|..+|...|
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~--l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al---~iDp~yskay~RLG~A~~~~g  163 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIE--LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESAL---SIDPHYSKAYGRLGLAYLALG  163 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHH---hcChHHHHHHHHHHHHHHccC
Confidence            457788999999999999999  7775 5566677888999999999999888776   45664 678999999999999


Q ss_pred             CHHHHHHHHHhC-CCCCCHhhHHHHH
Q 005476          475 LVEEAYQFIKNM-PIPPNPVIWRTLL  499 (695)
Q Consensus       475 ~~~~A~~~~~~m-~~~p~~~~~~~ll  499 (695)
                      ++++|++.|++. .+.|+-.+|..=|
T Consensus       164 k~~~A~~aykKaLeldP~Ne~~K~nL  189 (304)
T KOG0553|consen  164 KYEEAIEAYKKALELDPDNESYKSNL  189 (304)
T ss_pred             cHHHHHHHHHhhhccCCCcHHHHHHH
Confidence            999999999886 7788766665433

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.20  E-value=0.001  Score=49.48  Aligned_cols=61  Identities=18%  Similarity=0.219  Sum_probs=49.2

Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCc
Q 005476          466 MVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHS  526 (695)
Q Consensus       466 li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~  526 (695)
                      +...+.+.|++++|.+.|++. ...| +...|..+..++...|++++|...++++++..|+++
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            456778889999999999887 4456 566888888899999999999999999999999764

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.20  E-value=0.31  Score=49.09  Aligned_cols=107  Identities=13%  Similarity=0.231  Sum_probs=81.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCC
Q 005476          259 LMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGA  338 (695)
Q Consensus       259 ~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~  338 (695)
                      +.+..+.-+...|+...|.++-.+..-+|-.-|-..+.+++..++|++-.++...    .  -.+.-|-.++.+|...|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s----k--KsPIGyepFv~~~~~~~~  252 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS----K--KSPIGYEPFVEACLKYGN  252 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC----C--CCCCChHHHHHHHHHCCC
Confidence            3444566667889999999999999889999999999999999999887665332    2  234678888889988888


Q ss_pred             hhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHH
Q 005476          339 LETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVF  381 (695)
Q Consensus       339 ~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~  381 (695)
                      ..+|..+...+          .+..-+.+|.++|++.+|.+.-
T Consensus       253 ~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~A  285 (319)
T PF04840_consen  253 KKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQEA  285 (319)
T ss_pred             HHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHHH
Confidence            88887766551          1245678888999988887653

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.16  E-value=0.016  Score=57.78  Aligned_cols=154  Identities=10%  Similarity=0.076  Sum_probs=109.7

Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH--HHhccccHHHHHHHHHHchhhcCCCCChhH------------
Q 005476          397 QCLASNGQGERALETYYIMREKNIEPNDVAFIAVLS--ACSHVGMVDEGRELFVSMSRDFDLEPRMEH------------  462 (695)
Q Consensus       397 ~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~--a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~------------  462 (695)
                      .++.-.|++++|...--...+  +.++.. +..+++  ++-..++.+.|...|++.+   .+.|+...            
T Consensus       177 ~cl~~~~~~~~a~~ea~~ilk--ld~~n~-~al~vrg~~~yy~~~~~ka~~hf~qal---~ldpdh~~sk~~~~~~k~le  250 (486)
T KOG0550|consen  177 ECLAFLGDYDEAQSEAIDILK--LDATNA-EALYVRGLCLYYNDNADKAINHFQQAL---RLDPDHQKSKSASMMPKKLE  250 (486)
T ss_pred             hhhhhcccchhHHHHHHHHHh--cccchh-HHHHhcccccccccchHHHHHHHhhhh---ccChhhhhHHhHhhhHHHHH
Confidence            466678888888877666655  333322 222222  3345677888888888775   44554322            


Q ss_pred             -HHHHHHHHhhcCCHHHHHHHHHhC-CC-----CCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHH
Q 005476          463 -YGCMVDILGRAGLVEEAYQFIKNM-PI-----PPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDI  535 (695)
Q Consensus       463 -~~~li~~~~~~g~~~~A~~~~~~m-~~-----~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  535 (695)
                       +.-=.+...+.|++.+|.+.+.+. .+     +|+...|.....+..+.|+.++|+.--+.+++++|.-...|..-+++
T Consensus       251 ~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c  330 (486)
T KOG0550|consen  251 VKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANC  330 (486)
T ss_pred             HHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHH
Confidence             112234456889999999999876 33     44556676677778899999999999999999998877788888999


Q ss_pred             HHHcCCHHHHHHHHHHHHhCC
Q 005476          536 YASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       536 ~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      +...++|++|.+-+++..+..
T Consensus       331 ~l~le~~e~AV~d~~~a~q~~  351 (486)
T KOG0550|consen  331 HLALEKWEEAVEDYEKAMQLE  351 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHhhc
Confidence            999999999999999887643

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.12  E-value=0.072  Score=47.29  Aligned_cols=132  Identities=13%  Similarity=0.095  Sum_probs=102.9

Q ss_pred             CCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCC-CCChhHHHHHHHHHhhcCCHHHHHHHHHhCC-CCC---CHhh
Q 005476          420 IEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDL-EPRMEHYGCMVDILGRAGLVEEAYQFIKNMP-IPP---NPVI  494 (695)
Q Consensus       420 ~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p---~~~~  494 (695)
                      ..|+..--..|..+....|+..+|...|++...  |+ .-|....-.+..+....+++.+|...++.+. ..|   .+..
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qals--G~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~  162 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALS--GIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDG  162 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhc--cccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCc
Confidence            567777777788899999999999999998875  54 4467778888888889999999999888861 122   2233


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          495 WRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       495 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      .-.+...+...|.++.|+..|+.++...|. +..-...+..+.++|+.+++..-+..+.+
T Consensus       163 ~Ll~aR~laa~g~~a~Aesafe~a~~~ypg-~~ar~~Y~e~La~qgr~~ea~aq~~~v~d  221 (251)
T COG4700         163 HLLFARTLAAQGKYADAESAFEVAISYYPG-PQARIYYAEMLAKQGRLREANAQYVAVVD  221 (251)
T ss_pred             hHHHHHHHHhcCCchhHHHHHHHHHHhCCC-HHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            345677889999999999999999998874 45666777889999998888776665544

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.05  E-value=0.0063  Score=58.60  Aligned_cols=105  Identities=16%  Similarity=0.132  Sum_probs=87.1

Q ss_pred             CCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhc---CChhHHHHHHHHHHhcCCCCcccHHH
Q 005476          457 EPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAH---KNVKVGEESLKNLVTLEPMHSGDYIL  531 (695)
Q Consensus       457 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~---g~~~~a~~~~~~~~~~~p~~~~~~~~  531 (695)
                      +-|.+.|-.|...|.+.|+.+.|..-|.+. .+.| +...+..+..++..+   ....++..+++++++++|.|..+...
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~l  232 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSL  232 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHH
Confidence            447899999999999999999999999876 3333 566777777775433   34678999999999999999999999


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhCCCccCC
Q 005476          532 LSDIYASAGRCEDALRVMNQMREQGIKKTP  561 (695)
Q Consensus       532 l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~  561 (695)
                      |+..+...|++.+|...|+.|.+.....+|
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~lp~~~~  262 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLLPADDP  262 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCCCCCc
Confidence            999999999999999999999987654433

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.03  E-value=0.00045  Score=43.36  Aligned_cols=33  Identities=27%  Similarity=0.540  Sum_probs=30.8

Q ss_pred             HHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHH
Q 005476          515 LKNLVTLEPMHSGDYILLSDIYASAGRCEDALR  547 (695)
Q Consensus       515 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  547 (695)
                      ++++++++|+++.+|..|+.+|...|++++|++
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            688999999999999999999999999999863

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.02  E-value=0.0055  Score=49.56  Aligned_cols=80  Identities=14%  Similarity=0.085  Sum_probs=67.3

Q ss_pred             HHHHHHHHHcCCCchHHHHHHHHHHhCCC-CCChhhHHHHHHHHhccC--------ChHHHHHHHHHHHHhCCCCCccHH
Q 005476           89 YNIMIRAFTLKQSPQEAVMLYKTMLQNSV-EPDRFTFACTLKACSRIR--------ALEEGEQIHAQILKSGFGCRQLVT  159 (695)
Q Consensus        89 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~g~~~~~~~~  159 (695)
                      -...|..+...+++.....+|+.+++.|+ .|+..+|+.+|++.+++.        ++-....+++.|+..++.|+..+|
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etY  107 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETY  107 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHH
Confidence            34556667777999999999999999999 999999999999987653        244667889999999999999999


Q ss_pred             HHHHHHHHh
Q 005476          160 NTLIHLYAN  168 (695)
Q Consensus       160 ~~Li~~y~~  168 (695)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            999887764

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.01  E-value=0.0016  Score=51.33  Aligned_cols=80  Identities=23%  Similarity=0.274  Sum_probs=49.3

Q ss_pred             cCChHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCC-ChhHHHHHHHHHhhcCCHHHH
Q 005476          402 NGQGERALETYYIMREKNI-EPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEP-RMEHYGCMVDILGRAGLVEEA  479 (695)
Q Consensus       402 ~g~~~~A~~l~~~m~~~g~-~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A  479 (695)
                      .|+++.|+.+|+++.+... .|+...+..+..++.+.|++++|.++++. .   ...| +......+...|.+.|++++|
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~---~~~~~~~~~~~l~a~~~~~l~~y~eA   77 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-L---KLDPSNPDIHYLLARCLLKLGKYEEA   77 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-H---THHHCHHHHHHHHHHHHHHTT-HHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-h---CCCCCCHHHHHHHHHHHHHhCCHHHH
Confidence            5777888888888877322 11334444567777788888888888776 2   2222 223334456777777777777


Q ss_pred             HHHHHh
Q 005476          480 YQFIKN  485 (695)
Q Consensus       480 ~~~~~~  485 (695)
                      ++.+++
T Consensus        78 i~~l~~   83 (84)
T PF12895_consen   78 IKALEK   83 (84)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            777764

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=96.96  E-value=0.059  Score=53.73  Aligned_cols=54  Identities=19%  Similarity=0.370  Sum_probs=22.7

Q ss_pred             HHHHhc-CChHHHHHHHHHHHH----CCCCCC--HHHHHHHHHHHhccccHHHHHHHHHHch
Q 005476          397 QCLASN-GQGERALETYYIMRE----KNIEPN--DVAFIAVLSACSHVGMVDEGRELFVSMS  451 (695)
Q Consensus       397 ~~~~~~-g~~~~A~~l~~~m~~----~g~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~~~  451 (695)
                      ..|... |++++|++.|++..+    .| .+.  ...+..+...+.+.|++++|.++|+++.
T Consensus       122 ~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~  182 (282)
T PF14938_consen  122 EIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVA  182 (282)
T ss_dssp             HHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            344444 555555555555432    12 111  1133444444555555555555555543

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.96  E-value=0.014  Score=60.44  Aligned_cols=80  Identities=10%  Similarity=0.060  Sum_probs=47.7

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhc
Q 005476          191 NSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKC  270 (695)
Q Consensus       191 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~  270 (695)
                      .++|+.|.+.|..++++.+++.=...|+-||.+|++.+|..+.+.|++..|.++...|...+...+..++..-+.++.+.
T Consensus       107 ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  107 HALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            45666666666666666666666666666666666666666666666666666666666555444444444444444444

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=96.93  E-value=0.52  Score=47.00  Aligned_cols=95  Identities=14%  Similarity=0.116  Sum_probs=55.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCC-----CCHH-HHHHHHHHHhccccHHHHHHHHHHchhh-cCCCCC--hhH
Q 005476          392 WTVLIQCLASNGQGERALETYYIMREKNIE-----PNDV-AFIAVLSACSHVGMVDEGRELFVSMSRD-FDLEPR--MEH  462 (695)
Q Consensus       392 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-----p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~-~~~~p~--~~~  462 (695)
                      +..+...+.+.|++++|+++|++....-..     .+.. .|...+-.+...|+...|.+.|+..... .++..+  ...
T Consensus       158 ~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~  237 (282)
T PF14938_consen  158 LLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKF  237 (282)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHH
Confidence            334566777888888888888887664322     1222 2333344556678888888888876532 122222  344


Q ss_pred             HHHHHHHHhh--cCCHHHHHHHHHhC
Q 005476          463 YGCMVDILGR--AGLVEEAYQFIKNM  486 (695)
Q Consensus       463 ~~~li~~~~~--~g~~~~A~~~~~~m  486 (695)
                      ...|++++-.  ...+++|..-|+.+
T Consensus       238 ~~~l~~A~~~~D~e~f~~av~~~d~~  263 (282)
T PF14938_consen  238 LEDLLEAYEEGDVEAFTEAVAEYDSI  263 (282)
T ss_dssp             HHHHHHHHHTT-CCCHHHHCHHHTTS
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHccc
Confidence            5566666643  34677777777776

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.91  E-value=0.1  Score=49.02  Aligned_cols=170  Identities=14%  Similarity=0.037  Sum_probs=117.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcCC----------CChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHH
Q 005476          260 MTAVVDMYAKCGHVDKARRLFEQMNI----------KDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSV  329 (695)
Q Consensus       260 ~~~li~~~~~~g~~~~A~~~f~~m~~----------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~l  329 (695)
                      +++|...|.-..-+++-...|+.-..          +-....+.++..+.-.|.+.-.+.++++.++...+.+....+.+
T Consensus       139 qesLdRl~~L~~~V~~ii~~~e~~~~~ESsv~lW~KRl~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~L  218 (366)
T KOG2796|consen  139 QESLDRLHKLKTVVSKILANLEQGLAEESSIRLWRKRLGRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGL  218 (366)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHH
Confidence            34555555444444444444443322          12234566777777788888889999999887656677788888


Q ss_pred             HHHHhccCChhHHHHHHHHHHHhC-----CCCchHHHhHHhcchhhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHh
Q 005476          330 LSCCAVLGALETGKWVHLYVKKKR-----MELTITLGTALMDFYAKCGLIENAVEVFKKMPL---KNVFFWTVLIQCLAS  401 (695)
Q Consensus       330 l~a~~~~~~~~~a~~i~~~~~~~~-----~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~  401 (695)
                      .+.-.+.|+.+.+...++...+..     ......+.......|.-..++..|...|++++.   .|++.-|.-.-+..-
T Consensus       219 gr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllY  298 (366)
T KOG2796|consen  219 GRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLY  298 (366)
T ss_pred             HHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHH
Confidence            888889999999999998777643     333344444445567777888999999988775   356666666666666


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005476          402 NGQGERALETYYIMREKNIEPNDVAFIAVL  431 (695)
Q Consensus       402 ~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll  431 (695)
                      .|+..+|++..+.|.+  ..|...+-.+++
T Consensus       299 lg~l~DAiK~~e~~~~--~~P~~~l~es~~  326 (366)
T KOG2796|consen  299 LGKLKDALKQLEAMVQ--QDPRHYLHESVL  326 (366)
T ss_pred             HHHHHHHHHHHHHHhc--cCCccchhhhHH
Confidence            7899999999999998  566665554443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.90  E-value=0.007  Score=60.01  Aligned_cols=129  Identities=12%  Similarity=0.025  Sum_probs=94.6

Q ss_pred             HHHHHHHHHhccccHHHHHHHHHH---chhhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-------CC-CCCHh
Q 005476          426 AFIAVLSACSHVGMVDEGRELFVS---MSRDFDLEP-RMEHYGCMVDILGRAGLVEEAYQFIKNM-------PI-PPNPV  493 (695)
Q Consensus       426 t~~~ll~a~~~~g~~~~a~~~~~~---~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~-~p~~~  493 (695)
                      .|..|.+.|.-.|+++.|+..++.   +.+++|-+. ....+..|...+.-.|+++.|.+.++..       +. .....
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            566666666777899999887764   233445443 2456778888999999999999988763       21 22345


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhc----C--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          494 IWRTLLAACRAHKNVKVGEESLKNLVTL----E--PMHSGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       494 ~~~~ll~a~~~~g~~~~a~~~~~~~~~~----~--p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      +.-+|.++|....+++.|+.++.+-+.+    +  .....++.+|+++|...|..++|+.+...-.+
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            5667888888888999999988876653    2  23345788999999999999999888776554

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.87  E-value=0.03  Score=60.45  Aligned_cols=49  Identities=18%  Similarity=0.238  Sum_probs=38.8

Q ss_pred             hhHHHHHHHHHHhc--CCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 005476          508 VKVGEESLKNLVTL--EPMHSGDYILLSDIYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       508 ~~~a~~~~~~~~~~--~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      ...+.+..++...+  +|.++..|..++-.+...|++++|...+++..+.+
T Consensus       400 l~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~  450 (517)
T PRK10153        400 LAALSTELDNIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE  450 (517)
T ss_pred             HHHHHHHHHHhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Confidence            34555566666554  67777889999888889999999999999999866

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.87  E-value=0.057  Score=56.82  Aligned_cols=167  Identities=13%  Similarity=0.182  Sum_probs=99.0

Q ss_pred             HHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhc
Q 005476          304 CKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKK  383 (695)
Q Consensus       304 ~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~  383 (695)
                      +-+.+.-+++|++.|-.|+.....   ..|+-.|.+.+|..+|.+   .|.+      |..+.+|.....++.|.+++..
T Consensus       616 ~L~li~EL~~~k~rge~P~~iLlA---~~~Ay~gKF~EAAklFk~---~G~e------nRAlEmyTDlRMFD~aQE~~~~  683 (1081)
T KOG1538|consen  616 YLELISELEERKKRGETPNDLLLA---DVFAYQGKFHEAAKLFKR---SGHE------NRALEMYTDLRMFDYAQEFLGS  683 (1081)
T ss_pred             HHHHHHHHHHHHhcCCCchHHHHH---HHHHhhhhHHHHHHHHHH---cCch------hhHHHHHHHHHHHHHHHHHhhc
Confidence            445556678888888888876543   345667888888777643   3332      3345666666666667666654


Q ss_pred             CCC--------------CChhHHHHHHHHHHhcCChHHHHHHHH------HHHHCCCCC---CHHHHHHHHHHHhccccH
Q 005476          384 MPL--------------KNVFFWTVLIQCLASNGQGERALETYY------IMREKNIEP---NDVAFIAVLSACSHVGMV  440 (695)
Q Consensus       384 ~~~--------------~~~~~~~~li~~~~~~g~~~~A~~l~~------~m~~~g~~p---~~~t~~~ll~a~~~~g~~  440 (695)
                      -..              +|+.--.+-...+...|+.++|..+.-      -+.+-+-+.   +..+...+...+.+...+
T Consensus       684 g~~~eKKmL~RKRA~WAr~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~  763 (1081)
T KOG1538|consen  684 GDPKEKKMLIRKRADWARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSP  763 (1081)
T ss_pred             CChHHHHHHHHHHHHHhhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhcccc
Confidence            321              011111122333445666666665421      122222222   233555555555566677


Q ss_pred             HHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCH
Q 005476          441 DEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMP-IPPNP  492 (695)
Q Consensus       441 ~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~  492 (695)
                      ..|-++|.+|-.          ...++++....+++++|..+-++.| +.||+
T Consensus       764 gLAaeIF~k~gD----------~ksiVqlHve~~~W~eAFalAe~hPe~~~dV  806 (1081)
T KOG1538|consen  764 GLAAEIFLKMGD----------LKSLVQLHVETQRWDEAFALAEKHPEFKDDV  806 (1081)
T ss_pred             chHHHHHHHhcc----------HHHHhhheeecccchHhHhhhhhCccccccc
Confidence            778888887732          2467888899999999999999885 34443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.84  E-value=0.087  Score=50.98  Aligned_cols=171  Identities=9%  Similarity=0.025  Sum_probs=95.5

Q ss_pred             HhcchhhcCCHHHHHHHHhcCCCC--Ch-hH---HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHh
Q 005476          364 LMDFYAKCGLIENAVEVFKKMPLK--NV-FF---WTVLIQCLASNGQGERALETYYIMREKNIEPND--VAFIAVLSACS  435 (695)
Q Consensus       364 li~~y~~~g~~~~A~~~~~~~~~~--~~-~~---~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~--~t~~~ll~a~~  435 (695)
                      ....+.+.|++++|.+.|+.+...  +. ..   .-.++.+|.+.+++++|...|++..+  ..|+.  ..+...+.+.+
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~--~~P~~~~~~~a~Y~~g~~  115 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIR--LNPTHPNIDYVLYMRGLT  115 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH--hCcCCCchHHHHHHHHHh
Confidence            334445567777777777766542  11 11   12344556667777777777777766  33332  23333333322


Q ss_pred             c--cc---------------c---HHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhhH
Q 005476          436 H--VG---------------M---VDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIW  495 (695)
Q Consensus       436 ~--~g---------------~---~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~  495 (695)
                      .  .+               +   ..+|.+.|+.                +++-|-...-..+|...+..+...--..- 
T Consensus       116 ~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~----------------li~~yP~S~ya~~A~~rl~~l~~~la~~e-  178 (243)
T PRK10866        116 NMALDDSALQGFFGVDRSDRDPQHARAAFRDFSK----------------LVRGYPNSQYTTDATKRLVFLKDRLAKYE-  178 (243)
T ss_pred             hhhcchhhhhhccCCCccccCHHHHHHHHHHHHH----------------HHHHCcCChhHHHHHHHHHHHHHHHHHHH-
Confidence            1  00               1   1122233333                33333333334444443333310000001 


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhcCCCCcc---cHHHHHHHHHHcCCHHHHHHHHHHHH
Q 005476          496 RTLLAACRAHKNVKVGEESLKNLVTLEPMHSG---DYILLSDIYASAGRCEDALRVMNQMR  553 (695)
Q Consensus       496 ~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~a~~~~~~m~  553 (695)
                      -.+..-|.+.|.+..|..-++.+++.-|+.+.   +...+..+|.+.|..++|.++.+.+.
T Consensus       179 ~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        179 LSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            12344588899999999999999998876543   56688899999999999999887664

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=96.83  E-value=0.013  Score=58.15  Aligned_cols=129  Identities=12%  Similarity=0.156  Sum_probs=99.7

Q ss_pred             HHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhh-cCCHHHHHHHHHhC--CCCCCHhhHHHHHHH
Q 005476          425 VAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGR-AGLVEEAYQFIKNM--PIPPNPVIWRTLLAA  501 (695)
Q Consensus       425 ~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~m--~~~p~~~~~~~ll~a  501 (695)
                      .+|..++..+-+.+..+.|+.+|..+.+.  -..+..+|-....+-.+ .++.+.|.++|+..  .+..+...|...+.-
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~--~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKD--KRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            46888889999999999999999999753  22344555555556444 46666699999986  344578889999999


Q ss_pred             HHhcCChhHHHHHHHHHHhcCCCCc---ccHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 005476          502 CRAHKNVKVGEESLKNLVTLEPMHS---GDYILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       502 ~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      +...++.+.+..+|++++..-|.+.   ..|..++..=.+.|+++.+.++.+++.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999999998765543   47888888889999999999999998874

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=96.81  E-value=0.0022  Score=48.29  Aligned_cols=65  Identities=20%  Similarity=0.261  Sum_probs=52.6

Q ss_pred             ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcC-ChhHHHHHHHHHHhcCC
Q 005476          459 RMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHK-NVKVGEESLKNLVTLEP  523 (695)
Q Consensus       459 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g-~~~~a~~~~~~~~~~~p  523 (695)
                      +...|..+...+.+.|++++|+..|++. ...| +...|..+..++...| ++++|++.++++++++|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            3556777888888888888888888875 3445 4668888888899998 79999999999999887

...

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.79  E-value=1.1  Score=48.73  Aligned_cols=355  Identities=12%  Similarity=0.076  Sum_probs=179.5

Q ss_pred             HHcCCCchHHHHHHHHH--------HhCCCCCChhhHH-----HHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHH
Q 005476           96 FTLKQSPQEAVMLYKTM--------LQNSVEPDRFTFA-----CTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTL  162 (695)
Q Consensus        96 ~~~~g~~~~A~~~~~~m--------~~~g~~p~~~~~~-----~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~L  162 (695)
                      +.+.-++++-..+-...        ..-|++.+..-|.     .++.-+...+.+..|.++-..+...-... ..++...
T Consensus       399 ~l~~~~~d~~~~v~~~lrVln~~r~~~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~Vl~~W  477 (829)
T KOG2280|consen  399 SLRTPNPDEYMRVCRELRVLNALRDVRIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQG-DRVLLEW  477 (829)
T ss_pred             ccccCChHHHHHHHHHHHHHhhhcccccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccc-cHHHHHH
Confidence            44555555544443333        2345555554444     34666677788888888776664322122 5777777


Q ss_pred             HHHHHhcC---ChhHHHHHHhccCC--CCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCC----CCHhHHHHHHHHHh
Q 005476          163 IHLYANCG---RIDIARKMFDRMSN--RDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVK----FDEVTLINVLMACG  233 (695)
Q Consensus       163 i~~y~~~g---~~~~A~~~f~~m~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~----pd~~t~~~ll~a~~  233 (695)
                      ..-+.+..   +-+.+..+-+++..  ...++|..+.+-..+.|+.+-|..+++.=...+-.    .+..-+...+.-+.
T Consensus       478 a~~kI~~~d~~d~~vld~I~~kls~~~~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kai  557 (829)
T KOG2280|consen  478 ARRKIKQSDKMDEEVLDKIDEKLSAKLTPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAI  557 (829)
T ss_pred             HHHHHhccCccchHHHHHHHHHhcccCCCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHH
Confidence            77777763   33344555555555  56778988888888999999998887653222111    01112445566666


Q ss_pred             ccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHHhcCC-CChhHHHHHHHHHHhcCCHHHHHHHHH
Q 005476          234 RLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNI-KDVVAWSAMISGYSQARRCKEALGVFH  312 (695)
Q Consensus       234 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~-~~~~~~~~li~~~~~~g~~~~A~~~~~  312 (695)
                      ..|+.+...+++-++.+.-   +...+      ..-..+...|..+|.+.-. .|..+    +..+-+.++-.+++.-|.
T Consensus       558 es~d~~Li~~Vllhlk~~~---~~s~l------~~~l~~~p~a~~lY~~~~r~~~~~~----l~d~y~q~dn~~~~a~~~  624 (829)
T KOG2280|consen  558 ESGDTDLIIQVLLHLKNKL---NRSSL------FMTLRNQPLALSLYRQFMRHQDRAT----LYDFYNQDDNHQALASFH  624 (829)
T ss_pred             hcCCchhHHHHHHHHHHHH---HHHHH------HHHHHhchhhhHHHHHHHHhhchhh----hhhhhhcccchhhhhhhh
Confidence            6777776666665554431   00001      1111223344444444321 11111    111122222222222221


Q ss_pred             Hh------HHCCCCCCHHHHHHHHHHHhccCChhHHH-HHHHHH---------H-HhCCCCchHHHhHHhcchhhcCCHH
Q 005476          313 DM------QMANVVPNEVTMVSVLSCCAVLGALETGK-WVHLYV---------K-KKRMELTITLGTALMDFYAKCGLIE  375 (695)
Q Consensus       313 ~m------~~~g~~pd~~t~~~ll~a~~~~~~~~~a~-~i~~~~---------~-~~~~~~~~~~~~~li~~y~~~g~~~  375 (695)
                      .-      ...|..|+..   ..-++|++........ .+-+.+         . +.|....-.+.+--+.-+...|+..
T Consensus       625 ~q~~~~~~~~~~r~~~lk---~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k  701 (829)
T KOG2280|consen  625 LQASYAAETIEGRIPALK---TAANAFAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNK  701 (829)
T ss_pred             hhhhhhhhhhcccchhHH---HHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchH
Confidence            10      0122333332   3334444444322111 111111         1 1121111111222222334456777


Q ss_pred             HHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcC
Q 005476          376 NAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFD  455 (695)
Q Consensus       376 ~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  455 (695)
                      +|.++-.+..-+|-..|-.-+.+++..+++++-+++-+.+.      .++-|.-...+|.+.|+.++|.+++.+..   |
T Consensus       702 ~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~~n~~EA~KYiprv~---~  772 (829)
T KOG2280|consen  702 RAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQGNKDEAKKYIPRVG---G  772 (829)
T ss_pred             HHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhcccHHHHhhhhhccC---C
Confidence            77777777777777777777777777777766555443332      13445555667777777777777765542   2


Q ss_pred             CCCChhHHHHHHHHHhhcCCHHHHHHHH
Q 005476          456 LEPRMEHYGCMVDILGRAGLVEEAYQFI  483 (695)
Q Consensus       456 ~~p~~~~~~~li~~~~~~g~~~~A~~~~  483 (695)
                      +.       -.+.+|.+.|++.+|.++-
T Consensus       773 l~-------ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  773 LQ-------EKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             hH-------HHHHHHHHhccHHHHHHHH
Confidence            11       3566777777777776554

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=96.78  E-value=0.019  Score=46.53  Aligned_cols=78  Identities=13%  Similarity=0.091  Sum_probs=64.5

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHHcCC-CCCHhHHHHHHHHHhccC--------ChhHHHHHHHHHHHhCCCCchHHHHH
Q 005476          192 SMFSGYVKTECWREIVDLFNEMRDLGV-KFDEVTLINVLMACGRLA--------DIELGGWISEYMEEKELNGNVKLMTA  262 (695)
Q Consensus       192 ~li~~~~~~g~~~~A~~~~~~m~~~g~-~pd~~t~~~ll~a~~~~~--------~~~~a~~~~~~~~~~g~~~~~~~~~~  262 (695)
                      ..|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        .+.....+++.++..++.|+..+|+.
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYni  109 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNI  109 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHH
Confidence            456666677999999999999999999 999999999999887643        23456788899999999999999999


Q ss_pred             HHHHHHh
Q 005476          263 VVDMYAK  269 (695)
Q Consensus       263 li~~~~~  269 (695)
                      ++..+.+
T Consensus       110 vl~~Llk  116 (120)
T PF08579_consen  110 VLGSLLK  116 (120)
T ss_pred             HHHHHHH
Confidence            9887755

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.77  E-value=0.028  Score=49.19  Aligned_cols=87  Identities=8%  Similarity=-0.030  Sum_probs=42.5

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHHHHchhhcCCCC-ChhHHHHHHHHHh
Q 005476          394 VLIQCLASNGQGERALETYYIMREKNIEPNDV-AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEP-RMEHYGCMVDILG  471 (695)
Q Consensus       394 ~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~  471 (695)
                      .+..-+.+.|++++|..+|+-+..  +.|... -|..|..+|-..|++++|+..|.....   +.| ++..+-.+...|.
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~~--~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~---L~~ddp~~~~~ag~c~L  114 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLTI--YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQ---IKIDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHh---cCCCCchHHHHHHHHHH
Confidence            333444455555555555555555  444433 334444444555555555555555432   222 3444444444555


Q ss_pred             hcCCHHHHHHHHHh
Q 005476          472 RAGLVEEAYQFIKN  485 (695)
Q Consensus       472 ~~g~~~~A~~~~~~  485 (695)
                      ..|+.+.|.+-|+.
T Consensus       115 ~lG~~~~A~~aF~~  128 (157)
T PRK15363        115 ACDNVCYAIKALKA  128 (157)
T ss_pred             HcCCHHHHHHHHHH
Confidence            55555555544443

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.76  E-value=0.013  Score=60.54  Aligned_cols=120  Identities=14%  Similarity=0.122  Sum_probs=88.7

Q ss_pred             CCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHh--CCCCCccHHHHHHHHHHhcCChhHHHHHHhccCC----CCeeh
Q 005476          116 SVEPDRFTFACTLKACSRIRALEEGEQIHAQILKS--GFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSN----RDVFS  189 (695)
Q Consensus       116 g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~----~~~~~  189 (695)
                      +.+.+......+++.+....+++.+..++-.....  ....-..+..++|+.|.+.|..+.+..+++.=..    ||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            34456677777888888777888888777776655  2223345667888888888888888888876444    78888


Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhcc
Q 005476          190 WNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRL  235 (695)
Q Consensus       190 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~  235 (695)
                      +|.||..+.+.|++..|.++...|...+...+..|+...+.+|.+.
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            8888888888888888888888887777777777777666666544

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.75  E-value=0.036  Score=46.61  Aligned_cols=92  Identities=21%  Similarity=0.200  Sum_probs=68.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHhccccHHHHHHHHHHchhhcCCCC-ChhHHHHHHHHHh
Q 005476          395 LIQCLASNGQGERALETYYIMREKNIEPND--VAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEP-RMEHYGCMVDILG  471 (695)
Q Consensus       395 li~~~~~~g~~~~A~~l~~~m~~~g~~p~~--~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~  471 (695)
                      ...++-..|+.++|+.+|++....|.....  ..+..+.+++...|++++|..+++.....+.-.+ +......+...+.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            445677889999999999999998877653  3677888899999999999999998876432111 2223333455778


Q ss_pred             hcCCHHHHHHHHHhC
Q 005476          472 RAGLVEEAYQFIKNM  486 (695)
Q Consensus       472 ~~g~~~~A~~~~~~m  486 (695)
                      ..|+.++|.+.+-..
T Consensus        87 ~~gr~~eAl~~~l~~  101 (120)
T PF12688_consen   87 NLGRPKEALEWLLEA  101 (120)
T ss_pred             HCCCHHHHHHHHHHH
Confidence            889999998876543

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.73  E-value=0.75  Score=46.02  Aligned_cols=210  Identities=17%  Similarity=0.156  Sum_probs=130.4

Q ss_pred             ccCChhHHHHHHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCC-----CCChh--HHHHHHHHHH---hcCC
Q 005476          335 VLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMP-----LKNVF--FWTVLIQCLA---SNGQ  404 (695)
Q Consensus       335 ~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~-----~~~~~--~~~~li~~~~---~~g~  404 (695)
                      +.|+.+.+.++-+..-..- +.-.....+.++..+..|+++.|+++.+.-.     ++|+.  .--.|+.+-+   -.-+
T Consensus       166 r~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldad  244 (531)
T COG3898         166 RLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDAD  244 (531)
T ss_pred             hcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCC
Confidence            4455555544444333321 1223344555566666666666666665432     23332  1222232221   1234


Q ss_pred             hHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHH--H-
Q 005476          405 GERALETYYIMREKNIEPNDV-AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEA--Y-  480 (695)
Q Consensus       405 ~~~A~~l~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A--~-  480 (695)
                      ...|...-.+..+  +.||.+ .-.....++.+.|++.++-.+++.+-   +..|.+..+...+  +.|.|+....  . 
T Consensus       245 p~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aW---K~ePHP~ia~lY~--~ar~gdta~dRlkR  317 (531)
T COG3898         245 PASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAW---KAEPHPDIALLYV--RARSGDTALDRLKR  317 (531)
T ss_pred             hHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHH---hcCCChHHHHHHH--HhcCCCcHHHHHHH
Confidence            5566666555555  788876 44455678899999999999999986   4567776654433  4455542221  1 


Q ss_pred             -HHHHhCCCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHc-CCHHHHHHHHHHHHhC
Q 005476          481 -QFIKNMPIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASA-GRCEDALRVMNQMREQ  555 (695)
Q Consensus       481 -~~~~~m~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~~  555 (695)
                       +-++.|  +| +..+.-++..+-...|++..|..-.+.+....|.. +.|..|.++-... |+-.++...+-+..+.
T Consensus       318 a~~L~sl--k~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~pre-s~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         318 AKKLESL--KPNNAESSLAVAEAALDAGEFSAARAKAEAAAREAPRE-SAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             HHHHHhc--CccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCchh-hHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence             122333  45 45666677788889999999999999999999964 6888999987655 9999998888776653

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.72  E-value=0.26  Score=47.67  Aligned_cols=56  Identities=13%  Similarity=0.067  Sum_probs=38.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCCCC---hhH---HHHHHHHHHhcCCHHHHHHHHHHhHHCC
Q 005476          263 VVDMYAKCGHVDKARRLFEQMNIKD---VVA---WSAMISGYSQARRCKEALGVFHDMQMAN  318 (695)
Q Consensus       263 li~~~~~~g~~~~A~~~f~~m~~~~---~~~---~~~li~~~~~~g~~~~A~~~~~~m~~~g  318 (695)
                      ....+...|++++|.+.|+++....   ...   .-.++.+|.+.+++++|...|++..+.-
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~   99 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN   99 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Confidence            4444567788888888888875431   122   2345667788888888888888887753

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.72  E-value=0.012  Score=57.42  Aligned_cols=93  Identities=13%  Similarity=0.094  Sum_probs=56.9

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCCCCH----hhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC---cccHHHHHH
Q 005476          463 YGCMVDILGRAGLVEEAYQFIKNM-PIPPNP----VIWRTLLAACRAHKNVKVGEESLKNLVTLEPMH---SGDYILLSD  534 (695)
Q Consensus       463 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~----~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~  534 (695)
                      |..-+..+.+.|++++|...|+.. ...|+.    ..+--+..++...|+++.|...|+.+++..|++   +.++..++.
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~  225 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGV  225 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHH
Confidence            444444445556666666666554 122321    234445666777777777777777777766654   334455566


Q ss_pred             HHHHcCCHHHHHHHHHHHHhC
Q 005476          535 IYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       535 ~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      +|...|++++|.++++...+.
T Consensus       226 ~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        226 IMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            777777777777777776653

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=96.72  E-value=0.0022  Score=48.11  Aligned_cols=48  Identities=19%  Similarity=0.168  Sum_probs=22.6

Q ss_pred             cccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC
Q 005476          437 VGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM  486 (695)
Q Consensus       437 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  486 (695)
                      .|++++|.++|+.+...  .+-+...+..++.+|.+.|++++|.++++++
T Consensus         4 ~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~   51 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQR--NPDNPEARLLLAQCYLKQGQYDEAEELLERL   51 (68)
T ss_dssp             TTHHHHHHHHHHHHHHH--TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCC
T ss_pred             ccCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            45555555555555432  1123444444555555555555555555554

...

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.71  E-value=0.86  Score=46.43  Aligned_cols=143  Identities=14%  Similarity=0.116  Sum_probs=92.8

Q ss_pred             hHHHHHHHHHHhcCCCCchhHHHHHHHHHccCCCCCHHHHHHHhccCCCCCc---chHHHHHHHHHcCCCchHHHHHHHH
Q 005476           35 DLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDS---SAYNIMIRAFTLKQSPQEAVMLYKT  111 (695)
Q Consensus        35 ~~~~~~~~~~~~g~~~~~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~  111 (695)
                      +.-++..++...  +.|...|-.|+.-|...   |..++-++++++|..|-+   .+|..-|++-...+++.....+|.+
T Consensus        27 D~lrLRerIkdN--PtnI~S~fqLiq~~~tq---~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~r  101 (660)
T COG5107          27 DELRLRERIKDN--PTNILSYFQLIQYLETQ---ESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGR  101 (660)
T ss_pred             hHHHHHHHhhcC--chhHHHHHHHHHHHhhh---hhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHH
Confidence            334444544433  45788899999999999   999999999999987754   3799999988888899999999999


Q ss_pred             HHhCCCCCChhhHHHHHHHHhccCChH------HHHHHHHHHHH-hCCCCC-ccHHHHHHHHHHh---------cCChhH
Q 005476          112 MLQNSVEPDRFTFACTLKACSRIRALE------EGEQIHAQILK-SGFGCR-QLVTNTLIHLYAN---------CGRIDI  174 (695)
Q Consensus       112 m~~~g~~p~~~~~~~ll~~~~~~~~~~------~a~~~~~~~~~-~g~~~~-~~~~~~Li~~y~~---------~g~~~~  174 (695)
                      .+.....  ...|..-|.-..+....-      .-.+.++..+. .+++|- ...|+..+...-.         ..++|.
T Consensus       102 CL~k~l~--ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~  179 (660)
T COG5107         102 CLKKSLN--LDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDK  179 (660)
T ss_pred             HHhhhcc--HhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHH
Confidence            8876544  445555555444433221      12234444443 345543 3456655554431         234566


Q ss_pred             HHHHHhccCC
Q 005476          175 ARKMFDRMSN  184 (695)
Q Consensus       175 A~~~f~~m~~  184 (695)
                      .++.+.++..
T Consensus       180 iR~~Y~ral~  189 (660)
T COG5107         180 IRNGYMRALQ  189 (660)
T ss_pred             HHHHHHHHHc
Confidence            6677776654

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=96.68  E-value=0.015  Score=53.30  Aligned_cols=97  Identities=18%  Similarity=0.214  Sum_probs=73.7

Q ss_pred             HHHHhcC--CCCChhHHHHHHHHHHh-----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcc-------------
Q 005476          378 VEVFKKM--PLKNVFFWTVLIQCLAS-----NGQGERALETYYIMREKNIEPNDVAFIAVLSACSHV-------------  437 (695)
Q Consensus       378 ~~~~~~~--~~~~~~~~~~li~~~~~-----~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~-------------  437 (695)
                      ...|+..  ..+|-.+|..++..|.+     .|..+=....++.|.+-|+.-|..+|+.||..+=+.             
T Consensus        34 ~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~  113 (228)
T PF06239_consen   34 EELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFM  113 (228)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhc
Confidence            4455555  45677888888888775     466777777888999999999999999999877542             


Q ss_pred             ---ccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCC
Q 005476          438 ---GMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGL  475 (695)
Q Consensus       438 ---g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  475 (695)
                         .+.+-|++++++|.. +|+.||.+++..|++.+++.+.
T Consensus       114 hyp~Qq~c~i~lL~qME~-~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMEN-NGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             cCcHHHHHHHHHHHHHHH-cCCCCcHHHHHHHHHHhccccH
Confidence               234567888888854 6888888888888888877664

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.68  E-value=1.2  Score=47.81  Aligned_cols=374  Identities=14%  Similarity=0.110  Sum_probs=186.7

Q ss_pred             CCChhhHHHHHHHHhccCChHHHHHHHHHHHHh-CC--------CCCccHHHHHHHHHHhcCChhHHHHHHhccCCCCee
Q 005476          118 EPDRFTFACTLKACSRIRALEEGEQIHAQILKS-GF--------GCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVF  188 (695)
Q Consensus       118 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-g~--------~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~  188 (695)
                      .|.+..|..+.......-+++.|+..|-+.... |+        -.+...-.+=|.+|  -|++++|++++-.|..+|. 
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~feeaek~yld~drrDL-  765 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFEEAEKLYLDADRRDL-  765 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchhHhhhhhhccchhhh-
Confidence            355666666666555555555555544332110 11        01111112223333  3899999999998887775 


Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCC----HhHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHHHHH
Q 005476          189 SWNSMFSGYVKTECWREIVDLFNEMRDLGVKFD----EVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVV  264 (695)
Q Consensus       189 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd----~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  264 (695)
                          -|..+.+.|+|-...++++.   .|-..|    ...+..+...++....|+.|.+.+......         ..++
T Consensus       766 ----Aielr~klgDwfrV~qL~r~---g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~---------e~~~  829 (1189)
T KOG2041|consen  766 ----AIELRKKLGDWFRVYQLIRN---GGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT---------ENQI  829 (1189)
T ss_pred             ----hHHHHHhhhhHHHHHHHHHc---cCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch---------HhHH
Confidence                35667778888766665543   222222    234667777777777777777776554321         2356


Q ss_pred             HHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHH
Q 005476          265 DMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKW  344 (695)
Q Consensus       265 ~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~  344 (695)
                      ++|.+..++++-+.+-+.+++. ....-.|...+...|.-++|.+.|-+-.    .|     ...+.+|...+++.+|.+
T Consensus       830 ecly~le~f~~LE~la~~Lpe~-s~llp~~a~mf~svGMC~qAV~a~Lr~s----~p-----kaAv~tCv~LnQW~~ave  899 (1189)
T KOG2041|consen  830 ECLYRLELFGELEVLARTLPED-SELLPVMADMFTSVGMCDQAVEAYLRRS----LP-----KAAVHTCVELNQWGEAVE  899 (1189)
T ss_pred             HHHHHHHhhhhHHHHHHhcCcc-cchHHHHHHHHHhhchHHHHHHHHHhcc----Cc-----HHHHHHHHHHHHHHHHHH
Confidence            6666666677666666666553 3445567778888888888888775432    12     134567777777777766


Q ss_pred             HHHHHHHhCCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHH----CCC
Q 005476          345 VHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMRE----KNI  420 (695)
Q Consensus       345 i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~----~g~  420 (695)
                      +-+...    -|.+.   +|+.-        .|.+++.+....      --|..+.+.|+.-+|-+++.+|.+    .+.
T Consensus       900 laq~~~----l~qv~---tliak--------~aaqll~~~~~~------eaIe~~Rka~~~~daarll~qmae~e~~K~~  958 (1189)
T KOG2041|consen  900 LAQRFQ----LPQVQ---TLIAK--------QAAQLLADANHM------EAIEKDRKAGRHLDAARLLSQMAEREQEKYV  958 (1189)
T ss_pred             HHHhcc----chhHH---HHHHH--------HHHHHHhhcchH------HHHHHhhhcccchhHHHHHHHHhHHHhhccC
Confidence            543211    11111   12211        122222221110      123456667777788888888754    345


Q ss_pred             CCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhhHHHHHH
Q 005476          421 EPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLA  500 (695)
Q Consensus       421 ~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~  500 (695)
                      +|-..--.-+|.+..- .+..++.+-.+.... +|...+.-.       +...|-+.++-++.+..-  .-...|.-++-
T Consensus       959 p~lr~KklYVL~AlLv-E~h~~~ik~~~~~~~-~g~~~dat~-------lles~~l~~~~ri~~n~W--rgAEAyHFmil 1027 (1189)
T KOG2041|consen  959 PYLRLKKLYVLGALLV-ENHRQTIKELRKIDK-HGFLEDATD-------LLESGLLAEQSRILENTW--RGAEAYHFMIL 1027 (1189)
T ss_pred             CHHHHHHHHHHHHHHH-HHHHHHHHHhhhhhh-cCcchhhhh-------hhhhhhhhhHHHHHHhhh--hhHHHHHHHHH
Confidence            5544432233333321 111122222221111 121111100       122233333333333220  11223333333


Q ss_pred             H--HHhcCChhHHHHHHHHHHhcC--CCCcccHHHHHHHHHHcCCHHHHHHHHHHH
Q 005476          501 A--CRAHKNVKVGEESLKNLVTLE--PMHSGDYILLSDIYASAGRCEDALRVMNQM  552 (695)
Q Consensus       501 a--~~~~g~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  552 (695)
                      +  ....|.++.|.+..-.+...+  -+....|..|+-+-+....+.-.-+.|-++
T Consensus      1028 AQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaaca~raFGtCSKAfmkL 1083 (1189)
T KOG2041|consen 1028 AQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALAACAVRAFGTCSKAFMKL 1083 (1189)
T ss_pred             HHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHhhhhhhhhhHHHHHHH
Confidence            3  445577777776655554422  112346666665555544454444444443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.67  E-value=0.0074  Score=61.82  Aligned_cols=65  Identities=12%  Similarity=-0.006  Sum_probs=40.9

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCccc---HHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 005476          491 NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGD---YILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       491 ~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~---~~~l~~~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      +...|+.+..+|...|++++|+..++++++++|++..+   |..++.+|...|+.++|+..+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34556666666666666666666666666666665533   666666666666666666666666553

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.66  E-value=0.09  Score=49.37  Aligned_cols=182  Identities=12%  Similarity=0.045  Sum_probs=123.6

Q ss_pred             HHHHHHHHHhcCCCCchhHHHHHHHHHccCCCCCHHHHHHHhccCCC--CCc--------chHHHHHHHHHcCCCchHHH
Q 005476           37 NQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINE--PDS--------SAYNIMIRAFTLKQSPQEAV  106 (695)
Q Consensus        37 ~~~~~~~~~~g~~~~~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~--~~~--------~~~~~li~~~~~~g~~~~A~  106 (695)
                      +-+|+.+....    ++-+++|...|.-.   .-+++-...|+.-..  ..+        ..-+.++..+.-.|.+.-.+
T Consensus       125 R~lhAe~~~~l----gnpqesLdRl~~L~---~~V~~ii~~~e~~~~~ESsv~lW~KRl~~Vmy~~~~~llG~kEy~iS~  197 (366)
T KOG2796|consen  125 RILHAELQQYL----GNPQESLDRLHKLK---TVVSKILANLEQGLAEESSIRLWRKRLGRVMYSMANCLLGMKEYVLSV  197 (366)
T ss_pred             HHHHHHHHHhc----CCcHHHHHHHHHHH---HHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHhcchhhhhhH
Confidence            77888776552    23367888887766   556666666654322  222        23456677777778888888


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHH-----HHHHHHHhcCChhHHHHHHhc
Q 005476          107 MLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTN-----TLIHLYANCGRIDIARKMFDR  181 (695)
Q Consensus       107 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~-----~Li~~y~~~g~~~~A~~~f~~  181 (695)
                      .++.+.++...+.++.....+.+.-.+.||.+.|...|+...+..-..|....+     .....|.-..++..|.+.|++
T Consensus       198 d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~  277 (366)
T KOG2796|consen  198 DAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTE  277 (366)
T ss_pred             HHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhh
Confidence            899988887666677777888888888899999999999877653334443333     333445556788888888888


Q ss_pred             cCC---CCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHH
Q 005476          182 MSN---RDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLIN  227 (695)
Q Consensus       182 m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~  227 (695)
                      ++.   +|++.-|.-.-+..-.|+...|++.++.|+..  .|...+-++
T Consensus       278 i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es  324 (366)
T KOG2796|consen  278 ILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHES  324 (366)
T ss_pred             ccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhh
Confidence            776   35555565555555678888999999988874  455444443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.64  E-value=0.027  Score=47.34  Aligned_cols=87  Identities=15%  Similarity=0.062  Sum_probs=57.1

Q ss_pred             HHHHhhcCCHHHHHHHHHhC---CCCCC--HhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCC---CcccHHHHHHHHHH
Q 005476          467 VDILGRAGLVEEAYQFIKNM---PIPPN--PVIWRTLLAACRAHKNVKVGEESLKNLVTLEPM---HSGDYILLSDIYAS  538 (695)
Q Consensus       467 i~~~~~~g~~~~A~~~~~~m---~~~p~--~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~  538 (695)
                      ..++-..|+.++|+.++++.   +....  ...+-.+.+.++..|++++|+.++++.+...|+   +......++-++..
T Consensus         8 A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~   87 (120)
T PF12688_consen    8 AWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYN   87 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHH
Confidence            44555667777777777654   22211  234555667777888888888888888777676   44455566667778


Q ss_pred             cCCHHHHHHHHHHHH
Q 005476          539 AGRCEDALRVMNQMR  553 (695)
Q Consensus       539 ~g~~~~a~~~~~~m~  553 (695)
                      .|+.++|...+-...
T Consensus        88 ~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   88 LGRPKEALEWLLEAL  102 (120)
T ss_pred             CCCHHHHHHHHHHHH
Confidence            888888887765543

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.55  E-value=0.057  Score=47.91  Aligned_cols=104  Identities=15%  Similarity=0.242  Sum_probs=90.4

Q ss_pred             hhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC---CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCC--Cc
Q 005476          452 RDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM---PIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPM--HS  526 (695)
Q Consensus       452 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~--~~  526 (695)
                      ++..+.|++..--.|...+.+.|+..||...|++.   .+.-|....-.+..+....+++..|...++.+.+.+|.  .+
T Consensus        81 ~~~~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~p  160 (251)
T COG4700          81 EELAIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSP  160 (251)
T ss_pred             HHHhhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCC
Confidence            33456688888889999999999999999999986   34557888888889999999999999999999998863  56


Q ss_pred             ccHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 005476          527 GDYILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       527 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      .....++..|...|+.++|...|+.....
T Consensus       161 d~~Ll~aR~laa~g~~a~Aesafe~a~~~  189 (251)
T COG4700         161 DGHLLFARTLAAQGKYADAESAFEVAISY  189 (251)
T ss_pred             CchHHHHHHHHhcCCchhHHHHHHHHHHh
Confidence            67889999999999999999999998874

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=96.54  E-value=0.016  Score=53.13  Aligned_cols=36  Identities=11%  Similarity=0.149  Sum_probs=27.1

Q ss_pred             ChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCC
Q 005476          136 ALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGR  171 (695)
Q Consensus       136 ~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~  171 (695)
                      +.+-|..++++|...|+-||..++..|++.+++.+.
T Consensus       118 Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  118 QQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            345677888888888888888888888888765543

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.51  E-value=0.26  Score=52.10  Aligned_cols=200  Identities=17%  Similarity=0.179  Sum_probs=113.4

Q ss_pred             hHHHHHHHHhccCChHHHHHH--HHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCCCCeehHHHHHHHHHhC
Q 005476          123 TFACTLKACSRIRALEEGEQI--HAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKT  200 (695)
Q Consensus       123 ~~~~ll~~~~~~~~~~~a~~~--~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~  200 (695)
                      .++..-++|.+.+++.--+-+  ++.+.+.|-.|+...   +...++-.|.+.+|.++|.+                  .
T Consensus       600 ~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~------------------~  658 (1081)
T KOG1538|consen  600 DFETARKAYIRVRDLRYLELISELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKR------------------S  658 (1081)
T ss_pred             hhHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHH------------------c
Confidence            345555666666665433322  445666776566543   34556677899999888864                  4


Q ss_pred             CChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHH
Q 005476          201 ECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLF  280 (695)
Q Consensus       201 g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f  280 (695)
                      |.-..|+++|.+|+--          -..+-+...|+.++-+.+.+.-.+..  .++.--.+-..++...|+.++|..+.
T Consensus       659 G~enRAlEmyTDlRMF----------D~aQE~~~~g~~~eKKmL~RKRA~WA--r~~kePkaAAEmLiSaGe~~KAi~i~  726 (1081)
T KOG1538|consen  659 GHENRALEMYTDLRMF----------DYAQEFLGSGDPKEKKMLIRKRADWA--RNIKEPKAAAEMLISAGEHVKAIEIC  726 (1081)
T ss_pred             CchhhHHHHHHHHHHH----------HHHHHHhhcCChHHHHHHHHHHHHHh--hhcCCcHHHHHHhhcccchhhhhhhh
Confidence            5556667776666431          11222333444444333332221110  01111123445666777777776652


Q ss_pred             HhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchHH
Q 005476          281 EQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITL  360 (695)
Q Consensus       281 ~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~~~~~~~  360 (695)
                                        ..+|-.+-++++-+++..    .+..+...+...+-+...+..|.+||..|-..        
T Consensus       727 ------------------~d~gW~d~lidI~rkld~----~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~--------  776 (1081)
T KOG1538|consen  727 ------------------GDHGWVDMLIDIARKLDK----AEREPLLLCATYLKKLDSPGLAAEIFLKMGDL--------  776 (1081)
T ss_pred             ------------------hcccHHHHHHHHHhhcch----hhhhHHHHHHHHHhhccccchHHHHHHHhccH--------
Confidence                              345555555555555432    23345555555555666777777777766443        


Q ss_pred             HhHHhcchhhcCCHHHHHHHHhcCCC
Q 005476          361 GTALMDFYAKCGLIENAVEVFKKMPL  386 (695)
Q Consensus       361 ~~~li~~y~~~g~~~~A~~~~~~~~~  386 (695)
                       .+++++....+++++|..+-++.++
T Consensus       777 -ksiVqlHve~~~W~eAFalAe~hPe  801 (1081)
T KOG1538|consen  777 -KSLVQLHVETQRWDEAFALAEKHPE  801 (1081)
T ss_pred             -HHHhhheeecccchHhHhhhhhCcc
Confidence             3577888888999999988888876

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=96.48  E-value=0.04  Score=50.14  Aligned_cols=80  Identities=10%  Similarity=-0.001  Sum_probs=44.5

Q ss_pred             chHHHHHHHHHcCCCchHHHHHHHHHHhCCCCC--ChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHH
Q 005476           87 SAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEP--DRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIH  164 (695)
Q Consensus        87 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~  164 (695)
                      ..|..+...+...|++++|+..|+........|  ...++..+-..+...|+.++|...+....+.. +.....++.+..
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~  114 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHH
Confidence            345566666666677777777777665532222  12355556666666667777776666666542 222334444444


Q ss_pred             HHH
Q 005476          165 LYA  167 (695)
Q Consensus       165 ~y~  167 (695)
                      .|.
T Consensus       115 i~~  117 (168)
T CHL00033        115 ICH  117 (168)
T ss_pred             HHH
Confidence            444

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.48  E-value=1.1  Score=44.87  Aligned_cols=123  Identities=12%  Similarity=0.122  Sum_probs=53.7

Q ss_pred             HHHHHHHHHc--CCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHh--ccCChHHHHHHHHHHHHhCCCCCccH--HHHH
Q 005476           89 YNIMIRAFTL--KQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACS--RIRALEEGEQIHAQILKSGFGCRQLV--TNTL  162 (695)
Q Consensus        89 ~~~li~~~~~--~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~--~~~~~~~a~~~~~~~~~~g~~~~~~~--~~~L  162 (695)
                      |.+|-.++.-  .|+-..|.++-.+..+. +..|..-+..+|.+-.  -.|+.+.|++-|+.|...   |....  ...|
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgL  160 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGL  160 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHH
Confidence            4444444433  34444454444433321 2334444444443322  335556666666555431   11111  1111


Q ss_pred             HHHHHhcCChhHHHHHHhccCC--C-CeehHHHHHHHHHhCCChhHHHHHHHHHHH
Q 005476          163 IHLYANCGRIDIARKMFDRMSN--R-DVFSWNSMFSGYVKTECWREIVDLFNEMRD  215 (695)
Q Consensus       163 i~~y~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  215 (695)
                      .----+.|..+.|+..-++.-.  | -...|.+.+...+..|+|+.|+++++.-+.
T Consensus       161 yleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~  216 (531)
T COG3898         161 YLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRA  216 (531)
T ss_pred             HHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHH
Confidence            1112244555555555444332  1 223455555666666666666666555433

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.43  E-value=0.0049  Score=41.46  Aligned_cols=42  Identities=21%  Similarity=0.340  Sum_probs=36.7

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHH
Q 005476          493 VIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSD  534 (695)
Q Consensus       493 ~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  534 (695)
                      .+|..+..++...|++++|+++++++++.+|+|+..+..|+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            357788899999999999999999999999999888777654

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.31  E-value=0.23  Score=50.42  Aligned_cols=155  Identities=15%  Similarity=0.116  Sum_probs=76.9

Q ss_pred             chhhcCCHHHHHHHHhcCCCC---Ch----hHHHHHHHHHHh---cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc
Q 005476          367 FYAKCGLIENAVEVFKKMPLK---NV----FFWTVLIQCLAS---NGQGERALETYYIMREKNIEPNDVAFIAVLSACSH  436 (695)
Q Consensus       367 ~y~~~g~~~~A~~~~~~~~~~---~~----~~~~~li~~~~~---~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~  436 (695)
                      .|....+++.-.++.+.+...   ++    ..--...-++-+   .|+.++|++++..+....-.++..||..+...|-.
T Consensus       150 SyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GRIyKD  229 (374)
T PF13281_consen  150 SYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGRIYKD  229 (374)
T ss_pred             HhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHHHHHH
Confidence            455666666666666665542   11    111122234444   67777888877776655556666676666554422


Q ss_pred             ---------cccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHH----HHHH---Hh-C----CCCC--CHh
Q 005476          437 ---------VGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEA----YQFI---KN-M----PIPP--NPV  493 (695)
Q Consensus       437 ---------~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A----~~~~---~~-m----~~~p--~~~  493 (695)
                               ....++|...|.+.   +.+.|+..+--.++..+...|.-.+.    .++-   .. .    ...+  |--
T Consensus       230 ~~~~s~~~d~~~ldkAi~~Y~kg---Fe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~dYW  306 (374)
T PF13281_consen  230 LFLESNFTDRESLDKAIEWYRKG---FEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQDYW  306 (374)
T ss_pred             HHHHcCccchHHHHHHHHHHHHH---HcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccccccHH
Confidence                     12355666665544   34455544333333333333331111    1111   00 0    1112  223


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 005476          494 IWRTLLAACRAHKNVKVGEESLKNLVTLEPM  524 (695)
Q Consensus       494 ~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~  524 (695)
                      .+.+++.++.-.||++.|.+..++++++.|+
T Consensus       307 d~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~  337 (374)
T PF13281_consen  307 DVATLLEASVLAGDYEKAIQAAEKAFKLKPP  337 (374)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhcCCc
Confidence            3345666666666666666666666666554

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.27  E-value=0.013  Score=44.55  Aligned_cols=62  Identities=18%  Similarity=0.246  Sum_probs=50.4

Q ss_pred             HHHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCccc
Q 005476          467 VDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGD  528 (695)
Q Consensus       467 i~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~  528 (695)
                      -..|.+.+++++|.+.++.+ ...| +...|......+...|+++.|.+.++++++..|+++..
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~   65 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDA   65 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHH
Confidence            35678889999999998887 4445 56677778888999999999999999999999977544

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=96.21  E-value=2.2  Score=45.47  Aligned_cols=410  Identities=11%  Similarity=0.116  Sum_probs=224.0

Q ss_pred             CCcchHHHHHHHHHcCCCchHHHHHHHHHHhCCCCCChh-hHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHH
Q 005476           84 PDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRF-TFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTL  162 (695)
Q Consensus        84 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~L  162 (695)
                      -+...|+++|..--+....+.+...+..++..  .|..+ -|.....-=.+.|..+.+.++|++.+.. ++.+...|...
T Consensus        43 ~~f~~wt~li~~~~~~~~~~~~r~~y~~fL~k--yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y  119 (577)
T KOG1258|consen   43 LDFDAWTTLIQENDSIEDVDALREVYDIFLSK--YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQA-IPLSVDLWLSY  119 (577)
T ss_pred             hcccchHHHHhccCchhHHHHHHHHHHHHHhh--CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-hhhHHHHHHHH
Confidence            34556888887665555666677777777653  34433 2333333334677888888888888764 56666677666


Q ss_pred             HHHHH-hcCChhHHHHHHhccCC------CCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHh--
Q 005476          163 IHLYA-NCGRIDIARKMFDRMSN------RDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACG--  233 (695)
Q Consensus       163 i~~y~-~~g~~~~A~~~f~~m~~------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~--  233 (695)
                      +..+. ..|+.+..++.|+...+      .+...|...|.--...+++.....++++.++.   |. ..|+....-+.  
T Consensus       120 ~~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRilei---P~-~~~~~~f~~f~~~  195 (577)
T KOG1258|consen  120 LAFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEI---PL-HQLNRHFDRFKQL  195 (577)
T ss_pred             HHHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhh---hh-hHhHHHHHHHHHH
Confidence            55544 34677777788877654      35567888888888888889999999888763   11 11222111111  


Q ss_pred             -cc------CChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCC-HHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHH
Q 005476          234 -RL------ADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGH-VDKARRLFEQMNIKDVVAWSAMISGYSQARRCK  305 (695)
Q Consensus       234 -~~------~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~-~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~  305 (695)
                       +.      ...+...++-......             ..-...++ .+.-....+....+              .+..+
T Consensus       196 l~~~~~~~l~~~d~~~~l~~~~~~~-------------~~~~~~~~~~e~~~~~v~~~~~~--------------s~~l~  248 (577)
T KOG1258|consen  196 LNQNEEKILLSIDELIQLRSDVAER-------------SKITHSQEPLEELEIGVKDSTDP--------------SKSLT  248 (577)
T ss_pred             HhcCChhhhcCHHHHHHHhhhHHhh-------------hhcccccChhHHHHHHHhhccCc--------------cchhh
Confidence             10      1111111111111100             00000000 00000111111100              01111


Q ss_pred             HHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHh-------CCCCchHHHhHHhcchhhcCCHHHHH
Q 005476          306 EALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKK-------RMELTITLGTALMDFYAKCGLIENAV  378 (695)
Q Consensus       306 ~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~-------~~~~~~~~~~~li~~y~~~g~~~~A~  378 (695)
                      ++.....+....    -..+|.       ..-.....+..++.-++.       -..++..+|+..++.-.+.|+.+.+.
T Consensus       249 ~~~~~l~~~~~~----~~~~~~-------~s~~~~~kr~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~  317 (577)
T KOG1258|consen  249 EEKTILKRIVSI----HEKVYQ-------KSEEEEEKRWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVF  317 (577)
T ss_pred             HHHHHHHHHHHH----HHHHHH-------hhHhHHHHHHhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHHHHH
Confidence            111111111000    000000       001111112222222221       11234567777777788888888888


Q ss_pred             HHHhcCCCC---ChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcC
Q 005476          379 EVFKKMPLK---NVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFD  455 (695)
Q Consensus       379 ~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  455 (695)
                      -+|++...|   -...|--.+.-....|+.+-|..++....+--++-...+-..-..-+-..|+++.|..+++.+..+  
T Consensus       318 ~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e--  395 (577)
T KOG1258|consen  318 ILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARFEESNGNFDDAKVILQRIESE--  395 (577)
T ss_pred             HHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHHHHhhccHHHHHHHHHHHHhh--
Confidence            888887654   234565555555556888888877776655433333333322223356678999999999999774  


Q ss_pred             CCCC-hhHHHHHHHHHhhcCCHHHHH---HHHHhC-CCCCCHhhHHHHHH-----HHHhcCChhHHHHHHHHHHhcCCCC
Q 005476          456 LEPR-MEHYGCMVDILGRAGLVEEAY---QFIKNM-PIPPNPVIWRTLLA-----ACRAHKNVKVGEESLKNLVTLEPMH  525 (695)
Q Consensus       456 ~~p~-~~~~~~li~~~~~~g~~~~A~---~~~~~m-~~~p~~~~~~~ll~-----a~~~~g~~~~a~~~~~~~~~~~p~~  525 (695)
                      + |+ +..-.--+.+..+.|..+.+.   +++... +.+-+..+...+.-     -+...++.+.|..++.++.+..|++
T Consensus       396 ~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~~~~~  474 (577)
T KOG1258|consen  396 Y-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYKIREDADLARIILLEANDILPDC  474 (577)
T ss_pred             C-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhhcCCcc
Confidence            3 54 334444566778889999887   555443 22223333332222     2455688999999999999999999


Q ss_pred             cccHHHHHHHHHHcCC
Q 005476          526 SGDYILLSDIYASAGR  541 (695)
Q Consensus       526 ~~~~~~l~~~~~~~g~  541 (695)
                      ...|..+++.....+.
T Consensus       475 k~~~~~~~~~~~~~~~  490 (577)
T KOG1258|consen  475 KVLYLELIRFELIQPS  490 (577)
T ss_pred             HHHHHHHHHHHHhCCc
Confidence            9999999988776663

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.20  E-value=0.041  Score=55.23  Aligned_cols=64  Identities=16%  Similarity=0.076  Sum_probs=58.0

Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 005476          492 PVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       492 ~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      ..++..|...+.+.+++..|++..+++++++|+|..+...-+.+|...|.++.|+..|+++.+.
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~  320 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKL  320 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            3456677778899999999999999999999999999999999999999999999999999873

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=96.18  E-value=0.088  Score=46.55  Aligned_cols=62  Identities=26%  Similarity=0.324  Sum_probs=53.6

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          493 VIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       493 ~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      .....++..+...|+++.|....++++..+|-+...|..++.+|...|+..+|.++|+++..
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~  124 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRR  124 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            34566777888999999999999999999999999999999999999999999999998854

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.12  E-value=0.0095  Score=46.07  Aligned_cols=62  Identities=13%  Similarity=0.151  Sum_probs=46.2

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhc----CCC---CcccHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          493 VIWRTLLAACRAHKNVKVGEESLKNLVTL----EPM---HSGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       493 ~~~~~ll~a~~~~g~~~~a~~~~~~~~~~----~p~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      .+++.+...+...|++++|+..+++++++    +++   -..++..++.+|...|++++|.+++++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            45677777788888888888888888764    222   234677889999999999999999887654

...

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.05  E-value=0.084  Score=51.56  Aligned_cols=91  Identities=8%  Similarity=0.085  Sum_probs=49.2

Q ss_pred             ccccHHHHHHHHHHchhhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC----CCCC-CHhhHHHHHHHHHhcCChh
Q 005476          436 HVGMVDEGRELFVSMSRDFDLEP-RMEHYGCMVDILGRAGLVEEAYQFIKNM----PIPP-NPVIWRTLLAACRAHKNVK  509 (695)
Q Consensus       436 ~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p-~~~~~~~ll~a~~~~g~~~  509 (695)
                      +.|++++|...|+.+++.+.-.+ ....+--+...|...|++++|...|+.+    |..| ....|-.+...+...|+.+
T Consensus       155 ~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~  234 (263)
T PRK10803        155 DKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTA  234 (263)
T ss_pred             hcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHH
Confidence            33455555555555544321111 0123344555555555666655555554    1111 1333444555666788888


Q ss_pred             HHHHHHHHHHhcCCCCc
Q 005476          510 VGEESLKNLVTLEPMHS  526 (695)
Q Consensus       510 ~a~~~~~~~~~~~p~~~  526 (695)
                      .|...++++++..|++.
T Consensus       235 ~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        235 KAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHHHHHHHHHCcCCH
Confidence            88888888888888654

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.05  E-value=0.4  Score=40.13  Aligned_cols=140  Identities=14%  Similarity=0.140  Sum_probs=85.5

Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHH
Q 005476          400 ASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEA  479 (695)
Q Consensus       400 ~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  479 (695)
                      .-.|..++..++..+...+   .+..-++.++--....-+-+-..+.++.+-+-+.+              ..+|++...
T Consensus        13 ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDi--------------s~C~NlKrV   75 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDI--------------SKCGNLKRV   75 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-G--------------GG-S-THHH
T ss_pred             HHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhcCc--------------hhhcchHHH
Confidence            3456777777887777652   24445566655444445555556666665432222              234555555


Q ss_pred             HHHHHhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCCCc
Q 005476          480 YQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIK  558 (695)
Q Consensus       480 ~~~~~~m~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  558 (695)
                      ..-+-.++  .+......-+.+...+|.-+.-.+++..+.+.+..++...+.++++|.+.|+..++.+++.+.-++|++
T Consensus        76 i~C~~~~n--~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   76 IECYAKRN--KLSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHTT-----HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            55544443  233445667788889999999999999998766667888999999999999999999999999999975

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.03  E-value=2.3  Score=46.62  Aligned_cols=100  Identities=14%  Similarity=0.112  Sum_probs=57.0

Q ss_pred             HHhccCChHHHHHHHHHHHHhCCCC---CccHHHHHHHHHHhcCChhHHHHHHhccCCCCeehHHHHHHHHHhCCChhHH
Q 005476          130 ACSRIRALEEGEQIHAQILKSGFGC---RQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREI  206 (695)
Q Consensus       130 ~~~~~~~~~~a~~~~~~~~~~g~~~---~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A  206 (695)
                      .+.+.+.+++|........  |..+   -..++..+|+.+.-.|++++|-...-.|-..+..-|.-.+..+...++....
T Consensus       365 Wll~~k~yeeAl~~~k~~~--~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~~I  442 (846)
T KOG2066|consen  365 WLLEKKKYEEALDAAKASI--GNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLTDI  442 (846)
T ss_pred             HHHHhhHHHHHHHHHHhcc--CCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccchh
Confidence            3444455555554443332  2233   2346677788888888888888888888777777777777777776665443


Q ss_pred             HHHHHHHHHcCCCCCHhHHHHHHHHHhc
Q 005476          207 VDLFNEMRDLGVKFDEVTLINVLMACGR  234 (695)
Q Consensus       207 ~~~~~~m~~~g~~pd~~t~~~ll~a~~~  234 (695)
                      ..+   +.....+.+...|..+|-.+..
T Consensus       443 a~~---lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  443 APY---LPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             hcc---CCCCCcccCchHHHHHHHHHHH
Confidence            332   2211112233445555555543

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=95.84  E-value=0.079  Score=52.86  Aligned_cols=255  Identities=14%  Similarity=-0.009  Sum_probs=133.9

Q ss_pred             HHHhCCChhHHHHHHHHHHHcCCCCCHhH----HHHHHHHHhccCChhHHHHHHHHHHH--h--CC-CCchHHHHHHHHH
Q 005476          196 GYVKTECWREIVDLFNEMRDLGVKFDEVT----LINVLMACGRLADIELGGWISEYMEE--K--EL-NGNVKLMTAVVDM  266 (695)
Q Consensus       196 ~~~~~g~~~~A~~~~~~m~~~g~~pd~~t----~~~ll~a~~~~~~~~~a~~~~~~~~~--~--g~-~~~~~~~~~li~~  266 (695)
                      -+++.|+....+.+|+..++.|- -|..|    |..+-.+|.-.+++++|.+.|..=+-  .  |- .........|.+.
T Consensus        26 RLck~gdcraGv~ff~aA~qvGT-eDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNt  104 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQVGT-EDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNT  104 (639)
T ss_pred             HHHhccchhhhHHHHHHHHHhcc-hHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccch
Confidence            35566666666666666666552 23222    44455556666666666666543211  0  10 0011222233344


Q ss_pred             HHhcCCHHHHHHHHHh-------cCCC--ChhHHHHHHHHHHhcCCH--------------------HHHHHHHHHhH--
Q 005476          267 YAKCGHVDKARRLFEQ-------MNIK--DVVAWSAMISGYSQARRC--------------------KEALGVFHDMQ--  315 (695)
Q Consensus       267 ~~~~g~~~~A~~~f~~-------m~~~--~~~~~~~li~~~~~~g~~--------------------~~A~~~~~~m~--  315 (695)
                      +--.|.+++|.....+       +..+  ...++-.+...|...|+.                    +.|.++|.+=.  
T Consensus       105 lKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l  184 (639)
T KOG1130|consen  105 LKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLEL  184 (639)
T ss_pred             hhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHH
Confidence            4445555555443221       1111  122333445555444331                    23334443211  


Q ss_pred             --HCCCC-CCHHHHHHHHHHHhccCChhHHHHHHHHHHH----hCCC-CchHHHhHHhcchhhcCCHHHHHHHHhcC---
Q 005476          316 --MANVV-PNEVTMVSVLSCCAVLGALETGKWVHLYVKK----KRME-LTITLGTALMDFYAKCGLIENAVEVFKKM---  384 (695)
Q Consensus       316 --~~g~~-pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~----~~~~-~~~~~~~~li~~y~~~g~~~~A~~~~~~~---  384 (695)
                        ..|-. .-...|..+-+.|.-.|+++.+...|+.-..    .|-. .....+..|.++|.-.|+++.|.+.|+..   
T Consensus       185 ~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~L  264 (639)
T KOG1130|consen  185 SEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNL  264 (639)
T ss_pred             HHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHH
Confidence              11100 1123455556666667888888877765433    2211 22345666778888888888888877643   


Q ss_pred             ----CCC--ChhHHHHHHHHHHhcCChHHHHHHHHHHHH----CC-CCCCHHHHHHHHHHHhccccHHHHHHHHHHch
Q 005476          385 ----PLK--NVFFWTVLIQCLASNGQGERALETYYIMRE----KN-IEPNDVAFIAVLSACSHVGMVDEGRELFVSMS  451 (695)
Q Consensus       385 ----~~~--~~~~~~~li~~~~~~g~~~~A~~l~~~m~~----~g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~  451 (695)
                          ..+  ...+..++...|.-..++++|+.++.+-..    .+ .--....+-+|..++...|..++|+.+.+.-.
T Consensus       265 Aielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  265 AIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence                222  233455677777777788888887766432    11 11233467778888888888888877665443

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=95.83  E-value=2.7  Score=43.21  Aligned_cols=72  Identities=18%  Similarity=0.195  Sum_probs=55.1

Q ss_pred             HHHHHhCCCCC----CHhhHHHHHHH--HHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHH
Q 005476          480 YQFIKNMPIPP----NPVIWRTLLAA--CRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQM  552 (695)
Q Consensus       480 ~~~~~~m~~~p----~~~~~~~ll~a--~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  552 (695)
                      ..++++.++.|    +...-|.|..|  ...+|++.++.-...-+.+..| ++.+|-.++-......++++|..++..+
T Consensus       444 e~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  444 EDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             HHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            34555555554    34456666666  5688999999888888888888 7788888888888999999999988764

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=95.71  E-value=0.016  Score=44.79  Aligned_cols=60  Identities=12%  Similarity=0.161  Sum_probs=35.8

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhC-------C-CCCC-HhhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 005476          462 HYGCMVDILGRAGLVEEAYQFIKNM-------P-IPPN-PVIWRTLLAACRAHKNVKVGEESLKNLVTL  521 (695)
Q Consensus       462 ~~~~li~~~~~~g~~~~A~~~~~~m-------~-~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~  521 (695)
                      +|+.+...|.+.|++++|++.+++.       + ..|+ ..++..+...+...|++++|++.+++++++
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            4555555555666666555555543       1 1122 445667777777777788877777777653

...

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.58  E-value=1  Score=42.32  Aligned_cols=49  Identities=12%  Similarity=0.066  Sum_probs=37.4

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCcc---cHHHHHHHHHHcCCHHHHH
Q 005476          498 LLAACRAHKNVKVGEESLKNLVTLEPMHSG---DYILLSDIYASAGRCEDAL  546 (695)
Q Consensus       498 ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~a~  546 (695)
                      +..-|.+.|.+..|..-++.+++.-|+...   +...++.+|.+.|..+.+.
T Consensus       147 ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  147 IARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            345588999999999999999999887644   4567888899999888544

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=95.55  E-value=0.13  Score=43.76  Aligned_cols=49  Identities=16%  Similarity=0.258  Sum_probs=25.7

Q ss_pred             CCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHH
Q 005476          420 IEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVD  468 (695)
Q Consensus       420 ~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  468 (695)
                      ..|+..+..+++.+++..|++..|.++.+...+.|+++-+...|..|+.
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            4455555555555555555555555555555555554444444444443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=95.40  E-value=0.2  Score=48.51  Aligned_cols=30  Identities=20%  Similarity=0.241  Sum_probs=17.8

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 005476          388 NVFFWTVLIQCLASNGQGERALETYYIMRE  417 (695)
Q Consensus       388 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~  417 (695)
                      |...|-.|...|...|+++.|..-|.+..+
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~r  184 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALR  184 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            455566666666666666666666665555

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=95.36  E-value=0.43  Score=48.06  Aligned_cols=153  Identities=16%  Similarity=0.154  Sum_probs=104.0

Q ss_pred             cchhhcCCHHHHHHHHhcCCCCChhH-HHHHHH--HHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHH---HH-------
Q 005476          366 DFYAKCGLIENAVEVFKKMPLKNVFF-WTVLIQ--CLASNGQGERALETYYIMREKNIEPNDVAFIAV---LS-------  432 (695)
Q Consensus       366 ~~y~~~g~~~~A~~~~~~~~~~~~~~-~~~li~--~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~l---l~-------  432 (695)
                      .++.-.|+.++|.++--.+.+-|... +...+.  ++-..++.+.|...|++.+.  +.|+...-..+   ..       
T Consensus       177 ~cl~~~~~~~~a~~ea~~ilkld~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~--ldpdh~~sk~~~~~~k~le~~k~  254 (486)
T KOG0550|consen  177 ECLAFLGDYDEAQSEAIDILKLDATNAEALYVRGLCLYYNDNADKAINHFQQALR--LDPDHQKSKSASMMPKKLEVKKE  254 (486)
T ss_pred             hhhhhcccchhHHHHHHHHHhcccchhHHHHhcccccccccchHHHHHHHhhhhc--cChhhhhHHhHhhhHHHHHHHHh
Confidence            34556678888877766555544332 333333  34457788999999999888  67776533222   22       


Q ss_pred             ---HHhccccHHHHHHHHHHchhhcCCCC-----ChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHh-hHHHHHHH--
Q 005476          433 ---ACSHVGMVDEGRELFVSMSRDFDLEP-----RMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPV-IWRTLLAA--  501 (695)
Q Consensus       433 ---a~~~~g~~~~a~~~~~~~~~~~~~~p-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~-~~~~ll~a--  501 (695)
                         -..+.|.+..|.+.|.+.+   ++.|     +...|.....+..+.|++++|+.--++. .+.|.. ++..+..+  
T Consensus       255 ~gN~~fk~G~y~~A~E~Yteal---~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~A-l~iD~syikall~ra~c  330 (486)
T KOG0550|consen  255 RGNDAFKNGNYRKAYECYTEAL---NIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEA-LKIDSSYIKALLRRANC  330 (486)
T ss_pred             hhhhHhhccchhHHHHHHHHhh---cCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhh-hhcCHHHHHHHHHHHHH
Confidence               2345789999999998886   4555     4566777778889999999999988776 344544 33333333  


Q ss_pred             HHhcCChhHHHHHHHHHHhcCCC
Q 005476          502 CRAHKNVKVGEESLKNLVTLEPM  524 (695)
Q Consensus       502 ~~~~g~~~~a~~~~~~~~~~~p~  524 (695)
                      +...++++.|.+-++++.+...+
T Consensus       331 ~l~le~~e~AV~d~~~a~q~~~s  353 (486)
T KOG0550|consen  331 HLALEKWEEAVEDYEKAMQLEKD  353 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHhhccc
Confidence            55668899999999999887643

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.30  E-value=2.6  Score=39.68  Aligned_cols=193  Identities=22%  Similarity=0.175  Sum_probs=116.8

Q ss_pred             HHHhHHhcchhhcCCHHHHHHHHhcCC-----CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH-
Q 005476          359 TLGTALMDFYAKCGLIENAVEVFKKMP-----LKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLS-  432 (695)
Q Consensus       359 ~~~~~li~~y~~~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~-  432 (695)
                      .........+...+.+..+...+....     ......+......+...+++.++.+.+.........+.. ....... 
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~  138 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDL-AEALLALG  138 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcch-HHHHHHHH
Confidence            344444555555566666655555432     223344555555666666677777777777663333211 1112222 


Q ss_pred             HHhccccHHHHHHHHHHchhhcCCCC----ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC--HhhHHHHHHHHHhc
Q 005476          433 ACSHVGMVDEGRELFVSMSRDFDLEP----RMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPN--PVIWRTLLAACRAH  505 (695)
Q Consensus       433 a~~~~g~~~~a~~~~~~~~~~~~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~--~~~~~~ll~a~~~~  505 (695)
                      .+...|+++.+...+.....   ..|    ....+......+...++.++|...+.+. ...++  ...+..+...+...
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  215 (291)
T COG0457         139 ALYELGDYEEALELYEKALE---LDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKL  215 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHh---cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHc
Confidence            56677777777777777642   222    2333444444466677788887777765 22333  45667777777777


Q ss_pred             CChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 005476          506 KNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       506 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      ++++.+...+...+...|.....+..+...+...|.++++...+......
T Consensus       216 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         216 GKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             ccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            78888888888888877764455666666666667788888777776653

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.27  E-value=0.12  Score=49.28  Aligned_cols=90  Identities=19%  Similarity=0.266  Sum_probs=63.1

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-------CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC---cccHHHH
Q 005476          463 YGCMVDILGRAGLVEEAYQFIKNM-------PIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMH---SGDYILL  532 (695)
Q Consensus       463 ~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l  532 (695)
                      |+.-++. .+.|++.+|...|...       ...||..-|  |..++...|+++.|...|..+.+-.|++   +.++.-|
T Consensus       145 Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yW--LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKl  221 (262)
T COG1729         145 YNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYW--LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKL  221 (262)
T ss_pred             HHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHH--HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHH
Confidence            4443333 3445566666655543       245666666  6777888888888888888888866544   5567888


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhC
Q 005476          533 SDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       533 ~~~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      +....+.|+.++|..++++..++
T Consensus       222 g~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         222 GVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHH
Confidence            88888888888888888888764

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.20  E-value=0.17  Score=42.15  Aligned_cols=90  Identities=14%  Similarity=0.185  Sum_probs=71.7

Q ss_pred             HHHhhcCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcC-CCCc---ccHHHHHHHHHHcCC
Q 005476          468 DILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLE-PMHS---GDYILLSDIYASAGR  541 (695)
Q Consensus       468 ~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~-p~~~---~~~~~l~~~~~~~g~  541 (695)
                      -+++..|+++.|++.|.+. .+-| ....||.-..+++-+|+.++|..-+++++++- |...   .+|+.-+.+|...|+
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            3567788888888888765 3333 67788999999999999999999999999975 3321   257888889999999


Q ss_pred             HHHHHHHHHHHHhCCC
Q 005476          542 CEDALRVMNQMREQGI  557 (695)
Q Consensus       542 ~~~a~~~~~~m~~~~~  557 (695)
                      -+.|..-|+..-+.|-
T Consensus       131 dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGS  146 (175)
T ss_pred             hHHHHHhHHHHHHhCC
Confidence            9999999998877664

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.19  E-value=6.6  Score=43.63  Aligned_cols=117  Identities=14%  Similarity=0.129  Sum_probs=68.9

Q ss_pred             HHHHHHHHccCCCCCHHHHHHHhccCCCCCcchHHHHH----HHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 005476           56 ENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMI----RAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKAC  131 (695)
Q Consensus        56 ~~ll~~y~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li----~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  131 (695)
                      ..-+++..+-   ..++.|..+-+.-.. |...-..+.    +-+.+.|++++|...|-+-... +.|.     .+++-+
T Consensus       338 e~kL~iL~kK---~ly~~Ai~LAk~~~~-d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kf  407 (933)
T KOG2114|consen  338 ETKLDILFKK---NLYKVAINLAKSQHL-DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKF  407 (933)
T ss_pred             HHHHHHHHHh---hhHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHh
Confidence            3445555555   667777777655332 222222222    2345678888888777665542 3332     345555


Q ss_pred             hccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccC
Q 005476          132 SRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMS  183 (695)
Q Consensus       132 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~  183 (695)
                      ........-..+++.+.+.|+. +..--+.|+.+|.+.++.+.-.+..+...
T Consensus       408 Ldaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~  458 (933)
T KOG2114|consen  408 LDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD  458 (933)
T ss_pred             cCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC
Confidence            5555555666667777777753 33344677888888888877777666554

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=95.13  E-value=0.21  Score=42.44  Aligned_cols=49  Identities=27%  Similarity=0.396  Sum_probs=31.3

Q ss_pred             CCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC----CCCCCHhhHHHHHHHHH
Q 005476          455 DLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM----PIPPNPVIWRTLLAACR  503 (695)
Q Consensus       455 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~~~~~~~ll~a~~  503 (695)
                      .+.|+..+..+++.+|+..|++..|+++++..    +++-+...|..|+.-+.
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            45566677777777777777777777666654    44445666766665543

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.11  E-value=0.52  Score=40.59  Aligned_cols=60  Identities=17%  Similarity=0.183  Sum_probs=43.6

Q ss_pred             HHHhhcCCHHHHHHHHHhC----CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcc
Q 005476          468 DILGRAGLVEEAYQFIKNM----PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSG  527 (695)
Q Consensus       468 ~~~~~~g~~~~A~~~~~~m----~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~  527 (695)
                      ....+.|++++|.+.|+.+    |..| ....--.|+.++.+.+++++|...+++.++++|.++.
T Consensus        18 ~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~   82 (142)
T PF13512_consen   18 QEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPN   82 (142)
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCC
Confidence            3345678888888888776    3333 2334456778888999999999999999999887654

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=94.87  E-value=0.33  Score=48.98  Aligned_cols=95  Identities=12%  Similarity=0.050  Sum_probs=75.3

Q ss_pred             hHHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHH
Q 005476          461 EHYGCMVDILGRAGLVEEAYQFIKNM-PIP-PNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYAS  538 (695)
Q Consensus       461 ~~~~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  538 (695)
                      ..+..|.-.|.+.+++.+|++..++. ... +|.-..--=..+|...|+++.|+..|+++++++|.|..+-..|+.+-.+
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k  337 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQK  337 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence            45667788889999999999888775 333 3555555567789999999999999999999999998888888887776


Q ss_pred             cCCHHHH-HHHHHHHHhC
Q 005476          539 AGRCEDA-LRVMNQMREQ  555 (695)
Q Consensus       539 ~g~~~~a-~~~~~~m~~~  555 (695)
                      .....+. .++|..|-..
T Consensus       338 ~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  338 IREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHHHHHHhhc
Confidence            6665554 7888888764

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.81  E-value=0.22  Score=47.29  Aligned_cols=101  Identities=12%  Similarity=0.117  Sum_probs=80.6

Q ss_pred             HHHHHHhcCC--CCChhHHHHHHHHHHhc-----CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccc----------
Q 005476          376 NAVEVFKKMP--LKNVFFWTVLIQCLASN-----GQGERALETYYIMREKNIEPNDVAFIAVLSACSHVG----------  438 (695)
Q Consensus       376 ~A~~~~~~~~--~~~~~~~~~li~~~~~~-----g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g----------  438 (695)
                      ..++.|....  ++|-.+|-+++..|...     +..+=....++.|.+-|+.-|..+|..||+.+-+..          
T Consensus        52 ~~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~  131 (406)
T KOG3941|consen   52 HVEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKV  131 (406)
T ss_pred             chhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHH
Confidence            3456677776  67888999999888754     456666777899999999999999999998776532          


Q ss_pred             ------cHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHH
Q 005476          439 ------MVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVE  477 (695)
Q Consensus       439 ------~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  477 (695)
                            .-+-++.++++| +.+|+.||.++-..|+.++++.|..-
T Consensus       132 F~HYP~QQ~C~I~vLeqM-E~hGVmPdkE~e~~lvn~FGr~~~p~  175 (406)
T KOG3941|consen  132 FLHYPQQQNCAIKVLEQM-EWHGVMPDKEIEDILVNAFGRWNFPT  175 (406)
T ss_pred             HhhCchhhhHHHHHHHHH-HHcCCCCchHHHHHHHHHhccccccH
Confidence                  234578899999 45799999999999999999988643

>PRK11906 transcriptional regulator; Provisional

Probab=94.79  E-value=1.7  Score=45.16  Aligned_cols=157  Identities=10%  Similarity=0.100  Sum_probs=94.0

Q ss_pred             hHH--HHHHHHHHhcC-----ChHHHHHHHHHHHH-CCCCCCHH-HHHHHHHHHhc---------cccHHHHHHHHHHch
Q 005476          390 FFW--TVLIQCLASNG-----QGERALETYYIMRE-KNIEPNDV-AFIAVLSACSH---------VGMVDEGRELFVSMS  451 (695)
Q Consensus       390 ~~~--~~li~~~~~~g-----~~~~A~~l~~~m~~-~g~~p~~~-t~~~ll~a~~~---------~g~~~~a~~~~~~~~  451 (695)
                      ..|  ..++.+.....     ..+.|+.+|.+... +.+.|+.. .|..+..++..         .....+|.++-+..+
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            456  55665554421     34578888998882 23777755 44443332221         234455666666555


Q ss_pred             hhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCccc
Q 005476          452 RDFDLEP-RMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPN-PVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGD  528 (695)
Q Consensus       452 ~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~  528 (695)
                      +   +.| |......+..++.-.|+++.|...|++. ...|| ..+|......+.-.|+.++|.+.+++.++++|....+
T Consensus       332 e---ld~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~  408 (458)
T PRK11906        332 D---ITTVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKA  408 (458)
T ss_pred             h---cCCCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHH
Confidence            3   333 5666666666677777788888888776 44554 4455555555667788888888888888888865443


Q ss_pred             HH--HHHHHHHHcCCHHHHHHHHH
Q 005476          529 YI--LLSDIYASAGRCEDALRVMN  550 (695)
Q Consensus       529 ~~--~l~~~~~~~g~~~~a~~~~~  550 (695)
                      -+  ..+++|...+ .++|.+++-
T Consensus       409 ~~~~~~~~~~~~~~-~~~~~~~~~  431 (458)
T PRK11906        409 VVIKECVDMYVPNP-LKNNIKLYY  431 (458)
T ss_pred             HHHHHHHHHHcCCc-hhhhHHHHh
Confidence            32  3344555544 455665553

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=94.77  E-value=5.8  Score=40.86  Aligned_cols=247  Identities=12%  Similarity=0.109  Sum_probs=118.6

Q ss_pred             hHHHHHHHHHccCCCCCHHHHHHHhccCCCC-CcchHHHHHHHH--HcCCCchHHHHHHHHHHhC--CCCC---C-----
Q 005476           54 ISENLLEAAAILIPATTMDYALSIFHKINEP-DSSAYNIMIRAF--TLKQSPQEAVMLYKTMLQN--SVEP---D-----  120 (695)
Q Consensus        54 ~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~~-~~~~~~~li~~~--~~~g~~~~A~~~~~~m~~~--g~~p---~-----  120 (695)
                      ..+.++++|--    .+++.-........+. ....|-.+..++  -+.+.+..|++.+..-...  +..|   |     
T Consensus        48 l~grilnAffl----~nld~Me~~l~~l~~~~~~s~~l~LF~~L~~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~  123 (549)
T PF07079_consen   48 LGGRILNAFFL----NNLDLMEKQLMELRQQFGKSAYLPLFKALVAYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQ  123 (549)
T ss_pred             HhhHHHHHHHH----hhHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHH
Confidence            34556666653    3455544444433321 123455555543  3566777777776655443  2222   1     


Q ss_pred             ----hhhHHHHHHHHhccCChHHHHHHHHHHHHhCCC----CCccHHHHHHHHHHhcCChhHHHHHHhccCCCCeehHHH
Q 005476          121 ----RFTFACTLKACSRIRALEEGEQIHAQILKSGFG----CRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNS  192 (695)
Q Consensus       121 ----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~----~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~  192 (695)
                          -..=+..+.++...|.+.+|+.++.+++..=++    -+..+||.++-++++.=-++    +-+.+...=..-|--
T Consensus       124 l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrSYfLE----l~e~~s~dl~pdyYe  199 (549)
T PF07079_consen  124 LFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRSYFLE----LKESMSSDLYPDYYE  199 (549)
T ss_pred             HhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHHHHHH----HHHhcccccChHHHH
Confidence                111123345566777777777777766654333    56777777776666531111    111111111223444


Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccC--ChhHHHHHHHHHHHhCCCCch-HHHHHHHHHHHh
Q 005476          193 MFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLA--DIELGGWISEYMEEKELNGNV-KLMTAVVDMYAK  269 (695)
Q Consensus       193 li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~--~~~~a~~~~~~~~~~g~~~~~-~~~~~li~~~~~  269 (695)
                      ||..|.+.=..      ++.-.=..+.|....+..++....-..  .+.--.+++......-+.|+- -+...|+.-+.+
T Consensus       200 milfY~kki~~------~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~  273 (549)
T PF07079_consen  200 MILFYLKKIHA------FDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS  273 (549)
T ss_pred             HHHHHHHHHHH------HhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc
Confidence            45444332111      111000123344444444444333222  222333444444444455542 233444444444


Q ss_pred             cCCHHHHHHHHHhcC--------CCChhHHHHHHHHHHhcCCHHHHHHHHHHhHH
Q 005476          270 CGHVDKARRLFEQMN--------IKDVVAWSAMISGYSQARRCKEALGVFHDMQM  316 (695)
Q Consensus       270 ~g~~~~A~~~f~~m~--------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  316 (695)
                        +.+++..+.+.+.        ++=+.++..++...++.++..+|-+.+.-+..
T Consensus       274 --~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~  326 (549)
T PF07079_consen  274 --DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKI  326 (549)
T ss_pred             --ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHh
Confidence              4444444444332        22345677778888888888888777766654

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.66  E-value=1.4  Score=45.85  Aligned_cols=151  Identities=11%  Similarity=0.056  Sum_probs=91.5

Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHH--hhcCCH
Q 005476          399 LASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDIL--GRAGLV  476 (695)
Q Consensus       399 ~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~--~~~g~~  476 (695)
                      --+..+...-+++-++..+  +.||-.+-..++ +-.....+.++.++|++..+. +    ...+   ....  ...|..
T Consensus       178 AWRERnp~aRIkaA~eALe--i~pdCAdAYILL-AEEeA~Ti~Eae~l~rqAvkA-g----E~~l---g~s~~~~~~g~~  246 (539)
T PF04184_consen  178 AWRERNPQARIKAAKEALE--INPDCADAYILL-AEEEASTIVEAEELLRQAVKA-G----EASL---GKSQFLQHHGHF  246 (539)
T ss_pred             HHhcCCHHHHHHHHHHHHH--hhhhhhHHHhhc-ccccccCHHHHHHHHHHHHHH-H----HHhh---chhhhhhcccch
Confidence            3445566677777777777  778776544443 334455678888888877653 1    0000   0000  011111


Q ss_pred             HHHHHHHHhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCC--CcccHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          477 EEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPM--HSGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       477 ~~A~~~~~~m~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                         .+.+.+-...|-..+=..|...+++.|+.++|++.++.+++..|.  +......|+..|...+++.++..++.+-.+
T Consensus       247 ---~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  247 ---WEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             ---hhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence               111111111222333355677788899999999999999987764  345677899999999999999999988765


Q ss_pred             CCCccCCce
Q 005476          555 QGIKKTPGC  563 (695)
Q Consensus       555 ~~~~~~~~~  563 (695)
                      ....+....
T Consensus       324 i~lpkSAti  332 (539)
T PF04184_consen  324 ISLPKSATI  332 (539)
T ss_pred             ccCCchHHH
Confidence            444444433

The molecular function of this protein is uncertain.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=94.62  E-value=6.2  Score=40.54  Aligned_cols=91  Identities=9%  Similarity=0.116  Sum_probs=66.6

Q ss_pred             HHhccCCC--CCcchHHHHHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCC
Q 005476           76 SIFHKINE--PDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFG  153 (695)
Q Consensus        76 ~~f~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~  153 (695)
                      ++=+++.+  .|..+|-.||.-|..+|..++..+++++|... ++--...|..-+++=....++.....+|.+.+...+ 
T Consensus        30 rLRerIkdNPtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~p-fp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l-  107 (660)
T COG5107          30 RLRERIKDNPTNILSYFQLIQYLETQESMDAEREMYEQLSSP-FPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSL-  107 (660)
T ss_pred             HHHHHhhcCchhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCC-CccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhc-
Confidence            44455542  47789999999999999999999999999763 222345677777766677889999999999888754 


Q ss_pred             CCccHHHHHHHHHHhc
Q 005476          154 CRQLVTNTLIHLYANC  169 (695)
Q Consensus       154 ~~~~~~~~Li~~y~~~  169 (695)
                       +...|...++--.+.
T Consensus       108 -~ldLW~lYl~YIRr~  122 (660)
T COG5107         108 -NLDLWMLYLEYIRRV  122 (660)
T ss_pred             -cHhHHHHHHHHHHhh
Confidence             455666665544443

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=94.60  E-value=0.78  Score=43.12  Aligned_cols=142  Identities=13%  Similarity=0.160  Sum_probs=76.6

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCC-CC-HHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHh
Q 005476          394 VLIQCLASNGQGERALETYYIMREKNIE-PN-DVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILG  471 (695)
Q Consensus       394 ~li~~~~~~g~~~~A~~l~~~m~~~g~~-p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~  471 (695)
                      .....+.+.|++++|++.|+++...-.. |- ......+..++.+.|++++|...++..++.+.-.|... +...+.+.+
T Consensus        10 ~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~-~A~Y~~g~~   88 (203)
T PF13525_consen   10 QKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKAD-YALYMLGLS   88 (203)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHH-HHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchh-hHHHHHHHH
Confidence            3445566778888888888888764211 11 22455667777788888888888888776654444321 111111111


Q ss_pred             hcCCHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcc-----------------cHHHHHH
Q 005476          472 RAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSG-----------------DYILLSD  534 (695)
Q Consensus       472 ~~g~~~~A~~~~~~m~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~-----------------~~~~l~~  534 (695)
                      .........                   ......+....|...|+.+++..|++..                 .-..++.
T Consensus        89 ~~~~~~~~~-------------------~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~~ia~  149 (203)
T PF13525_consen   89 YYKQIPGIL-------------------RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHELYIAR  149 (203)
T ss_dssp             HHHHHHHHH--------------------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhCccch-------------------hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            100000000                   0112223344556666666666665532                 2235788


Q ss_pred             HHHHcCCHHHHHHHHHHHHhC
Q 005476          535 IYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       535 ~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      .|.+.|.+..|..-++.+.+.
T Consensus       150 ~Y~~~~~y~aA~~r~~~v~~~  170 (203)
T PF13525_consen  150 FYYKRGKYKAAIIRFQYVIEN  170 (203)
T ss_dssp             HHHCTT-HHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHH
Confidence            899999999999999998874

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.56  E-value=0.19  Score=47.76  Aligned_cols=115  Identities=13%  Similarity=0.128  Sum_probs=86.7

Q ss_pred             CCHHHHHHHhccCC--CCCcchHHHHHHHHHcC-----CCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhcc-------
Q 005476           69 TTMDYALSIFHKIN--EPDSSAYNIMIRAFTLK-----QSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRI-------  134 (695)
Q Consensus        69 g~~~~A~~~f~~~~--~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~-------  134 (695)
                      ..+-..++.|...+  ++|..+|-+++..+...     +..+=....++.|.+-|+.-|..+|..||+.+-+.       
T Consensus        48 K~Lv~~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nv  127 (406)
T KOG3941|consen   48 KSLVHVEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNV  127 (406)
T ss_pred             ccccchhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHH
Confidence            44555667788777  68888998888887543     56666677788999999999999999999887543       


Q ss_pred             ---------CChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCC-hhHHHHHHhccC
Q 005476          135 ---------RALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGR-IDIARKMFDRMS  183 (695)
Q Consensus       135 ---------~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~-~~~A~~~f~~m~  183 (695)
                               .+-+-+..++++|...|+.||..+-..|++++.+.+- ..+..++.-.|+
T Consensus       128 fQ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmP  186 (406)
T KOG3941|consen  128 FQKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMP  186 (406)
T ss_pred             HHHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhh
Confidence                     2334578889999999999999999999999887765 334444444444

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=94.50  E-value=0.21  Score=51.56  Aligned_cols=62  Identities=16%  Similarity=0.137  Sum_probs=39.1

Q ss_pred             hhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCH----hhHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 005476          460 MEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPNP----VIWRTLLAACRAHKNVKVGEESLKNLVTL  521 (695)
Q Consensus       460 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~----~~~~~ll~a~~~~g~~~~a~~~~~~~~~~  521 (695)
                      ...++.+..+|.+.|++++|+..|++. .+.|+.    .+|..+..+|...|++++|+..+++++++
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            455666666666666666666666653 445543    24666666666777777777777776665

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.47  E-value=2.8  Score=39.36  Aligned_cols=86  Identities=15%  Similarity=0.135  Sum_probs=48.0

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhCC-------CCCCH-hhHHHHHHHHHhcCChhHHHHHHHHHHhc----CCCCcccHH
Q 005476          463 YGCMVDILGRAGLVEEAYQFIKNMP-------IPPNP-VIWRTLLAACRAHKNVKVGEESLKNLVTL----EPMHSGDYI  530 (695)
Q Consensus       463 ~~~li~~~~~~g~~~~A~~~~~~m~-------~~p~~-~~~~~ll~a~~~~g~~~~a~~~~~~~~~~----~p~~~~~~~  530 (695)
                      |......|.+..++++|-..|.+-.       --|+. ..+-+.+-.+....|+..|++.++.--+.    +|++..+..
T Consensus       153 ~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~le  232 (308)
T KOG1585|consen  153 YGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLE  232 (308)
T ss_pred             HHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHH
Confidence            3344455667777777665554431       11221 12333344455556777787777776553    355666666


Q ss_pred             HHHHHHHHcCCHHHHHHHH
Q 005476          531 LLSDIYASAGRCEDALRVM  549 (695)
Q Consensus       531 ~l~~~~~~~g~~~~a~~~~  549 (695)
                      .|+.+| ..|+.+++.++.
T Consensus       233 nLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  233 NLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHh-ccCCHHHHHHHH
Confidence            666665 456666665554

>PRK11906 transcriptional regulator; Provisional

Probab=94.35  E-value=0.63  Score=48.21  Aligned_cols=117  Identities=10%  Similarity=0.070  Sum_probs=87.3

Q ss_pred             cHHHHHHHHHHchhhcCCCCC-hhHHHHHHHHHhh---------cCCHHHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcC
Q 005476          439 MVDEGRELFVSMSRDFDLEPR-MEHYGCMVDILGR---------AGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHK  506 (695)
Q Consensus       439 ~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~---------~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g  506 (695)
                      ..+.|..+|.+......+.|+ ...|..+...+..         .....+|.++.++. ...| |......+..+....+
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~~Da~a~~~~g~~~~~~~  352 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITTVDGKILAIMGLITGLSG  352 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhhc
Confidence            467788889888754466776 3445444433321         22344556665554 3344 6777777777777888


Q ss_pred             ChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 005476          507 NVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       507 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      +++.|...|+++..++|+.+.+|...+....-+|+.++|.+.+++..+.
T Consensus       353 ~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL  401 (458)
T PRK11906        353 QAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQL  401 (458)
T ss_pred             chhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Confidence            8999999999999999999999999999999999999999999986654

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.28  E-value=2.7  Score=36.64  Aligned_cols=85  Identities=18%  Similarity=0.187  Sum_probs=46.6

Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCCCCeehHHHHHHHHHhCCChh
Q 005476          125 ACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWR  204 (695)
Q Consensus       125 ~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~  204 (695)
                      ..++..+...+........++.+.+.+ ..+....|.|+..|++.+ ..+....++.  ..+......+++.+.+.+.++
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~--~~~~yd~~~~~~~c~~~~l~~   86 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN--KSNHYDIEKVGKLCEKAKLYE   86 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh--ccccCCHHHHHHHHHHcCcHH
Confidence            345555555556666666666666665 355666777777776653 2333344431  123334444555555666666


Q ss_pred             HHHHHHHHH
Q 005476          205 EIVDLFNEM  213 (695)
Q Consensus       205 ~A~~~~~~m  213 (695)
                      ++.-++.++
T Consensus        87 ~~~~l~~k~   95 (140)
T smart00299       87 EAVELYKKD   95 (140)
T ss_pred             HHHHHHHhh
Confidence            666555554

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.16  E-value=0.089  Score=32.79  Aligned_cols=32  Identities=16%  Similarity=0.089  Sum_probs=25.1

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 005476          493 VIWRTLLAACRAHKNVKVGEESLKNLVTLEPM  524 (695)
Q Consensus       493 ~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~  524 (695)
                      .+|..+...+...|++++|+..++++++++|+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            46777788888888888888888888888875

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.12  E-value=5.2  Score=37.60  Aligned_cols=160  Identities=21%  Similarity=0.165  Sum_probs=106.1

Q ss_pred             HhHHhcchhhcCCHHHHHHHHhcCCC--C-ChhHHHHHHH-HHHhcCChHHHHHHHHHHHHCCCCC----CHHHHHHHHH
Q 005476          361 GTALMDFYAKCGLIENAVEVFKKMPL--K-NVFFWTVLIQ-CLASNGQGERALETYYIMREKNIEP----NDVAFIAVLS  432 (695)
Q Consensus       361 ~~~li~~y~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~-~~~~~g~~~~A~~l~~~m~~~g~~p----~~~t~~~ll~  432 (695)
                      +..+...+...+....+.+.+.....  + +...+..... .+...|++++|...|.+...  ..|    ....+.....
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~  175 (291)
T COG0457          98 LLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALE--LDPELNELAEALLALGA  175 (291)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCccchHHHHHHhhh
Confidence            33344444444555555555555433  1 1122222233 67888999999999998855  444    2334444444


Q ss_pred             HHhccccHHHHHHHHHHchhhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HhhHHHHHHHHHhcCChh
Q 005476          433 ACSHVGMVDEGRELFVSMSRDFDLEP-RMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPN-PVIWRTLLAACRAHKNVK  509 (695)
Q Consensus       433 a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~a~~~~g~~~  509 (695)
                      .+...++.+.+...+.....  .... ....+..+...+...+.+++|...+... ...|+ ...+..+...+...++.+
T Consensus       176 ~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  253 (291)
T COG0457         176 LLEALGRYEEALELLEKALK--LNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYE  253 (291)
T ss_pred             HHHHhcCHHHHHHHHHHHHh--hCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHH
Confidence            56778899999999988864  2333 4677888888899999999999888876 33444 445555555555777899


Q ss_pred             HHHHHHHHHHhcCCC
Q 005476          510 VGEESLKNLVTLEPM  524 (695)
Q Consensus       510 ~a~~~~~~~~~~~p~  524 (695)
                      .+...+.+.++..|.
T Consensus       254 ~~~~~~~~~~~~~~~  268 (291)
T COG0457         254 EALEALEKALELDPD  268 (291)
T ss_pred             HHHHHHHHHHHhCcc
Confidence            999999999998886

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.05  E-value=0.5  Score=49.95  Aligned_cols=134  Identities=17%  Similarity=0.217  Sum_probs=88.9

Q ss_pred             HHHHhcCChHHHHHHHHHHH-HCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCC
Q 005476          397 QCLASNGQGERALETYYIMR-EKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGL  475 (695)
Q Consensus       397 ~~~~~~g~~~~A~~l~~~m~-~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  475 (695)
                      .....+|+++++.++.+.-. -..++  ..-...++.-+.+.|..+.|+++-..-.             .-.++..++|+
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~i~--~~~~~~i~~fL~~~G~~e~AL~~~~D~~-------------~rFeLAl~lg~  333 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPNIP--KDQGQSIARFLEKKGYPELALQFVTDPD-------------HRFELALQLGN  333 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HH-------------HHHHHHHHCT-
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccCC--hhHHHHHHHHHHHCCCHHHHHhhcCChH-------------HHhHHHHhcCC
Confidence            34456788888777665111 11122  3346677777788888888887643322             23566778999


Q ss_pred             HHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 005476          476 VEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       476 ~~~A~~~~~~m~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      ++.|.++.++..   +...|..|......+|+++.|++.+++.        .-+..|+-+|...|+.+.-.++-+....+
T Consensus       334 L~~A~~~a~~~~---~~~~W~~Lg~~AL~~g~~~lAe~c~~k~--------~d~~~L~lLy~~~g~~~~L~kl~~~a~~~  402 (443)
T PF04053_consen  334 LDIALEIAKELD---DPEKWKQLGDEALRQGNIELAEECYQKA--------KDFSGLLLLYSSTGDREKLSKLAKIAEER  402 (443)
T ss_dssp             HHHHHHHCCCCS---THHHHHHHHHHHHHTTBHHHHHHHHHHC--------T-HHHHHHHHHHCT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcC---cHHHHHHHHHHHHHcCCHHHHHHHHHhh--------cCccccHHHHHHhCCHHHHHHHHHHHHHc
Confidence            999999887763   7889999999999999999999999986        35677888899999988777777766665


Q ss_pred             C
Q 005476          556 G  556 (695)
Q Consensus       556 ~  556 (695)
                      |
T Consensus       403 ~  403 (443)
T PF04053_consen  403 G  403 (443)
T ss_dssp             T
T ss_pred             c
Confidence            5

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=93.97  E-value=2.2  Score=47.62  Aligned_cols=49  Identities=14%  Similarity=0.056  Sum_probs=34.8

Q ss_pred             CcchHHHHHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccC
Q 005476           85 DSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIR  135 (695)
Q Consensus        85 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~  135 (695)
                      +...| .+|--+.|.|++++|.++....... .......|...++.+....
T Consensus       111 ~~p~W-a~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s~  159 (613)
T PF04097_consen  111 GDPIW-ALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASSP  159 (613)
T ss_dssp             TEEHH-HHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTTT
T ss_pred             CCccH-HHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhCC
Confidence            34457 4677788999999999999665543 5556677888898887653

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.86  E-value=0.15  Score=31.60  Aligned_cols=32  Identities=22%  Similarity=0.265  Sum_probs=23.6

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC
Q 005476          494 IWRTLLAACRAHKNVKVGEESLKNLVTLEPMH  525 (695)
Q Consensus       494 ~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~  525 (695)
                      .|..+...+...|++++|++.++++++++|++
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            46667777788888888888888888887764

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=93.80  E-value=5.5  Score=46.02  Aligned_cols=126  Identities=13%  Similarity=0.151  Sum_probs=56.3

Q ss_pred             CCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH----hccccHHHHHHHH
Q 005476          372 GLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSAC----SHVGMVDEGRELF  447 (695)
Q Consensus       372 g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~----~~~g~~~~a~~~~  447 (695)
                      +++++|+.-+.++.   ...|+-.+.---++|.+.+|+.++        +|+...+..+..+|    ...+.+++|.-.|
T Consensus       894 ~ry~~AL~hLs~~~---~~~~~e~~n~I~kh~Ly~~aL~ly--------~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Y  962 (1265)
T KOG1920|consen  894 KRYEDALSHLSECG---ETYFPECKNYIKKHGLYDEALALY--------KPDSEKQKVIYEAYADHLREELMSDEAALMY  962 (1265)
T ss_pred             HHHHHHHHHHHHcC---ccccHHHHHHHHhcccchhhhhee--------ccCHHHHHHHHHHHHHHHHHhccccHHHHHH
Confidence            45566665555543   223333444444556666655553        44544444333332    2334444444444


Q ss_pred             HHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhh--HHHHHHHHHhcCChhHHHHHHHHH
Q 005476          448 VSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVI--WRTLLAACRAHKNVKVGEESLKNL  518 (695)
Q Consensus       448 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~--~~~ll~a~~~~g~~~~a~~~~~~~  518 (695)
                      +..-+          ..--+.+|-.+|+|.+|+.+-.++....|...  -..|.+-+..+++.-+|-++....
T Consensus       963 e~~Gk----------lekAl~a~~~~~dWr~~l~~a~ql~~~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~ 1025 (1265)
T KOG1920|consen  963 ERCGK----------LEKALKAYKECGDWREALSLAAQLSEGKDELVILAEELVSRLVEQRKHYEAAKILLEY 1025 (1265)
T ss_pred             HHhcc----------HHHHHHHHHHhccHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHcccchhHHHHHHHH
Confidence            33311          01123444555555555555555533223222  134445555555544444444333

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.76  E-value=0.49  Score=45.32  Aligned_cols=93  Identities=18%  Similarity=0.299  Sum_probs=64.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCCh-hHHHH
Q 005476          391 FWTVLIQCLASNGQGERALETYYIMREKNIEPND----VAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRM-EHYGC  465 (695)
Q Consensus       391 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~----~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~  465 (695)
                      .|+.-+. +.+.|++.+|...|...++..  |+.    ..+-.|..++...|+++.|..+|..+.++++-.|.. +.+--
T Consensus       144 ~Y~~A~~-~~ksgdy~~A~~~F~~fi~~Y--P~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallK  220 (262)
T COG1729         144 LYNAALD-LYKSGDYAEAEQAFQAFIKKY--PNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK  220 (262)
T ss_pred             HHHHHHH-HHHcCCHHHHHHHHHHHHHcC--CCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence            3555444 345677888888888888742  332    255667888888888888888888888776655543 66666


Q ss_pred             HHHHHhhcCCHHHHHHHHHhC
Q 005476          466 MVDILGRAGLVEEAYQFIKNM  486 (695)
Q Consensus       466 li~~~~~~g~~~~A~~~~~~m  486 (695)
                      |.....+.|+.++|..++++.
T Consensus       221 lg~~~~~l~~~d~A~atl~qv  241 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQV  241 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHH
Confidence            667777777777777766665

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=93.67  E-value=1.1  Score=44.44  Aligned_cols=160  Identities=14%  Similarity=0.094  Sum_probs=81.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHH-CCCCCCH---HHHHHHHHHHhccccHHHHHHHHHHchhhcCCCC----ChhHH
Q 005476          392 WTVLIQCLASNGQGERALETYYIMRE-KNIEPND---VAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEP----RMEHY  463 (695)
Q Consensus       392 ~~~li~~~~~~g~~~~A~~l~~~m~~-~g~~p~~---~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p----~~~~~  463 (695)
                      |-.+..++.+.-++.+++.+-+.-.. .|..|..   ....++-.+....+.++++.+.|+...+--.-..    ...+|
T Consensus        86 ~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvc  165 (518)
T KOG1941|consen   86 YLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVC  165 (518)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehh
Confidence            44444444444444444444333221 1223311   1233345556666667777777776643211111    23467


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhC-------CCCCCHhhHH-----HHHHHHHhcCChhHHHHHHHHHHhcC--CCCc---
Q 005476          464 GCMVDILGRAGLVEEAYQFIKNM-------PIPPNPVIWR-----TLLAACRAHKNVKVGEESLKNLVTLE--PMHS---  526 (695)
Q Consensus       464 ~~li~~~~~~g~~~~A~~~~~~m-------~~~p~~~~~~-----~ll~a~~~~g~~~~a~~~~~~~~~~~--p~~~---  526 (695)
                      ..|...|++..++++|.-+..+.       +++.-..-|.     -+.-+++..|....|.+.-+++.++-  ..|.   
T Consensus       166 v~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~  245 (518)
T KOG1941|consen  166 VSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQ  245 (518)
T ss_pred             hhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHH
Confidence            77777777777777765544432       2221111122     23345677777777777777665532  2222   


Q ss_pred             -ccHHHHHHHHHHcCCHHHHHHHHHH
Q 005476          527 -GDYILLSDIYASAGRCEDALRVMNQ  551 (695)
Q Consensus       527 -~~~~~l~~~~~~~g~~~~a~~~~~~  551 (695)
                       .....++++|...|+.|.|..-++.
T Consensus       246 arc~~~~aDIyR~~gd~e~af~rYe~  271 (518)
T KOG1941|consen  246 ARCLLCFADIYRSRGDLERAFRRYEQ  271 (518)
T ss_pred             HHHHHHHHHHHHhcccHhHHHHHHHH
Confidence             2334677777777777766655544

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=93.62  E-value=3  Score=40.49  Aligned_cols=121  Identities=16%  Similarity=0.129  Sum_probs=82.6

Q ss_pred             HHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhhHHH---HHHHHHhcCChh
Q 005476          433 ACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRT---LLAACRAHKNVK  509 (695)
Q Consensus       433 a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~---ll~a~~~~g~~~  509 (695)
                      .....|++.++..+|+.....  ..-+...--.|+..|...|+.++|..++..+|..-...-|..   -+....+..+..
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~--~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQA--APENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHh--CcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            445678888888888877642  223456666788888889999999999988865544444433   222233333333


Q ss_pred             HHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 005476          510 VGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       510 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      +... +++-...+|+|...-..|+..|...|+.++|.+.+=.+..++
T Consensus       221 ~~~~-l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d  266 (304)
T COG3118         221 EIQD-LQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRD  266 (304)
T ss_pred             CHHH-HHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            3222 334456689998889999999999999999998877776643

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=93.48  E-value=0.58  Score=41.25  Aligned_cols=69  Identities=22%  Similarity=0.334  Sum_probs=41.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhccccHHHHHHHHHHchh----hcCCCCChhH
Q 005476          392 WTVLIQCLASNGQGERALETYYIMREKNIEP-NDVAFIAVLSACSHVGMVDEGRELFVSMSR----DFDLEPRMEH  462 (695)
Q Consensus       392 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~----~~~~~p~~~~  462 (695)
                      ...++..+...|++++|+.+.+++..  ..| |...+..++.++...|+..+|.+.|+.+.+    +.|+.|+..+
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~--~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALA--LDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH--HSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            34455566677777777777777777  455 344777777777777777777777765532    3566666544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=93.31  E-value=2  Score=45.56  Aligned_cols=155  Identities=14%  Similarity=0.156  Sum_probs=90.9

Q ss_pred             HHcCCCchHHHHHHH--HHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChh
Q 005476           96 FTLKQSPQEAVMLYK--TMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRID  173 (695)
Q Consensus        96 ~~~~g~~~~A~~~~~--~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~  173 (695)
                      ..-+++++++.+...  ++.. .++  ..-...++.-+-+.|..+.|.++-..-            ..-.+...++|+++
T Consensus       271 av~~~d~~~v~~~i~~~~ll~-~i~--~~~~~~i~~fL~~~G~~e~AL~~~~D~------------~~rFeLAl~lg~L~  335 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLLP-NIP--KDQGQSIARFLEKKGYPELALQFVTDP------------DHRFELALQLGNLD  335 (443)
T ss_dssp             HHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS-H------------HHHHHHHHHCT-HH
T ss_pred             HHHcCChhhhhhhhhhhhhcc-cCC--hhHHHHHHHHHHHCCCHHHHHhhcCCh------------HHHhHHHHhcCCHH
Confidence            345667777665554  1111 122  334667777777778777777654332            22345567888888


Q ss_pred             HHHHHHhccCCCCeehHHHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhCC
Q 005476          174 IARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKEL  253 (695)
Q Consensus       174 ~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~  253 (695)
                      .|.++.++..  +...|..|.....+.|+.+-|.+.|.+..+         |..++-.+...|+.+.-.++.......|-
T Consensus       336 ~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~~  404 (443)
T PF04053_consen  336 IALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERGD  404 (443)
T ss_dssp             HHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHccC
Confidence            8888877665  455888888888889999888888888654         45555566666777666666666665541


Q ss_pred             CCchHHHHHHHHHHHhcCCHHHHHHHHHh
Q 005476          254 NGNVKLMTAVVDMYAKCGHVDKARRLFEQ  282 (695)
Q Consensus       254 ~~~~~~~~~li~~~~~~g~~~~A~~~f~~  282 (695)
                            +|....++...|++++..+++.+
T Consensus       405 ------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  405 ------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             ------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             ------HHHHHHHHHHcCCHHHHHHHHHH
Confidence                  33344445555666666665544

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=93.08  E-value=5.5  Score=34.64  Aligned_cols=86  Identities=12%  Similarity=0.048  Sum_probs=40.8

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhh
Q 005476          393 TVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGR  472 (695)
Q Consensus       393 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~  472 (695)
                      ..+|..+.+.+.......+++.+...+ ..+...++.++..+++.. .++..+.+..       .++.......+..+.+
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~-------~~~~yd~~~~~~~c~~   81 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN-------KSNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh-------ccccCCHHHHHHHHHH
Confidence            345555555556666666666655554 234445555555555432 2233333331       0111222234455555


Q ss_pred             cCCHHHHHHHHHhCC
Q 005476          473 AGLVEEAYQFIKNMP  487 (695)
Q Consensus       473 ~g~~~~A~~~~~~m~  487 (695)
                      .+.++++.-++.+++
T Consensus        82 ~~l~~~~~~l~~k~~   96 (140)
T smart00299       82 AKLYEEAVELYKKDG   96 (140)
T ss_pred             cCcHHHHHHHHHhhc
Confidence            555555555555553

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=93.06  E-value=8.6  Score=39.39  Aligned_cols=73  Identities=14%  Similarity=0.052  Sum_probs=47.6

Q ss_pred             HHHHHHHHhcCChhHHHHHHhccCCC---Cee-hHH---HHHHHHHh---CCChhHHHHHHHHHHHcCCCCCHhHHHHHH
Q 005476          160 NTLIHLYANCGRIDIARKMFDRMSNR---DVF-SWN---SMFSGYVK---TECWREIVDLFNEMRDLGVKFDEVTLINVL  229 (695)
Q Consensus       160 ~~Li~~y~~~g~~~~A~~~f~~m~~~---~~~-~~~---~li~~~~~---~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll  229 (695)
                      -.|+-.|....+++...++++.++..   +.. +-+   ...-++.+   .|+.++|++++..+......++..||..+.
T Consensus       145 ~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~G  224 (374)
T PF13281_consen  145 INLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLG  224 (374)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHH
Confidence            34444688888888888888888663   111 111   22334445   788889999888866666667777776666


Q ss_pred             HHH
Q 005476          230 MAC  232 (695)
Q Consensus       230 ~a~  232 (695)
                      +.|
T Consensus       225 RIy  227 (374)
T PF13281_consen  225 RIY  227 (374)
T ss_pred             HHH
Confidence            554

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=92.84  E-value=7.8  Score=37.80  Aligned_cols=172  Identities=10%  Similarity=0.068  Sum_probs=107.2

Q ss_pred             HHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhccccHHHHHHHHHHchhhcC
Q 005476          377 AVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPN-DVAFIAVLSACSHVGMVDEGRELFVSMSRDFD  455 (695)
Q Consensus       377 A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~  455 (695)
                      ..+.++++..+....--.........|++.+|..+|+...+.  .|+ ...-..+..++...|+++.|..++..+-.+  
T Consensus       122 lr~~ld~~~~~~~e~~~~~~~~~~~~e~~~~a~~~~~~al~~--~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~--  197 (304)
T COG3118         122 LRQFLDKVLPAEEEEALAEAKELIEAEDFGEAAPLLKQALQA--APENSEAKLLLAECLLAAGDVEAAQAILAALPLQ--  197 (304)
T ss_pred             HHHHHHHhcChHHHHHHHHhhhhhhccchhhHHHHHHHHHHh--CcccchHHHHHHHHHHHcCChHHHHHHHHhCccc--
Confidence            344444444332222222334566789999999999998883  443 345566788889999999999999887542  


Q ss_pred             CCCC-hhHHHHHHHHHhhcCCHHHHHHHHHhCCCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcC--CCCcccHHH
Q 005476          456 LEPR-MEHYGCMVDILGRAGLVEEAYQFIKNMPIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLE--PMHSGDYIL  531 (695)
Q Consensus       456 ~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~--p~~~~~~~~  531 (695)
                      ..-+ ......-+..+.+.....+...+-.+..-.| |...--.+...+...|+.+.|.+.+=.+++.+  -.|...--.
T Consensus       198 ~~~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~  277 (304)
T COG3118         198 AQDKAAHGLQAQIELLEQAAATPEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKT  277 (304)
T ss_pred             chhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHH
Confidence            1111 1122334566666666665555555554456 55555667777888999999988887777754  445556667


Q ss_pred             HHHHHHHcCCHH-HHHHHHHHH
Q 005476          532 LSDIYASAGRCE-DALRVMNQM  552 (695)
Q Consensus       532 l~~~~~~~g~~~-~a~~~~~~m  552 (695)
                      |+.++.-.|.-+ .+.+.+++|
T Consensus       278 lle~f~~~g~~Dp~~~~~RRkL  299 (304)
T COG3118         278 LLELFEAFGPADPLVLAYRRKL  299 (304)
T ss_pred             HHHHHHhcCCCCHHHHHHHHHH
Confidence            777776666433 333444433

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=92.84  E-value=2.8  Score=36.24  Aligned_cols=19  Identities=16%  Similarity=0.184  Sum_probs=14.5

Q ss_pred             hhHHHHHHHHHHhcCCCCc
Q 005476          508 VKVGEESLKNLVTLEPMHS  526 (695)
Q Consensus       508 ~~~a~~~~~~~~~~~p~~~  526 (695)
                      ...|...|+++++.-|++.
T Consensus       115 ~~~A~~~f~~lv~~yP~S~  133 (142)
T PF13512_consen  115 ARQAFRDFEQLVRRYPNSE  133 (142)
T ss_pred             HHHHHHHHHHHHHHCcCCh
Confidence            5577888888888888764

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.82  E-value=2.8  Score=41.17  Aligned_cols=151  Identities=11%  Similarity=0.049  Sum_probs=87.0

Q ss_pred             cCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHH--HH--HHHHHHhccccHHHH
Q 005476          371 CGLIENAVEVFKKMPL---KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVA--FI--AVLSACSHVGMVDEG  443 (695)
Q Consensus       371 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t--~~--~ll~a~~~~g~~~~a  443 (695)
                      .|++.+|-..++++.+   .|..+|+-.=.++..+|+.+.-...+++.... ..||...  |.  .+.-+....|-+++|
T Consensus       116 ~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~dA  194 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             cccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            4666666666666654   36677777777777778777777777776653 2444432  22  222234566777777


Q ss_pred             HHHHHHchhhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhCCC--CC-----CHhhHHHHHHHHHhcCChhHHHHHH
Q 005476          444 RELFVSMSRDFDLEP-RMEHYGCMVDILGRAGLVEEAYQFIKNMPI--PP-----NPVIWRTLLAACRAHKNVKVGEESL  515 (695)
Q Consensus       444 ~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~p-----~~~~~~~ll~a~~~~g~~~~a~~~~  515 (695)
                      .+.-++..   .+.| |...-.++...+.-.|+..++.++..+-.-  +.     .-.-|..- -.+...+.++.|+++|
T Consensus       195 Ek~A~ral---qiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~A-l~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  195 EKQADRAL---QINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTA-LFHIEGAEYEKALEIY  270 (491)
T ss_pred             HHHHHhhc---cCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHH-HhhhcccchhHHHHHH
Confidence            77776664   3333 455556667777777888888777766521  10     00111111 1223446777777777


Q ss_pred             HHHH--hcCCCCc
Q 005476          516 KNLV--TLEPMHS  526 (695)
Q Consensus       516 ~~~~--~~~p~~~  526 (695)
                      ++=+  +++.+|.
T Consensus       271 D~ei~k~l~k~Da  283 (491)
T KOG2610|consen  271 DREIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHHhhccch
Confidence            6543  3444444

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=92.66  E-value=17  Score=39.15  Aligned_cols=158  Identities=13%  Similarity=-0.000  Sum_probs=98.6

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHc-CCCCCHh-----HHHHHHHHHhc----cCChhHHHHHHHHHHHhCCCCchHHH
Q 005476          191 NSMFSGYVKTECWREIVDLFNEMRDL-GVKFDEV-----TLINVLMACGR----LADIELGGWISEYMEEKELNGNVKLM  260 (695)
Q Consensus       191 ~~li~~~~~~g~~~~A~~~~~~m~~~-g~~pd~~-----t~~~ll~a~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~  260 (695)
                      ..+++...=.|+-+.+++++.+-.+. |+.-...     +|..++..+..    ..+.+.+.+++..+.+.  -|+...|
T Consensus       192 ~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lf  269 (468)
T PF10300_consen  192 LKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALF  269 (468)
T ss_pred             HHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHH
Confidence            34555566678888888888876543 2322221     24444444433    34677788888888876  4544443


Q ss_pred             -HHHHHHHHhcCCHHHHHHHHHhcCCC-------ChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHH
Q 005476          261 -TAVVDMYAKCGHVDKARRLFEQMNIK-------DVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSC  332 (695)
Q Consensus       261 -~~li~~~~~~g~~~~A~~~f~~m~~~-------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a  332 (695)
                       -.-...+...|++++|.+.|+.....       ....+--+...+.-..+|++|.+.|..+.+.. .-...+|.-+..+
T Consensus       270 l~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~  348 (468)
T PF10300_consen  270 LFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAA  348 (468)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHH
Confidence             33446677889999999999975421       22334445566778899999999999998764 3344455555444


Q ss_pred             H-hccCCh-------hHHHHHHHHHHH
Q 005476          333 C-AVLGAL-------ETGKWVHLYVKK  351 (695)
Q Consensus       333 ~-~~~~~~-------~~a~~i~~~~~~  351 (695)
                      | ...++.       ++|..++..+..
T Consensus       349 c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  349 CLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            4 345555       666666665543

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=92.52  E-value=21  Score=39.99  Aligned_cols=207  Identities=9%  Similarity=0.030  Sum_probs=110.3

Q ss_pred             HHHHHHHHHhcCCCCchhHHHHHHHHHccCCCCCHHHHHHHhccCCCCCcchHHHHHHHHH-cCCCchHHHHHHHHHHhC
Q 005476           37 NQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMIRAFT-LKQSPQEAVMLYKTMLQN  115 (695)
Q Consensus        37 ~~~~~~~~~~g~~~~~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~-~~g~~~~A~~~~~~m~~~  115 (695)
                      .+-|..+....-+.+...|-.||.+-.+|     ++.+.+-+.--|+.+..++--+...+. ...++++|...+++....
T Consensus        15 ~~A~~~~~~~~~~~~l~~Y~kLI~~ai~C-----L~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l   89 (608)
T PF10345_consen   15 EKAHSLATKVKSEEQLKQYYKLIATAIKC-----LEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILL   89 (608)
T ss_pred             HHhHHHHHhcCChhhHHHHHHHHHHHHHH-----HHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            33444444444455677788888888777     555544222223334556666666665 578899999998877553


Q ss_pred             CCCCChh-----hHHHHHHHHhccCChHHHHHHHHHHHHhCCC--CC--ccHHHHH-HHHHHhcCChhHHHHHHhccCC-
Q 005476          116 SVEPDRF-----TFACTLKACSRIRALEEGEQIHAQILKSGFG--CR--QLVTNTL-IHLYANCGRIDIARKMFDRMSN-  184 (695)
Q Consensus       116 g~~p~~~-----~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~--~~--~~~~~~L-i~~y~~~g~~~~A~~~f~~m~~-  184 (695)
                      .-+++-.     .-..+++.+.+.+... |....+..++.--.  ..  ...+.-+ +..+...++...|.+.++.+.. 
T Consensus        90 ~~~~~~~d~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~  168 (608)
T PF10345_consen   90 CERHRLTDLKFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQL  168 (608)
T ss_pred             ccccchHHHHHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            3222211     1223345455544444 88777776654211  11  2222333 3333334788888888876643 


Q ss_pred             ------CCeehHHHHHHHHH--hCCChhHHHHHHHHHHHcCC---------CCCHhHHHHHHHHHh--ccCChhHHHHHH
Q 005476          185 ------RDVFSWNSMFSGYV--KTECWREIVDLFNEMRDLGV---------KFDEVTLINVLMACG--RLADIELGGWIS  245 (695)
Q Consensus       185 ------~~~~~~~~li~~~~--~~g~~~~A~~~~~~m~~~g~---------~pd~~t~~~ll~a~~--~~~~~~~a~~~~  245 (695)
                            +-+...-.++.+..  +.+..+++++.++++.....         .|-..+|..+++.++  ..|+++.+.+.+
T Consensus       169 a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L  248 (608)
T PF10345_consen  169 ANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKL  248 (608)
T ss_pred             hhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence                  11222233333333  45666777777777633221         223344666666554  446655666555


Q ss_pred             HHHH
Q 005476          246 EYME  249 (695)
Q Consensus       246 ~~~~  249 (695)
                      ..+.
T Consensus       249 ~~lq  252 (608)
T PF10345_consen  249 KQLQ  252 (608)
T ss_pred             HHHH
Confidence            4443

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=92.36  E-value=11  Score=39.52  Aligned_cols=55  Identities=11%  Similarity=0.136  Sum_probs=30.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCC-CH-HHHHHHHHHHhccccHHHHHHHHHHc
Q 005476          395 LIQCLASNGQGERALETYYIMREKNIEP-ND-VAFIAVLSACSHVGMVDEGRELFVSM  450 (695)
Q Consensus       395 li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~-~t~~~ll~a~~~~g~~~~a~~~~~~~  450 (695)
                      +..+..+.|+.++|++.|++|.+.. ++ |. .....|+.++...+.+.++..++.+-
T Consensus       265 LAmCarklGr~~EAIk~~rdLlke~-p~~~~l~IrenLie~LLelq~Yad~q~lL~kY  321 (539)
T PF04184_consen  265 LAMCARKLGRLREAIKMFRDLLKEF-PNLDNLNIRENLIEALLELQAYADVQALLAKY  321 (539)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHhhC-CccchhhHHHHHHHHHHhcCCHHHHHHHHHHh
Confidence            4445556666666666666665421 11 11 24445666666666666666665554

The molecular function of this protein is uncertain.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=92.34  E-value=5.7  Score=42.69  Aligned_cols=115  Identities=15%  Similarity=0.102  Sum_probs=76.5

Q ss_pred             cccHHHHHHHHHHchhhcCCCCChhHHH-HHHHHHhhcCCHHHHHHHHHhCCC------CCCHhhHHHHHHHHHhcCChh
Q 005476          437 VGMVDEGRELFVSMSRDFDLEPRMEHYG-CMVDILGRAGLVEEAYQFIKNMPI------PPNPVIWRTLLAACRAHKNVK  509 (695)
Q Consensus       437 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~-~li~~~~~~g~~~~A~~~~~~m~~------~p~~~~~~~ll~a~~~~g~~~  509 (695)
                      ....+.+.++++.+.+.   -|+...|. --...+...|++++|.+.|++.-.      ......+--+...+....+++
T Consensus       246 ~~~~~~a~~lL~~~~~~---yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~  322 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKR---YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWE  322 (468)
T ss_pred             CCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHH
Confidence            45677788888888653   35544443 234556677888888888886410      011223334556677888999


Q ss_pred             HHHHHHHHHHhcCCCCcccHH-HHHHHHHHcCCH-------HHHHHHHHHHHh
Q 005476          510 VGEESLKNLVTLEPMHSGDYI-LLSDIYASAGRC-------EDALRVMNQMRE  554 (695)
Q Consensus       510 ~a~~~~~~~~~~~p~~~~~~~-~l~~~~~~~g~~-------~~a~~~~~~m~~  554 (695)
                      +|.+.+.++.+...-+...|. ..+-+|...|+.       ++|.+++.+...
T Consensus       323 ~A~~~f~~L~~~s~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  323 EAAEYFLRLLKESKWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            999999999987654444554 455566778888       888888887765

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.21  E-value=1.1  Score=43.83  Aligned_cols=159  Identities=12%  Similarity=0.041  Sum_probs=114.4

Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHH----HHHHhhcCCH
Q 005476          401 SNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCM----VDILGRAGLV  476 (695)
Q Consensus       401 ~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l----i~~~~~~g~~  476 (695)
                      -+|+..+|-..++++.+. .+.|...+.-.=.+|...|+.+.-...++++..  ...|+...|.-+    .-++..+|-+
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip--~wn~dlp~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIP--KWNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhcc--ccCCCCcHHHHHHHHHHhhHHHhccc
Confidence            478888998999998874 555667888788899999999999999988875  446666555443    4445689999


Q ss_pred             HHHHHHHHhC-CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCC----CcccHHHHHHHHHHcCCHHHHHHHHH
Q 005476          477 EEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPM----HSGDYILLSDIYASAGRCEDALRVMN  550 (695)
Q Consensus       477 ~~A~~~~~~m-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~a~~~~~  550 (695)
                      ++|++.-++. .+.| |.-.-.++.......|+..++.+...+--..-..    -.-.|-..+-.|...+.++.|+++|+
T Consensus       192 ~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  192 DDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            9999998886 4444 4444456666677888999998887765432221    12245566666778899999999999


Q ss_pred             HHHhCCCccCCc
Q 005476          551 QMREQGIKKTPG  562 (695)
Q Consensus       551 ~m~~~~~~~~~~  562 (695)
                      .=.-..+.++.+
T Consensus       272 ~ei~k~l~k~Da  283 (491)
T KOG2610|consen  272 REIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHhhccch
Confidence            876555555554

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=92.04  E-value=4.8  Score=37.15  Aligned_cols=178  Identities=15%  Similarity=0.114  Sum_probs=101.6

Q ss_pred             CCHHHHHHHHhcCC--CC-ChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhccccHHHHHHHH
Q 005476          372 GLIENAVEVFKKMP--LK-NVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDV-AFIAVLSACSHVGMVDEGRELF  447 (695)
Q Consensus       372 g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~  447 (695)
                      |-..-|+--|.+..  .| -+..||-+.--+...|+++.|.+.|+...+  +.|... ++..-.-++--.|+++-|.+-|
T Consensus        79 GL~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~E--LDp~y~Ya~lNRgi~~YY~gR~~LAq~d~  156 (297)
T COG4785          79 GLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLE--LDPTYNYAHLNRGIALYYGGRYKLAQDDL  156 (297)
T ss_pred             hHHHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhc--cCCcchHHHhccceeeeecCchHhhHHHH
Confidence            44444444444332  23 345678777778888999999999988887  555432 3332223445568888887766


Q ss_pred             HHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHH-HhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC-
Q 005476          448 VSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFI-KNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMH-  525 (695)
Q Consensus       448 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~-~~m~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~-  525 (695)
                      ...-+.-.-.|-...|--+   -.+.-++.+|..-+ ++. ...|..-|...|-.+.- |++. -+.+++++.+-..++ 
T Consensus       157 ~~fYQ~D~~DPfR~LWLYl---~E~k~dP~~A~tnL~qR~-~~~d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~a~~n~  230 (297)
T COG4785         157 LAFYQDDPNDPFRSLWLYL---NEQKLDPKQAKTNLKQRA-EKSDKEQWGWNIVEFYL-GKIS-EETLMERLKADATDNT  230 (297)
T ss_pred             HHHHhcCCCChHHHHHHHH---HHhhCCHHHHHHHHHHHH-HhccHhhhhHHHHHHHH-hhcc-HHHHHHHHHhhccchH
Confidence            5554321222222223222   22344666665433 333 23455666665554422 2111 123344443322222 


Q ss_pred             ------cccHHHHHHHHHHcCCHHHHHHHHHHHHhCCC
Q 005476          526 ------SGDYILLSDIYASAGRCEDALRVMNQMREQGI  557 (695)
Q Consensus       526 ------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  557 (695)
                            ..+|.-|+.-|...|+.++|..+|+.....++
T Consensus       231 ~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiannV  268 (297)
T COG4785         231 SLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANNV  268 (297)
T ss_pred             HHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhH
Confidence                  35889999999999999999999998876544

>PRK09687 putative lyase; Provisional

Probab=91.90  E-value=14  Score=36.58  Aligned_cols=80  Identities=11%  Similarity=0.068  Sum_probs=36.3

Q ss_pred             CchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCH----HHHHHHHHHhHHCCCCCCHHHHHHHH
Q 005476          255 GNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRC----KEALGVFHDMQMANVVPNEVTMVSVL  330 (695)
Q Consensus       255 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~----~~A~~~~~~m~~~g~~pd~~t~~~ll  330 (695)
                      +|..+....+..+...|..+-...+..-+..+|...-...+.++.+.|+.    .+++..+..+...  .||...-...+
T Consensus        35 ~d~~vR~~A~~aL~~~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~~A~  112 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRASAI  112 (280)
T ss_pred             CCHHHHHHHHHHHHhcCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHHHHH
Confidence            34444444445555554433222222222334444444455555555542    3456666655332  34444444444


Q ss_pred             HHHhcc
Q 005476          331 SCCAVL  336 (695)
Q Consensus       331 ~a~~~~  336 (695)
                      .++...
T Consensus       113 ~aLG~~  118 (280)
T PRK09687        113 NATGHR  118 (280)
T ss_pred             HHHhcc
Confidence            444443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=91.84  E-value=12  Score=35.73  Aligned_cols=58  Identities=10%  Similarity=0.125  Sum_probs=46.8

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCcc---cHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 005476          498 LLAACRAHKNVKVGEESLKNLVTLEPMHSG---DYILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       498 ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      +..-|.+.|.+..|..-++.+++.-|+.+.   .+..+..+|...|..++|.+.-+-+...
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            445688999999999999999998765544   4557778899999999999988776653

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=91.83  E-value=14  Score=36.54  Aligned_cols=17  Identities=18%  Similarity=-0.089  Sum_probs=9.9

Q ss_pred             HHhcCChhHHHHHHHHH
Q 005476          502 CRAHKNVKVGEESLKNL  518 (695)
Q Consensus       502 ~~~~g~~~~a~~~~~~~  518 (695)
                      +.+.++++.|.+.++-.
T Consensus       256 ~~~~k~y~~A~~w~~~a  272 (278)
T PF08631_consen  256 HYKAKNYDEAIEWYELA  272 (278)
T ss_pred             HHhhcCHHHHHHHHHHH
Confidence            44556666666666544

It is also involved in sporulation [].

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=91.64  E-value=13  Score=35.58  Aligned_cols=141  Identities=14%  Similarity=0.183  Sum_probs=78.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCC-CCC-CHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHH
Q 005476          391 FWTVLIQCLASNGQGERALETYYIMREKN-IEP-NDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVD  468 (695)
Q Consensus       391 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g-~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  468 (695)
                      .|-.-+..-.+.|++++|.+.|+.+..+. ..| ...+...++-++-+.+++++|....++..+.++-.|++. |...+.
T Consensus        36 ~LY~~g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~d-Y~~Ylk  114 (254)
T COG4105          36 ELYNEGLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNAD-YAYYLK  114 (254)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChh-HHHHHH
Confidence            33334444456677777777777776532 111 233555566666677777777777777766555555543 222333


Q ss_pred             HHhhcCCHHHHHHHHHhCC-CCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcc-----------------cHH
Q 005476          469 ILGRAGLVEEAYQFIKNMP-IPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSG-----------------DYI  530 (695)
Q Consensus       469 ~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~-----------------~~~  530 (695)
                      +++          .|...+ ...|.             .-...|...|+.+++.-|++..                 .=.
T Consensus       115 gLs----------~~~~i~~~~rDq-------------~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em  171 (254)
T COG4105         115 GLS----------YFFQIDDVTRDQ-------------SAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEM  171 (254)
T ss_pred             HHH----------HhccCCccccCH-------------HHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHH
Confidence            332          111110 00011             1123444555555555555422                 123


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhC
Q 005476          531 LLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       531 ~l~~~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      .+++-|.+.|.|.-|..-+++|.+.
T Consensus       172 ~IaryY~kr~~~~AA~nR~~~v~e~  196 (254)
T COG4105         172 AIARYYLKRGAYVAAINRFEEVLEN  196 (254)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHhc
Confidence            6788899999999999999999885

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=91.40  E-value=0.39  Score=30.40  Aligned_cols=26  Identities=27%  Similarity=0.310  Sum_probs=21.0

Q ss_pred             cHHHHHHHHHHcCCHHHHHHHHHHHH
Q 005476          528 DYILLSDIYASAGRCEDALRVMNQMR  553 (695)
Q Consensus       528 ~~~~l~~~~~~~g~~~~a~~~~~~m~  553 (695)
                      +|..|+++|.+.|+|++|..++++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            36788999999999999999998854

>PRK09687 putative lyase; Provisional

Probab=91.25  E-value=17  Score=36.09  Aligned_cols=132  Identities=8%  Similarity=-0.082  Sum_probs=66.3

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHcCCCCCHhHHHHHHHHHhccC-ChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHh
Q 005476          191 NSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLA-DIELGGWISEYMEEKELNGNVKLMTAVVDMYAK  269 (695)
Q Consensus       191 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~-~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  269 (695)
                      -..+.++.+.++ ++++..+-.+.+   .+|...-...+.+++..+ +...+...+..+.   -.++..+....+.++.+
T Consensus       146 ~~a~~aLg~~~~-~~ai~~L~~~L~---d~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L---~D~~~~VR~~A~~aLg~  218 (280)
T PRK09687        146 FAVAFALSVIND-EAAIPLLINLLK---DPNGDVRNWAAFALNSNKYDNPDIREAFVAML---QDKNEEIRIEAIIGLAL  218 (280)
T ss_pred             HHHHHHHhccCC-HHHHHHHHHHhc---CCCHHHHHHHHHHHhcCCCCCHHHHHHHHHHh---cCCChHHHHHHHHHHHc
Confidence            344444444444 344455444443   233333333334444332 1122333333322   24466666677777777


Q ss_pred             cCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHh
Q 005476          270 CGHVDKARRLFEQMNIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCA  334 (695)
Q Consensus       270 ~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~  334 (695)
                      .|+.+..-.+.+.+..++  ..-..+.++.+.|.. +|+..+.++...  .||...-...+.+|.
T Consensus       219 ~~~~~av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~~  278 (280)
T PRK09687        219 RKDKRVLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKLK  278 (280)
T ss_pred             cCChhHHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHHh
Confidence            777443333334444333  233566777777775 677777777754  356666555555553

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.12  E-value=28  Score=38.48  Aligned_cols=117  Identities=14%  Similarity=0.162  Sum_probs=91.1

Q ss_pred             CCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhhHHHH
Q 005476          419 NIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTL  498 (695)
Q Consensus       419 g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~l  498 (695)
                      |..-...|.+--+.-+...|...+|.++-.+..     -||-..|.-=+.+++..+++++-+++-+++.   .+.-|.-+
T Consensus       679 ~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLekfAkskk---sPIGy~PF  750 (829)
T KOG2280|consen  679 GGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEKFAKSKK---SPIGYLPF  750 (829)
T ss_pred             ccccccCcHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC---CCCCchhH
Confidence            333444466666777788899999998877663     3888888888999999999999998888763   24557778


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHH
Q 005476          499 LAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQ  551 (695)
Q Consensus       499 l~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  551 (695)
                      ..+|.+.|+.++|.+.+.+.-.        +.-...+|.+.|++.+|.++--+
T Consensus       751 Ve~c~~~~n~~EA~KYiprv~~--------l~ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  751 VEACLKQGNKDEAKKYIPRVGG--------LQEKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HHHHHhcccHHHHhhhhhccCC--------hHHHHHHHHHhccHHHHHHHHHH
Confidence            9999999999999988877632        22577889999999999877543

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=90.73  E-value=22  Score=36.56  Aligned_cols=149  Identities=10%  Similarity=-0.012  Sum_probs=74.1

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCC--hh
Q 005476          387 KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEP---NDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPR--ME  461 (695)
Q Consensus       387 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p---~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~--~~  461 (695)
                      ....+|..+...+.+.|+++.|...+.++...+..+   +......-....-..|+..+|...++..... .+..+  ..
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~-~~~~~~~~~  222 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC-RLSKNIDSI  222 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH-Hhhhccccc
Confidence            344567778888888888888888888877643111   1222222233444567777777777766541 11111  11


Q ss_pred             HHHHHHHHHhhcCCHHHHHHH-HHhCCCCCCHhhHHHHHHHHHh------cCChhHHHHHHHHHHhcCCCCcccHHHHHH
Q 005476          462 HYGCMVDILGRAGLVEEAYQF-IKNMPIPPNPVIWRTLLAACRA------HKNVKVGEESLKNLVTLEPMHSGDYILLSD  534 (695)
Q Consensus       462 ~~~~li~~~~~~g~~~~A~~~-~~~m~~~p~~~~~~~ll~a~~~------~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  534 (695)
                      ....+...+..  ..+..... ........-...+..+..-+..      .++.+.+...++.+.++.|.....|..++.
T Consensus       223 ~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a~  300 (352)
T PF02259_consen  223 SNAELKSGLLE--SLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHSWAL  300 (352)
T ss_pred             cHHHHhhcccc--ccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHHHHH
Confidence            11111111000  00000000 0000000001122222222333      377888899999999999887777777766


Q ss_pred             HHHH
Q 005476          535 IYAS  538 (695)
Q Consensus       535 ~~~~  538 (695)
                      .+.+
T Consensus       301 ~~~~  304 (352)
T PF02259_consen  301 FNDK  304 (352)
T ss_pred             HHHH
Confidence            6543

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PRK15331 chaperone protein SicA; Provisional

Probab=90.57  E-value=2  Score=38.05  Aligned_cols=83  Identities=8%  Similarity=-0.060  Sum_probs=32.7

Q ss_pred             HcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHH
Q 005476           97 TLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIAR  176 (695)
Q Consensus        97 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~  176 (695)
                      ...|++++|..+|.-+...+.. |..-+..|..++-..++++.|...+......+ ..|+...-....+|...|+.+.|+
T Consensus        48 y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~~~~~A~  125 (165)
T PRK15331         48 YNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRKAAKAR  125 (165)
T ss_pred             HHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCCHHHHH
Confidence            3444555555555444432211 12222222222333344444544444444333 123333333334444444444444


Q ss_pred             HHHhc
Q 005476          177 KMFDR  181 (695)
Q Consensus       177 ~~f~~  181 (695)
                      ..|+.
T Consensus       126 ~~f~~  130 (165)
T PRK15331        126 QCFEL  130 (165)
T ss_pred             HHHHH
Confidence            44443

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=90.31  E-value=10  Score=32.10  Aligned_cols=64  Identities=8%  Similarity=0.039  Sum_probs=42.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHhCC
Q 005476          290 AWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRM  354 (695)
Q Consensus       290 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~~~  354 (695)
                      ..+..+...++.|.-+.--+++.++... -.+++.....+..||.+.|+..++..++.++-+.|+
T Consensus        88 ~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   88 YVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            3445566777888888877888777653 367777777888888888888888888888777774

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=90.03  E-value=0.54  Score=29.07  Aligned_cols=31  Identities=13%  Similarity=0.119  Sum_probs=22.7

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhcCCC
Q 005476          494 IWRTLLAACRAHKNVKVGEESLKNLVTLEPM  524 (695)
Q Consensus       494 ~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~  524 (695)
                      +|..+...+...|++++|...++++++++|+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~   33 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELNPD   33 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            4566666777777788888877777777763

...

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=89.96  E-value=6.3  Score=39.33  Aligned_cols=60  Identities=8%  Similarity=0.062  Sum_probs=33.4

Q ss_pred             hHHHHHHHHHHHcCCCCCHhH--HHHHHHHHhccCC--hhHHHHHHHHHHHhCCCCchHHHHHH
Q 005476          204 REIVDLFNEMRDLGVKFDEVT--LINVLMACGRLAD--IELGGWISEYMEEKELNGNVKLMTAV  263 (695)
Q Consensus       204 ~~A~~~~~~m~~~g~~pd~~t--~~~ll~a~~~~~~--~~~a~~~~~~~~~~g~~~~~~~~~~l  263 (695)
                      +.+..+|+.+.+.|+..+...  .+.++..+....+  ...+..+++.+.+.|++.....|..+
T Consensus       160 ~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  160 ERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHH
Confidence            455667777777676654432  3334433333322  23566677777777776655555444

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=89.91  E-value=1.1  Score=40.65  Aligned_cols=89  Identities=18%  Similarity=0.173  Sum_probs=66.0

Q ss_pred             HHhhcCCHHHHHHHHHhC-CCCC------CHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCC
Q 005476          469 ILGRAGLVEEAYQFIKNM-PIPP------NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGR  541 (695)
Q Consensus       469 ~~~~~g~~~~A~~~~~~m-~~~p------~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  541 (695)
                      -+.+.|++++|..-|.+. ..-|      -.+.|..-..+..+.+..+.|+.-..++++++|....+...-+.+|.+..+
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~ek  183 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKMEK  183 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhh
Confidence            355667777776666553 1111      233455555667888999999999999999999777777777889999999


Q ss_pred             HHHHHHHHHHHHhCCC
Q 005476          542 CEDALRVMNQMREQGI  557 (695)
Q Consensus       542 ~~~a~~~~~~m~~~~~  557 (695)
                      +++|+.-++++.+...
T Consensus       184 ~eealeDyKki~E~dP  199 (271)
T KOG4234|consen  184 YEEALEDYKKILESDP  199 (271)
T ss_pred             HHHHHHHHHHHHHhCc
Confidence            9999999999987543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=89.46  E-value=1.6  Score=42.57  Aligned_cols=61  Identities=26%  Similarity=0.383  Sum_probs=43.3

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          494 IWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       494 ~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      ++..++.++...|+++.+...++++++.+|-+...|..++.+|.+.|+...|+..++.+.+
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            3445566666667777777777777777777777777777777777777777777777654

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=89.39  E-value=0.63  Score=29.42  Aligned_cols=28  Identities=14%  Similarity=0.107  Sum_probs=21.4

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhc
Q 005476          494 IWRTLLAACRAHKNVKVGEESLKNLVTL  521 (695)
Q Consensus       494 ~~~~ll~a~~~~g~~~~a~~~~~~~~~~  521 (695)
                      +|..|...|.+.|++++|++++++++.+
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l   28 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALAL   28 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4677888888888888888888886654

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=89.33  E-value=73  Score=40.48  Aligned_cols=63  Identities=13%  Similarity=0.130  Sum_probs=55.5

Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 005476          492 PVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       492 ~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      ..+|-.....++..|.++.|....-.+.+..+  +..+...+......|+-..|+.++++..+..
T Consensus      1670 ge~wLqsAriaR~aG~~q~A~nall~A~e~r~--~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~ 1732 (2382)
T KOG0890|consen 1670 GECWLQSARIARLAGHLQRAQNALLNAKESRL--PEIVLERAKLLWQTGDELNALSVLQEILSKN 1732 (2382)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHhhhhccc--chHHHHHHHHHHhhccHHHHHHHHHHHHHhh
Confidence            46798999999999999999999988888775  4689999999999999999999999988654

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=89.28  E-value=2.4  Score=35.63  Aligned_cols=87  Identities=17%  Similarity=0.075  Sum_probs=44.5

Q ss_pred             HhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC----CCCCCH---hhHHHHHHHHHhcC
Q 005476          434 CSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM----PIPPNP---VIWRTLLAACRAHK  506 (695)
Q Consensus       434 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~~---~~~~~ll~a~~~~g  506 (695)
                      .+..|+++.|++.|.+.+.  -.+.....||.-..+|--+|+.++|++-+++.    +-+ ..   ..|-.-...|+..|
T Consensus        53 laE~g~Ld~AlE~F~qal~--l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~-trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALC--LAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ-TRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHhccchHHHHHHHHHHHH--hcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHhC
Confidence            4455555555555555542  12224455555555555566666655555443    111 11   12222233466677


Q ss_pred             ChhHHHHHHHHHHhcCC
Q 005476          507 NVKVGEESLKNLVTLEP  523 (695)
Q Consensus       507 ~~~~a~~~~~~~~~~~p  523 (695)
                      +.+.|..-|+.+-+++.
T Consensus       130 ~dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLGS  146 (175)
T ss_pred             chHHHHHhHHHHHHhCC
Confidence            77777777766666553

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=88.82  E-value=17  Score=32.56  Aligned_cols=134  Identities=9%  Similarity=0.061  Sum_probs=79.9

Q ss_pred             HHHHHHHHHcCCCCCHhHHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchH-HHHHHHHHHHhc-CCHHHHHHHHHhcC
Q 005476          207 VDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVK-LMTAVVDMYAKC-GHVDKARRLFEQMN  284 (695)
Q Consensus       207 ~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~-~~~~li~~~~~~-g~~~~A~~~f~~m~  284 (695)
                      ++.++.+.+.++.|+...+..++..+.+.|.+..-    ..++..++-+|.. +-..|++.-.+. .-..-|.+.+.++.
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L----~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~   89 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQL----HQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG   89 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence            45666677788888888888888888888876543    3334445444433 333333221111 01233444444443


Q ss_pred             CCChhHHHHHHHHHHhcCCHHHHHHHHHHhHHCCCCCCHHHHHHHHHHHhccCChhHHHHHHHHHHHh
Q 005476          285 IKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKK  352 (695)
Q Consensus       285 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~  352 (695)
                          ..+..++..+...|++-+|+++.+.....    +......++.+..+.++...--.++......
T Consensus        90 ----~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen   90 ----TAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             ----hhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                24556677888999999999988775322    2222345677777777766666666655553

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=88.80  E-value=14  Score=32.66  Aligned_cols=91  Identities=18%  Similarity=0.145  Sum_probs=55.9

Q ss_pred             HHHHHhccccHHHHHHHHHHchhhcCCCCCh-hHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCHhhHHHHHHHHHhcCC
Q 005476          430 VLSACSHVGMVDEGRELFVSMSRDFDLEPRM-EHYGCMVDILGRAGLVEEAYQFIKNMP-IPPNPVIWRTLLAACRAHKN  507 (695)
Q Consensus       430 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~ll~a~~~~g~  507 (695)
                      +++.-...++.+++..++..+.   -+.|.. ..-..-...+.+.|++.+|..+|+++. -.|....-..|+..|.....
T Consensus        16 ~~~~al~~~~~~D~e~lL~ALr---vLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~   92 (160)
T PF09613_consen   16 VLSVALRLGDPDDAEALLDALR---VLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALG   92 (160)
T ss_pred             HHHHHHccCChHHHHHHHHHHH---HhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcC
Confidence            3344455667777877777774   455643 333334455677888888888888873 23444445667766666555


Q ss_pred             hhHHHHHHHHHHhcCC
Q 005476          508 VKVGEESLKNLVTLEP  523 (695)
Q Consensus       508 ~~~a~~~~~~~~~~~p  523 (695)
                      -..=....+++++.++
T Consensus        93 D~~Wr~~A~evle~~~  108 (160)
T PF09613_consen   93 DPSWRRYADEVLESGA  108 (160)
T ss_pred             ChHHHHHHHHHHhcCC
Confidence            4555555666666654

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.75  E-value=17  Score=40.57  Aligned_cols=140  Identities=11%  Similarity=0.102  Sum_probs=68.5

Q ss_pred             hcchhhcCCHHHHHHHHhcCCC-CChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHH
Q 005476          365 MDFYAKCGLIENAVEVFKKMPL-KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEG  443 (695)
Q Consensus       365 i~~y~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a  443 (695)
                      .+-+.+.|++++|...|-+-.. -++   ..+|.-|....+..+-..+++.+.+.|+.-...| ..||.+|.+.++.++-
T Consensus       375 gd~Ly~Kgdf~~A~~qYI~tI~~le~---s~Vi~kfLdaq~IknLt~YLe~L~~~gla~~dht-tlLLncYiKlkd~~kL  450 (933)
T KOG2114|consen  375 GDYLYGKGDFDEATDQYIETIGFLEP---SEVIKKFLDAQRIKNLTSYLEALHKKGLANSDHT-TLLLNCYIKLKDVEKL  450 (933)
T ss_pred             HHHHHhcCCHHHHHHHHHHHcccCCh---HHHHHHhcCHHHHHHHHHHHHHHHHcccccchhH-HHHHHHHHHhcchHHH
Confidence            3444456666666665543321 111   1234455555555555566666666665433222 2356666666666666


Q ss_pred             HHHHHHchhhcCCC-CChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHH
Q 005476          444 RELFVSMSRDFDLE-PRMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNL  518 (695)
Q Consensus       444 ~~~~~~~~~~~~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~  518 (695)
                      .++.+.-. + |.- -|.   ...+..+.+.+-+++|..+-.+.+.  .......+   +-..+|+++|.+.++.+
T Consensus       451 ~efI~~~~-~-g~~~fd~---e~al~Ilr~snyl~~a~~LA~k~~~--he~vl~il---le~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  451 TEFISKCD-K-GEWFFDV---ETALEILRKSNYLDEAELLATKFKK--HEWVLDIL---LEDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHhcCC-C-cceeeeH---HHHHHHHHHhChHHHHHHHHHHhcc--CHHHHHHH---HHHhcCHHHHHHHHhcC
Confidence            65554432 1 211 122   2345555566666666655555432  22222222   23345666666655543

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=88.08  E-value=1.1  Score=27.65  Aligned_cols=32  Identities=28%  Similarity=0.259  Sum_probs=24.3

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 005476          390 FFWTVLIQCLASNGQGERALETYYIMREKNIEPN  423 (695)
Q Consensus       390 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~  423 (695)
                      .+|..+...|...|++++|+..|++.++  +.|+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~--~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALE--LDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH--HSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHH--HCcC
Confidence            4577788888888888888888888887  5665

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=88.03  E-value=2.3  Score=37.45  Aligned_cols=54  Identities=20%  Similarity=0.227  Sum_probs=36.6

Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 005476          503 RAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       503 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  556 (695)
                      ...++.+.++.++..+.-+.|..+..-..-+..+...|+|.+|.++++.+.+.+
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~   74 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERA   74 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccC
Confidence            455666777777777777777666666666666777777777777777765543

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=87.91  E-value=2.3  Score=36.85  Aligned_cols=55  Identities=13%  Similarity=0.125  Sum_probs=45.4

Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHhCCC
Q 005476          503 RAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGI  557 (695)
Q Consensus       503 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  557 (695)
                      ...++.+.++.++..+.-+.|+.+..-..-+..+...|+|++|.++++...+.+.
T Consensus        21 L~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~   75 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAG   75 (153)
T ss_pred             HhcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCC
Confidence            3478888888888888888888888888888888888999999998888877653

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=87.68  E-value=4  Score=39.90  Aligned_cols=76  Identities=16%  Similarity=0.259  Sum_probs=61.9

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHhcCCC---ChhHHHHHHHHHHhcCCHHHHHHHHHHhHH-----CCCCCCHHHHHH
Q 005476          257 VKLMTAVVDMYAKCGHVDKARRLFEQMNIK---DVVAWSAMISGYSQARRCKEALGVFHDMQM-----ANVVPNEVTMVS  328 (695)
Q Consensus       257 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~pd~~t~~~  328 (695)
                      ..++..++..+..+|+.+.+.+.++++...   |...|..++.+|.+.|+...|+..|+++..     .|+.|-..+...
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            456788899999999999999999988643   678999999999999999999999998865     477777665544


Q ss_pred             HHHH
Q 005476          329 VLSC  332 (695)
Q Consensus       329 ll~a  332 (695)
                      ...+
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            4433

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=87.64  E-value=1.6  Score=29.00  Aligned_cols=33  Identities=21%  Similarity=0.332  Sum_probs=24.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH
Q 005476          391 FWTVLIQCLASNGQGERALETYYIMREKNIEPNDV  425 (695)
Q Consensus       391 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~  425 (695)
                      .|..+...|.+.|++++|+++|++..+  ..|+..
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~--~~P~~~   35 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALA--LDPDDP   35 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH--HCcCCH
Confidence            466677777888888888888888877  566554

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=87.52  E-value=15  Score=37.69  Aligned_cols=66  Identities=15%  Similarity=0.308  Sum_probs=56.1

Q ss_pred             CCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCC----CCcccHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 005476          490 PNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEP----MHSGDYILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       490 p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p----~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  555 (695)
                      ....+|..+...++++|+++.|...+.++...++    ..+.....-+......|+.++|...++...+.
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~  213 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC  213 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3566899999999999999999999999998652    24567777899999999999999999888873

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.24  E-value=27  Score=33.11  Aligned_cols=104  Identities=17%  Similarity=0.189  Sum_probs=55.2

Q ss_pred             HHHHHHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHh
Q 005476           89 YNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYAN  168 (695)
Q Consensus        89 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~  168 (695)
                      |.--..+|....++++|...+.+..+ +.+-|..-|. ..+      .+++|.-+..++.+.  +.-+..++.-..+|..
T Consensus        34 yekAAvafRnAk~feKakdcLlkA~~-~yEnnrslfh-AAK------ayEqaamLake~~kl--sEvvdl~eKAs~lY~E  103 (308)
T KOG1585|consen   34 YEKAAVAFRNAKKFEKAKDCLLKASK-GYENNRSLFH-AAK------AYEQAAMLAKELSKL--SEVVDLYEKASELYVE  103 (308)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHH-HHHhcccHHH-HHH------HHHHHHHHHHHHHHh--HHHHHHHHHHHHHHHH
Confidence            33344556667777777776666553 1222222221 112      244455555555443  2223456666778888


Q ss_pred             cCChhHHHHHHhccCCCCeehHHHHHHHHHhCCChhHHHHHHHHHH
Q 005476          169 CGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMR  214 (695)
Q Consensus       169 ~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  214 (695)
                      +|..+.|-..+++.-            -..++.++++|+++|++-.
T Consensus       104 ~GspdtAAmaleKAa------------k~lenv~Pd~AlqlYqral  137 (308)
T KOG1585|consen  104 CGSPDTAAMALEKAA------------KALENVKPDDALQLYQRAL  137 (308)
T ss_pred             hCCcchHHHHHHHHH------------HHhhcCCHHHHHHHHHHHH
Confidence            888877766665431            1234455666666666643

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.10  E-value=2.1  Score=41.65  Aligned_cols=100  Identities=17%  Similarity=0.303  Sum_probs=64.0

Q ss_pred             cCCCCchhHHHHHHHHHccCCCCCHHHHHHHhccCCC-C------CcchHHHHHHHHHcCCCchHHHHHHHHHHhCCCCC
Q 005476           47 RFHLNPTISENLLEAAAILIPATTMDYALSIFHKINE-P------DSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEP  119 (695)
Q Consensus        47 g~~~~~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~-~------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  119 (695)
                      |.+....+-..++..-...   .+++++...+-+... |      +... .+.++-+. .-++++++.++..-.+.|+-|
T Consensus        59 g~~~s~~~Vd~~V~v~~~~---~~idd~~~~LyKlRhs~~a~~~~~~~~-~~~irlll-ky~pq~~i~~l~npIqYGiF~  133 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSR---EEIDDAEYYLYKLRHSPNAWYLRNWTI-HTWIRLLL-KYDPQKAIYTLVNPIQYGIFP  133 (418)
T ss_pred             CCCcceeehhhhhhccccc---cchhHHHHHHHHHhcCcchhhhccccH-HHHHHHHH-ccChHHHHHHHhCcchhcccc
Confidence            4444555555555554444   677777777655532 2      2111 12222222 236778888888888888888


Q ss_pred             ChhhHHHHHHHHhccCChHHHHHHHHHHHHhC
Q 005476          120 DRFTFACTLKACSRIRALEEGEQIHAQILKSG  151 (695)
Q Consensus       120 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g  151 (695)
                      |.+++..+|+.+.+.+++..|.++...|+...
T Consensus       134 dqf~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  134 DQFTFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             chhhHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            88888888888888888888888777776654

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=86.86  E-value=32  Score=33.53  Aligned_cols=58  Identities=17%  Similarity=0.142  Sum_probs=51.8

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          497 TLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       497 ~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      .....|...|.+.+|.++.+++++++|-+...+-.|...|+..|+--.|.+-++++.+
T Consensus       284 kva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya~  341 (361)
T COG3947         284 KVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYAE  341 (361)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHHH
Confidence            3445689999999999999999999999999999999999999998888888888754

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=86.85  E-value=7.4  Score=35.51  Aligned_cols=94  Identities=14%  Similarity=0.098  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHhccccHHHHHHHHHHchhhcCCCCC------hhH
Q 005476          391 FWTVLIQCLASNGQGERALETYYIMREKNIEPNDV--AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPR------MEH  462 (695)
Q Consensus       391 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~------~~~  462 (695)
                      .+..+..-|.+.|+.++|++.|.++++....|...  .+..++..+...+++..+.....++.....-..|      ...
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~  117 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKV  117 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            35556666777777777777777776655555544  4556666666667766666666555331111111      122


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC
Q 005476          463 YGCMVDILGRAGLVEEAYQFIKNM  486 (695)
Q Consensus       463 ~~~li~~~~~~g~~~~A~~~~~~m  486 (695)
                      |..|.  +...|++.+|-+.|-..
T Consensus       118 ~~gL~--~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  118 YEGLA--NLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHH--HHHhchHHHHHHHHHcc
Confidence            33332  23356777777766655

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=86.72  E-value=35  Score=33.81  Aligned_cols=60  Identities=7%  Similarity=0.055  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHHhcCCHHH---HHHHHHhcCC--C-ChhHHHHHHHHHHhcCCHHHHHHHHHHhHHC
Q 005476          258 KLMTAVVDMYAKCGHVDK---ARRLFEQMNI--K-DVVAWSAMISGYSQARRCKEALGVFHDMQMA  317 (695)
Q Consensus       258 ~~~~~li~~~~~~g~~~~---A~~~f~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  317 (695)
                      .+...|+.+|...+..+.   |.++.+.+..  + ....+-.-+..+.+.++.+++.+.+.+|...
T Consensus        85 ~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYESVEKALNALRLLESEYGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence            345556666666555433   3334444321  1 2333333344444466677777777777654

It is also involved in sporulation [].

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=86.39  E-value=52  Score=35.52  Aligned_cols=119  Identities=15%  Similarity=-0.015  Sum_probs=58.8

Q ss_pred             HHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCC--CCCCHhhHHHHHHH-H
Q 005476          426 AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNMP--IPPNPVIWRTLLAA-C  502 (695)
Q Consensus       426 t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~--~~p~~~~~~~ll~a-~  502 (695)
                      +|...+.--...|+.+...-+|+...-  ...--.+.|--.+.-....|+.+-|..++....  ..|+......+-.+ +
T Consensus       299 nw~~yLdf~i~~g~~~~~~~l~ercli--~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~  376 (577)
T KOG1258|consen  299 NWRYYLDFEITLGDFSRVFILFERCLI--PCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARFE  376 (577)
T ss_pred             HHHHHhhhhhhcccHHHHHHHHHHHHh--HHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHHH
Confidence            555556555666666666666665532  111123334444444444466666655554431  11222211111122 3


Q ss_pred             HhcCChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHH
Q 005476          503 RAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDAL  546 (695)
Q Consensus       503 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  546 (695)
                      -..||+..|..+++.+.+--|.....-..-++...+.|+.+.+.
T Consensus       377 e~~~n~~~A~~~lq~i~~e~pg~v~~~l~~~~~e~r~~~~~~~~  420 (577)
T KOG1258|consen  377 ESNGNFDDAKVILQRIESEYPGLVEVVLRKINWERRKGNLEDAN  420 (577)
T ss_pred             HhhccHHHHHHHHHHHHhhCCchhhhHHHHHhHHHHhcchhhhh
Confidence            34567777777777766644544333334445555666666665

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=85.77  E-value=81  Score=37.12  Aligned_cols=107  Identities=18%  Similarity=0.132  Sum_probs=58.9

Q ss_pred             hhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHH
Q 005476          369 AKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFV  448 (695)
Q Consensus       369 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~  448 (695)
                      -+.|.+.+|..++..=.++-...|.+...-+.+.+.+++|.-+|+..-+         ..-.+.+|...|+++++..+..
T Consensus       919 ~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~  989 (1265)
T KOG1920|consen  919 KKHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAA  989 (1265)
T ss_pred             HhcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHH
Confidence            3445555555555433333333444444555556666666666654321         1224566677777777777776


Q ss_pred             HchhhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC
Q 005476          449 SMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM  486 (695)
Q Consensus       449 ~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  486 (695)
                      ++..  +-.--..+-..|+.-+...++.-+|-++..+.
T Consensus       990 ql~~--~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~ 1025 (1265)
T KOG1920|consen  990 QLSE--GKDELVILAEELVSRLVEQRKHYEAAKILLEY 1025 (1265)
T ss_pred             hhcC--CHHHHHHHHHHHHHHHHHcccchhHHHHHHHH
Confidence            6632  11112233356666777777777777776665

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=84.15  E-value=2.3  Score=26.04  Aligned_cols=31  Identities=32%  Similarity=0.417  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 005476          391 FWTVLIQCLASNGQGERALETYYIMREKNIEPN  423 (695)
Q Consensus       391 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~  423 (695)
                      .|..+...|.+.|++++|++.|++..+  +.|+
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~--l~p~   33 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALE--LDPN   33 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH--HSTT
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH--HCcC
Confidence            456677778888888888888888776  5554

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=83.99  E-value=42  Score=32.28  Aligned_cols=237  Identities=16%  Similarity=0.192  Sum_probs=130.2

Q ss_pred             CCHHHHHHHHHhcCC----C---ChhHHHHHHHHHHhcCCHHHHHHHHHHhHH---CCCC--CCHHHHHHHHHHHhccCC
Q 005476          271 GHVDKARRLFEQMNI----K---DVVAWSAMISGYSQARRCKEALGVFHDMQM---ANVV--PNEVTMVSVLSCCAVLGA  338 (695)
Q Consensus       271 g~~~~A~~~f~~m~~----~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~g~~--pd~~t~~~ll~a~~~~~~  338 (695)
                      .+.++|+.-|.++.+    +   ..-+...||..+.+.|++++.+..|++|..   ..+.  -...+.++++...+...+
T Consensus        41 ~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~  120 (440)
T KOG1464|consen   41 DEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKN  120 (440)
T ss_pred             cCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhh
Confidence            456666666665432    1   223445567777777888877777777742   1122  233456677766665555


Q ss_pred             hhHHHHHHHHHHHh-----CCCCchHHHhHHhcchhhcCCHHHHHHHHhcCCC--------CC-------hhHHHHHHHH
Q 005476          339 LETGKWVHLYVKKK-----RMELTITLGTALMDFYAKCGLIENAVEVFKKMPL--------KN-------VFFWTVLIQC  398 (695)
Q Consensus       339 ~~~a~~i~~~~~~~-----~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--------~~-------~~~~~~li~~  398 (695)
                      .+.-...++--.+.     +-..--.+-+-|...|...|.+..-.+++.++..        .|       ...|..-|..
T Consensus       121 m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQm  200 (440)
T KOG1464|consen  121 MDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQM  200 (440)
T ss_pred             hHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhh
Confidence            55554444432221     1011112334566677777777777777776632        11       2457777888


Q ss_pred             HHhcCChHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHh-----ccccHHHHHHHHHHchhhcCCCCC-----hhHHHHHH
Q 005476          399 LASNGQGERALETYYIMREKN-IEPNDVAFIAVLSACS-----HVGMVDEGRELFVSMSRDFDLEPR-----MEHYGCMV  467 (695)
Q Consensus       399 ~~~~g~~~~A~~l~~~m~~~g-~~p~~~t~~~ll~a~~-----~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~li  467 (695)
                      |...++-.+-..+|++...-. --|-+ ....+|+-|.     +.|.+++|..-|-++.+.|.-.-+     .--|-.|.
T Consensus       201 YT~qKnNKkLK~lYeqalhiKSAIPHP-lImGvIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLA  279 (440)
T KOG1464|consen  201 YTEQKNNKKLKALYEQALHIKSAIPHP-LIMGVIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLA  279 (440)
T ss_pred             hhhhcccHHHHHHHHHHHHhhccCCch-HHHhHHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHH
Confidence            888888888888888766522 22333 3445566664     457788876544444444433222     22355666


Q ss_pred             HHHhhcCC----HHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCChhHHHH
Q 005476          468 DILGRAGL----VEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEE  513 (695)
Q Consensus       468 ~~~~~~g~----~~~A~~~~~~m~~~p~~~~~~~ll~a~~~~g~~~~a~~  513 (695)
                      .++.+.|-    -.+|.-    ....|.......|+.+|.. ++..+-++
T Consensus       280 NMLmkS~iNPFDsQEAKP----yKNdPEIlAMTnlv~aYQ~-NdI~eFE~  324 (440)
T KOG1464|consen  280 NMLMKSGINPFDSQEAKP----YKNDPEILAMTNLVAAYQN-NDIIEFER  324 (440)
T ss_pred             HHHHHcCCCCCcccccCC----CCCCHHHHHHHHHHHHHhc-ccHHHHHH
Confidence            77766651    122210    0124556677888888854 34444333

>PRK11619 lytic murein transglycosylase; Provisional

Probab=83.76  E-value=82  Score=35.49  Aligned_cols=115  Identities=12%  Similarity=0.042  Sum_probs=60.6

Q ss_pred             cCChHHHHHHHHHHHHC-CCCCCHH--HHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHH
Q 005476          402 NGQGERALETYYIMREK-NIEPNDV--AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEE  478 (695)
Q Consensus       402 ~g~~~~A~~l~~~m~~~-g~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  478 (695)
                      ..+.+.|..++.+.... +..+...  ....+.......+...++...++.....   ..+.....--+..-.+.++++.
T Consensus       254 r~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~---~~~~~~~e~r~r~Al~~~dw~~  330 (644)
T PRK11619        254 RQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMR---SQSTSLLERRVRMALGTGDRRG  330 (644)
T ss_pred             HhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhcccc---cCCcHHHHHHHHHHHHccCHHH
Confidence            34567788888776443 2333332  2223322222222245566666554321   1233334444445557888888


Q ss_pred             HHHHHHhCCCCC-CHhhHHH-HHHHHHhcCChhHHHHHHHHHH
Q 005476          479 AYQFIKNMPIPP-NPVIWRT-LLAACRAHKNVKVGEESLKNLV  519 (695)
Q Consensus       479 A~~~~~~m~~~p-~~~~~~~-ll~a~~~~g~~~~a~~~~~~~~  519 (695)
                      +...+..|+..- +...|.- +..+....|+.++|...|+++.
T Consensus       331 ~~~~i~~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a  373 (644)
T PRK11619        331 LNTWLARLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQLM  373 (644)
T ss_pred             HHHHHHhcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            888888874211 1222222 3444455788888888888874

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=83.75  E-value=8  Score=27.02  Aligned_cols=50  Identities=20%  Similarity=0.193  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCccCCceeEEEECCEEEEeecCCCCCcchHHHHHHHHHHHHHHHHcCc
Q 005476          529 YILLSDIYASAGRCEDALRVMNQMREQGIKKTPGCSLIELDGEIYEFLAEDNMCPHFKEVYDATENMMKRIKSAGY  604 (695)
Q Consensus       529 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~l~~~m~~~g~  604 (695)
                      ...++-++.+.|++++|.+..+.+.+.                          .|...++.+.-..+.++|.+.|.
T Consensus         4 lY~lAig~ykl~~Y~~A~~~~~~lL~~--------------------------eP~N~Qa~~L~~~i~~~i~kdgl   53 (53)
T PF14853_consen    4 LYYLAIGHYKLGEYEKARRYCDALLEI--------------------------EPDNRQAQSLKELIEDKIQKDGL   53 (53)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHH--------------------------TTS-HHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhh--------------------------CCCcHHHHHHHHHHHHHHhccCC
Confidence            446777899999999999999998873                          34556666666667777777773

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=83.75  E-value=20  Score=31.98  Aligned_cols=21  Identities=29%  Similarity=0.281  Sum_probs=9.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHhc
Q 005476          263 VVDMYAKCGHVDKARRLFEQM  283 (695)
Q Consensus       263 li~~~~~~g~~~~A~~~f~~m  283 (695)
                      |.-+-.+.|++.+|.+.|.++
T Consensus       173 LglAa~kagd~a~A~~~F~qi  193 (221)
T COG4649         173 LGLAAYKAGDFAKAKSWFVQI  193 (221)
T ss_pred             HhHHHHhccchHHHHHHHHHH
Confidence            333334444444444444444

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=83.60  E-value=46  Score=33.57  Aligned_cols=123  Identities=12%  Similarity=0.009  Sum_probs=66.9

Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHhC-----CCCchHHHhHHhcchhhcCCHHHHHHHHhc-------CCCCChh-----
Q 005476          328 SVLSCCAVLGALETGKWVHLYVKKKR-----MELTITLGTALMDFYAKCGLIENAVEVFKK-------MPLKNVF-----  390 (695)
Q Consensus       328 ~ll~a~~~~~~~~~a~~i~~~~~~~~-----~~~~~~~~~~li~~y~~~g~~~~A~~~~~~-------~~~~~~~-----  390 (695)
                      ++-.+....+.++.+.+.|+.+.+.-     ......++.+|...|.+..++++|.-+...       ..-.|..     
T Consensus       127 ~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~  206 (518)
T KOG1941|consen  127 SMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRA  206 (518)
T ss_pred             hHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHH
Confidence            35556666677777777776665521     112345677777777777777766543332       2223322     


Q ss_pred             -HHHHHHHHHHhcCChHHHHHHHHHHHH----CCCCCCHH-HHHHHHHHHhccccHHHHHHHHHHc
Q 005476          391 -FWTVLIQCLASNGQGERALETYYIMRE----KNIEPNDV-AFIAVLSACSHVGMVDEGRELFVSM  450 (695)
Q Consensus       391 -~~~~li~~~~~~g~~~~A~~l~~~m~~----~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~~  450 (695)
                       +.-.|.-++...|+..+|.+.-++..+    .|-+|... ....+...|...|+.+.|+.-|+..
T Consensus       207 ~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  207 MSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence             122234456666766666666665433    33333222 3344555566667766666665554

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=83.46  E-value=2.4  Score=41.67  Aligned_cols=109  Identities=11%  Similarity=0.014  Sum_probs=76.9

Q ss_pred             HHHHhccccHHHHHHHHHHchhhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCC---HhhHHHHHHHHHhcC
Q 005476          431 LSACSHVGMVDEGRELFVSMSRDFDLEP-RMEHYGCMVDILGRAGLVEEAYQFIKNMPIPPN---PVIWRTLLAACRAHK  506 (695)
Q Consensus       431 l~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~---~~~~~~ll~a~~~~g  506 (695)
                      .+-|.+.|.+++|+..|....   .+.| +.+.+..-..+|.+..++..|+.-.+.. +..|   ...|.--+.+-...|
T Consensus       104 GN~yFKQgKy~EAIDCYs~~i---a~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~A-iaLd~~Y~KAYSRR~~AR~~Lg  179 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAI---AVYPHNPVYHINRALAYLKQKSFAQAEEDCEAA-IALDKLYVKAYSRRMQARESLG  179 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhh---ccCCCCccchhhHHHHHHHHHHHHHHHHhHHHH-HHhhHHHHHHHHHHHHHHHHHh
Confidence            456889999999999998775   4556 7888888888999999998887665554 1112   223444444555668


Q ss_pred             ChhHHHHHHHHHHhcCCCCcccHHHHHHHHHHcCCHHHHHH
Q 005476          507 NVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALR  547 (695)
Q Consensus       507 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  547 (695)
                      +..+|.+-++.+++++|++.    -|-..|++.....++.-
T Consensus       180 ~~~EAKkD~E~vL~LEP~~~----ELkK~~a~i~Sl~E~~I  216 (536)
T KOG4648|consen  180 NNMEAKKDCETVLALEPKNI----ELKKSLARINSLRERKI  216 (536)
T ss_pred             hHHHHHHhHHHHHhhCcccH----HHHHHHHHhcchHhhhH
Confidence            88999999999999999853    34445555555444433

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=83.06  E-value=6.7  Score=33.30  Aligned_cols=48  Identities=19%  Similarity=0.230  Sum_probs=29.3

Q ss_pred             ChhHHHHHHHHHHh-cCCCCccc-HHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          507 NVKVGEESLKNLVT-LEPMHSGD-YILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       507 ~~~~a~~~~~~~~~-~~p~~~~~-~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      +.++++.+++.+.+ -.|....- ..-|+-.+.+.|++++++++.+.+.+
T Consensus        50 dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~   99 (149)
T KOG3364|consen   50 DVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLE   99 (149)
T ss_pred             HHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHh
Confidence            45667777777775 33433322 23455567777777777777776665

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=82.50  E-value=7.6  Score=30.78  Aligned_cols=63  Identities=14%  Similarity=0.186  Sum_probs=49.0

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHH
Q 005476          404 QGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVD  468 (695)
Q Consensus       404 ~~~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  468 (695)
                      +.-++.+-++.+....+-|+.....+.|.||.+.+++..|.++|+.+..+.+  .+...|..+++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~--~~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCG--AHKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--CchhhHHHHHH
Confidence            4446677777777888999999999999999999999999999998864333  34456666553

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=82.30  E-value=14  Score=33.79  Aligned_cols=26  Identities=23%  Similarity=0.420  Sum_probs=12.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHHhccCC
Q 005476          159 TNTLIHLYANCGRIDIARKMFDRMSN  184 (695)
Q Consensus       159 ~~~Li~~y~~~g~~~~A~~~f~~m~~  184 (695)
                      +..+.+.|.+.|+.+.|.+.|.++.+
T Consensus        39 ~~~l~~~~~~~Gd~~~A~k~y~~~~~   64 (177)
T PF10602_consen   39 LEDLADHYCKIGDLEEALKAYSRARD   64 (177)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhh
Confidence            34444555555555555555544443

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.24  E-value=46  Score=31.47  Aligned_cols=21  Identities=0%  Similarity=-0.083  Sum_probs=12.3

Q ss_pred             HhcCChhHHHHHHHHHHhcCC
Q 005476          503 RAHKNVKVGEESLKNLVTLEP  523 (695)
Q Consensus       503 ~~~g~~~~a~~~~~~~~~~~p  523 (695)
                      ...+++.+|+.+|+++....-
T Consensus       165 a~leqY~~Ai~iyeqva~~s~  185 (288)
T KOG1586|consen  165 AQLEQYSKAIDIYEQVARSSL  185 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHhc
Confidence            344566666666666655433

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=82.17  E-value=8.7  Score=30.82  Aligned_cols=61  Identities=13%  Similarity=0.147  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHH
Q 005476          406 ERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVD  468 (695)
Q Consensus       406 ~~A~~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  468 (695)
                      -+..+-++.+....+-|++....+.|.||.+.+++..|.++|+.+..+.+  +....|..+++
T Consensus        27 we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~--~~~~~Y~~~lq   87 (108)
T PF02284_consen   27 WELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCG--NKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTT--T-TTHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--ChHHHHHHHHH
Confidence            35666677777778999999999999999999999999999999876444  44447776654

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional

Probab=82.15  E-value=1.2e+02  Score=36.08  Aligned_cols=47  Identities=4%  Similarity=0.112  Sum_probs=25.4

Q ss_pred             CCCchhHHHHHHHHHccCCCCCHHHHHHHhccCCCCCcchHHHHHHHHHc
Q 005476           49 HLNPTISENLLEAAAILIPATTMDYALSIFHKINEPDSSAYNIMIRAFTL   98 (695)
Q Consensus        49 ~~~~~~~~~ll~~y~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~   98 (695)
                      ++++.+-..-+..+.+.   +..+....+...+..+|...-...+.++.+
T Consensus       632 D~d~~VR~~Av~~L~~~---~~~~~~~~L~~aL~D~d~~VR~~Aa~aL~~  678 (897)
T PRK13800        632 DPDPGVRRTAVAVLTET---TPPGFGPALVAALGDGAAAVRRAAAEGLRE  678 (897)
T ss_pred             CCCHHHHHHHHHHHhhh---cchhHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            56777777777777666   654433444444444554444444444433

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=82.06  E-value=2.9  Score=27.01  Aligned_cols=26  Identities=23%  Similarity=0.207  Sum_probs=10.9

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHh
Q 005476          495 WRTLLAACRAHKNVKVGEESLKNLVT  520 (695)
Q Consensus       495 ~~~ll~a~~~~g~~~~a~~~~~~~~~  520 (695)
                      ++.|...|...|++++|+.+++++++
T Consensus         5 ~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    5 LNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            34444444444444444444444433

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=81.83  E-value=2.7  Score=27.19  Aligned_cols=28  Identities=29%  Similarity=0.485  Sum_probs=24.4

Q ss_pred             ccHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005476          527 GDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       527 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  554 (695)
                      .++..|+.+|...|++++|..++++..+
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            4678999999999999999999999876

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=81.24  E-value=5.9  Score=27.66  Aligned_cols=29  Identities=14%  Similarity=0.130  Sum_probs=24.2

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCc
Q 005476          498 LLAACRAHKNVKVGEESLKNLVTLEPMHS  526 (695)
Q Consensus       498 ll~a~~~~g~~~~a~~~~~~~~~~~p~~~  526 (695)
                      +.-++.+.|+++.|.+..+.+++.+|+|.
T Consensus         7 lAig~ykl~~Y~~A~~~~~~lL~~eP~N~   35 (53)
T PF14853_consen    7 LAIGHYKLGEYEKARRYCDALLEIEPDNR   35 (53)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHHHTTS-H
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHhhCCCcH
Confidence            45578899999999999999999999874

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=81.18  E-value=41  Score=30.20  Aligned_cols=23  Identities=4%  Similarity=0.055  Sum_probs=11.6

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHH
Q 005476          190 WNSMFSGYVKTECWREIVDLFNE  212 (695)
Q Consensus       190 ~~~li~~~~~~g~~~~A~~~~~~  212 (695)
                      +..++..+...|++-+|+++.+.
T Consensus        92 ~~~iievLL~~g~vl~ALr~ar~  114 (167)
T PF07035_consen   92 YEEIIEVLLSKGQVLEALRYARQ  114 (167)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHH
Confidence            33444455555555555555444

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=80.87  E-value=2.2  Score=37.29  Aligned_cols=47  Identities=17%  Similarity=0.279  Sum_probs=19.3

Q ss_pred             HHHHHcCCCchHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHH
Q 005476           93 IRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEE  139 (695)
Q Consensus        93 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~  139 (695)
                      |..+.+.+.+.....+++.+...+...+....+.++..|++.++.+.
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~   60 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEK   60 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchH
Confidence            33344444444444444444443333334444444444444443333

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=80.28  E-value=1.1  Score=39.26  Aligned_cols=86  Identities=14%  Similarity=0.162  Sum_probs=66.2

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHhCCCCCccHHHHHHHHHHhcCChhHHHHHHhccCCCCeehHHHHHHHHHhCCChhH
Q 005476          126 CTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMSNRDVFSWNSMFSGYVKTECWRE  205 (695)
Q Consensus       126 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~  205 (695)
                      .++..+.+.+..+...++++.+.+.+...+....+.|+..|++.++.+...++++....   .-...++..+.+.|.+++
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~   88 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEE   88 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHHH
Confidence            35667777888888888999999877667789999999999999988999988884333   444567777888888888


Q ss_pred             HHHHHHHHH
Q 005476          206 IVDLFNEMR  214 (695)
Q Consensus       206 A~~~~~~m~  214 (695)
                      |.-++.++.
T Consensus        89 a~~Ly~~~~   97 (143)
T PF00637_consen   89 AVYLYSKLG   97 (143)
T ss_dssp             HHHHHHCCT
T ss_pred             HHHHHHHcc
Confidence            888777753

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=80.07  E-value=5.5  Score=41.16  Aligned_cols=121  Identities=14%  Similarity=0.174  Sum_probs=77.7

Q ss_pred             hcCChHHHH-HHHHHHHHCCCCCCHHHHHHHHHHHhccccHHHHHHHHHHchhhcCCCCChhHHHHHHHHHhhcCCHHHH
Q 005476          401 SNGQGERAL-ETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEA  479 (695)
Q Consensus       401 ~~g~~~~A~-~l~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  479 (695)
                      ..|+...|- ++|.-++...-.|+.+...+.|  ..+.|.++.+.+.+....+  -+.....+..+++....+.|++++|
T Consensus       301 ~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~i--~~~lg~ye~~~~~~s~~~~--~~~s~~~~~~~~~r~~~~l~r~~~a  376 (831)
T PRK15180        301 ADGDIIAASQQLFAALRNQQQDPVLIQLRSVI--FSHLGYYEQAYQDISDVEK--IIGTTDSTLRCRLRSLHGLARWREA  376 (831)
T ss_pred             hccCHHHHHHHHHHHHHhCCCCchhhHHHHHH--HHHhhhHHHHHHHhhchhh--hhcCCchHHHHHHHhhhchhhHHHH
Confidence            345554443 4555555555567766555444  5677888888888776643  3445566777888888888888888


Q ss_pred             HHHHHhC-CCC-CCHhhHHHHHHHHHhcCChhHHHHHHHHHHhcCCCC
Q 005476          480 YQFIKNM-PIP-PNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMH  525 (695)
Q Consensus       480 ~~~~~~m-~~~-p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~  525 (695)
                      ..+-+.| +.+ .++.+...-.......|-++++...+++++.++|+.
T Consensus       377 ~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~  424 (831)
T PRK15180        377 LSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPET  424 (831)
T ss_pred             HHHHHHHhccccCChhheeeecccHHHHhHHHHHHHHHHHHhccCChh
Confidence            8887776 111 133333333334556677888888888888887654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	695
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-08
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-10
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-10
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-09
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-05

>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 = 64.5 bits (156), Expect = 9e-11
 Identities = 81/640 (12%), Positives = 175/640 (27%), Gaps = 179/640 (27%)

Query: 35  DLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIF------HKINEPD--S 86
           +  +                 +N  +   +       D   SI       H I   D  S
Sbjct: 10  ETGEHQYQYKDILSVFEDAFVDNF-DCKDVQ------DMPKSILSKEEIDHIIMSKDAVS 62

Query: 87  SAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPD------RFTFACTLKACSRIRALEEG 140
               +     TL    +E V   +  ++  +  +               +      +E+ 
Sbjct: 63  GTLRLFW---TLLSKQEEMV---QKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQR 116

Query: 141 EQIH--AQILKSGFGCR------------QLVTNTLIHLY--ANCGR----IDIAR--KM 178
           ++++   Q+       R            +L     + +      G+    +D+    K+
Sbjct: 117 DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKV 176

Query: 179 FDRMSNRDVFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACG-RLAD 237
             +M  + +F W ++      +        +   ++ L  + D         +   +L  
Sbjct: 177 QCKMDFK-IF-WLNL--KNCNSP-----ETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI 227

Query: 238 IELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGHVDKARRLFEQMNIKDVVAWSAMISG 297
             +   +   ++ K    N  L   V+                   N+++  AW+A    
Sbjct: 228 HSIQAELRRLLKSKPYE-NCLL---VLL------------------NVQNAKAWNAF--- 262

Query: 298 YSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELT 357
                 CK  L      Q+ + +    T                    H+ +    M LT
Sbjct: 263 ---NLSCK-ILLTTRFKQVTDFLSAATT-------------------THISLDHHSMTLT 299

Query: 358 ITLGTALMDFYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMRE 417
                +L+  Y  C   +   EV    P          +  +A + +   A    +    
Sbjct: 300 PDEVKSLLLKYLDCRPQDLPREVLTTNPR--------RLSIIAESIRDGLATWDNW---- 347

Query: 418 KNIEPNDV-----AFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGR 472
           K++  + +     + + VL          E R++F  +S                 +   
Sbjct: 348 KHVNCDKLTTIIESSLNVLEP-------AEYRKMFDRLS-----------------V--- 380

Query: 473 AGLVEEAYQFIKNMPIPPN--PVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYI 530
                    F  +  IP     +IW  ++ +      V V    L     +E       I
Sbjct: 381 ---------FPPSAHIPTILLSLIWFDVIKSD-----VMVVVNKLHKYSLVEKQPKESTI 426

Query: 531 LLSDIY-ASAGRCEDALRVMNQMREQ-GIKKT---PGCSLIELDGEIYEFLA-------E 578
            +  IY     + E+   +   + +   I KT          LD   Y  +         
Sbjct: 427 SIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEH 486

Query: 579 DNMCPHFKEVYDATENMMKRIKSAGYVPNTADARLDAEED 618
                 F+ V+     + ++I+      N + + L+  + 
Sbjct: 487 PERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQ 526

>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 = 57.9 bits (139), Expect = 9e-09
 Identities = 96/601 (15%), Positives = 180/601 (29%), Gaps = 174/601 (28%)

Query: 7   FPAKTVTTITQFPENPKTLIVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILI 66
           F    + T  + P     + ++Q     + NQV A    SR      + + LLE    L 
Sbjct: 93  FLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLE----LR 148

Query: 67  PA-------------TTMDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVM-----L 108
           PA             T +  AL +           + I         SP E V+     L
Sbjct: 149 PAKNVLIDGVLGSGKTWV--ALDVCLSYKVQCKMDFKIFWLNLKNCNSP-ETVLEMLQKL 205

Query: 109 YKTMLQNSVEPDRFTFACTLKACS---RIRALEEGEQ------I-----HAQILKS-GFG 153
              +  N       +    L+  S    +R L + +       +     +A+   +    
Sbjct: 206 LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS 265

Query: 154 CRQLVTNTLIHLYANCGRIDIARKMFDRMSN--RDVFSWNSMFSGYVKTECWREIVDLFN 211
           C+ L+T T         R    +++ D +S       S +             E+  L  
Sbjct: 266 CKILLT-T---------R-F--KQVTDFLSAATTTHISLDHHSMTLTP----DEVKSLL- 307

Query: 212 EMRDLGVKFD----EVTLIN--VLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVD 265
            ++ L  +      EV   N   L          L  W  +    K +N + KL T +++
Sbjct: 308 -LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATW--DNW--KHVNCD-KLTT-IIE 360

Query: 266 MYAKCGHVDKARRLFEQMNI--KDV--------VAWSAMISGYSQARRCKEALGVFHDMQ 315
                    + R++F+++++             + W  +I            +   H   
Sbjct: 361 SSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIK-----SDVMVVVNKLHKYS 415

Query: 316 MANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIE 375
           +    P E T +S+ S             ++L +K K       L  +++D Y      +
Sbjct: 416 LVEKQPKEST-ISIPS-------------IYLELKVKLENEY-ALHRSIVDHYNIPKTFD 460

Query: 376 NAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACS 435
           +  +      L   F+                     +I                L    
Sbjct: 461 S--DDLIPPYLDQYFYS--------------------HIGHH-------------LKNIE 485

Query: 436 HVGMVDEGRELFVSMSRDFD-LEPRMEH-------YGCMVDILGRAGLVEEAY-QFI-KN 485
           H   +   R +F+    DF  LE ++ H        G +++ L +     + Y  +I  N
Sbjct: 486 HPERMTLFRMVFL----DFRFLEQKIRHDSTAWNASGSILNTLQQL----KFYKPYICDN 537

Query: 486 MPIPPNPVIWRTLLAACRAHKNVKVGEESL-----KNLVTLEPMHSGDYILLSDIYASAG 540
            P     V    +L        +   EE+L      +L+ +  M   +      I+  A 
Sbjct: 538 DPKYERLV--NAIL------DFLPKIEENLICSKYTDLLRIALMAEDEA-----IFEEAH 584

Query: 541 R 541
           +
Sbjct: 585 K 585

>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 = 54.9 bits (131), Expect = 8e-08
 Identities = 70/408 (17%), Positives = 122/408 (29%), Gaps = 78/408 (19%)

Query: 312 HDMQMANVVP-NEVTMVSVLSCCAVL----GALETGKWVHLYVKKKRMELTITLGTALMD 366
           H  Q  +++   E   V    C  V       L   +  H+ + K  +  T+ L   L+ 
Sbjct: 14  HQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLS 73

Query: 367 FYAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVA 426
                   E  V+ F +  L+  + +  L+  + +  +    +   YI  +++   ND  
Sbjct: 74  KQ------EEMVQKFVEEVLRINYKF--LMSPIKTEQRQPSMMTRMYI-EQRDRLYNDNQ 124

Query: 427 FIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAG-----LVEEAYQ 481
             A      +V  +    +L     R   LE R       V I G  G     +  +   
Sbjct: 125 VFAKY----NVSRLQPYLKL-----RQALLELRPAKN---VLIDGVLGSGKTWVALDVCL 172

Query: 482 FIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAG- 540
             K        + W  L       KN    E  L+ L  L      ++   SD  ++   
Sbjct: 173 SYKVQCKMDFKIFWLNL-------KNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKL 225

Query: 541 RCEDA-LRVMNQMREQGIKKTPGCSLIELD----GEIYE-FLAEDNMCP-----HFKEVY 589
           R       +   ++ +  +      L+ L      + +  F   +  C       FK+V 
Sbjct: 226 RIHSIQAELRRLLKSKPYEN----CLLVLLNVQNAKAWNAF---NLSCKILLTTRFKQVT 278

Query: 590 DA-TENMMKRIK----SAGYVPNTAD---AR-LDAEEDD--KEASVAHHSEKLAIA-FG- 636
           D  +      I     S    P+       + LD    D  +E    +      ++    
Sbjct: 279 DFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTN---PRRLSIIAE 335

Query: 637 LIRASPGTTIRISKNLRVCTDCHNATKIISKVFNREIVVRDRTRFHHF 684
            IR    T      N +   +C   T II    N       R  F   
Sbjct: 336 SIRDGLAT----WDNWKH-VNCDKLTTIIESSLNVLEPAEYRKMFDRL 378

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 63.3 bits (152), Expect = 2e-10
 Identities = 20/137 (14%), Positives = 48/137 (35%), Gaps = 7/137 (5%)

Query: 208 DLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMY 267
            L +  R       E  L  +L        +++    S    + +L+G  + + A     
Sbjct: 78  CLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCC 137

Query: 268 AKCGHVDKARRLFEQM-------NIKDVVAWSAMISGYSQARRCKEALGVFHDMQMANVV 320
                +  A  L            +  +  ++A++ G+++    KE + V   ++ A + 
Sbjct: 138 LLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLT 197

Query: 321 PNEVTMVSVLSCCAVLG 337
           P+ ++  + L C     
Sbjct: 198 PDLLSYAAALQCMGRQD 214

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 62.1 bits (149), Expect = 4e-10
 Identities = 26/179 (14%), Positives = 58/179 (32%), Gaps = 9/179 (5%)

Query: 101 SPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQILKSGFGCRQLVTN 160
           S Q A  L     Q    P     A  L+      +L+  +    Q  ++    +Q    
Sbjct: 72  SKQMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLL 131

Query: 161 TLIHLYANCGRIDIARKMFDRMSNR-------DVFSWNSMFSGYVKTECWREIVDLFNEM 213
                     ++ +A  +      +        +  +N++  G+ +   ++E+V +   +
Sbjct: 132 AFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMV 191

Query: 214 RDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDMYAKCGH 272
           +D G+  D ++    L   GR       G I   +E+    G          + ++   
Sbjct: 192 KDAGLTPDLLSYAAALQCMGRQDQDA--GTIERCLEQMSQEGLKLQALFTAVLLSEEDR 248

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 59.1 bits (141), Expect = 4e-09
 Identities = 29/260 (11%), Positives = 75/260 (28%), Gaps = 10/260 (3%)

Query: 305 KEALGVFHDMQMANVVPNEVTMVSVLSCCAVLGALETGKWVHLYVKKKRMELTITLGTAL 364
           + A  +    + A   P E  +  +L       +L+  +       + ++        A 
Sbjct: 74  QMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAF 133

Query: 365 MDFYAKCGLIENAVEVFKKM-------PLKNVFFWTVLIQCLASNGQGERALETYYIMRE 417
                    +  A  +            L  +  +  ++   A  G  +  +   +++++
Sbjct: 134 FKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKD 193

Query: 418 KNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVE 477
             + P+ +++ A L             E  +       L+ +      ++    RA +++
Sbjct: 194 AGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLK 253

Query: 478 EAYQFIKNM---PIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSD 534
             ++        P  P PV    LL    A        +    L TL+ +      +   
Sbjct: 254 AVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHMELA 313

Query: 535 IYASAGRCEDALRVMNQMRE 554
                   E       +++ 
Sbjct: 314 SRVCVVSVEKPTLPSKEVKH 333

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 47.9 bits (112), Expect = 1e-05
 Identities = 24/166 (14%), Positives = 50/166 (30%), Gaps = 6/166 (3%)

Query: 19  PENPKTLIVQQCKTTKDLNQVHAHLIKSRFHLNPTISENLLEAAAILIPATTMDYALSIF 78
           P      + Q         Q+     +        +  + L  A  L+            
Sbjct: 103 PGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLL-----VVHHGQR 157

Query: 79  HKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRI-RAL 137
            K        YN ++  +  + + +E V +   +    + PD  ++A  L+   R  +  
Sbjct: 158 QKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDA 217

Query: 138 EEGEQIHAQILKSGFGCRQLVTNTLIHLYANCGRIDIARKMFDRMS 183
              E+   Q+ + G   + L T  L+        +    K+    S
Sbjct: 218 GTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFS 263

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	695
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.96
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.95
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.7
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.65
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.36
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.27
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.26
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.22
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.22
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.19
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.18
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.08
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.08
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.9
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.64
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.63
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.53
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.53
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.53
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.51
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.47
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.44
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.38
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.32
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.31
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.27
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.22
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.21
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.17
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.09
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.07
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.03
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.01
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.96
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.95
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.9
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.86
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.85
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.81
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.8
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.6
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.52
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.49
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.39
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.38
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.33
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.31
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.25
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.24
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.1
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.09
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.93
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.87
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.7
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	90.34

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=9.6e-23  Score=153.00  Aligned_cols=177  Identities=15%  Similarity=0.209  Sum_probs=133.0

Q ss_pred             HHHHHCCHHHCCCHHHHHHHHHCCC---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHC
Q ss_conf             8688130231299799999981099---99942899999999964994899999999998999989-9999999999861
Q 005476          361 GTALMDFYAKCGLIENAVEVFKKMP---LKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPN-DVAFIAVLSACSH  436 (695)
Q Consensus       361 ~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~  436 (695)
                      +..+...+...|++++|...++...   ..+...+..+...+...|++++|+..|++..+  ..|+ ..++..+...+..
T Consensus       206 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~  283 (388)
T d1w3ba_         206 YINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKE  283 (388)
T ss_dssp             HHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TCSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHH
T ss_conf             999715522005299999999985777554799999999999987899999999999998--499989999999999997


Q ss_pred             CCCHHHHHHHHHHCHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             05499999999983541298887528999999976439999999999849-9999-985699999999923894599999
Q 005476          437 VGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEES  514 (695)
Q Consensus       437 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~  514 (695)
                      .|++++|.+.+.....  ..+.+...+..+...+.+.|++++|.+.+++. ...| +..+|..+...+...|++++|...
T Consensus       284 ~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~  361 (388)
T d1w3ba_         284 KGSVAEAEDCYNTALR--LCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMH  361 (388)
T ss_dssp             HSCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHH
T ss_pred             CCCHHHHHHHHHHHHC--CCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHH
T ss_conf             4879999999986540--48730010157999999878999999999999986889899999999999985999999999


Q ss_pred             HHHHHHCCCCCCCCHHHHHHHHHHCCC
Q ss_conf             999884189996309999999997399
Q 005476          515 LKNLVTLEPMHSGDYILLSDIYASAGR  541 (695)
Q Consensus       515 ~~~~~~~~p~~~~~~~~l~~~~~~~g~  541 (695)
                      ++++++++|+++..|..++.+|.+.|+
T Consensus       362 ~~~al~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         362 YKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHCCC
T ss_conf             999997099989999999999998589

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=3.6e-22  Score=149.46  Aligned_cols=219  Identities=16%  Similarity=0.113  Sum_probs=161.0

Q ss_pred             HHCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHCCHHHCCCHHHHHHHHHCCCC---CCHHHHHHHHHHHHHCCCHHHHH
Q ss_conf             850089268999999999918988647886881302312997999999810999---99428999999999649948999
Q 005476          333 CAVLGALETGKWVHLYVKKKRMELTITLGTALMDFYAKCGLIENAVEVFKKMPL---KNVFFWTVLIQCLASNGQGERAL  409 (695)
Q Consensus       333 ~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~  409 (695)
                      ....+....+........... +.....+..+...+...|+.+.|...++....   .+...|..+...+...|++++|+
T Consensus       145 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~  223 (388)
T d1w3ba_         145 LKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAV  223 (388)
T ss_dssp             HHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHH
T ss_pred             CCCCCHHHHHHHHHHHHHCCC-CCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCHHHHH
T ss_conf             211000135678888740258-6106899863630102471999999999999849464999999715522005299999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHCHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHC--C
Q ss_conf             99999998999989999999999986105499999999983541298887528999999976439999999999849--9
Q 005476          410 ETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM--P  487 (695)
Q Consensus       410 ~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m--~  487 (695)
                      ..+++..... ..+...+..+...+...|++++|...|+.+.+  ..+.+...+..+...+...|++++|.+.++..  .
T Consensus       224 ~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  300 (388)
T d1w3ba_         224 AAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRL  300 (388)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCC
T ss_conf             9999857775-54799999999999987899999999999998--49998999999999999748799999999865404


Q ss_pred             CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHC
Q ss_conf             99998569999999992389459999999988418999630999999999739978999999999848
Q 005476          488 IPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       488 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  555 (695)
                      .+.+...+..+...+...|++++|...++++++..|+++..+..++.+|...|++++|...+++..+.
T Consensus       301 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  368 (388)
T d1w3ba_         301 CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             CCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             87300101579999998789999999999999868898999999999999859999999999999970

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=6.9e-14  Score=98.84  Aligned_cols=119  Identities=13%  Similarity=0.123  Sum_probs=90.6

Q ss_pred             CCCHHHHHHHHHHCHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             05499999999983541298887528999999976439999999999849-9999-985699999999923894599999
Q 005476          437 VGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEES  514 (695)
Q Consensus       437 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~  514 (695)
                      .+...++...+...........+...+..+...+...|++++|...+++. ...| +...|..+...+...|++++|...
T Consensus       149 ~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~  228 (323)
T d1fcha_         149 DSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAA  228 (323)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHCCCCCCCCHHHHHH
T ss_conf             65799999999999997130122211103688888888775500211122222222211101333012211110137888


Q ss_pred             HHHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHC
Q ss_conf             99988418999630999999999739978999999999848
Q 005476          515 LKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       515 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  555 (695)
                      ++++++++|.++.++..++.+|...|++++|...+++..+.
T Consensus       229 ~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l  269 (323)
T d1fcha_         229 YRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNM  269 (323)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             77899884324999999999999878999999999999970

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=1.3e-13  Score=97.06  Aligned_cols=127  Identities=11%  Similarity=0.029  Sum_probs=89.2

Q ss_pred             HHCCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHCCCCHHHHHHHHHHCHHHCCCCCCHHHHHHHHHHHHHCCCHHH
Q ss_conf             96499489999999999899-99899999999999861054999999999835412988875289999999764399999
Q 005476          400 ASNGQGERALETYYIMREKN-IEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEE  478 (695)
Q Consensus       400 ~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  478 (695)
                      ...+...+|.+.|.+..... -.++...+..+...+...|++++|...++.....  .+-+...+..+...|.+.|++++
T Consensus       147 ~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~  224 (323)
T d1fcha_         147 LSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEE  224 (323)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCC--CCCCCCCHHHHHHCCCCCCCCHH
T ss_conf             8765799999999999997130122211103688888888775500211122222--22221110133301221111013


Q ss_pred             HHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             99999849-9999-98569999999992389459999999988418999630
Q 005476          479 AYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGD  528 (695)
Q Consensus       479 A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  528 (695)
                      |.+.+++. ...| +..+|..+..++...|++++|...+++++++.|.+...
T Consensus       225 A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~  276 (323)
T d1fcha_         225 AVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGP  276 (323)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC---
T ss_pred             HHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHH
T ss_conf             7888778998843249999999999998789999999999999709757001

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.36  E-value=3e-09  Score=70.47  Aligned_cols=160  Identities=16%  Similarity=0.076  Sum_probs=78.3

Q ss_pred             HHHHHHHCCCHHHHHHHHHHHHHCCC----CCCHHHHHHHHHHHHCCCCHHHHHHHHHHCHHHCCCCC-----CHHHHHH
Q ss_conf             99999964994899999999998999----98999999999998610549999999998354129888-----7528999
Q 005476          395 LIQCLASNGQGERALETYYIMREKNI----EPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEP-----RMEHYGC  465 (695)
Q Consensus       395 li~~~~~~g~~~~A~~~~~~m~~~g~----~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-----~~~~~~~  465 (695)
                      +...+...|+.+.+...+.+......    ......+......+...+....+...+...........     ....+..
T Consensus       139 la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~  218 (366)
T d1hz4a_         139 RAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKV  218 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHH
T ss_conf             87899981456666899999888766300246899998888888764667888899999999998731157269999999


Q ss_pred             HHHHHHHCCCHHHHHHHHHHC-CCCC-----CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHC------CCCCCCCHHHHH
Q ss_conf             999976439999999999849-9999-----9856999999999238945999999998841------899963099999
Q 005476          466 MVDILGRAGLVEEAYQFIKNM-PIPP-----NPVIWRTLLAACRAHKNVKVGEESLKNLVTL------EPMHSGDYILLS  533 (695)
Q Consensus       466 li~~~~~~g~~~~A~~~~~~m-~~~p-----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~------~p~~~~~~~~l~  533 (695)
                      +...+...|++++|...+++. ...+     ....+..+..++...|+++.|...+++++..      .|.....+..++
T Consensus       219 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  298 (366)
T d1hz4a_         219 RVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLN  298 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             99999860448989999999997622466677788999999998758799999999999988764266747999999999


Q ss_pred             HHHHHCCCHHHHHHHHHHHHH
Q ss_conf             999973997899999999984
Q 005476          534 DIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       534 ~~~~~~g~~~~A~~~~~~m~~  554 (695)
                      .+|...|++++|.+.+++..+
T Consensus       299 ~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         299 QLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
T ss_conf             999987899999999999999

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.27  E-value=2.6e-09  Score=70.88  Aligned_cols=162  Identities=11%  Similarity=0.069  Sum_probs=63.9

Q ss_pred             HHHHHHCCHHHCCCHHHHHHHHHCCCC--C-C-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH-HH
Q ss_conf             886881302312997999999810999--9-9-42899999999964994899999999998999989999999999-98
Q 005476          360 LGTALMDFYAKCGLIENAVEVFKKMPL--K-N-VFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLS-AC  434 (695)
Q Consensus       360 ~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~-a~  434 (695)
                      ++...+..+.+.|+++.|..+|+.+..  + + ...|...+....+.|+.+.|.++|+++...+.. +...+..... -+
T Consensus       101 l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~e~  179 (308)
T d2onda1         101 LYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEY  179 (308)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHH
T ss_conf             999999999861338999999999998715786999999999999827868899999999980888-6799999999998


Q ss_pred             HCCCCHHHHHHHHHHCHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHC----CCCCC--HHHHHHHHHHHHHCCCH
Q ss_conf             6105499999999983541298887528999999976439999999999849----99999--85699999999923894
Q 005476          435 SHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM----PIPPN--PVIWRTLLAACRAHKNV  508 (695)
Q Consensus       435 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~--~~~~~~ll~~~~~~g~~  508 (695)
                      ...|+.+.|..+|+.+...  .+.+...+..+++.+.+.|+.+.|..+|++.    +..|+  ...|...+.--..+|+.
T Consensus       180 ~~~~~~~~a~~i~e~~l~~--~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~  257 (308)
T d2onda1         180 YCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDL  257 (308)
T ss_dssp             HTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCH
T ss_pred             HHCCCHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCH
T ss_conf             7655778999999999986--10038899999999998698689999999999827898689999999999999984999


Q ss_pred             HHHHHHHHHHHHCCCC
Q ss_conf             5999999998841899
Q 005476          509 KVGEESLKNLVTLEPM  524 (695)
Q Consensus       509 ~~a~~~~~~~~~~~p~  524 (695)
                      +.+..+.+++.+..|.
T Consensus       258 ~~~~~~~~r~~~~~~~  273 (308)
T d2onda1         258 ASILKVEKRRFTAFRE  273 (308)
T ss_dssp             HHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHCCC
T ss_conf             9999999999987711

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.26  E-value=7.1e-09  Score=68.16  Aligned_cols=93  Identities=8%  Similarity=-0.051  Sum_probs=40.9

Q ss_pred             HHHHHHCCCCHHHHHHHHHHCHHHCCCCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHC-------CCCCC-HHHHHHHH
Q ss_conf             99998610549999999998354129888--7528999999976439999999999849-------99999-85699999
Q 005476          430 VLSACSHVGMVDEGRELFVSMSRDFDLEP--RMEHYGCMVDILGRAGLVEEAYQFIKNM-------PIPPN-PVIWRTLL  499 (695)
Q Consensus       430 ll~a~~~~g~~~~a~~~~~~~~~~~~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~-~~~~~~ll  499 (695)
                      ....+...|+.+.+...+........-.+  ....+..+...+...|++++|...+++.       +..|+ ...+..+.
T Consensus       219 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  298 (366)
T d1hz4a_         219 RVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLN  298 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             99999860448989999999997622466677788999999998758799999999999988764266747999999999


Q ss_pred             HHHHHCCCHHHHHHHHHHHHHCC
Q ss_conf             99992389459999999988418
Q 005476          500 AACRAHKNVKVGEESLKNLVTLE  522 (695)
Q Consensus       500 ~~~~~~g~~~~a~~~~~~~~~~~  522 (695)
                      ..+...|++++|...+++++++.
T Consensus       299 ~~~~~~g~~~~A~~~l~~Al~l~  321 (366)
T d1hz4a_         299 QLYWQAGRKSDAQRVLLDALKLA  321 (366)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHH
T ss_conf             99998789999999999999976

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.22  E-value=7e-11  Score=80.44  Aligned_cols=168  Identities=8%  Similarity=-0.038  Sum_probs=94.6

Q ss_pred             HHCCHHHCCCHHHHHHHHHCCCC---CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCH
Q ss_conf             81302312997999999810999---994289999999996499489999999999899998999999999998610549
Q 005476          364 LMDFYAKCGLIENAVEVFKKMPL---KNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMV  440 (695)
Q Consensus       364 li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~  440 (695)
                      ....+...+..+.|...++....   .+...|+.+...+...|++++|...+.+...  +.|+..   .....+...+..
T Consensus       150 ~~~~~~~~~~~~~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~---~~~~~~~~l~~~  224 (334)
T d1dcea1         150 RFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPEN--VLLKEL---ELVQNAFFTDPN  224 (334)
T ss_dssp             HHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHH--HHHHHH---HHHHHHHHHCSS
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHH--HHHHHH---HHHHHHHHHCCH
T ss_conf             899987445528999999998871898799999999999982688989998877677--689999---999999882441


Q ss_pred             HHHHHHHHHCHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHH
Q ss_conf             9999999983541298887528999999976439999999999849-9999-9856999999999238945999999998
Q 005476          441 DEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNL  518 (695)
Q Consensus       441 ~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~  518 (695)
                      +++...+.....  ..++....+..++..+...|+..+|...+.+. ...| +...|..+...+...|++++|...++++
T Consensus       225 ~~a~~~~~~~l~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~a  302 (334)
T d1dcea1         225 DQSAWFYHRWLL--GRAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTL  302 (334)
T ss_dssp             CSHHHHHHHHHH--SCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH--HCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
T ss_conf             488999998877--186605678879999999866999999999887629137999999999998789999999999999


Q ss_pred             HHCCCCCCCCHHHHHHHHHH
Q ss_conf             84189996309999999997
Q 005476          519 VTLEPMHSGDYILLSDIYAS  538 (695)
Q Consensus       519 ~~~~p~~~~~~~~l~~~~~~  538 (695)
                      ++++|.+...|..|...+.-
T Consensus       303 i~ldP~~~~y~~~L~~~~~~  322 (334)
T d1dcea1         303 KAVDPMRAAYLDDLRSKFLL  322 (334)
T ss_dssp             HHHCGGGHHHHHHHHHHHHH
T ss_pred             HHHCCCCHHHHHHHHHHHHH
T ss_conf             98796639999999999867

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.22  E-value=1.8e-08  Score=65.67  Aligned_cols=183  Identities=10%  Similarity=0.068  Sum_probs=127.4

Q ss_pred             CCCHHHHHHHHHCCC----CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHH
Q ss_conf             299799999981099----9994289999999996499489999999999899998999999999998610549999999
Q 005476          371 CGLIENAVEVFKKMP----LKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGREL  446 (695)
Q Consensus       371 ~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~  446 (695)
                      .+..++|..+|++..    ..+...|...+..+...|+.+.|..+|+++...........+...+..+.+.|+.+.|.++
T Consensus        77 ~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i  156 (308)
T d2onda1          77 KLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMI  156 (308)
T ss_dssp             HHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCHHHHHHH
T ss_conf             02459999999999987499879999999999986133899999999999871578699999999999982786889999


Q ss_pred             HHHCHHHCCCCCCHHHHHHHHHHH-HHCCCHHHHHHHHHHC--CCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCC
Q ss_conf             998354129888752899999997-6439999999999849--9999985699999999923894599999999884189
Q 005476          447 FVSMSRDFDLEPRMEHYGCMVDIL-GRAGLVEEAYQFIKNM--PIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEP  523 (695)
Q Consensus       447 ~~~~~~~~~~~p~~~~~~~li~~~-~~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  523 (695)
                      |..+.+.  .+.+...|...+... ...|+.+.|..+++.+  ..+.+...|...+......|+.+.|..+++++++..|
T Consensus       157 ~~~al~~--~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~  234 (308)
T d2onda1         157 FKKARED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  234 (308)
T ss_dssp             HHHHHTS--TTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSS
T ss_pred             HHHHHHH--CCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC
T ss_conf             9999980--88867999999999987655778999999999986100388999999999986986899999999998278


Q ss_pred             CCCC----CHHHHHHHHHHCCCHHHHHHHHHHHHHC
Q ss_conf             9963----0999999999739978999999999848
Q 005476          524 MHSG----DYILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       524 ~~~~----~~~~l~~~~~~~g~~~~A~~~~~~m~~~  555 (695)
                      .++.    .|..++..-...|+.+.+..+.+++.+.
T Consensus       235 ~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         235 LPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             SCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             986899999999999999849999999999999987

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.19  E-value=2.1e-10  Score=77.58  Aligned_cols=32  Identities=19%  Similarity=0.346  Sum_probs=11.7

Q ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCC
Q ss_conf             856999999999238945999999998841899
Q 005476          492 PVIWRTLLAACRAHKNVKVGEESLKNLVTLEPM  524 (695)
Q Consensus       492 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  524 (695)
                      ...|..+...+. ....+.+...++...++.|.
T Consensus       220 ~~~~~~l~~ll~-~~~~~~~~~~~~~~~~l~~~  251 (315)
T d2h6fa1         220 ESAWNYLKGILQ-DRGLSKYPNLLNQLLDLQPS  251 (315)
T ss_dssp             HHHHHHHHHHHT-TTCGGGCHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHH-HCCHHHHHHHHHHHHHHCCC
T ss_conf             699999877988-62718899999999972877

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.18  E-value=2.6e-09  Score=70.78  Aligned_cols=122  Identities=8%  Similarity=0.082  Sum_probs=41.4

Q ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH
Q ss_conf             999999981999437999999988699999-9300999999984229-92899999999999299998308999999999
Q 005476           90 NIMIRAFTLKQSPQEAVMLYKTMLQNSVEP-DRFTFACTLKACSRIR-ALEEGEQIHAQILKSGFGCRQLVTNTLIHLYA  167 (695)
Q Consensus        90 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~  167 (695)
                      +.+...+.+.+.+++|+.+++.+.+.  .| +...|.....++...+ ++++|...+..+++.. +.+..++..+...+.
T Consensus        47 ~~~~~~~~~~e~~~~Al~~~~~ai~l--nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~~  123 (315)
T d2h6fa1          47 DYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVE  123 (315)
T ss_dssp             HHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
T ss_conf             99999999588669999999999987--988769999999999983767999999999999887-742268988758888


Q ss_pred             HCCCHHHHHHHHHCCCC---CCEEHHHHHHHHHHHCCCHHHHHHHHHHHH
Q ss_conf             34995589999800699---990209999999981899259999999988
Q 005476          168 NCGRIDIARKMFDRMSN---RDVFSWNSMFSGYVKTECWREIVDLFNEMR  214 (695)
Q Consensus       168 ~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  214 (695)
                      +.|++++|...|+++.+   .+...|..+...+.+.|++++|+..++++.
T Consensus       124 ~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al  173 (315)
T d2h6fa1         124 WLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLL  173 (315)
T ss_dssp             HHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHH
T ss_pred             HHCCHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             50537889988755543210046889988778888886678999999999

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.08  E-value=6.3e-10  Score=74.59  Aligned_cols=33  Identities=9%  Similarity=-0.168  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCC
Q ss_conf             699999999923894599999999884189996
Q 005476          494 IWRTLLAACRAHKNVKVGEESLKNLVTLEPMHS  526 (695)
Q Consensus       494 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  526 (695)
                      +|..+...+...|+++.|...++++++.+|.+.
T Consensus       211 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~  243 (259)
T d1xnfa_         211 TNFYLGKYYLSLGDLDSATALFKLAVANNVHNF  243 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCH
T ss_conf             999999999987899999999999998399779

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.08  E-value=2.5e-09  Score=70.98  Aligned_cols=30  Identities=20%  Similarity=0.216  Sum_probs=16.1

Q ss_pred             CCCCHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             963099999999973997899999999984
Q 005476          525 HSGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       525 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  554 (695)
                      ...++..++.+|...|++++|...+++...
T Consensus       208 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  237 (259)
T d1xnfa_         208 LSETNFYLGKYYLSLGDLDSATALFKLAVA  237 (259)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
T ss_conf             099999999999987899999999999998

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.90  E-value=2.4e-08  Score=64.89  Aligned_cols=46  Identities=4%  Similarity=-0.061  Sum_probs=20.4

Q ss_pred             HHHHHCCCHHHHHHHHHHCCCC---CHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             9999539999999999834778---846889898898842997799999
Q 005476          265 DMYAKCGHVDKARRLFEQMNIK---DVVAWSAMISGYSQARRCKEALGV  310 (695)
Q Consensus       265 ~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~  310 (695)
                      ..+...+..+.|...++.....   +..+|+.+...+.+.|++++|...
T Consensus       152 ~~~~~~~~~~~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~  200 (334)
T d1dcea1         152 VAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (334)
T ss_dssp             HHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             HHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCHHHHHHH
T ss_conf             9987445528999999998871898799999999999982688989998

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.64  E-value=2.8e-07  Score=58.36  Aligned_cols=58  Identities=5%  Similarity=0.059  Sum_probs=20.8

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHH
Q ss_conf             6999999999238945999999998841899963099999999973997899999999
Q 005476          494 IWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQ  551 (695)
Q Consensus       494 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  551 (695)
                      .|..+..++...|+++.|+..++++++++|.+..+|..++.+|...|++++|...+++
T Consensus        40 ~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~~~~l~~~~~A~~~~~~   97 (201)
T d2c2la1          40 YYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEMESYDEAIANLQR   97 (201)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
T ss_conf             9981789874100000124788888871887389999999999987999999999999

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.63  E-value=1.2e-06  Score=54.52  Aligned_cols=82  Identities=9%  Similarity=-0.110  Sum_probs=37.2

Q ss_pred             HHHCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHCCCCHHHHHHH
Q ss_conf             231299799999981099999428999999999649948999999999989999899-9999999998610549999999
Q 005476          368 YAKCGLIENAVEVFKKMPLKNVFFWTVLIQCLASNGQGERALETYYIMREKNIEPND-VAFIAVLSACSHVGMVDEGREL  446 (695)
Q Consensus       368 y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~  446 (695)
                      +...|+++.|.+.|.++..++...|..+..+|...|++++|++.|++..+  +.|+. ..|..+..++.+.|++++|...
T Consensus        15 ~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~--ldp~~~~a~~~~g~~~~~~g~~~~A~~~   92 (192)
T d1hh8a_          15 AADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSIN--RDKHLAVAYFQRGMLYYQTEKYDLAIKD   92 (192)
T ss_dssp             HHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHCCHHHHHHH
T ss_conf             99877999999999864898899999999999985891467878999999--8552346678899999854249999999


Q ss_pred             HHHCH
Q ss_conf             99835
Q 005476          447 FVSMS  451 (695)
Q Consensus       447 ~~~~~  451 (695)
                      |+..+
T Consensus        93 ~~kAl   97 (192)
T d1hh8a_          93 LKEAL   97 (192)
T ss_dssp             HHHHH
T ss_pred             HHHHH
T ss_conf             99999

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.53  E-value=1.7e-05  Score=47.44  Aligned_cols=16  Identities=31%  Similarity=0.202  Sum_probs=5.1

Q ss_pred             HHHCCCHHHHHHHHHH
Q ss_conf             9964994899999999
Q 005476          399 LASNGQGERALETYYI  414 (695)
Q Consensus       399 ~~~~g~~~~A~~~~~~  414 (695)
                      +...|++++|+..|++
T Consensus       168 ~~~~g~y~~A~~~~~~  183 (290)
T d1qqea_         168 KALDGQYIEASDIYSK  183 (290)
T ss_dssp             HHHTTCHHHHHHHHHH
T ss_pred             HHHCCHHHHHHHHHHH
T ss_conf             9981739999999999

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.53  E-value=1.2e-07  Score=60.64  Aligned_cols=74  Identities=5%  Similarity=0.019  Sum_probs=38.8

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHCCC---CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             999999999953999999999983477---884688989889884299779999999968789887889999999998
Q 005476          259 LMTAVVDMYAKCGHVDKARRLFEQMNI---KDVVAWSAMISGYSQARRCKEALGVFHDMQMANVVPNEVTMVSVLSCC  333 (695)
Q Consensus       259 ~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~  333 (695)
                      .+..+...+...|++++|...|.+...   .+..+|+.+...+...|+..+|+..|.+..... +|-..++..+...+
T Consensus       154 ~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~  230 (497)
T d1ya0a1         154 CLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKAL  230 (497)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC-CCCHHHHHHHHHHH
T ss_conf             999999999980247899999999998789965999999999998699999999999998179-99789999999999

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.53  E-value=5.6e-07  Score=56.56  Aligned_cols=106  Identities=8%  Similarity=-0.111  Sum_probs=49.2

Q ss_pred             CCHHHHHHHHHHHHCCCCHHHHHHHHHHCHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHC-CCCC-CHHHHHHHH
Q ss_conf             89999999999986105499999999983541298887528999999976439999999999849-9999-985699999
Q 005476          422 PNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLL  499 (695)
Q Consensus       422 p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll  499 (695)
                      |+...+......+...|++++|...|..++..  .+.+...|..+..+|.+.|++++|...+++. ...| +...|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHH
T ss_conf             64999999999999869999999999999985--9998999981789874100000124788888871887389999999


Q ss_pred             HHHHHCCCHHHHHHHHHHHHHCCCCCCCCH
Q ss_conf             999923894599999999884189996309
Q 005476          500 AACRAHKNVKVGEESLKNLVTLEPMHSGDY  529 (695)
Q Consensus       500 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  529 (695)
                      .++...|+++.|...+++++++.|.+...+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~~~~~~  109 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKEQRLNF  109 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCC
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCCCCHHHH
T ss_conf             999987999999999999987495567989

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.51  E-value=4.7e-06  Score=50.91  Aligned_cols=22  Identities=14%  Similarity=0.149  Sum_probs=9.6

Q ss_pred             HHHCCCHHHHHHHHHHHHHCCC
Q ss_conf             9923894599999999884189
Q 005476          502 CRAHKNVKVGEESLKNLVTLEP  523 (695)
Q Consensus       502 ~~~~g~~~~a~~~~~~~~~~~p  523 (695)
                      +...++.+.|...+++..+.+|
T Consensus       209 ~l~~~d~~~A~~~~~~~~~~~~  230 (290)
T d1qqea_         209 QLAATDAVAAARTLQEGQSEDP  230 (290)
T ss_dssp             HHHTTCHHHHHHHHHGGGCC--
T ss_pred             HHHHCCHHHHHHHHHHHHHHCC
T ss_conf             9984659999999999997597

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.47  E-value=2.4e-06  Score=52.75  Aligned_cols=93  Identities=9%  Similarity=-0.084  Sum_probs=37.5

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCC-------------
Q ss_conf             8999999976439999999999849-9999-985699999999923894599999999884189996-------------
Q 005476          462 HYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHS-------------  526 (695)
Q Consensus       462 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~-------------  526 (695)
                      .+..+...|...|++++|.+.|++. ...| +...|..+..++.+.|++++|...++++++..+.+.             
T Consensus        38 ~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~  117 (192)
T d1hh8a_          38 ICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKL  117 (192)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEE
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCC
T ss_conf             99999999998589146787899999985523466788999998542499999999999986726736789986654363


Q ss_pred             ---CCHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             ---3099999999973997899999999984
Q 005476          527 ---GDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       527 ---~~~~~l~~~~~~~g~~~~A~~~~~~m~~  554 (695)
                         .++..++.+|...|++++|.+.++....
T Consensus       118 ~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~  148 (192)
T d1hh8a_         118 FACEVLYNIAFMYAKKEEWKKAEEQLALATS  148 (192)
T ss_dssp             EHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
T ss_conf             0588999999999997899999999999983

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.44  E-value=4.3e-06  Score=51.18  Aligned_cols=87  Identities=15%  Similarity=0.119  Sum_probs=40.4

Q ss_pred             HHHHHCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHH
Q ss_conf             9976439999999999849-9999-9856999999999238945999999998841899963099999999973997899
Q 005476          468 DILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDA  545 (695)
Q Consensus       468 ~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  545 (695)
                      ..|.+.|++++|...|++. ...| +...|..+...+...|+++.|...++++++++|.+..+|..++.+|...|++++|
T Consensus        18 n~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~eA   97 (159)
T d1a17a_          18 NDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAA   97 (159)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHH
T ss_conf             99999589999999866021100011333245678887405421288889999987544668779999999994999999


Q ss_pred             HHHHHHHHH
Q ss_conf             999999984
Q 005476          546 LRVMNQMRE  554 (695)
Q Consensus       546 ~~~~~~m~~  554 (695)
                      ...+++...
T Consensus        98 ~~~~~~a~~  106 (159)
T d1a17a_          98 LRDYETVVK  106 (159)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
T ss_conf             998999987

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.38  E-value=5.5e-06  Score=50.49  Aligned_cols=115  Identities=9%  Similarity=-0.023  Sum_probs=71.8

Q ss_pred             HHHHCCCCHHHHHHHHHHCHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHH
Q ss_conf             9986105499999999983541298887528999999976439999999999849-9999-9856999999999238945
Q 005476          432 SACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVK  509 (695)
Q Consensus       432 ~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~  509 (695)
                      ..+.+.|++++|...|.++++.  .+.+...|..+...|...|++++|...|++. ...| +...|..+..++...|+++
T Consensus        18 n~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~   95 (159)
T d1a17a_          18 NDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFR   95 (159)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHHCCCC--CHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHH
T ss_conf             9999958999999986602110--00113332456788874054212888899999875446687799999999949999


Q ss_pred             HHHHHHHHHHHCCCCCCCCHHHHHHHH--HHCCCHHHHHHH
Q ss_conf             999999998841899963099999999--973997899999
Q 005476          510 VGEESLKNLVTLEPMHSGDYILLSDIY--ASAGRCEDALRV  548 (695)
Q Consensus       510 ~a~~~~~~~~~~~p~~~~~~~~l~~~~--~~~g~~~~A~~~  548 (695)
                      +|...+++++++.|.+...+..+..+.  ...+.++++...
T Consensus        96 eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          96 AALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             99998999987299979999999999999998989999757

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.32  E-value=6.1e-06  Score=50.23  Aligned_cols=91  Identities=19%  Similarity=0.167  Sum_probs=69.6

Q ss_pred             HHHHHHHCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHH
Q ss_conf             999976439999999999849-9999-98569999999992389459999999988418999630999999999739978
Q 005476          466 MVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCE  543 (695)
Q Consensus       466 li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  543 (695)
                      -...+.+.|++++|...|++. ...| +...|..+..++...|+++.|+..++++++++|.++..|..++.+|...|+++
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHCCCHH
T ss_conf             99999996999999999999886199601343000110110000112100134677740220267788999999812799


Q ss_pred             HHHHHHHHHHHCC
Q ss_conf             9999999998489
Q 005476          544 DALRVMNQMREQG  556 (695)
Q Consensus       544 ~A~~~~~~m~~~g  556 (695)
                      +|...+++..+..
T Consensus        89 ~A~~~~~~a~~~~  101 (117)
T d1elwa_          89 EAKRTYEEGLKHE  101 (117)
T ss_dssp             HHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHC
T ss_conf             9999999999849

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.31  E-value=2.4e-05  Score=46.59  Aligned_cols=59  Identities=10%  Similarity=0.005  Sum_probs=27.0

Q ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             99999999238945999999998841899963099999999973997899999999984
Q 005476          496 RTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       496 ~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  554 (695)
                      ..+..++.+.|+++.|+..++++++++|.++..+..++.+|...|++++|...+++..+
T Consensus        66 ~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  124 (170)
T d1p5qa1          66 LNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQ  124 (170)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999988642110110000000100223103467779999872229999999999997

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.27  E-value=9.6e-06  Score=49.02  Aligned_cols=104  Identities=12%  Similarity=0.022  Sum_probs=68.1

Q ss_pred             HHHHHCCCCHHHHHHHHHHCHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCH
Q ss_conf             99986105499999999983541298887528999999976439999999999849-9999-985699999999923894
Q 005476          431 LSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNV  508 (695)
Q Consensus       431 l~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~  508 (695)
                      ...+...|++++|...|...++.  -+.+...|..+..+|...|++++|...+++. ...| +...|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHC--CCCCHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHCCCH
T ss_conf             99999969999999999998861--9960134300011011000011210013467774022026778899999981279


Q ss_pred             HHHHHHHHHHHHCCCCCCCCHHHHHHHH
Q ss_conf             5999999998841899963099999999
Q 005476          509 KVGEESLKNLVTLEPMHSGDYILLSDIY  536 (695)
Q Consensus       509 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~  536 (695)
                      +.|+..++++++.+|.++..+..+.++-
T Consensus        88 ~~A~~~~~~a~~~~p~~~~~~~~l~~l~  115 (117)
T d1elwa_          88 EEAKRTYEEGLKHEANNPQLKEGLQNME  115 (117)
T ss_dssp             HHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             9999999999984989899999999783

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.22  E-value=3.3e-05  Score=45.77  Aligned_cols=130  Identities=11%  Similarity=0.006  Sum_probs=80.7

Q ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHCHHHCCCCCCHHHHHHHHHHHHHC
Q ss_conf             99999996499489999999999899998999999999998610549999999998354129888752899999997643
Q 005476          394 VLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRA  473 (695)
Q Consensus       394 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~  473 (695)
                      .....+.+.|++++|+..|.+....  -|....            ....-......+        ....|..+..+|.+.
T Consensus        18 ~~G~~~~~~~~~~~Ai~~y~~al~~--~~~~~~------------~~~~~~~~~~~~--------~~~~~~nla~~y~k~   75 (170)
T d1p5qa1          18 ERGTVYFKEGKYKQALLQYKKIVSW--LEYESS------------FSNEEAQKAQAL--------RLASHLNLAMCHLKL   75 (170)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH--TTTCCC------------CCSHHHHHHHHH--------HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHH--HHHCCC------------CCHHHHHHHCHH--------HHHHHHHHHHHHHHH
T ss_conf             9999999969999999999999887--510100------------035777640646--------799999999998864


Q ss_pred             CCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHH
Q ss_conf             9999999999849-9999-9856999999999238945999999998841899963099999999973997899
Q 005476          474 GLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDA  545 (695)
Q Consensus       474 g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  545 (695)
                      |++++|...+++. ...| +...|..+..++...|+++.|...++++++++|++......+..+....+...+.
T Consensus        76 ~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~~~  149 (170)
T d1p5qa1          76 QAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAR  149 (170)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             21101100000001002231034677799998722299999999999972989899999999999999999999

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.21  E-value=4.3e-06  Score=51.16  Aligned_cols=91  Identities=13%  Similarity=0.034  Sum_probs=79.3

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCC
Q ss_conf             999999976439999999999849-9999-98569999999992389459999999988418999630999999999739
Q 005476          463 YGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAG  540 (695)
Q Consensus       463 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  540 (695)
                      .-.+...+.+.|++++|...+++. ...| +...|..+..++...++++.|+..++++++++|.+...+..++.+|...|
T Consensus        19 ~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          19 PMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHCC
T ss_conf             99999999987605899998861011211110012335456410125877410000011111100000378999999978


Q ss_pred             CHHHHHHHHHHHH
Q ss_conf             9789999999998
Q 005476          541 RCEDALRVMNQMR  553 (695)
Q Consensus       541 ~~~~A~~~~~~m~  553 (695)
                      ++++|.+.+++..
T Consensus        99 ~~~~A~~~l~~~l  111 (112)
T d1hxia_          99 NANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
T ss_conf             9999999999981

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.17  E-value=7.4e-05  Score=43.60  Aligned_cols=61  Identities=10%  Similarity=0.032  Sum_probs=42.6

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             6999999999238945999999998841899963099999999973997899999999984
Q 005476          494 IWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       494 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  554 (695)
                      ++..+..++.+.|+++.|...++++++++|.+..+|..++.+|...|++++|...++...+
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~  129 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAAS  129 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCHHHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
T ss_conf             9961999999846530111010001000000012467768999996899999999999998

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.09  E-value=1.7e-05  Score=47.48  Aligned_cols=103  Identities=15%  Similarity=0.005  Sum_probs=68.3

Q ss_pred             HHHHHHHCCCCHHHHHHHHHHCHHHCCCCCCHHHHHHHHHHHHHCCCH---HHHHHHHHHC-CCCCCH---HHHHHHHHH
Q ss_conf             999998610549999999998354129888752899999997643999---9999999849-999998---569999999
Q 005476          429 AVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLV---EEAYQFIKNM-PIPPNP---VIWRTLLAA  501 (695)
Q Consensus       429 ~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~---~~A~~~~~~m-~~~p~~---~~~~~ll~~  501 (695)
                      .+++.+...+++++|.+.|+....  --+.+..++..+..++.+.++.   ++|..++++. ...|+.   .+|..+..+
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~--~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKA--AGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH--HSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCHHHHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
T ss_conf             798873699999999999999883--299989999999999998512678999999999998606993199999999999


Q ss_pred             HHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHH
Q ss_conf             99238945999999998841899963099999
Q 005476          502 CRAHKNVKVGEESLKNLVTLEPMHSGDYILLS  533 (695)
Q Consensus       502 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  533 (695)
                      |...|+++.|++.++++++++|.+........
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~  113 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTEPQNNQAKELER  113 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHH
T ss_conf             99973169999999999976909899999999

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.07  E-value=4.9e-05  Score=44.68  Aligned_cols=61  Identities=10%  Similarity=0.066  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             6999999999238945999999998841899963099999999973997899999999984
Q 005476          494 IWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       494 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  554 (695)
                      .|..+..++.+.|+++.|+..+.++++++|.++..|..++.+|...|++++|...+++..+
T Consensus        79 ~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~  139 (169)
T d1ihga1          79 CVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQE  139 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
T ss_conf             9998999998640210136665544310002236777699999980479999999999998

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.03  E-value=0.00023  Score=40.63  Aligned_cols=78  Identities=6%  Similarity=-0.027  Sum_probs=35.3

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCC
Q ss_conf             999999976439999999999849-9999-98569999999992389459999999988418999630999999999739
Q 005476          463 YGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAG  540 (695)
Q Consensus       463 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  540 (695)
                      |..+..+|.+.|++++|+..+++. ...| +...|..+..++...|+++.|...++++++++|++..+...+..+....+
T Consensus        67 ~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~  146 (168)
T d1kt1a1          67 FLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKAK  146 (168)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH
T ss_conf             98499998776220110002232220131048899988999988278999999999999859898999999999999998

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.01  E-value=0.00016  Score=41.55  Aligned_cols=63  Identities=10%  Similarity=0.032  Sum_probs=49.7

Q ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHC
Q ss_conf             569999999992389459999999988418999630999999999739978999999999848
Q 005476          493 VIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       493 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  555 (695)
                      .++..+..++...|+++.|+..++++++++|.+..+|..++.+|...|++++|...+++..+.
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             999849999877622011000223222013104889998899998827899999999999985

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.96  E-value=0.00036  Score=39.35  Aligned_cols=51  Identities=18%  Similarity=0.186  Sum_probs=26.8

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHH----CCCHHHHHHHHHHHHHCCC
Q ss_conf             3894599999999884189996309999999997----3997899999999984899
Q 005476          505 HKNVKVGEESLKNLVTLEPMHSGDYILLSDIYAS----AGRCEDALRVMNQMREQGI  557 (695)
Q Consensus       505 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~g~  557 (695)
                      ..|++.|...+++..+.+  ++..+..|+.+|..    ..+.++|.+.+++..+.|.
T Consensus       195 ~~d~~~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         195 TKNFKEALARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             CCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHCCC--CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCC
T ss_conf             310344454676653036--8999999999998399976189999999999998769

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.95  E-value=6.7e-05  Score=43.86  Aligned_cols=129  Identities=12%  Similarity=0.036  Sum_probs=84.9

Q ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHCHHHCCCCC-CHHHHHHHHHHHHH
Q ss_conf             99999996499489999999999899998999999999998610549999999998354129888-75289999999764
Q 005476          394 VLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEP-RMEHYGCMVDILGR  472 (695)
Q Consensus       394 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~  472 (695)
                      .....+...|++.+|+..|.++..  ..          ............      .    .+.| ....+..+..++.+
T Consensus        32 ~~~~~~~~~~~y~~Ai~~y~~al~--~~----------~~~~~~~~~~~~------~----~~~~~~~~~~~nla~~~~~   89 (169)
T d1ihga1          32 NIGNTFFKSQNWEMAIKKYTKVLR--YV----------EGSRAAAEDADG------A----KLQPVALSCVLNIGACKLK   89 (169)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH--HH----------HHHHHHSCHHHH------G----GGHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH--HH----------HHHHHHHHHHHH------H----HHCHHHHHHHHHHHHHHHH
T ss_conf             999999990889999999999987--41----------111666655778------7----7190239999989999986


Q ss_pred             CCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHH
Q ss_conf             39999999999849-9999-985699999999923894599999999884189996309999999997399789
Q 005476          473 AGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCED  544 (695)
Q Consensus       473 ~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  544 (695)
                      .|++++|+..+++. ...| +...|..+..++...|+++.|...++++++++|++..+...+..++.......+
T Consensus        90 ~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~~l~~~~~  163 (169)
T d1ihga1          90 MSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKD  163 (169)
T ss_dssp             TTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             40210136665544310002236777699999980479999999999998598999999999999999998999

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.90  E-value=0.00016  Score=41.52  Aligned_cols=92  Identities=11%  Similarity=0.084  Sum_probs=59.8

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCC-------CHHHHH
Q ss_conf             999999976439999999999849-9999-9856999999999238945999999998841899963-------099999
Q 005476          463 YGCMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSG-------DYILLS  533 (695)
Q Consensus       463 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~-------~~~~l~  533 (695)
                      +..+...+.+.|++++|...|++. ...| +...|..+..++...|+++.|...++++++++|.+..       +|..++
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH
T ss_conf             99999999985999999999999988496458999868899988186077899999999868012788988999999999


Q ss_pred             HHHHHCCCHHHHHHHHHHHHH
Q ss_conf             999973997899999999984
Q 005476          534 DIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       534 ~~~~~~g~~~~A~~~~~~m~~  554 (695)
                      ..+...+++++|...+++...
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCHHHHHHHHHHHHH
T ss_conf             999993889999999999984

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.86  E-value=6.7e-05  Score=43.86  Aligned_cols=90  Identities=9%  Similarity=-0.015  Sum_probs=41.0

Q ss_pred             HHHHHHHHCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHC---CCHHHHHHHHHHHHHCCCCC--CCCHHHHHHHHH
Q ss_conf             9999976439999999999849-9999-985699999999923---89459999999988418999--630999999999
Q 005476          465 CMVDILGRAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAH---KNVKVGEESLKNLVTLEPMH--SGDYILLSDIYA  537 (695)
Q Consensus       465 ~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~---g~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~~  537 (695)
                      .++..+...+++++|.+.|++. ...| +..++..+..++.+.   ++.++|+.+++++++.+|.+  ..++..++.+|.
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~   83 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH
T ss_conf             79887369999999999999988329998999999999999851267899999999999860699319999999999999


Q ss_pred             HCCCHHHHHHHHHHHHH
Q ss_conf             73997899999999984
Q 005476          538 SAGRCEDALRVMNQMRE  554 (695)
Q Consensus       538 ~~g~~~~A~~~~~~m~~  554 (695)
                      ..|++++|.+.+++..+
T Consensus        84 ~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          84 RLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
T ss_conf             97316999999999997

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.85  E-value=0.00015  Score=41.79  Aligned_cols=62  Identities=18%  Similarity=0.114  Sum_probs=44.1

Q ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHH
Q ss_conf             85699999999923894599999999884189996309999999997399789999999998
Q 005476          492 PVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMR  553 (695)
Q Consensus       492 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  553 (695)
                      ...+..+...+...|+++.|...++++++.+|.+...|..++.+|...|++++|.+.|+...
T Consensus        67 ~~a~~~la~~~~~~g~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~  128 (179)
T d2ff4a2          67 VLAHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVK  128 (179)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_conf             99999999999887990578999999998498519999999999998557999999999999

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.81  E-value=0.00033  Score=39.60  Aligned_cols=124  Identities=9%  Similarity=-0.132  Sum_probs=72.7

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHCHHHCCCCCCHHHHHHHHHHHH
Q ss_conf             99999999964994899999999998999989999999999986105499999999983541298887528999999976
Q 005476          392 WTVLIQCLASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILG  471 (695)
Q Consensus       392 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~  471 (695)
                      +......+.+.|++.+|+..|.+....  -|....           ..-.........        .....|..+...|.
T Consensus        20 ~~~~G~~~f~~~~y~~A~~~Y~~al~~--~~~~~~-----------~~~~~~~~~~~~--------~~~~~~~Nla~~~~   78 (153)
T d2fbna1          20 IKEEGNEFFKKNEINEAIVKYKEALDF--FIHTEE-----------WDDQILLDKKKN--------IEISCNLNLATCYN   78 (153)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTCTT-----------CCCHHHHHHHHH--------HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCHHH-----------HHHHHHHHHHHH--------HHHHHHHHHHHHHH
T ss_conf             999999999959999999999987760--730011-----------105778876310--------78899961999999


Q ss_pred             HCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHH
Q ss_conf             439999999999849-9999-9856999999999238945999999998841899963099999999
Q 005476          472 RAGLVEEAYQFIKNM-PIPP-NPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIY  536 (695)
Q Consensus       472 ~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  536 (695)
                      +.|++++|++.+++. ...| +...|..+..++...|+++.|...++++++++|.+..+...+..+.
T Consensus        79 ~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~  145 (153)
T d2fbna1          79 KNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCV  145 (153)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHCCCCHHHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             8465301110100010000000124677689999968999999999999982989899999999999

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.80  E-value=9.6e-06  Score=49.01  Aligned_cols=110  Identities=7%  Similarity=-0.147  Sum_probs=53.9

Q ss_pred             EEHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             02099999999818992599999999888599988847999999980448734799999999991778735799999999
Q 005476          187 VFSWNSMFSGYVKTECWREIVDLFNEMRDLGVKFDEVTLINVLMACGRLADIELGGWISEYMEEKELNGNVKLMTAVVDM  266 (695)
Q Consensus       187 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  266 (695)
                      ...|..+...+.+.|+.+.|...+.......   ....+..+...+...++++.|...+..+.+.. +.+...++.|...
T Consensus       120 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~  195 (497)
T d1ya0a1         120 RVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAIL  195 (497)
T ss_dssp             -----------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHCCC---HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
T ss_conf             9999985799875899999999999882788---99999999999998024789999999999878-9965999999999


Q ss_pred             HHHCCCHHHHHHHHHHCC---CCCHHHHHHHHHHHHH
Q ss_conf             995399999999998347---7884688989889884
Q 005476          267 YAKCGHVDKARRLFEQMN---IKDVVAWSAMISGYSQ  300 (695)
Q Consensus       267 ~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~  300 (695)
                      |...|+..+|...|.+..   .+-..++..+...+.+
T Consensus       196 ~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         196 ASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALSK  232 (497)
T ss_dssp             HHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
T ss_conf             9986999999999999981799978999999999987

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.60  E-value=0.00024  Score=40.51  Aligned_cols=83  Identities=6%  Similarity=-0.092  Sum_probs=29.6

Q ss_pred             HHHHCCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHCCCCHHHHHHHHHHCHHHCCCCCCHHHHHHHHHHHHHCCCH
Q ss_conf             99964994899999999998999989-99999999998610549999999998354129888752899999997643999
Q 005476          398 CLASNGQGERALETYYIMREKNIEPN-DVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLV  476 (695)
Q Consensus       398 ~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  476 (695)
                      .+.+.|++++|+..|++...  ..|+ ...+..+..++...|++++|...|+..++  -.+.+...+..+...|...|++
T Consensus        25 ~~~~~g~~~~A~~~~~~al~--~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~--~~p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          25 SMLKLANLAEAALAFEAVCQ--KEPEREEAWRSLGLTQAENEKDGLAIIALNHARM--LDPKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHCC--CCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCC--CCCCCCCCHHHHHHHHHHCCCH
T ss_conf             99987605899998861011--2111100123354564101258774100000111--1110000037899999997899


Q ss_pred             HHHHHHHH
Q ss_conf             99999998
Q 005476          477 EEAYQFIK  484 (695)
Q Consensus       477 ~~A~~~~~  484 (695)
                      ++|.+.++
T Consensus       101 ~~A~~~l~  108 (112)
T d1hxia_         101 NAALASLR  108 (112)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
T ss_conf             99999999

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.52  E-value=0.00019  Score=41.03  Aligned_cols=123  Identities=12%  Similarity=0.007  Sum_probs=61.2

Q ss_pred             HHCCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHCCCCHHHHHHHHHHCHHHCCCCCC-HHHHHHHHHHHHHCCCHH
Q ss_conf             964994899999999998999989-999999999986105499999999983541298887-528999999976439999
Q 005476          400 ASNGQGERALETYYIMREKNIEPN-DVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPR-MEHYGCMVDILGRAGLVE  477 (695)
Q Consensus       400 ~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~  477 (695)
                      .+.|++++|+..+++..+  ..|+ ...+..+...++..|++++|.+.++...+   +.|+ ...+..+...+...+..+
T Consensus         7 L~~G~l~eAl~~l~~al~--~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~---l~P~~~~~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIK--ASPKDASLRSSFIELLCIDGDFERADEQLMQSIK---LFPEYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHH--TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHCCCCH
T ss_conf             888899999999999999--7899999999999999987999999999999998---69973899999999998346637


Q ss_pred             HHHHHHHHC--CCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCC
Q ss_conf             999999849--99999-856999999999238945999999998841899963
Q 005476          478 EAYQFIKNM--PIPPN-PVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSG  527 (695)
Q Consensus       478 ~A~~~~~~m--~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  527 (695)
                      ++..-....  ...|+ ...+......+...|+.+.|...++++.+..|..+.
T Consensus        82 ~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~  134 (264)
T d1zbpa1          82 DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGF  134 (264)
T ss_dssp             HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCE
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCC
T ss_conf             89987544420358647999999999999679989999999999833999981

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.49  E-value=0.00058  Score=38.12  Aligned_cols=62  Identities=11%  Similarity=0.025  Sum_probs=32.5

Q ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCC-----------CCCHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             569999999992389459999999988418999-----------63099999999973997899999999984
Q 005476          493 VIWRTLLAACRAHKNVKVGEESLKNLVTLEPMH-----------SGDYILLSDIYASAGRCEDALRVMNQMRE  554 (695)
Q Consensus       493 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  554 (695)
                      ..|..+..++...|+++.|...+++.+++.|..           ...+..++.+|...|++++|...+++..+
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9999999999982863001576643553043100245544311278775269999988888888999999998

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.39  E-value=0.0026  Score=34.17  Aligned_cols=20  Identities=15%  Similarity=0.431  Sum_probs=7.5

Q ss_pred             HHHHHHHHCCCHHHHHHHHH
Q ss_conf             99999995399999999998
Q 005476          262 AVVDMYAKCGHVDKARRLFE  281 (695)
Q Consensus       262 ~li~~~~~~g~~~~A~~~~~  281 (695)
                      .++..|-..|..+....+++
T Consensus       104 ~~v~~ye~~~~~e~Li~~Le  123 (336)
T d1b89a_         104 ELINYYQDRGYFEELITMLE  123 (336)
T ss_dssp             HHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHH
T ss_conf             99999987698599999999

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.38  E-value=0.0027  Score=34.08  Aligned_cols=97  Identities=14%  Similarity=0.124  Sum_probs=37.6

Q ss_pred             CCHHHHHHHHCCCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf             99788999960179999103999999998199943799999998869999993009999999842299289999999999
Q 005476           69 TTMDYALSIFHKINEPDSSAYNIMIRAFTLKQSPQEAVMLYKTMLQNSVEPDRFTFACTLKACSRIRALEEGEQIHAQIL  148 (695)
Q Consensus        69 g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  148 (695)
                      |.++.|..+|..+.     -|..++..+.+.+++..|.+++.+..      +..+|..+...|........+     .+.
T Consensus        28 ~lye~A~~lY~~~~-----d~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~~l~~~~e~~la-----~i~   91 (336)
T d1b89a_          28 KMYDAAKLLYNNVS-----NFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFACVDGKEFRLA-----QMC   91 (336)
T ss_dssp             -CTTTHHHHHHHTT-----CHHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHHHHHHTTCHHHH-----HHT
T ss_pred             CCHHHHHHHHHHCC-----CHHHHHHHHHHHCCHHHHHHHHHHCC------CHHHHHHHHHHHHHCCHHHHH-----HHH
T ss_conf             77999999998678-----99999999970315999999998808------899999999999727287899-----999


Q ss_pred             HHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHC
Q ss_conf             929999830899999999934995589999800
Q 005476          149 KSGFGCRQLVTNTLIHLYANCGRIDIARKMFDR  181 (695)
Q Consensus       149 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~  181 (695)
                      ......++.....++..|-..|.++....+++.
T Consensus        92 ~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~  124 (336)
T d1b89a_          92 GLHIVVHADELEELINYYQDRGYFEELITMLEA  124 (336)
T ss_dssp             TTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHCCHHHHHHHHHHHHHCCCHHHHHHHHHH
T ss_conf             987535788789999999876985999999999

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.33  E-value=0.0017  Score=35.28  Aligned_cols=55  Identities=18%  Similarity=0.129  Sum_probs=22.9

Q ss_pred             HHHHHHHCCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHCCCCHHHHHHHHHHCH
Q ss_conf             99999964994899999999998999989-9999999999861054999999999835
Q 005476          395 LIQCLASNGQGERALETYYIMREKNIEPN-DVAFIAVLSACSHVGMVDEGRELFVSMS  451 (695)
Q Consensus       395 li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~~~  451 (695)
                      +...+...|++++|+..|.+...  +.|+ ...+..+..++...|++++|.+.+..++
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al   65 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKE--LDPTNMTYITNQAAVYFEKGDYNKCRELCEKAI   65 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
T ss_conf             99999985999999999999988--496458999868899988186077899999999

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.31  E-value=0.0002  Score=40.94  Aligned_cols=124  Identities=15%  Similarity=0.130  Sum_probs=55.9

Q ss_pred             HCCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHCC----------CCHHHHHHHHHHCHHHCCCCC-CHHHHHHHHH
Q ss_conf             6499489999999999899998999-999999998610----------549999999998354129888-7528999999
Q 005476          401 SNGQGERALETYYIMREKNIEPNDV-AFIAVLSACSHV----------GMVDEGRELFVSMSRDFDLEP-RMEHYGCMVD  468 (695)
Q Consensus       401 ~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~----------g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~  468 (695)
                      +.+.+++|+..|++..+  +.|+.. .+..+..++...          +.+++|...|+.+++   +.| +...|..+..
T Consensus         9 r~~~fe~A~~~~e~al~--~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~---l~P~~~~a~~~lG~   83 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYK--SNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALL---IDPKKDEAVWCIGN   83 (145)
T ss_dssp             HHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHH
T ss_pred             HHCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HCCHHHHHHHHHHH
T ss_conf             87369999999999986--18831089999999998762133336778878889999999887---30120587766899


Q ss_pred             HHHHCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHHH
Q ss_conf             97643999999999984999999856999999999238945999999998841899963099999999973997899999
Q 005476          469 ILGRAGLVEEAYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRV  548 (695)
Q Consensus       469 ~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  548 (695)
                      +|...|++            .++...         ..++++.|.+.++++++++|.+...+..|...       ..|.++
T Consensus        84 ~y~~~g~~------------~~~~~~---------~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~-------~ka~~~  135 (145)
T d1zu2a1          84 AYTSFAFL------------TPDETE---------AKHNFDLATQFFQQAVDEQPDNTHYLKSLEMT-------AKAPQL  135 (145)
T ss_dssp             HHHHHHHH------------CCCHHH---------HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH-------HTHHHH
T ss_pred             HHHHCCCC------------HHHHHH---------HHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHH-------HHHHHH
T ss_conf             99870101------------135788---------98867876312110002598889999999999-------997978


Q ss_pred             HHHHHHCCC
Q ss_conf             999984899
Q 005476          549 MNQMREQGI  557 (695)
Q Consensus       549 ~~~m~~~g~  557 (695)
                      +.+..++|+
T Consensus       136 ~~e~~k~~~  144 (145)
T d1zu2a1         136 HAEAYKQGL  144 (145)
T ss_dssp             HHHHHHSSS
T ss_pred             HHHHHHHHC
T ss_conf             999998735

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.25  E-value=0.0002  Score=40.94  Aligned_cols=121  Identities=13%  Similarity=0.072  Sum_probs=82.2

Q ss_pred             HHCCCCHHHHHHHHHHCHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHC-CCCCC-HHHHHHHHHHHHHCCCHHHH
Q ss_conf             86105499999999983541298887528999999976439999999999849-99999-85699999999923894599
Q 005476          434 CSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEEAYQFIKNM-PIPPN-PVIWRTLLAACRAHKNVKVG  511 (695)
Q Consensus       434 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a  511 (695)
                      ....|++++|...++..++  .-+.+...+..+...|+..|++++|...++.. ...|+ ...+..+...+...+..+.+
T Consensus         6 aL~~G~l~eAl~~l~~al~--~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIK--ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHH--TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHH
T ss_conf             9888899999999999999--78999999999999999879999999999999986997389999999999834663789


Q ss_pred             HHHHHHHHHC-CCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHCC
Q ss_conf             9999998841-89996309999999997399789999999998489
Q 005476          512 EESLKNLVTL-EPMHSGDYILLSDIYASAGRCEDALRVMNQMREQG  556 (695)
Q Consensus       512 ~~~~~~~~~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  556 (695)
                      .......... +|++...+...+..+...|+.++|...+....+..
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~  129 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  129 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC
T ss_conf             9875444203586479999999999996799899999999998339

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.24  E-value=0.0038  Score=33.14  Aligned_cols=16  Identities=31%  Similarity=0.227  Sum_probs=5.9

Q ss_pred             CHHHHHHHHHHHHHCC
Q ss_conf             9459999999988418
Q 005476          507 NVKVGEESLKNLVTLE  522 (695)
Q Consensus       507 ~~~~a~~~~~~~~~~~  522 (695)
                      |.+.|.+.++++.+.+
T Consensus       233 n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         233 NEKQAIENFKKGCKLG  248 (265)
T ss_dssp             CSTTHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHCC
T ss_conf             8999999999999876

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.10  E-value=0.0039  Score=33.03  Aligned_cols=21  Identities=5%  Similarity=0.121  Sum_probs=6.8

Q ss_pred             HHHHHHHHHCCCCHHHHHHHH
Q ss_conf             999999986105499999999
Q 005476          427 FIAVLSACSHVGMVDEGRELF  447 (695)
Q Consensus       427 ~~~ll~a~~~~g~~~~a~~~~  447 (695)
                      +..++.++...|+..+|.+.|
T Consensus       104 ~~~l~~al~~~Gr~~eAl~~y  124 (179)
T d2ff4a2         104 WTQLITAYYLSDRQSDALGAY  124 (179)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHCCHHHHHHHH
T ss_conf             999999999855799999999

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.09  E-value=0.00027  Score=40.14  Aligned_cols=48  Identities=10%  Similarity=0.174  Sum_probs=27.6

Q ss_pred             CHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCC-----------HHHHHHHHHHHHH
Q ss_conf             94599999999884189996309999999997399-----------7899999999984
Q 005476          507 NVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGR-----------CEDALRVMNQMRE  554 (695)
Q Consensus       507 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~-----------~~~A~~~~~~m~~  554 (695)
                      .++.|+..++++++++|.+..+|..++.+|...|+           +++|.+.|++..+
T Consensus        56 ~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~  114 (145)
T d1zu2a1          56 MIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD  114 (145)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             78889999999887301205877668999987010113578898867876312110002

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.93  E-value=0.0029  Score=33.81  Aligned_cols=69  Identities=12%  Similarity=0.015  Sum_probs=36.6

Q ss_pred             HHHHHHHHCCCHHHHHHHHHHC----C----CCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHH
Q ss_conf             9999976439999999999849----9----9999-856999999999238945999999998841899963099999
Q 005476          465 CMVDILGRAGLVEEAYQFIKNM----P----IPPN-PVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLS  533 (695)
Q Consensus       465 ~li~~~~~~g~~~~A~~~~~~m----~----~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  533 (695)
                      .+...+.+.|++++|...+++.    +    ..++ ..++..+..++.+.|++++|...++++++++|+++.++..+.
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl~   87 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNLK   87 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHH
T ss_conf             999999997799999999999999886530147647899998726888657739888788779886929799999999

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=96.87  E-value=0.0084  Score=31.02  Aligned_cols=28  Identities=11%  Similarity=-0.060  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHCC
Q ss_conf             9999999992389459999999988418
Q 005476          495 WRTLLAACRAHKNVKVGEESLKNLVTLE  522 (695)
Q Consensus       495 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~  522 (695)
                      +..+..++...|++++|...+++++++.
T Consensus       103 ~~~~g~~~~~lg~~eeA~~~~~~Al~l~  130 (156)
T d2hr2a1         103 VYSRALALDGLGRGAEAMPEFKKVVEMI  130 (156)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             7526999998888888899999999866

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.70  E-value=0.0071  Score=31.47  Aligned_cols=61  Identities=13%  Similarity=-0.039  Sum_probs=40.0

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHCCCCC-------CCCHHHHHHHHHHCCCHHHHHHHHHHHHHC
Q ss_conf             9999999992389459999999988418999-------630999999999739978999999999848
Q 005476          495 WRTLLAACRAHKNVKVGEESLKNLVTLEPMH-------SGDYILLSDIYASAGRCEDALRVMNQMREQ  555 (695)
Q Consensus       495 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  555 (695)
                      +-.+...+.+.|+++.|...+++++++.|.+       ..++..|+.+|.+.|++++|...+++..+.
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             99999999997799999999999999886530147647899998726888657739888788779886

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=90.34  E-value=0.32  Score=21.38  Aligned_cols=141  Identities=9%  Similarity=0.029  Sum_probs=82.4

Q ss_pred             HHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHCHHHCCCCCCHHHHHHHHHHHHHCCCHHH
Q ss_conf             99649948999999999989999899999999999861054999999999835412988875289999999764399999
Q 005476          399 LASNGQGERALETYYIMREKNIEPNDVAFIAVLSACSHVGMVDEGRELFVSMSRDFDLEPRMEHYGCMVDILGRAGLVEE  478 (695)
Q Consensus       399 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  478 (695)
                      +...|..++..++..+...   ..+..-+++++--....-+-+...+.++..-+-+.+.              .++++..
T Consensus        12 ~ildG~ve~Gveii~k~~~---ss~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls--------------~C~Nlk~   74 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITK---SSTKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLD--------------KCQNLKS   74 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHH---HSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGG--------------GCSCTHH
T ss_pred             HHHHHHHHHHHHHHHHHCC---CCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCH--------------HHHCHHH
T ss_conf             9874248867999999846---6775512445452430002689999999876340852--------------4326789


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHCCCC
Q ss_conf             99999849999998569999999992389459999999988418999630999999999739978999999999848994
Q 005476          479 AYQFIKNMPIPPNPVIWRTLLAACRAHKNVKVGEESLKNLVTLEPMHSGDYILLSDIYASAGRCEDALRVMNQMREQGIK  558 (695)
Q Consensus       479 A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~  558 (695)
                      ...-+-.+.  .+.......+....++|.-+.-.++.+.+++.+..++.....++.+|.+.|...++..++.+.-++|++
T Consensus        75 vv~C~~~~n--~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          75 VVECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHC--CHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHH
T ss_conf             999998836--218999999999998260878999999987537998799999999998852244489999999997599