Citrus Sinensis ID: 040576

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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-
Protein Sequence
MSVRLKFTKTTEASLSLDKFIKSQKNLPKTPPKLWANEPKPKFTDTDNQRLPIVDLSHPILQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRRDVASQISIQ
Secondary Structure (PSIPRED)
cEEEEccccccHHHHccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHcccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHccccHHHHHHHHccccccccccHHHHHHHHHcccccHHHHHHHHHHHHHcccccccEEHHHHHHHHcccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHcccccccEEEHHHHHHHHHHcccHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHcccccccEEEHHHHHHHHHHccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHccccccEEHHHHHHHHHccccHHHHHHHHccccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHcccHHHHHHHHHHHHHcHHcccccccccHHHHHHHHHcccccHHHHHHHHHHccccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHcccccHHHHHHHHHHHHccccccccccEEEEccEEEEEEccccccccHHHHHHHHHHHHHHHHHcccccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEcccHHHHHHHHHHccccccccEHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHcccHHHHHHHHHHccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHcccccEEHHHHHHHHHccccHHHHHHHHHHHHccccEHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEEEEEcEEEEEEEcccccccHHHHHHHHHHHHHHHHHcccccccEEEEc
Coil and Loop (DISEMBL)
msvrlkftktteASLSLDKFIKsqknlpktppklwanepkpkftdtdnqrlpivdlshpilqklescstVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSsvslsvlffdgiqepdafmCNTIMKSFLMLNDPFGALSFYYEKMMAKFVehnhytfpllgKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDarkvfedgpvwdlVTWNSMIDGYVKNREVGFARelfdfmperdiftwNSMISGyvdvgdmeaanglfdlmpfrdvvsWNCMIDGYakignvtsarncfdrMCMRNVVSWNILLALYVRCKDYCECLRLFDrmirgdakpneASLMSVLTACANMGVIDIGQWIHSYIQKcrikpdvlLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMekrgptpndatFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLgraglmrdseelvsklpmeagPALWGALLSACSTHSNSELGKIVAQHLmeleprdpgpyvlLSNIyasegkwdeVENLRRIMKEKELEKAVgsslvhpgefasesivencpphrkCIVYSMLGEIGAQMKMCRRDVASQISIQ
Flexible Loop (DISEMBL)
msvrlkftktteaslsldkfiksqknlpktppklwanepkpkftdtdnqrlpiVDLSHPILQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIyasegkwdeVENLRRIMKEKELEKAVGSSLVHPGEfasesivencppHRKCIVYSMLGEIGAQMKMCRRDVASQISIQ
Low Complexity Region (SEG)
MSVRLKFTKTTEASLSLDKFIKSQKNLPKTPPKLWANEPKPKFTDTDNQRLPIVDLSHPILQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRvlkklctslssvslsvlFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRRDVASQISIQ
Disordered region (IsUnstruct)
**************************************************LPIVDLSHPILQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMF***********DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM************LVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCR**********
Disordered Region (DISOPRED)
*********TTEASLSLDKFIKSQKNLPKTPPKLW*******************DLSHPILQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRRDVASQISIQ
Disordered Region (DISEMBL)
********KTTEASLSLDKFIKSQKNLPKTPPKLWANEPKPKFTDTDNQRLPIVDLSHPILQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRRDVASQISIQ
Disordered Region (DISPRO)
MSVRLKFTKTTEASLSLDKFIKSQKNLPKTPPKLWANEPKPKFTDTDNQRLPIVDLSHPILQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRRDVASQISIQ
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSVRLKFTKTTEASLSLDKFIKSQKNLPKTPPKLWANEPKPKFTDTDNQRLPIVDLSHPILQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRRDVASQISIQ
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	641	2.2.26 [Sep-21-2011]
Q9LS72	600	Pentatricopeptide repeat-	yes	no	0.875	0.935	0.384	1e-117
Q9LN01	741	Pentatricopeptide repeat-	no	no	0.881	0.762	0.373	1e-115
Q9SJZ3	681	Pentatricopeptide repeat-	no	no	0.893	0.841	0.343	1e-105
O22137	613	Pentatricopeptide repeat-	no	no	0.831	0.869	0.367	1e-102
Q9FHR3	550	Putative pentatricopeptid	no	no	0.845	0.985	0.358	1e-102
Q9FI80	646	Pentatricopeptide repeat-	no	no	0.828	0.821	0.340	1e-102
Q9SY02	781	Pentatricopeptide repeat-	no	no	0.681	0.559	0.416	1e-102
O49399	545	Pentatricopeptide repeat-	no	no	0.778	0.915	0.365	1e-101
O82380	738	Pentatricopeptide repeat-	no	no	0.920	0.799	0.327	1e-101
Q9LTV8	694	Pentatricopeptide repeat-	no	no	0.817	0.755	0.355	1e-100

>sp|Q9LS72|PP261_ARATH Pentatricopeptide repeat-containing protein At3g29230 OS=Arabidopsis thaliana GN=PCMP-E27 PE=2 SV=1

 Score =  421 bits (1082), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 218/567 (38%), Positives = 346/567 (61%), Gaps = 6/567 (1%)

Query: 61  LQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQEPD 120
           LQ L  C+ + +  Q+H Q++   L +D   A +++  L +     +L+V  F+ +QEP+
Sbjct: 23  LQDLPKCANLNQVKQLHAQIIRRNLHEDLHIAPKLISAL-SLCRQTNLAVRVFNQVQEPN 81

Query: 121 AFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVH 180
             +CN+++++    + P+ A  F + +M    +  +++T+P L K C+G   L   K +H
Sbjct: 82  VHLCNSLIRAHAQNSQPYQAF-FVFSEMQRFGLFADNFTYPFLLKACSGQSWLPVVKMMH 140

Query: 181 ARIVKCGFELDLFVRNSLIHMYSVCGE--VLDARKVFEDGPVWDLVTWNSMIDGYVKNRE 238
             I K G   D++V N+LI  YS CG   V DA K+FE     D V+WNSM+ G VK  E
Sbjct: 141 NHIEKLGLSSDIYVPNALIDCYSRCGGLGVRDAMKLFEKMSERDTVSWNSMLGGLVKAGE 200

Query: 239 VGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKI 298
           +  AR LFD MP+RD+ +WN+M+ GY    +M  A  LF+ MP R+ VSW+ M+ GY+K 
Sbjct: 201 LRDARRLFDEMPQRDLISWNTMLDGYARCREMSKAFELFEKMPERNTVSWSTMVMGYSKA 260

Query: 299 GNVTSARNCFDRMCM--RNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMS 356
           G++  AR  FD+M +  +NVV+W I++A Y       E  RL D+M+    K + A+++S
Sbjct: 261 GDMEMARVMFDKMPLPAKNVVTWTIIIAGYAEKGLLKEADRLVDQMVASGLKFDAAAVIS 320

Query: 357 VLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKN 416
           +L AC   G++ +G  IHS +++  +  +  +  +LL MYAKCG +  A +VF+++ +K+
Sbjct: 321 ILAACTESGLLSLGMRIHSILKRSNLGSNAYVLNALLDMYAKCGNLKKAFDVFNDIPKKD 380

Query: 417 VVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFD 476
           +VSWN+M+ G G+HG G++A+E+F  M + G  P+  TFI VL +C HAG++ EG  YF 
Sbjct: 381 LVSWNTMLHGLGVHGHGKEAIELFSRMRREGIRPDKVTFIAVLCSCNHAGLIDEGIDYFY 440

Query: 477 LMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNS 536
            M+++Y + P+VEHYGC+VDLLGR G ++++ ++V  +PME    +WGALL AC  H+  
Sbjct: 441 SMEKVYDLVPQVEHYGCLVDLLGRVGRLKEAIKVVQTMPMEPNVVIWGALLGACRMHNEV 500

Query: 537 ELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHP 596
           ++ K V  +L++L+P DPG Y LLSNIYA+   W+ V ++R  MK   +EK  G+S V  
Sbjct: 501 DIAKEVLDNLVKLDPCDPGNYSLLSNIYAAAEDWEGVADIRSKMKSMGVEKPSGASSVEL 560

Query: 597 GEFASESIVENCPPHRKCIVYSMLGEI 623
            +   E  V +    +   +Y MLG +
Sbjct: 561 EDGIHEFTVFDKSHPKSDQIYQMLGSL 587

Arabidopsis thaliana (taxid: 3702)

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

 Score =  416 bits (1070), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 228/611 (37%), Positives = 356/611 (58%), Gaps = 46/611 (7%)

Query: 57  SHPILQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLK--KLCTSLSSVSLSVLFFD 114
           +HP L  L +C T++    IH Q++  GL   ++A S++++   L      +  ++  F 
Sbjct: 33  NHPSLSLLHNCKTLQSLRIIHAQMIKIGLHNTNYALSKLIEFCILSPHFEGLPYAISVFK 92

Query: 115 GIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLR 174
            IQEP+  + NT+ +   + +DP  AL  Y   M++  +  N YTFP + K CA  ++ +
Sbjct: 93  TIQEPNLLIWNTMFRGHALSSDPVSALKLYV-CMISLGLLPNSYTFPFVLKSCAKSKAFK 151

Query: 175 EGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYV 234
           EG+++H  ++K G +LDL+V  SLI MY   G + DA KVF+  P  D+V++ ++I GY 
Sbjct: 152 EGQQIHGHVLKLGCDLDLYVHTSLISMYVQNGRLEDAHKVFDKSPHRDVVSYTALIKGYA 211

Query: 235 KNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLF-DLMPF----------- 282
               +  A++LFD +P +D+ +WN+MISGY + G+ + A  LF D+M             
Sbjct: 212 SRGYIENAQKLFDEIPVKDVVSWNAMISGYAETGNYKEALELFKDMMKTNVRPDESTMVT 271

Query: 283 --------------RDVVSW-------------NCMIDGYAKIGNVTSARNCFDRMCMRN 315
                         R V  W             N +ID Y+K G + +A   F+R+  ++
Sbjct: 272 VVSACAQSGSIELGRQVHLWIDDHGFGSNLKIVNALIDLYSKCGELETACGLFERLPYKD 331

Query: 316 VVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHS 375
           V+SWN L+  Y     Y E L LF  M+R    PN+ +++S+L ACA++G IDIG+WIH 
Sbjct: 332 VISWNTLIGGYTHMNLYKEALLLFQEMLRSGETPNDVTMLSILPACAHLGAIDIGRWIHV 391

Query: 376 YIQKCRIKPDV---LLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQ 432
           YI K R+K       L TSL+ MYAKCG ++ A  VF+++  K++ SWN+MI G+ MHG+
Sbjct: 392 YIDK-RLKGVTNASSLRTSLIDMYAKCGDIEAAHQVFNSILHKSLSSWNAMIFGFAMHGR 450

Query: 433 GEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYG 492
            + + ++F  M K G  P+D TF+ +LSAC+H+GM+  G   F  M + YK+ PK+EHYG
Sbjct: 451 ADASFDLFSRMRKIGIQPDDITFVGLLSACSHSGMLDLGRHIFRTMTQDYKMTPKLEHYG 510

Query: 493 CMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPR 552
           CM+DLLG +GL +++EE+++ + ME    +W +LL AC  H N ELG+  A++L+++EP 
Sbjct: 511 CMIDLLGHSGLFKEAEEMINMMEMEPDGVIWCSLLKACKMHGNVELGESFAENLIKIEPE 570

Query: 553 DPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHR 612
           +PG YVLLSNIYAS G+W+EV   R ++ +K ++K  G S +       E I+ +    R
Sbjct: 571 NPGSYVLLSNIYASAGRWNEVAKTRALLNDKGMKKVPGCSSIEIDSVVHEFIIGDKFHPR 630

Query: 613 KCIVYSMLGEI 623
              +Y ML E+
Sbjct: 631 NREIYGMLEEM 641

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SJZ3|PP169_ARATH Pentatricopeptide repeat-containing protein At2g22410, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E28 PE=2 SV=1

 Score =  383 bits (984), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 211/615 (34%), Positives = 332/615 (53%), Gaps = 42/615 (6%)

Query: 56  LSHPILQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSS-VSLSVLFFD 114
           L +P+L  LE C  +    QI  Q++++GL  D FA+SR++     S S  +  SV    
Sbjct: 52  LHNPLLSLLEKCKLLLHLKQIQAQMIINGLILDPFASSRLIAFCALSESRYLDYSVKILK 111

Query: 115 GIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEH--NHYTFPLLGKVCAGIRS 172
           GI+ P+ F  N  ++ F    +P  +   Y + +     E   +H+T+P+L KVCA +R 
Sbjct: 112 GIENPNIFSWNVTIRGFSESENPKESFLLYKQMLRHGCCESRPDHFTYPVLFKVCADLRL 171

Query: 173 LREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDG 232
              G  +   ++K   EL   V N+ IHM++ CG++ +ARKVF++ PV DLV+WN +I+G
Sbjct: 172 SSLGHMILGHVLKLRLELVSHVHNASIHMFASCGDMENARKVFDESPVRDLVSWNCLING 231

Query: 233 YVKNRE-----------------------VGF------------ARELFDFMPERDIFTW 257
           Y K  E                       +G              +E ++++ E  +   
Sbjct: 232 YKKIGEAEKAIYVYKLMESEGVKPDDVTMIGLVSSCSMLGDLNRGKEFYEYVKENGLRMT 291

Query: 258 NSMISGYVDV----GDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCM 313
             +++  +D+    GD+  A  +FD +  R +VSW  MI GYA+ G +  +R  FD M  
Sbjct: 292 IPLVNALMDMFSKCGDIHEARRIFDNLEKRTIVSWTTMISGYARCGLLDVSRKLFDDMEE 351

Query: 314 RNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWI 373
           ++VV WN ++   V+ K   + L LF  M   + KP+E +++  L+AC+ +G +D+G WI
Sbjct: 352 KDVVLWNAMIGGSVQAKRGQDALALFQEMQTSNTKPDEITMIHCLSACSQLGALDVGIWI 411

Query: 374 HSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQG 433
           H YI+K  +  +V L TSL+ MYAKCG +  A +VF  +  +N +++ ++I G  +HG  
Sbjct: 412 HRYIEKYSLSLNVALGTSLVDMYAKCGNISEALSVFHGIQTRNSLTYTAIIGGLALHGDA 471

Query: 434 EKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGC 493
             A+  F EM   G  P++ TFI +LSAC H GM+  G  YF  M+  + + P+++HY  
Sbjct: 472 STAISYFNEMIDAGIAPDEITFIGLLSACCHGGMIQTGRDYFSQMKSRFNLNPQLKHYSI 531

Query: 494 MVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRD 553
           MVDLLGRAGL+ +++ L+  +PMEA  A+WGALL  C  H N ELG+  A+ L+EL+P D
Sbjct: 532 MVDLLGRAGLLEEADRLMESMPMEADAAVWGALLFGCRMHGNVELGEKAAKKLLELDPSD 591

Query: 554 PGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRK 613
            G YVLL  +Y     W++ +  RR+M E+ +EK  G S +       E IV +      
Sbjct: 592 SGIYVLLDGMYGEANMWEDAKRARRMMNERGVEKIPGCSSIEVNGIVCEFIVRDKSRPES 651

Query: 614 CIVYSMLGEIGAQMK 628
             +Y  L  +G  M+
Sbjct: 652 EKIYDRLHCLGRHMR 666

Arabidopsis thaliana (taxid: 3702)

>sp|O22137|PP202_ARATH Pentatricopeptide repeat-containing protein At2g45350, chloroplastic OS=Arabidopsis thaliana GN=CRR4 PE=3 SV=2

 Score =  373 bits (957), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 213/579 (36%), Positives = 333/579 (57%), Gaps = 46/579 (7%)

Query: 61  LQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTS----LSSVSLSVLF---- 112
           +  L SC T  + +QIH +L+ +G+ ++S   +R++    +S    L+  +  V      
Sbjct: 16  IHVLGSCKTSDDVNQIHGRLIKTGIIKNSNLTTRIVLAFASSRRPYLADFARCVFHEYHV 75

Query: 113 --FDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGI 170
             F   +  D F+ N ++KS     DP  AL      M+   V  + ++  L+ K C+ +
Sbjct: 76  CSFSFGEVEDPFLWNAVIKSHSHGKDPRQALL-LLCLMLENGVSVDKFSLSLVLKACSRL 134

Query: 171 RSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMI 230
             ++ G ++H  + K G   DLF++N LI +Y  CG +  +R++F+  P  D V++NSMI
Sbjct: 135 GFVKGGMQIHGFLKKTGLWSDLFLQNCLIGLYLKCGCLGLSRQMFDRMPKRDSVSYNSMI 194

Query: 231 DGYVKNREVGFARELFDFMP----------------------------------ERDIFT 256
           DGYVK   +  ARELFD MP                                  E+D+ +
Sbjct: 195 DGYVKCGLIVSARELFDLMPMEMKNLISWNSMISGYAQTSDGVDIASKLFADMPEKDLIS 254

Query: 257 WNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNV 316
           WNSMI GYV  G +E A GLFD+MP RDVV+W  MIDGYAK+G V  A+  FD+M  R+V
Sbjct: 255 WNSMIDGYVKHGRIEDAKGLFDVMPRRDVVTWATMIDGYAKLGFVHHAKTLFDQMPHRDV 314

Query: 317 VSWNILLALYVRCKDYCECLRLFDRMIR-GDAKPNEASLMSVLTACANMGVIDIGQWIHS 375
           V++N ++A YV+ K + E L +F  M +     P++ +L+ VL A A +G +     +H 
Sbjct: 315 VAYNSMMAGYVQNKYHMEALEIFSDMEKESHLLPDDTTLVIVLPAIAQLGRLSKAIDMHL 374

Query: 376 YIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEK 435
           YI + +      L  +L+ MY+KCG +  A  VF+ +  K++  WN+MI G  +HG GE 
Sbjct: 375 YIVEKQFYLGGKLGVALIDMYSKCGSIQHAMLVFEGIENKSIDHWNAMIGGLAIHGLGES 434

Query: 436 ALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMV 495
           A +M +++E+    P+D TF+ VL+AC+H+G+V EG   F+LM+R +KIEP+++HYGCMV
Sbjct: 435 AFDMLLQIERLSLKPDDITFVGVLNACSHSGLVKEGLLCFELMRRKHKIEPRLQHYGCMV 494

Query: 496 DLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPG 555
           D+L R+G +  ++ L+ ++P+E    +W   L+ACS H   E G++VA+HL+     +P 
Sbjct: 495 DILSRSGSIELAKNLIEEMPVEPNDVIWRTFLTACSHHKEFETGELVAKHLILQAGYNPS 554

Query: 556 PYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLV 594
            YVLLSN+YAS G W +V  +R +MKE+++EK  G S +
Sbjct: 555 SYVLLSNMYASFGMWKDVRRVRTMMKERKIEKIPGCSWI 593

Plays a major role in chloroplast RNA editing. Acts as a site-recognition transacting factor to recruit C-deaminase.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FHR3|PP403_ARATH Putative pentatricopeptide repeat-containing protein At5g37570 OS=Arabidopsis thaliana GN=PCMP-E37 PE=3 SV=1

 Score =  372 bits (956), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 196/547 (35%), Positives = 317/547 (57%), Gaps = 5/547 (0%)

Query: 53  IVDLSHPILQKLES----CSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSL 108
           I  LSHP L  LE+    C +    +QIH +++  GL QD    S  +    +S SS+S 
Sbjct: 2   IQRLSHPSLLSLETLFKLCKSEIHLNQIHARIIRKGLEQDQNLISIFISSSSSSSSSLSY 61

Query: 109 SVLFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCA 168
           S   F+ +  P  ++ N ++K +      F  +S     M       + YTFPL+ KVC+
Sbjct: 62  SSSVFERVPSPGTYLWNHLIKGYSNKFLFFETVSILMRMMRTGLARPDEYTFPLVMKVCS 121

Query: 169 GIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNS 228
               +R G  VH  +++ GF+ D+ V  S +  Y  C ++  ARKVF + P  + V+W +
Sbjct: 122 NNGQVRVGSSVHGLVLRIGFDKDVVVGTSFVDFYGKCKDLFSARKVFGEMPERNAVSWTA 181

Query: 229 MIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSW 288
           ++  YVK+ E+  A+ +FD MPER++ +WN+++ G V  GD+  A  LFD MP RD++S+
Sbjct: 182 LVVAYVKSGELEEAKSMFDLMPERNLGSWNALVDGLVKSGDLVNAKKLFDEMPKRDIISY 241

Query: 289 NCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAK 348
             MIDGYAK G++ SAR+ F+     +V +W+ L+  Y +     E  ++F  M   + K
Sbjct: 242 TSMIDGYAKGGDMVSARDLFEEARGVDVRAWSALILGYAQNGQPNEAFKVFSEMCAKNVK 301

Query: 349 PNEASLMSVLTACANMGVIDIGQWIHSYI-QKCRIKPDVLLSTSLLTMYAKCGVMDLARN 407
           P+E  ++ +++AC+ MG  ++ + + SY+ Q+        +  +L+ M AKCG MD A  
Sbjct: 302 PDEFIMVGLMSACSQMGCFELCEKVDSYLHQRMNKFSSHYVVPALIDMNAKCGHMDRAAK 361

Query: 408 VFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGM 467
           +F+ M ++++VS+ SM+ G  +HG G +A+ +F +M   G  P++  F  +L  C  + +
Sbjct: 362 LFEEMPQRDLVSYCSMMEGMAIHGCGSEAIRLFEKMVDEGIVPDEVAFTVILKVCGQSRL 421

Query: 468 VLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALL 527
           V EG  YF+LM++ Y I    +HY C+V+LL R G ++++ EL+  +P EA  + WG+LL
Sbjct: 422 VEEGLRYFELMRKKYSILASPDHYSCIVNLLSRTGKLKEAYELIKSMPFEAHASAWGSLL 481

Query: 528 SACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEK 587
             CS H N+E+ ++VA+HL ELEP+  G YVLLSNIYA+  +W +V +LR  M E  + K
Sbjct: 482 GGCSLHGNTEIAEVVARHLFELEPQSAGSYVLLSNIYAALDRWTDVAHLRDKMNENGITK 541

Query: 588 AVGSSLV 594
             G S +
Sbjct: 542 ICGRSWI 548

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FI80|PP425_ARATH Pentatricopeptide repeat-containing protein At5g48910 OS=Arabidopsis thaliana GN=PCMP-H38 PE=2 SV=1

 Score =  372 bits (955), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 199/585 (34%), Positives = 331/585 (56%), Gaps = 54/585 (9%)

Query: 60  ILQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTS---LSSVSLSVLFFDGI 116
           +  ++ +C T+++  QIH   + SG  +D+ AA+ +L+   TS      +  +   F+ +
Sbjct: 26  LFPQINNCRTIRDLSQIHAVFIKSGQMRDTLAAAEILRFCATSDLHHRDLDYAHKIFNQM 85

Query: 117 QEPDAFMCNTIMKSFLMLND--PFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLR 174
            + + F  NTI++ F   ++     A++ +YE M  +FVE N +TFP + K CA    ++
Sbjct: 86  PQRNCFSWNTIIRGFSESDEDKALIAITLFYEMMSDEFVEPNRFTFPSVLKACAKTGKIQ 145

Query: 175 EGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYV 234
           EGK++H   +K GF  D FV ++L+ MY +CG + DA                       
Sbjct: 146 EGKQIHGLALKYGFGGDEFVMSNLVRMYVMCGFMKDA----------------------- 182

Query: 235 KNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDG 294
                            R +F  N +    V + D    +G        ++V WN MIDG
Sbjct: 183 -----------------RVLFYKNIIEKDMVVMTDRRKRDG--------EIVLWNVMIDG 217

Query: 295 YAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASL 354
           Y ++G+  +AR  FD+M  R+VVSWN +++ Y     + + + +F  M +GD +PN  +L
Sbjct: 218 YMRLGDCKAARMLFDKMRQRSVVSWNTMISGYSLNGFFKDAVEVFREMKKGDIRPNYVTL 277

Query: 355 MSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE 414
           +SVL A + +G +++G+W+H Y +   I+ D +L ++L+ MY+KCG+++ A +VF+ +  
Sbjct: 278 VSVLPAISRLGSLELGEWLHLYAEDSGIRIDDVLGSALIDMYSKCGIIEKAIHVFERLPR 337

Query: 415 KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWY 474
           +NV++W++MI G+ +HGQ   A++ F +M + G  P+D  +I +L+AC+H G+V EG  Y
Sbjct: 338 ENVITWSAMINGFAIHGQAGDAIDCFCKMRQAGVRPSDVAYINLLTACSHGGLVEEGRRY 397

Query: 475 FDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHS 534
           F  M  +  +EP++EHYGCMVDLLGR+GL+ ++EE +  +P++    +W ALL AC    
Sbjct: 398 FSQMVSVDGLEPRIEHYGCMVDLLGRSGLLDEAEEFILNMPIKPDDVIWKALLGACRMQG 457

Query: 535 NSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLV 594
           N E+GK VA  LM++ P D G YV LSN+YAS+G W EV  +R  MKEK++ K  G SL+
Sbjct: 458 NVEMGKRVANILMDMVPHDSGAYVALSNMYASQGNWSEVSEMRLRMKEKDIRKDPGCSLI 517

Query: 595 HPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMC-RRDVASQI 638
                  E +VE+    +   + SML EI  ++++   R + +Q+
Sbjct: 518 DIDGVLHEFVVEDDSHPKAKEINSMLVEISDKLRLAGYRPITTQV 562

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SY02|PP301_ARATH Pentatricopeptide repeat-containing protein At4g02750 OS=Arabidopsis thaliana GN=PCMP-H24 PE=3 SV=1

 Score =  371 bits (953), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 183/439 (41%), Positives = 275/439 (62%), Gaps = 2/439 (0%)

Query: 191 DLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMP 250
           D+   N++I  Y+  G++ +AR++F++ PV D+ TW +M+ GY++NR V  ARELFD MP
Sbjct: 249 DVVSWNTIITGYAQSGKIDEARQLFDESPVQDVFTWTAMVSGYIQNRMVEEARELFDKMP 308

Query: 251 ERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDR 310
           ER+  +WN+M++GYV    ME A  LFD+MP R+V +WN MI GYA+ G ++ A+N FD+
Sbjct: 309 ERNEVSWNAMLAGYVQGERMEMAKELFDVMPCRNVSTWNTMITGYAQCGKISEAKNLFDK 368

Query: 311 MCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIG 370
           M  R+ VSW  ++A Y +     E LRLF +M R   + N +S  S L+ CA++  +++G
Sbjct: 369 MPKRDPVSWAAMIAGYSQSGHSFEALRLFVQMEREGGRLNRSSFSSALSTCADVVALELG 428

Query: 371 QWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMH 430
           + +H  + K   +    +  +LL MY KCG ++ A ++F  M  K++VSWN+MI GY  H
Sbjct: 429 KQLHGRLVKGGYETGCFVGNALLLMYCKCGSIEEANDLFKEMAGKDIVSWNTMIAGYSRH 488

Query: 431 GQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEH 490
           G GE AL  F  M++ G  P+DAT + VLSAC+H G+V +G  YF  M + Y + P  +H
Sbjct: 489 GFGEVALRFFESMKREGLKPDDATMVAVLSACSHTGLVDKGRQYFYTMTQDYGVMPNSQH 548

Query: 491 YGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELE 550
           Y CMVDLLGRAGL+ D+  L+  +P E   A+WG LL A   H N+EL +  A  +  +E
Sbjct: 549 YACMVDLLGRAGLLEDAHNLMKNMPFEPDAAIWGTLLGASRVHGNTELAETAADKIFAME 608

Query: 551 PRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVH-PGEFASESIVENCP 609
           P + G YVLLSN+YAS G+W +V  LR  M++K ++K  G S +    +  + S+ +   
Sbjct: 609 PENSGMYVLLSNLYASSGRWGDVGKLRVRMRDKGVKKVPGYSWIEIQNKTHTFSVGDEFH 668

Query: 610 PHRKCIVYSMLGEIGAQMK 628
           P +  I ++ L E+  +MK
Sbjct: 669 PEKDEI-FAFLEELDLRMK 686

Arabidopsis thaliana (taxid: 3702)

>sp|O49399|PP321_ARATH Pentatricopeptide repeat-containing protein At4g18840 OS=Arabidopsis thaliana GN=PCMP-E101 PE=3 SV=2

 Score =  370 bits (950), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 195/534 (36%), Positives = 308/534 (57%), Gaps = 35/534 (6%)

Query: 59  PILQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLS--SVSLSVLFFDGI 116
           PIL   E   ++ E  Q H  +L +GL  D+F+AS+++    T+    +VS +    + I
Sbjct: 41  PILSFTERAKSLTEIQQAHAFMLKTGLFHDTFSASKLVAFAATNPEPKTVSYAHSILNRI 100

Query: 117 QEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREG 176
             P+ F  N++++++   + P  AL+ + E ++   V  + Y+F  + K CA      EG
Sbjct: 101 GSPNGFTHNSVIRAYANSSTPEVALTVFREMLLGP-VFPDKYSFTFVLKACAAFCGFEEG 159

Query: 177 KKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKN 236
           +++H   +K G   D+FV N+L+++Y   G        FE                    
Sbjct: 160 RQIHGLFIKSGLVTDVFVENTLVNVYGRSG-------YFE-------------------- 192

Query: 237 REVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYA 296
                AR++ D MP RD  +WNS++S Y++ G ++ A  LFD M  R+V SWN MI GYA
Sbjct: 193 ----IARKVLDRMPVRDAVSWNSLLSAYLEKGLVDEARALFDEMEERNVESWNFMISGYA 248

Query: 297 KIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDA-KPNEASLM 355
             G V  A+  FD M +R+VVSWN ++  Y     Y E L +F++M+     KP+  +L+
Sbjct: 249 AAGLVKEAKEVFDSMPVRDVVSWNAMVTAYAHVGCYNEVLEVFNKMLDDSTEKPDGFTLV 308

Query: 356 SVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEK 415
           SVL+ACA++G +  G+W+H YI K  I+ +  L+T+L+ MY+KCG +D A  VF   +++
Sbjct: 309 SVLSACASLGSLSQGEWVHVYIDKHGIEIEGFLATALVDMYSKCGKIDKALEVFRATSKR 368

Query: 416 NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYF 475
           +V +WNS+I    +HG G+ ALE+F EM   G  PN  TFI VLSAC H GM+ +    F
Sbjct: 369 DVSTWNSIISDLSVHGLGKDALEIFSEMVYEGFKPNGITFIGVLSACNHVGMLDQARKLF 428

Query: 476 DLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSN 535
           ++M  +Y++EP +EHYGCMVDLLGR G + ++EELV+++P +    L  +LL AC     
Sbjct: 429 EMMSSVYRVEPTIEHYGCMVDLLGRMGKIEEAEELVNEIPADEASILLESLLGACKRFGQ 488

Query: 536 SELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAV 589
            E  + +A  L+EL  RD   Y  +SN+YAS+G+W++V + RR M+ + + +++
Sbjct: 489 LEQAERIANRLLELNLRDSSGYAQMSNLYASDGRWEKVIDGRRNMRAERVNRSL 542

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 =  369 bits (946), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 211/645 (32%), Positives = 346/645 (53%), Gaps = 55/645 (8%)

Query: 26  NLPKTPPKLWANEPKPKFTDTDNQRLPIVDLSHPILQKLESCSTVKEFHQIHTQLLVSGL 85
           +LP+ P     N   P    T+N+R   + L       +E C ++++  Q H  ++ +G 
Sbjct: 11  SLPRHP-----NFSNPNQPTTNNERSRHISL-------IERCVSLRQLKQTHGHMIRTGT 58

Query: 86  SQDSFAASRVLK-KLCTSLSSVSLSVLFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFY 144
             D ++AS++      +S +S+  +   FD I +P++F  NT+++++    DP  ++  +
Sbjct: 59  FSDPYSASKLFAMAALSSFASLEYARKVFDEIPKPNSFAWNTLIRAYASGPDPVLSIWAF 118

Query: 145 YEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSV 204
            + +       N YTFP L K  A + SL  G+ +H   VK     D+FV NSLIH Y  
Sbjct: 119 LDMVSESQCYPNKYTFPFLIKAAAEVSSLSLGQSLHGMAVKSAVGSDVFVANSLIHCYFS 178

Query: 205 CGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFT-------- 256
           CG++  A KVF      D+V+WNSMI+G+V+      A ELF  M   D+          
Sbjct: 179 CGDLDSACKVFTTIKEKDVVSWNSMINGFVQKGSPDKALELFKKMESEDVKASHVTMVGV 238

Query: 257 -------------------------------WNSMISGYVDVGDMEAANGLFDLMPFRDV 285
                                           N+M+  Y   G +E A  LFD M  +D 
Sbjct: 239 LSACAKIRNLEFGRQVCSYIEENRVNVNLTLANAMLDMYTKCGSIEDAKRLFDAMEEKDN 298

Query: 286 VSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRM-IR 344
           V+W  M+DGYA   +  +AR   + M  +++V+WN L++ Y +     E L +F  + ++
Sbjct: 299 VTWTTMLDGYAISEDYEAAREVLNSMPQKDIVAWNALISAYEQNGKPNEALIVFHELQLQ 358

Query: 345 GDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDL 404
            + K N+ +L+S L+ACA +G +++G+WIHSYI+K  I+ +  ++++L+ MY+KCG ++ 
Sbjct: 359 KNMKLNQITLVSTLSACAQVGALELGRWIHSYIKKHGIRMNFHVTSALIHMYSKCGDLEK 418

Query: 405 ARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTH 464
           +R VF+++ +++V  W++MI G  MHG G +A++MF +M++    PN  TF  V  AC+H
Sbjct: 419 SREVFNSVEKRDVFVWSAMIGGLAMHGCGNEAVDMFYKMQEANVKPNGVTFTNVFCACSH 478

Query: 465 AGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWG 524
            G+V E    F  M+  Y I P+ +HY C+VD+LGR+G +  + + +  +P+    ++WG
Sbjct: 479 TGLVDEAESLFHQMESNYGIVPEEKHYACIVDVLGRSGYLEKAVKFIEAMPIPPSTSVWG 538

Query: 525 ALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKE 584
           ALL AC  H+N  L ++    L+ELEPR+ G +VLLSNIYA  GKW+ V  LR+ M+   
Sbjct: 539 ALLGACKIHANLNLAEMACTRLLELEPRNDGAHVLLSNIYAKLGKWENVSELRKHMRVTG 598

Query: 585 LEKAVGSSLVHPGEFASESIV-ENCPPHRKCIVYSMLGEIGAQMK 628
           L+K  G S +       E +  +N  P  +  VY  L E+  ++K
Sbjct: 599 LKKEPGCSSIEIDGMIHEFLSGDNAHPMSE-KVYGKLHEVMEKLK 642

Arabidopsis thaliana (taxid: 3702)

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

 Score =  367 bits (941), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 194/545 (35%), Positives = 322/545 (59%), Gaps = 21/545 (3%)

Query: 64  LESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQEPDAFM 123
           ++S +   +  QIH +LLV GL    F  ++++    +S   ++ +   FD +  P  F 
Sbjct: 28  IDSATHKAQLKQIHARLLVLGLQFSGFLITKLIHA-SSSFGDITFARQVFDDLPRPQIFP 86

Query: 124 CNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARI 183
            N I++ +   N    AL  Y    +A+ V  + +TFP L K C+G+  L+ G+ VHA++
Sbjct: 87  WNAIIRGYSRNNHFQDALLMYSNMQLAR-VSPDSFTFPHLLKACSGLSHLQMGRFVHAQV 145

Query: 184 VKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWD--LVTWNSMIDGYVKNREVGF 241
            + GF+ D+FV+N LI +Y+ C  +  AR VFE  P+ +  +V+W +++  Y +N E   
Sbjct: 146 FRLGFDADVFVQNGLIALYAKCRRLGSARTVFEGLPLPERTIVSWTAIVSAYAQNGEPME 205

Query: 242 ARELFDFMPERDIF-TWNSMIS---GYVDVGDMEAANGL--------FDLMPFRDVVSWN 289
           A E+F  M + D+   W +++S    +  + D++    +         ++ P   ++S N
Sbjct: 206 ALEIFSQMRKMDVKPDWVALVSVLNAFTCLQDLKQGRSIHASVVKMGLEIEP-DLLISLN 264

Query: 290 CMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKP 349
            M   YAK G V +A+  FD+M   N++ WN +++ Y +     E + +F  MI  D +P
Sbjct: 265 TM---YAKCGQVATAKILFDKMKSPNLILWNAMISGYAKNGYAREAIDMFHEMINKDVRP 321

Query: 350 NEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVF 409
           +  S+ S ++ACA +G ++  + ++ Y+ +   + DV +S++L+ M+AKCG ++ AR VF
Sbjct: 322 DTISITSAISACAQVGSLEQARSMYEYVGRSDYRDDVFISSALIDMFAKCGSVEGARLVF 381

Query: 410 DNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVL 469
           D   +++VV W++MI+GYG+HG+  +A+ ++  ME+ G  PND TF+ +L AC H+GMV 
Sbjct: 382 DRTLDRDVVVWSAMIVGYGLHGRAREAISLYRAMERGGVHPNDVTFLGLLMACNHSGMVR 441

Query: 470 EGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSA 529
           EGWW+F+ M   +KI P+ +HY C++DLLGRAG +  + E++  +P++ G  +WGALLSA
Sbjct: 442 EGWWFFNRMAD-HKINPQQQHYACVIDLLGRAGHLDQAYEVIKCMPVQPGVTVWGALLSA 500

Query: 530 CSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAV 589
           C  H + ELG+  AQ L  ++P + G YV LSN+YA+   WD V  +R  MKEK L K V
Sbjct: 501 CKKHRHVELGEYAAQQLFSIDPSNTGHYVQLSNLYAAARLWDRVAEVRVRMKEKGLNKDV 560

Query: 590 GSSLV 594
           G S V
Sbjct: 561 GCSWV 565

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	641
225427280	719	PREDICTED: pentatricopeptide repeat-cont	0.978	0.872	0.661	0.0
224126363	617	predicted protein [Populus trichocarpa]	0.948	0.985	0.625	0.0
356513796	595	PREDICTED: pentatricopeptide repeat-cont	0.887	0.956	0.605	0.0
297742136	461	unnamed protein product [Vitis vinifera]	0.692	0.963	0.724	0.0
255575758	518	pentatricopeptide repeat-containing prot	0.775	0.959	0.642	0.0
414884999	557	TPA: hypothetical protein ZEAMMB73_34374	0.630	0.725	0.565	1e-138
326530660	613	predicted protein [Hordeum vulgare subsp	0.669	0.699	0.533	1e-135
359485688	585	PREDICTED: pentatricopeptide repeat-cont	0.851	0.933	0.437	1e-133
147807930	585	hypothetical protein VITISV_032407 [Viti	0.851	0.933	0.436	1e-133
357118977	604	PREDICTED: pentatricopeptide repeat-cont	0.687	0.730	0.524	1e-133

>gi|225427280|ref|XP_002278897.1| PREDICTED: pentatricopeptide repeat-containing protein At3g29230-like [Vitis vinifera]

 Score =  866 bits (2237), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 419/633 (66%), Positives = 513/633 (81%), Gaps = 6/633 (0%)

Query: 1   MSVRLKFTKTTE--ASLSLDKFIKSQKNLPKTPPKLWANEPKPKFTDTDNQRLPIVDLSH 58
           M VR K +  T   +SLSL+KF+KS+KNL K PP+LW++       + D+Q LPI+ LSH
Sbjct: 1   MGVRFKPSHPTVRLSSLSLEKFLKSRKNLFKAPPRLWSDHGH-GLPEEDDQPLPILKLSH 59

Query: 59  PILQKLESC-STVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQ 117
           PIL+ LESC  + KEF+QIHTQL+VSGL Q   AA R +K LC+   SV  +V  F+G++
Sbjct: 60  PILRTLESCCGSTKEFNQIHTQLIVSGLLQQPLAAGRAVKTLCSFPDSVQHAVSLFEGLE 119

Query: 118 EPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGK 177
           EPDAF+CNTIM++++ +NDP+ AL FYYE+M+ K V  NHYTFPLL KVC  I S+ +G+
Sbjct: 120 EPDAFICNTIMRTYVNVNDPYTALGFYYEQMVRKCVAPNHYTFPLLVKVCWEIGSIGDGE 179

Query: 178 KVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNR 237
           K+HARI+K GFELDLFVRNSLIHMYSVCG + DAR +FE   + DLVTWNSMIDGYVKN 
Sbjct: 180 KIHARILKFGFELDLFVRNSLIHMYSVCGRIGDARAMFEVCSISDLVTWNSMIDGYVKNG 239

Query: 238 EVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAK 297
           E+G ARELF+ MPERD+F+WNSMI+GYV  GDM AA  LF+ MPFRD+VSWNCMIDGYA+
Sbjct: 240 EIGAARELFEEMPERDLFSWNSMIAGYVGNGDMTAAEDLFNKMPFRDIVSWNCMIDGYAQ 299

Query: 298 IGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSV 357
           + N+  A   F+ M  RNVVSWNI+LALYVR KDY ECLR+FD+M+ G+  PNEA+L+SV
Sbjct: 300 VQNMEIACELFNWMPYRNVVSWNIMLALYVRIKDYDECLRMFDKMM-GETMPNEATLVSV 358

Query: 358 LTACANMGVIDIGQWIHSYIQKCR-IKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKN 416
           LTACA++G +D G+WIHSYI+  R I+PDVLLST+LLTMYAKCG MDLAR+VFD M+ ++
Sbjct: 359 LTACAHLGRLDRGKWIHSYIKNNRVIEPDVLLSTALLTMYAKCGAMDLARDVFDKMSNRS 418

Query: 417 VVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFD 476
           VVSWNSMIMGYGMHGQ +KALEMF++MEKRGP PNDATFICVLSAC H+GM+LEGWWYFD
Sbjct: 419 VVSWNSMIMGYGMHGQADKALEMFLDMEKRGPMPNDATFICVLSACAHSGMILEGWWYFD 478

Query: 477 LMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNS 536
           LM+R YKIEPKVEHYGCMVDLLGRAGLM+D EEL+ K+PME G ALWGALLSAC THSNS
Sbjct: 479 LMRRAYKIEPKVEHYGCMVDLLGRAGLMKDLEELIRKMPMEGGTALWGALLSACRTHSNS 538

Query: 537 ELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHP 596
           EL +IVA+ L+ELEPRD GPY+LLSNIYA+EGKWD+VE +R++MKE+ L K  G S VH 
Sbjct: 539 ELAEIVAKRLIELEPRDIGPYLLLSNIYAAEGKWDDVEIVRKMMKERGLTKTTGFSWVHI 598

Query: 597 GEFASESIVENCPPHRKCIVYSMLGEIGAQMKM 629
            EF ++S VE    HRK ++YS+L ++  QMK+
Sbjct: 599 EEFGTQSFVEKASVHRKSMMYSILSDMATQMKL 631

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224126363|ref|XP_002329535.1| predicted protein [Populus trichocarpa] gi|222870244|gb|EEF07375.1| predicted protein [Populus trichocarpa]

 Score =  800 bits (2065), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 399/638 (62%), Positives = 481/638 (75%), Gaps = 30/638 (4%)

Query: 1   MSVRLKFTKTTEASLSLDKFIKSQKNLPKTPPKLWANEPKPKF---TDTDNQRLPIVDLS 57
           M++  K+ K    SLSL+KF+KS+KNL KTPPKL+ N+P P+    T +++   P +DL+
Sbjct: 1   MTINHKYYK---HSLSLNKFLKSKKNLSKTPPKLFPNDPTPQQITQTISNSSNAPTLDLN 57

Query: 58  HPILQKLE-SCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGI 116
           HPILQKLE SC+ +K+F+QIHTQL V GL Q  FAASR +KKLC  L+SVS  V  ++ I
Sbjct: 58  HPILQKLEQSCTNIKQFNQIHTQLTVLGLFQHPFAASRYIKKLCACLNSVSHCVSLYNHI 117

Query: 117 QEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREG 176
           +EPDAFMCNTIM+SF+ +NDPFGAL FYYEKM+AK+V  NHYTFPL+ KVCA I SLREG
Sbjct: 118 EEPDAFMCNTIMRSFVNVNDPFGALRFYYEKMIAKWVLPNHYTFPLVAKVCADIGSLREG 177

Query: 177 KKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKN 236
           +KVHA +VK GFELDLFVRNS I  YSVCG   DAR VF++G V DLV+WNSMIDGYVKN
Sbjct: 178 QKVHALVVKFGFELDLFVRNSFIRFYSVCGRTSDARMVFDNGFVLDLVSWNSMIDGYVKN 237

Query: 237 REVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYA 296
            E+G ARE+FD M ERDIFTWNSMISGYV VGDMEAA GLFD MP RDVVSWNCMIDG+A
Sbjct: 238 GELGLAREIFDEMYERDIFTWNSMISGYVGVGDMEAARGLFDKMPSRDVVSWNCMIDGFA 297

Query: 297 KIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMS 356
           +I +V+ A   FD M +RNVVSWN++LALY+RCK Y +CLR FD M+ GD  P+EASL+S
Sbjct: 298 RIKDVSMAAKFFDEMPLRNVVSWNVMLALYLRCKKYSDCLRFFDMMVGGDFVPDEASLVS 357

Query: 357 VLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKN 416
           VLTACA + ++D G+W+HSY++   IKPD+LLST+LLTMYAKCG MDLAR VFD M EK+
Sbjct: 358 VLTACAELKMLDQGKWVHSYMKDNGIKPDMLLSTALLTMYAKCGAMDLAREVFDKMPEKS 417

Query: 417 VVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFD 476
           VVSWNSMI+GYG+HG G+KALEMF EMEK GP PNDATF+ VLSAC+H+GMV  GWWYFD
Sbjct: 418 VVSWNSMIIGYGIHGHGDKALEMFREMEKGGPMPNDATFMSVLSACSHSGMVWNGWWYFD 477

Query: 477 LMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNS 536
           LM R Y+I+PK EHYGC+VDLLG+AGL   SE+L  K   E  P LWG LLSAC  H  S
Sbjct: 478 LMHRKYRIQPKPEHYGCLVDLLGQAGLKEPSEDLTRKTHTEVEPTLWGDLLSACRAHCIS 537

Query: 537 ELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELE-KAVGSSLVH 595
           E G+I+A+ L++L P    PY+LLSN Y +EG+WD+VENLR  +K K L  K V +S  H
Sbjct: 538 EPGEILAKQLIKLFPNHVVPYLLLSNTYVAEGRWDDVENLRMTLKNKTLNSKMVFTSRRH 597

Query: 596 PGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRRD 633
                                 SML E  AQ+K+   D
Sbjct: 598 ----------------------SMLSEAAAQIKLSNID 613

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356513796|ref|XP_003525595.1| PREDICTED: pentatricopeptide repeat-containing protein At3g29230-like [Glycine max]

 Score =  712 bits (1839), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 347/573 (60%), Positives = 441/573 (76%), Gaps = 4/573 (0%)

Query: 60  ILQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQEP 119
           +   LES   + E +Q+ +QL+VSGLSQ    A+  +KKLC+   +   +   FD +  P
Sbjct: 10  LFAALESWKNLHELNQVLSQLIVSGLSQHPLFATSAIKKLCSHSVTFPRATFLFDHLHHP 69

Query: 120 DAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKV 179
           DAF CNTI++++    D   AL FYY KM+A+ V  NHYTFPLL KVC  I S REG K 
Sbjct: 70  DAFHCNTIIRAYARKPDFPAALRFYYCKMLARSVPPNHYTFPLLIKVCTDIGSFREGLKG 129

Query: 180 HARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREV 239
           HARIVK GF  DLF RNSLI MYSV G + +AR VF++    DLV++NSMIDGYVKN E+
Sbjct: 130 HARIVKFGFGSDLFARNSLIRMYSVFGRIGNARMVFDESCWLDLVSYNSMIDGYVKNGEI 189

Query: 240 GFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIG 299
           G AR++F+ MP+RD+ +WN +I+GYV VGD++AAN LF+ +P RD VSWNCMIDG A++G
Sbjct: 190 GAARKVFNEMPDRDVLSWNCLIAGYVGVGDLDAANELFETIPERDAVSWNCMIDGCARVG 249

Query: 300 NVTSARNCFDRM--CMRNVVSWNILLALYVRCKDYCECLRLFDRMIRG-DAKPNEASLMS 356
           NV+ A   FDRM   +RNVVSWN +LAL+ R K+Y ECL LF +M+ G +A PNEA+L+S
Sbjct: 250 NVSLAVKFFDRMPAAVRNVVSWNSVLALHARVKNYGECLMLFGKMVEGREAVPNEATLVS 309

Query: 357 VLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKN 416
           VLTACAN+G + +G W+HS+I+   IKPDVLL T LLTMYAKCG MDLA+ VFD M  ++
Sbjct: 310 VLTACANLGKLSMGMWVHSFIRSNNIKPDVLLLTCLLTMYAKCGAMDLAKGVFDEMPVRS 369

Query: 417 VVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFD 476
           VVSWNSMIMGYG+HG G+KALE+F+EMEK G  PNDATFI VLSACTHAGMV+EGWWYFD
Sbjct: 370 VVSWNSMIMGYGLHGIGDKALELFLEMEKAGQQPNDATFISVLSACTHAGMVMEGWWYFD 429

Query: 477 LMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNS 536
           LMQR+YKIEPKVEHYGCMVDLL RAGL+ +SEEL+  +P++AG A+WGALLS CS H +S
Sbjct: 430 LMQRVYKIEPKVEHYGCMVDLLARAGLVENSEELIRMVPVKAGSAIWGALLSGCSNHLDS 489

Query: 537 ELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHP 596
           ELG+IVA+  +ELEP+D GPY+LLSN+YA++G+WD+VE++R ++KEK L+K   SSLVH 
Sbjct: 490 ELGEIVAKRFIELEPQDIGPYILLSNMYAAKGRWDDVEHVRLMIKEKGLQKEAASSLVHL 549

Query: 597 GEFASESIVENCPPHRKCIVYSMLGEIGAQMKM 629
            +F S+  V+N   +RK I+YSML E+G QMK+
Sbjct: 550 EDFESK-YVKNNSGYRKKIMYSMLSELGTQMKL 581

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297742136|emb|CBI33923.3| unnamed protein product [Vitis vinifera]

 Score =  675 bits (1741), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 323/446 (72%), Positives = 380/446 (85%), Gaps = 2/446 (0%)

Query: 148 MMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGE 207
           M+ K V  NHYTFPLL KVC  I S+ +G+K+HARI+K GFELDLFVRNSLIHMYSVCG 
Sbjct: 1   MVRKCVAPNHYTFPLLVKVCWEIGSIGDGEKIHARILKFGFELDLFVRNSLIHMYSVCGR 60

Query: 208 VLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDV 267
           + DAR +FE   + DLVTWNSMIDGYVKN E+G ARELF+ MPERD+F+WNSMI+GYV  
Sbjct: 61  IGDARAMFEVCSISDLVTWNSMIDGYVKNGEIGAARELFEEMPERDLFSWNSMIAGYVGN 120

Query: 268 GDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYV 327
           GDM AA  LF+ MPFRD+VSWNCMIDGYA++ N+  A   F+ M  RNVVSWNI+LALYV
Sbjct: 121 GDMTAAEDLFNKMPFRDIVSWNCMIDGYAQVQNMEIACELFNWMPYRNVVSWNIMLALYV 180

Query: 328 RCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCR-IKPDV 386
           R KDY ECLR+FD+M+ G+  PNEA+L+SVLTACA++G +D G+WIHSYI+  R I+PDV
Sbjct: 181 RIKDYDECLRMFDKMM-GETMPNEATLVSVLTACAHLGRLDRGKWIHSYIKNNRVIEPDV 239

Query: 387 LLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKR 446
           LLST+LLTMYAKCG MDLAR+VFD M+ ++VVSWNSMIMGYGMHGQ +KALEMF++MEKR
Sbjct: 240 LLSTALLTMYAKCGAMDLARDVFDKMSNRSVVSWNSMIMGYGMHGQADKALEMFLDMEKR 299

Query: 447 GPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRD 506
           GP PNDATFICVLSAC H+GM+LEGWWYFDLM+R YKIEPKVEHYGCMVDLLGRAGLM+D
Sbjct: 300 GPMPNDATFICVLSACAHSGMILEGWWYFDLMRRAYKIEPKVEHYGCMVDLLGRAGLMKD 359

Query: 507 SEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYAS 566
            EEL+ K+PME G ALWGALLSAC THSNSEL +IVA+ L+ELEPRD GPY+LLSNIYA+
Sbjct: 360 LEELIRKMPMEGGTALWGALLSACRTHSNSELAEIVAKRLIELEPRDIGPYLLLSNIYAA 419

Query: 567 EGKWDEVENLRRIMKEKELEKAVGSS 592
           EGKWD+VE +R++MKE+ L K  G S
Sbjct: 420 EGKWDDVEIVRKMMKERGLTKTTGLS 445

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255575758|ref|XP_002528778.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223531781|gb|EEF33600.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  652 bits (1683), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 323/503 (64%), Positives = 399/503 (79%), Gaps = 6/503 (1%)

Query: 11  TEASLSLDKFIKSQKNLPKTPPKLWANEPKP-KFTDTDNQRLPIVDLSHPILQKLE-SCS 68
           + +SL+L+KFIKSQKNL +  PKL+ N+PKP + T T + ++ ++DL+H +LQKLE SC 
Sbjct: 6   SRSSLALNKFIKSQKNLSEPSPKLFPNDPKPTQITPTLDPKVLVLDLNHQLLQKLELSCI 65

Query: 69  TVKEFHQIHTQLLVSGLSQDSFAASRVLKKLC-TSLSSVSLSVLFFDGIQEPDAFMCNTI 127
            +K+F+QIHTQL+V GL Q   AA R +KKLC T  + +S  V  +D I++PDAF+CNTI
Sbjct: 66  NIKQFNQIHTQLIVLGLFQHPLAAGRYIKKLCNTYFNLLSHCVYLYDYIEQPDAFICNTI 125

Query: 128 MKSFLMLN-DPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKC 186
           ++ F+ LN DPFGAL FYY+KM+AK+V  N YTFPLL KVCA I SL+EG+K HA +VK 
Sbjct: 126 IRCFVSLNNDPFGALRFYYDKMIAKWVLPNRYTFPLLVKVCADIGSLKEGQKAHACVVKF 185

Query: 187 GFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELF 246
           GFE D +VRNSL+HMYS CG VLDAR +FE G V DLV+WNSMI GYVKN ++G ARELF
Sbjct: 186 GFEFDAYVRNSLLHMYSACGRVLDARLLFESGFVLDLVSWNSMIIGYVKNGDIGLARELF 245

Query: 247 DFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARN 306
           D MPERD F+WNSMISGYV  GD+EAA  LFD MP RDVVSWNCMIDGYAKI NV+ AR 
Sbjct: 246 DEMPERDAFSWNSMISGYVGAGDVEAAKKLFDNMPSRDVVSWNCMIDGYAKIRNVSVARW 305

Query: 307 CFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRG-DAKPNEASLMSVLTACANMG 365
            F++M  RN+VSWNI+LALY++CK+Y ECL+LFDRMI   + +PN+ASLMSVLTACAN  
Sbjct: 306 LFNQMPFRNIVSWNIMLALYLKCKNYGECLKLFDRMIEERELRPNKASLMSVLTACANFR 365

Query: 366 VIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIM 425
            +D+G+WIHSYI+   ++ D LLST+LLTMYAKCG+MD AR++F  M  K+VVSWNSMIM
Sbjct: 366 RLDLGKWIHSYIKDNEVESDELLSTALLTMYAKCGMMDFARHIFTKMPHKSVVSWNSMIM 425

Query: 426 GYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIE 485
           GY ++G  EKALE F+EMEK    PN ATF+ VLSAC+HA ++LEGWWYFDLMQR YKIE
Sbjct: 426 GYAINGHAEKALETFLEMEKSSMMPNAATFVSVLSACSHAELLLEGWWYFDLMQRKYKIE 485

Query: 486 PKVEHYGCMVDLLGRA-GLMRDS 507
           PKVEH GCMVDLL +A  ++ DS
Sbjct: 486 PKVEHCGCMVDLLRQAEAVLEDS 508

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|414884999|tpg|DAA61013.1| TPA: hypothetical protein ZEAMMB73_343744 [Zea mays]

 Score =  499 bits (1285), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 230/407 (56%), Positives = 305/407 (74%), Gaps = 3/407 (0%)

Query: 191 DLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMP 250
           D    N+L+  +   G +  AR++F++ P  DLVT+NSM+ GY    ++  ARELFD MP
Sbjct: 151 DTVTWNTLLRSFLRMGLLPAARRLFDEMPERDLVTYNSMLSGYAAEGDIANARELFDGMP 210

Query: 251 ERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDR 310
           ERD+ TWNSM++GY   GDME+A  LFD+MP RDVVSWN M+DGYA+ G++   R  FD 
Sbjct: 211 ERDVVTWNSMLAGYAQRGDMESAKRLFDVMPVRDVVSWNSMLDGYAQTGDIEMTRMVFDG 270

Query: 311 MCMRNVVSWNILLALYVRCKDYCECLRLFDRMIR-GDAKPNEASLMSVLTACANMGVIDI 369
           M  R+ VSWN++LALY + KD+ ECL LFD M+  G +KPNE + +SVLTAC ++G ++ 
Sbjct: 271 MPRRSTVSWNVVLALYAKVKDWHECLNLFDAMMAVGGSKPNEKTFVSVLTACGHLGDLER 330

Query: 370 GQWIHSYIQKC--RIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGY 427
           G+W+H  + +   R+ PDVLL T+++TMYAKCGVM  A+ +FD MTE++V SWNSMI+GY
Sbjct: 331 GRWVHHLVHESWERLLPDVLLLTAMMTMYAKCGVMGTAKEIFDLMTERSVASWNSMIIGY 390

Query: 428 GMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK 487
           G+HG  EKALE+FMEMEK GP PN+ TFIC+LS+C H G+VLEGWW FD M R Y IEPK
Sbjct: 391 GLHGYSEKALELFMEMEKNGPQPNETTFICILSSCAHGGLVLEGWWCFDRMVRFYNIEPK 450

Query: 488 VEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLM 547
            EH+GCM+DLLGRAGL+RDSE L++ L  +  PALWGAL+SA  T  +S+LG+ +   L+
Sbjct: 451 AEHFGCMMDLLGRAGLLRDSENLINNLQAKVSPALWGALISASRTQDSSKLGEFIGTKLI 510

Query: 548 ELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLV 594
           E++P +   YVLLSNIYA+EG+WD+VE +R++MKEK +EK VG SLV
Sbjct: 511 EMKPTEFSSYVLLSNIYATEGRWDDVEKVRKVMKEKVVEKDVGMSLV 557

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|326530660|dbj|BAK01128.1| predicted protein [Hordeum vulgare subsp. vulgare]

 Score =  489 bits (1259), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 238/446 (53%), Positives = 317/446 (71%), Gaps = 17/446 (3%)

Query: 191 DLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMP 250
           D    N+L+      G +  AR +F+  PV DLV++NSM+ G+    ++  AR+LFD MP
Sbjct: 166 DAVTWNTLLRACLRSGLLPSARHLFDQMPVRDLVSYNSMLSGHAAAGDMDGARQLFDGMP 225

Query: 251 ERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDR 310
           ERD+ +WNSM++G+   GDME A  +FD MP RDVVSWN M+DGYA+ G+V +AR  FD 
Sbjct: 226 ERDVVSWNSMLAGHTRCGDMEEARRMFDAMPERDVVSWNSMLDGYAQAGDVLAARAVFDG 285

Query: 311 MCMRNVVSWNILLALYVRCKDYCECLRLFDRMIR-GDAKPNEASLMSVLTACANMGVIDI 369
           M  R+ VSWN++LALY R K++ ECLRLFD M+  G A PNE + +SVLTAC ++G ++ 
Sbjct: 286 MPRRSTVSWNVVLALYARVKNWRECLRLFDAMMAVGAAVPNEKTFVSVLTACGSLGDLER 345

Query: 370 GQWIHSYIQKC--RIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGY 427
           G+ +H  +++    + PDVLL T+LLTMYAKCGVM+ AR +FD+M E++V SWNSMI+GY
Sbjct: 346 GKRVHDLVRQRWETLVPDVLLLTALLTMYAKCGVMEAARVIFDSMGERSVPSWNSMIIGY 405

Query: 428 GMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK 487
           G+HGQ EKALE+F+EME+ GP PN+ TF+CVLS+C H G+VLEGWW FD M R+Y +EPK
Sbjct: 406 GLHGQSEKALELFLEMERTGPRPNETTFVCVLSSCAHGGLVLEGWWCFDRMVRLYGVEPK 465

Query: 488 VEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLM 547
            EH+GCM+DLLGRAGL+ DS+ LV  L  +A PALWGA++SA    + S LG+ V + L+
Sbjct: 466 AEHFGCMMDLLGRAGLLTDSDTLVQNLQEKASPALWGAMVSASRAQNGSRLGEFVGKKLI 525

Query: 548 ELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVEN 607
           E+ P++ GPYVLLSNIYA EG+W++VE +R +MK    EK VG SLV   E         
Sbjct: 526 EMRPKEVGPYVLLSNIYAGEGRWNDVEKVREMMKGNGAEKDVGLSLVGSSE--------- 576

Query: 608 CPPHR----KCIVYSMLGEIGAQMKM 629
            P HR      +V SMLGEIGA +K+
Sbjct: 577 -PEHRIGTEDGVVLSMLGEIGAHLKL 601

Source: Hordeum vulgare subsp. vulgare

Species: Hordeum vulgare

Genus: Hordeum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359485688|ref|XP_002275048.2| PREDICTED: pentatricopeptide repeat-containing protein At3g29230-like [Vitis vinifera] gi|297739328|emb|CBI28979.3| unnamed protein product [Vitis vinifera]

 Score =  483 bits (1243), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 240/548 (43%), Positives = 355/548 (64%), Gaps = 2/548 (0%)

Query: 49  QRLPIVDLSHPILQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSL 108
           Q  P + L +P+L  L+   T  +  QIH QL+ + L  D+FAASR+L  + +   +V+ 
Sbjct: 3   QSTPKLQLKNPLLSLLQKSKTSSQILQIHAQLITTNLISDTFAASRLLDSVVSKTLNVNY 62

Query: 109 SVLFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCA 168
           + L F  I +P++F+CNT++K +   + P  AL FY E M  K +  ++YT+P + K C 
Sbjct: 63  AELVFAQIHQPNSFICNTMVKCYTESSTPERALRFYAE-MRRKGLLGDNYTYPFVLKACG 121

Query: 169 GIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNS 228
            +  L EG  V    VK GF  D+FV N LI MY  CGE   AR VF+     DLV+WNS
Sbjct: 122 AMCGLLEGGLVQGEAVKRGFGGDVFVVNGLISMYCRCGETGWARAVFDGFSEKDLVSWNS 181

Query: 229 MIDGYVKNREVGFARELFDFMPERDIFTWNSMISGY-VDVGDMEAANGLFDLMPFRDVVS 287
           M+ GYV   E+  A+ +FD MPERD+ +W+ MI GY   +G++  A   FD MP RD+VS
Sbjct: 182 MLGGYVWCGEMENAQNMFDEMPERDVVSWSIMIDGYGKKMGEVNRARVFFDSMPTRDLVS 241

Query: 288 WNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDA 347
           WN MIDGYAK+G +  AR  FD+M  +NV+SW+I++  Y + +D  E L LF +M+    
Sbjct: 242 WNSMIDGYAKVGEMEVAREIFDKMLQKNVISWSIMIDGYAQHRDSKEALNLFRQMLCQGI 301

Query: 348 KPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARN 407
           KP+  S++  ++AC+ +G +D G+WIH Y+++ R+  D+++ T+L+ MY KCG  D AR 
Sbjct: 302 KPDRVSVVGAVSACSQLGALDQGRWIHLYMKRNRMLLDIVVQTALVDMYLKCGSRDEARR 361

Query: 408 VFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGM 467
           +F++M E+NVVSWN MI+G GM+G G++ALE F +ME      +D  F+ VL AC+HA +
Sbjct: 362 IFNSMPERNVVSWNVMIVGLGMNGFGKEALECFTQMEMERIPMDDLLFLGVLMACSHANL 421

Query: 468 VLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALL 527
           V EG   F+ M+ +Y++EPK+EHYGC+VDLLGRAG +   + ++  +PM+   ALWG+LL
Sbjct: 422 VTEGLHIFNQMKGVYRLEPKLEHYGCLVDLLGRAGQLDQIQNIIQSMPMKPNAALWGSLL 481

Query: 528 SACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEK 587
            AC  H N  L +IV + L EL+  D G YVL+SNIYA  G W+ +  +R++MKE++++K
Sbjct: 482 LACRIHQNVTLAEIVVERLAELKADDSGVYVLMSNIYADVGMWEGMLRIRKLMKERKMKK 541

Query: 588 AVGSSLVH 595
            +G S++ 
Sbjct: 542 DIGRSVIE 549

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147807930|emb|CAN62155.1| hypothetical protein VITISV_032407 [Vitis vinifera]

 Score =  482 bits (1241), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 239/548 (43%), Positives = 354/548 (64%), Gaps = 2/548 (0%)

Query: 49  QRLPIVDLSHPILQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSL 108
           Q  P + L +P+L  L+   T  +  QIH QL+ + L  D+FAASR+L  + +   +V+ 
Sbjct: 3   QSTPKLQLKNPLLSLLQXSKTSSQILQIHAQLITTNLISDTFAASRLLDSVVSKTLNVNY 62

Query: 109 SVLFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCA 168
           + L F  I +P++F+CNT++K +   + P  AL FY E M  K +  ++YT+P + K C 
Sbjct: 63  AELVFAQIHQPNSFICNTMVKCYTESSTPERALRFYAE-MRKKGLLGDNYTYPFVLKACG 121

Query: 169 GIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNS 228
            +  L EG  V    VK GF  D+FV N LI MY  CGE   AR VF+     DLV+WNS
Sbjct: 122 AMCGLLEGGLVQGEAVKRGFGGDVFVVNGLISMYCRCGETGWARAVFDGFSEKDLVSWNS 181

Query: 229 MIDGYVKNREVGFARELFDFMPERDIFTWNSMISGY-VDVGDMEAANGLFDLMPFRDVVS 287
           M+ GYV   E+  A+ +FD MPERD+ +W+ MI GY   +G++  A   FD MP RD+VS
Sbjct: 182 MLGGYVWCGEMENAQNMFDEMPERDVVSWSIMIDGYGKKMGEVNRARVFFDSMPTRDLVS 241

Query: 288 WNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDA 347
           WN MIDGYAK+G +  AR  FB+M  +NV+SW+I++  Y   +D  E L LF +M+    
Sbjct: 242 WNSMIDGYAKVGEMEVAREIFBKMLQKNVISWSIMIDGYAXHRDSKEALNLFRQMLCQGI 301

Query: 348 KPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARN 407
           KP+  S++  ++AC+ +G +D G+WIH Y+++ R+  D+++ T+L+ MY KCG  D AR 
Sbjct: 302 KPDRVSVVGAVSACSQLGALDQGRWIHLYMKRNRMLLDIVVQTALVDMYLKCGSXDEARX 361

Query: 408 VFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGM 467
           +F++M E+NVVSWN MI+G GM+G G++ALE F +ME      +D  F+ VL AC+HA +
Sbjct: 362 IFNSMPERNVVSWNVMIVGLGMNGFGKEALECFXQMEMERIPMDDLLFLGVLMACSHANL 421

Query: 468 VLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALL 527
           V EG   F+ M+ +Y++EPK+EHYGC+VDLLGRAG +   + ++  +PM+   ALWG+LL
Sbjct: 422 VTEGLHIFNQMKGVYRLEPKLEHYGCLVDLLGRAGQLDQIQNIIQSMPMKPNAALWGSLL 481

Query: 528 SACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEK 587
            AC  H N  L +IV + L EL+  D G YVL+SNIYA  G W+ +  +R++MKE++++K
Sbjct: 482 LACRIHQNVTLAEIVVERLAELKADDSGVYVLMSNIYADVGMWEGMLRIRKLMKERKMKK 541

Query: 588 AVGSSLVH 595
            +G S++ 
Sbjct: 542 DIGRSVIE 549

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357118977|ref|XP_003561223.1| PREDICTED: pentatricopeptide repeat-containing protein At4g02750-like [Brachypodium distachyon]

 Score =  481 bits (1238), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 235/448 (52%), Positives = 314/448 (70%), Gaps = 7/448 (1%)

Query: 191 DLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMP 250
           D    N+L+      G +  AR++F+  P  DLV++NSM+  Y    ++  A  LFD MP
Sbjct: 153 DTVTWNTLLRACLRSGLLPSARRLFDQMPHRDLVSYNSMLSSYAAVGDMAGAGRLFDEMP 212

Query: 251 ERDIFTWNSMISGYVDVG-DMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFD 309
           ERD+ TWN+M++GY   G DM +A  +FD MP RDVVSWN M+DGYA+ G+V  A   FD
Sbjct: 213 ERDVVTWNTMLAGYARGGADMASARAVFDAMPERDVVSWNSMLDGYAQAGDVVMAWAMFD 272

Query: 310 RMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIR-GDAKPNEASLMSVLTACANMGVID 368
            M  R+  SWN++LALY R KD+ ECLRLFD M+  G + PNE + +SVLTAC ++G ++
Sbjct: 273 GMPRRSAASWNVVLALYARRKDWRECLRLFDAMMAVGVSVPNEKTFVSVLTACGSLGDLE 332

Query: 369 IGQWIHSYIQKC--RIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMG 426
            G+W+H  +++   R+ PDVLL T+LLTMYAKCG M+ AR +FD+M+E++V SWNSMI+G
Sbjct: 333 RGKWVHGLVRERWDRLVPDVLLLTALLTMYAKCGAMETAREIFDSMSERSVPSWNSMIIG 392

Query: 427 YGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP 486
           YG+HGQ EKALE+F+EMEK GP PN+ TFICVLS+C H G+VLEGWW FD M R Y  EP
Sbjct: 393 YGLHGQSEKALELFLEMEKSGPRPNETTFICVLSSCAHGGLVLEGWWCFDRMVRFYGFEP 452

Query: 487 KVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHL 546
           K EH+GCM+DLLGRAGL++DSE L+  L  +A PALWG ++SA  T +N +LG+ V + L
Sbjct: 453 KAEHFGCMMDLLGRAGLLKDSENLIQNLQGKASPALWGIMMSASQTQNNYKLGEFVGKKL 512

Query: 547 MELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVE 606
           +E++P + GPY+LLSNIYASEG+W +VE +R +MKE   EK VG SL+   E       E
Sbjct: 513 IEMKPAEFGPYLLLSNIYASEGRWGDVEKVREVMKENGAEKYVGLSLIGSSESEPRPATE 572

Query: 607 N-CPPHRKCIVYSMLGEIGAQMKM--CR 631
           +     R  ++ SMLGE+   MK+  CR
Sbjct: 573 DGITVPRDDVMLSMLGEMSVHMKLPKCR 600

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	641
TAIR|locus:2094812	600	AT3G29230 "AT3G29230" [Arabido	0.875	0.935	0.379	9.2e-107
TAIR|locus:2151694	550	AT5G37570 "AT5G37570" [Arabido	0.840	0.98	0.349	5.9e-96
TAIR|locus:2140235	781	AT4G02750 [Arabidopsis thalian	0.681	0.559	0.416	6.1e-94
TAIR|locus:2054966	555	AHG11 "ABA hypersensitive germ	0.786	0.908	0.349	1.1e-92
TAIR|locus:2121055	559	AT4G38010 "AT4G38010" [Arabido	0.833	0.955	0.354	4e-90
TAIR|locus:2010012	474	AT1G13410 "AT1G13410" [Arabido	0.619	0.837	0.408	5e-89
TAIR|locus:2012295	705	AT1G09410 [Arabidopsis thalian	0.627	0.570	0.394	5.4e-86
TAIR|locus:2205200	741	OTP82 "AT1G08070" [Arabidopsis	0.673	0.582	0.396	2.1e-84
TAIR|locus:2038603	868	AT2G27610 "AT2G27610" [Arabido	0.861	0.635	0.316	1.4e-80
TAIR|locus:2027554	704	AT1G56690 [Arabidopsis thalian	0.613	0.558	0.391	2.2e-80

TAIR|locus:2094812 AT3G29230 "AT3G29230" [Arabidopsis thaliana (taxid:3702)]

 Score = 1056 (376.8 bits), Expect = 9.2e-107, P = 9.2e-107
 Identities = 215/567 (37%), Positives = 338/567 (59%)

Query:    61 LQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRXXXXXXXXXXXXXXXXXFFDGIQEPD 120
             LQ L  C+ + +  Q+H Q++   L +D   A +                 F + +QEP+
Sbjct:    23 LQDLPKCANLNQVKQLHAQIIRRNLHEDLHIAPKLISALSLCRQTNLAVRVF-NQVQEPN 81

Query:   121 AFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVH 180
               +CN+++++    + P+ A  F + +M    +  +++T+P L K C+G   L   K +H
Sbjct:    82 VHLCNSLIRAHAQNSQPYQAF-FVFSEMQRFGLFADNFTYPFLLKACSGQSWLPVVKMMH 140

Query:   181 ARIVKCGFELDLFVRNSLIHMYSVCGE--VLDARKVFEDGPVWDLVTWNSMIDGYVKNRE 238
               I K G   D++V N+LI  YS CG   V DA K+FE     D V+WNSM+ G VK  E
Sbjct:   141 NHIEKLGLSSDIYVPNALIDCYSRCGGLGVRDAMKLFEKMSERDTVSWNSMLGGLVKAGE 200

Query:   239 VGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKI 298
             +  AR LFD MP+RD+ +WN+M+ GY    +M  A  LF+ MP R+ VSW+ M+ GY+K 
Sbjct:   201 LRDARRLFDEMPQRDLISWNTMLDGYARCREMSKAFELFEKMPERNTVSWSTMVMGYSKA 260

Query:   299 GNVTSARNCFDRMCM--RNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMS 356
             G++  AR  FD+M +  +NVV+W I++A Y       E  RL D+M+    K + A+++S
Sbjct:   261 GDMEMARVMFDKMPLPAKNVVTWTIIIAGYAEKGLLKEADRLVDQMVASGLKFDAAAVIS 320

Query:   357 VLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKN 416
             +L AC   G++ +G  IHS +++  +  +  +  +LL MYAKCG +  A +VF+++ +K+
Sbjct:   321 ILAACTESGLLSLGMRIHSILKRSNLGSNAYVLNALLDMYAKCGNLKKAFDVFNDIPKKD 380

Query:   417 VVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFD 476
             +VSWN+M+ G G+HG G++A+E+F  M + G  P+  TFI VL +C HAG++ EG  YF 
Sbjct:   381 LVSWNTMLHGLGVHGHGKEAIELFSRMRREGIRPDKVTFIAVLCSCNHAGLIDEGIDYFY 440

Query:   477 LMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNS 536
              M+++Y + P+VEHYGC+VDLLGR G ++++ ++V  +PME    +WGALL AC  H+  
Sbjct:   441 SMEKVYDLVPQVEHYGCLVDLLGRVGRLKEAIKVVQTMPMEPNVVIWGALLGACRMHNEV 500

Query:   537 ELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHP 596
             ++ K V  +L++L+P DPG Y LLSNIYA+   W+ V ++R  MK   +EK  G+S V  
Sbjct:   501 DIAKEVLDNLVKLDPCDPGNYSLLSNIYAAAEDWEGVADIRSKMKSMGVEKPSGASSVEL 560

Query:   597 GEFASESIVENCPPHRKCIVYSMLGEI 623
              +   E  V +    +   +Y MLG +
Sbjct:   561 EDGIHEFTVFDKSHPKSDQIYQMLGSL 587

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2151694 AT5G37570 "AT5G37570" [Arabidopsis thaliana (taxid:3702)]

 Score = 954 (340.9 bits), Expect = 5.9e-96, P = 5.9e-96
 Identities = 190/544 (34%), Positives = 308/544 (56%)

Query:    56 LSHPILQKLES----CSTVKEFHQIHTQLLVSGLSQDSFAASRXXXXXXXXXXXXXXXXX 111
             LSHP L  LE+    C +    +QIH +++  GL QD    S                  
Sbjct:     5 LSHPSLLSLETLFKLCKSEIHLNQIHARIIRKGLEQDQNLISIFISSSSSSSSSLSYSSS 64

Query:   112 FFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIR 171
              F+ +  P  ++ N ++K +      F  +S     M       + YTFPL+ KVC+   
Sbjct:    65 VFERVPSPGTYLWNHLIKGYSNKFLFFETVSILMRMMRTGLARPDEYTFPLVMKVCSNNG 124

Query:   172 SLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMID 231
              +R G  VH  +++ GF+ D+ V  S +  Y  C ++  ARKVF + P  + V+W +++ 
Sbjct:   125 QVRVGSSVHGLVLRIGFDKDVVVGTSFVDFYGKCKDLFSARKVFGEMPERNAVSWTALVV 184

Query:   232 GYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCM 291
              YVK+ E+  A+ +FD MPER++ +WN+++ G V  GD+  A  LFD MP RD++S+  M
Sbjct:   185 AYVKSGELEEAKSMFDLMPERNLGSWNALVDGLVKSGDLVNAKKLFDEMPKRDIISYTSM 244

Query:   292 IDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNE 351
             IDGYAK G++ SAR+ F+     +V +W+ L+  Y +     E  ++F  M   + KP+E
Sbjct:   245 IDGYAKGGDMVSARDLFEEARGVDVRAWSALILGYAQNGQPNEAFKVFSEMCAKNVKPDE 304

Query:   352 ASLMSVLTACANMGVIDIGQWIHSYI-QKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFD 410
               ++ +++AC+ MG  ++ + + SY+ Q+        +  +L+ M AKCG MD A  +F+
Sbjct:   305 FIMVGLMSACSQMGCFELCEKVDSYLHQRMNKFSSHYVVPALIDMNAKCGHMDRAAKLFE 364

Query:   411 NMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLE 470
              M ++++VS+ SM+ G  +HG G +A+ +F +M   G  P++  F  +L  C  + +V E
Sbjct:   365 EMPQRDLVSYCSMMEGMAIHGCGSEAIRLFEKMVDEGIVPDEVAFTVILKVCGQSRLVEE 424

Query:   471 GWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSAC 530
             G  YF+LM++ Y I    +HY C+V+LL R G ++++ EL+  +P EA  + WG+LL  C
Sbjct:   425 GLRYFELMRKKYSILASPDHYSCIVNLLSRTGKLKEAYELIKSMPFEAHASAWGSLLGGC 484

Query:   531 STHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVG 590
             S H N+E+ ++VA+HL ELEP+  G YVLLSNIYA+  +W +V +LR  M E  + K  G
Sbjct:   485 SLHGNTEIAEVVARHLFELEPQSAGSYVLLSNIYAALDRWTDVAHLRDKMNENGITKICG 544

Query:   591 SSLV 594
              S +
Sbjct:   545 RSWI 548

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2140235 AT4G02750 [Arabidopsis thaliana (taxid:3702)]

 Score = 935 (334.2 bits), Expect = 6.1e-94, P = 6.1e-94
 Identities = 183/439 (41%), Positives = 275/439 (62%)

Query:   191 DLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMP 250
             D+   N++I  Y+  G++ +AR++F++ PV D+ TW +M+ GY++NR V  ARELFD MP
Sbjct:   249 DVVSWNTIITGYAQSGKIDEARQLFDESPVQDVFTWTAMVSGYIQNRMVEEARELFDKMP 308

Query:   251 ERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDR 310
             ER+  +WN+M++GYV    ME A  LFD+MP R+V +WN MI GYA+ G ++ A+N FD+
Sbjct:   309 ERNEVSWNAMLAGYVQGERMEMAKELFDVMPCRNVSTWNTMITGYAQCGKISEAKNLFDK 368

Query:   311 MCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIG 370
             M  R+ VSW  ++A Y +     E LRLF +M R   + N +S  S L+ CA++  +++G
Sbjct:   369 MPKRDPVSWAAMIAGYSQSGHSFEALRLFVQMEREGGRLNRSSFSSALSTCADVVALELG 428

Query:   371 QWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMH 430
             + +H  + K   +    +  +LL MY KCG ++ A ++F  M  K++VSWN+MI GY  H
Sbjct:   429 KQLHGRLVKGGYETGCFVGNALLLMYCKCGSIEEANDLFKEMAGKDIVSWNTMIAGYSRH 488

Query:   431 GQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEH 490
             G GE AL  F  M++ G  P+DAT + VLSAC+H G+V +G  YF  M + Y + P  +H
Sbjct:   489 GFGEVALRFFESMKREGLKPDDATMVAVLSACSHTGLVDKGRQYFYTMTQDYGVMPNSQH 548

Query:   491 YGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELE 550
             Y CMVDLLGRAGL+ D+  L+  +P E   A+WG LL A   H N+EL +  A  +  +E
Sbjct:   549 YACMVDLLGRAGLLEDAHNLMKNMPFEPDAAIWGTLLGASRVHGNTELAETAADKIFAME 608

Query:   551 PRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVH-PGEFASESIVENCP 609
             P + G YVLLSN+YAS G+W +V  LR  M++K ++K  G S +    +  + S+ +   
Sbjct:   609 PENSGMYVLLSNLYASSGRWGDVGKLRVRMRDKGVKKVPGYSWIEIQNKTHTFSVGDEFH 668

Query:   610 PHRKCIVYSMLGEIGAQMK 628
             P  K  +++ L E+  +MK
Sbjct:   669 PE-KDEIFAFLEELDLRMK 686

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2054966 AHG11 "ABA hypersensitive germination 11" [Arabidopsis thaliana (taxid:3702)]

 Score = 923 (330.0 bits), Expect = 1.1e-92, P = 1.1e-92
 Identities = 178/510 (34%), Positives = 311/510 (60%)

Query:   117 QEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREG 176
             Q  D+F+ N+++K++L       + + Y +         +++TF  L K C+    + +G
Sbjct:    38 QRDDSFLSNSMIKAYLETRQYPDSFALYRDLRKETCFAPDNFTFTTLTKSCSLSMCVYQG 97

Query:   177 KKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKN 236
              ++H++I + GF  D++V   ++ MY+  G++  AR  F++ P    V+W ++I GY++ 
Sbjct:    98 LQLHSQIWRFGFCADMYVSTGVVDMYAKFGKMGCARNAFDEMPHRSEVSWTALISGYIRC 157

Query:   237 REVGFARELFDFMPE-RDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGY 295
              E+  A +LFD MP  +D+  +N+M+ G+V  GDM +A  LFD M  + V++W  MI GY
Sbjct:   158 GELDLASKLFDQMPHVKDVVIYNAMMDGFVKSGDMTSARRLFDEMTHKTVITWTTMIHGY 217

Query:   296 AKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRM-IRGDAKPNEASL 354
               I ++ +AR  FD M  RN+VSWN ++  Y + K   E +RLF  M       P++ ++
Sbjct:   218 CNIKDIDAARKLFDAMPERNLVSWNTMIGGYCQNKQPQEGIRLFQEMQATTSLDPDDVTI 277

Query:   355 MSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE 414
             +SVL A ++ G + +G+W H ++Q+ ++   V + T++L MY+KCG ++ A+ +FD M E
Sbjct:   278 LSVLPAISDTGALSLGEWCHCFVQRKKLDKKVKVCTAILDMYSKCGEIEKAKRIFDEMPE 337

Query:   415 KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWY 474
             K V SWN+MI GY ++G    AL++F+ M      P++ T + V++AC H G+V EG  +
Sbjct:   338 KQVASWNAMIHGYALNGNARAALDLFVTMMIE-EKPDEITMLAVITACNHGGLVEEGRKW 396

Query:   475 FDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHS 534
             F +M+ +  +  K+EHYGCMVDLLGRAG ++++E+L++ +P E    +  + LSAC  + 
Sbjct:   397 FHVMREM-GLNAKIEHYGCMVDLLGRAGSLKEAEDLITNMPFEPNGIILSSFLSACGQYK 455

Query:   535 NSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLV 594
             + E  + + +  +ELEP++ G YVLL N+YA++ +WD+   ++ +M++ + +K VG SL+
Sbjct:   456 DIERAERILKKAVELEPQNDGNYVLLRNLYAADKRWDDFGMVKNVMRKNQAKKEVGCSLI 515

Query:   595 HPGEFASESIV-ENCPPHRKCIVYSMLGEI 623
                   SE I  +   PHR+ I + +LG++
Sbjct:   516 EINYIVSEFISGDTTHPHRRSI-HLVLGDL 544

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2121055 AT4G38010 "AT4G38010" [Arabidopsis thaliana (taxid:3702)]

 Score = 899 (321.5 bits), Expect = 4.0e-90, P = 4.0e-90
 Identities = 193/544 (35%), Positives = 304/544 (55%)

Query:    60 ILQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRXXXXXXXXXXXXXXXXXFFDGIQEP 119
             +L+ +  CS+++ F QI TQL+   L +D    ++                     I+  
Sbjct:     9 LLELISRCSSLRVFKQIQTQLITRDLLRDDLIINKVVTFLGKSADFASYSSVILHSIRSV 68

Query:   120 -DAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKK 178
               +F  NT++ S+ + + P   + F Y+  ++     + +TFP + K C     +REGK+
Sbjct:    69 LSSFSYNTLLSSYAVCDKPRVTI-FAYKTFVSNGFSPDMFTFPPVFKACGKFSGIREGKQ 127

Query:   179 VHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNRE 238
             +H  + K GF  D++V+NSL+H Y VCGE  +A KVF + PV D+V+W  +I G+ +   
Sbjct:   128 IHGIVTKMGFYDDIYVQNSLVHFYGVCGESRNACKVFGEMPVRDVVSWTGIITGFTRTGL 187

Query:   239 VGFARELFDFMP-ERDIFTWNSMISGYVDVGDMEAANGLFDLMPFR-DVVSW---NCMID 293
                A + F  M  E ++ T+  ++     VG +    G+  L+  R  ++S    N +ID
Sbjct:   188 YKEALDTFSKMDVEPNLATYVCVLVSSGRVGCLSLGKGIHGLILKRASLISLETGNALID 247

Query:   294 GYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDA-KPNEA 352
              Y K   ++ A   F  +  ++ VSWN +++  V C+   E + LF  M      KP+  
Sbjct:   248 MYVKCEQLSDAMRVFGELEKKDKVSWNSMISGLVHCERSKEAIDLFSLMQTSSGIKPDGH 307

Query:   353 SLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNM 412
              L SVL+ACA++G +D G+W+H YI    IK D  + T+++ MYAKCG ++ A  +F+ +
Sbjct:   308 ILTSVLSACASLGAVDHGRWVHEYILTAGIKWDTHIGTAIVDMYAKCGYIETALEIFNGI 367

Query:   413 TEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGW 472
               KNV +WN+++ G  +HG G ++L  F EM K G  PN  TF+  L+AC H G+V EG 
Sbjct:   368 RSKNVFTWNALLGGLAIHGHGLESLRYFEEMVKLGFKPNLVTFLAALNACCHTGLVDEGR 427

Query:   473 WYFDLMQ-RIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACS 531
              YF  M+ R Y + PK+EHYGCM+DLL RAGL+ ++ ELV  +P++    + GA+LSAC 
Sbjct:   428 RYFHKMKSREYNLFPKLEHYGCMIDLLCRAGLLDEALELVKAMPVKPDVRICGAILSACK 487

Query:   532 THSN-SELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVG 590
                   EL K +    +++E  D G YVLLSNI+A+  +WD+V  +RR+MK K + K  G
Sbjct:   488 NRGTLMELPKEILDSFLDIEFEDSGVYVLLSNIFAANRRWDDVARIRRLMKVKGISKVPG 547

Query:   591 SSLV 594
             SS +
Sbjct:   548 SSYI 551

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2010012 AT1G13410 "AT1G13410" [Arabidopsis thaliana (taxid:3702)]

 Score = 868 (310.6 bits), Expect = 5.0e-89, Sum P(2) = 5.0e-89
 Identities = 163/399 (40%), Positives = 248/399 (62%)

Query:   198 LIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTW 257
             L  M  + G +  A KVF +    ++V W SMI+GY+ N+++  AR  FD  PERDI  W
Sbjct:    34 LFGMLCLMGVIASANKVFCEMVEKNVVLWTSMINGYLLNKDLVSARRYFDLSPERDIVLW 93

Query:   258 NSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVV 317
             N+MISGY+++G+M  A  LFD MP RDV+SWN +++GYA IG++ +    FD M  RNV 
Sbjct:    94 NTMISGYIEMGNMLEARSLFDQMPCRDVMSWNTVLEGYANIGDMEACERVFDDMPERNVF 153

Query:   318 SWNILLALYVRCKDYCECLRLFDRMI-RGDAKPNEASLMSVLTACANMGVIDIGQWIHSY 376
             SWN L+  Y +     E L  F RM+  G   PN+A++  VL+ACA +G  D G+W+H Y
Sbjct:   154 SWNGLIKGYAQNGRVSEVLGSFKRMVDEGSVVPNDATMTLVLSACAKLGAFDFGKWVHKY 213

Query:   377 IQKCRI-KPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEK 435
              +     K DV +  +L+ MY KCG +++A  VF  +  ++++SWN+MI G   HG G +
Sbjct:   214 GETLGYNKVDVNVKNALIDMYGKCGAIEIAMEVFKGIKRRDLISWNTMINGLAAHGHGTE 273

Query:   436 ALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMV 495
             AL +F EM+  G +P+  TF+ VL AC H G+V +G  YF+ M   + I P++EH GC+V
Sbjct:   274 ALNLFHEMKNSGISPDKVTFVGVLCACKHMGLVEDGLAYFNSMFTDFSIMPEIEHCGCVV 333

Query:   496 DLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPG 555
             DLL RAG +  + E ++K+P++A   +W  LL A   +   ++G++  + L++LEPR+P 
Sbjct:   334 DLLSRAGFLTQAVEFINKMPVKADAVIWATLLGASKVYKKVDIGEVALEELIKLEPRNPA 393

Query:   556 PYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLV 594
              +V+LSNIY   G++D+   L+  M++   +K  G S +
Sbjct:   394 NFVMLSNIYGDAGRFDDAARLKVAMRDTGFKKEAGVSWI 432

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2012295 AT1G09410 [Arabidopsis thaliana (taxid:3702)]

 Score = 860 (307.8 bits), Expect = 5.4e-86, P = 5.4e-86
 Identities = 159/403 (39%), Positives = 254/403 (63%)

Query:   191 DLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMP 250
             D   R S+IH     G V +AR++F++     ++TW +M+ GY +N  V  AR++FD MP
Sbjct:   171 DNIARTSMIHGLCKEGRVDEAREIFDEMSERSVITWTTMVTGYGQNNRVDDARKIFDVMP 230

Query:   251 ERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDR 310
             E+   +W SM+ GYV  G +E A  LF++MP + V++ N MI G  + G +  AR  FD 
Sbjct:   231 EKTEVSWTSMLMGYVQNGRIEDAEELFEVMPVKPVIACNAMISGLGQKGEIAKARRVFDS 290

Query:   311 MCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIG 370
             M  RN  SW  ++ ++ R     E L LF  M +   +P   +L+S+L+ CA++  +  G
Sbjct:   291 MKERNDASWQTVIKIHERNGFELEALDLFILMQKQGVRPTFPTLISILSVCASLASLHHG 350

Query:   371 QWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMH 430
             + +H+ + +C+   DV +++ L+TMY KCG +  ++ +FD    K+++ WNS+I GY  H
Sbjct:   351 KQVHAQLVRCQFDVDVYVASVLMTMYIKCGELVKSKLIFDRFPSKDIIMWNSIISGYASH 410

Query:   431 GQGEKALEMFMEMEKRGPT-PNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVE 489
             G GE+AL++F EM   G T PN+ TF+  LSAC++AGMV EG   ++ M+ ++ ++P   
Sbjct:   411 GLGEEALKVFCEMPLSGSTKPNEVTFVATLSACSYAGMVEEGLKIYESMESVFGVKPITA 470

Query:   490 HYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMEL 549
             HY CMVD+LGRAG   ++ E++  + +E   A+WG+LL AC THS  ++ +  A+ L+E+
Sbjct:   471 HYACMVDMLGRAGRFNEAMEMIDSMTVEPDAAVWGSLLGACRTHSQLDVAEFCAKKLIEI 530

Query:   550 EPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSS 592
             EP + G Y+LLSN+YAS+G+W +V  LR++MK + + K+ G S
Sbjct:   531 EPENSGTYILLSNMYASQGRWADVAELRKLMKTRLVRKSPGCS 573

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 845 (302.5 bits), Expect = 2.1e-84, P = 2.1e-84
 Identities = 176/444 (39%), Positives = 270/444 (60%)

Query:   191 DLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELF-DFM 249
             D+    +LI  Y+  G + +A+K+F++ PV D+V+WN+MI GY +      A ELF D M
Sbjct:   199 DVVSYTALIKGYASRGYIENAQKLFDEIPVKDVVSWNAMISGYAETGNYKEALELFKDMM 258

Query:   250 PER---DIFTWNSMISGYVDVGDMEAANGL---FDLMPF-RDVVSWNCMIDGYAKIGNVT 302
                   D  T  +++S     G +E    +    D   F  ++   N +ID Y+K G + 
Sbjct:   259 KTNVRPDESTMVTVVSACAQSGSIELGRQVHLWIDDHGFGSNLKIVNALIDLYSKCGELE 318

Query:   303 SARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACA 362
             +A   F+R+  ++V+SWN L+  Y     Y E L LF  M+R    PN+ +++S+L ACA
Sbjct:   319 TACGLFERLPYKDVISWNTLIGGYTHMNLYKEALLLFQEMLRSGETPNDVTMLSILPACA 378

Query:   363 NMGVIDIGQWIHSYIQKCRIKPDV---LLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVS 419
             ++G IDIG+WIH YI K R+K       L TSL+ MYAKCG ++ A  VF+++  K++ S
Sbjct:   379 HLGAIDIGRWIHVYIDK-RLKGVTNASSLRTSLIDMYAKCGDIEAAHQVFNSILHKSLSS 437

Query:   420 WNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQ 479
             WN+MI G+ MHG+ + + ++F  M K G  P+D TF+ +LSAC+H+GM+  G   F  M 
Sbjct:   438 WNAMIFGFAMHGRADASFDLFSRMRKIGIQPDDITFVGLLSACSHSGMLDLGRHIFRTMT 497

Query:   480 RIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELG 539
             + YK+ PK+EHYGCM+DLLG +GL +++EE+++ + ME    +W +LL AC  H N ELG
Sbjct:   498 QDYKMTPKLEHYGCMIDLLGHSGLFKEAEEMINMMEMEPDGVIWCSLLKACKMHGNVELG 557

Query:   540 KIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEF 599
             +  A++L+++EP +PG YVLLSNIYAS G+W+EV   R ++ +K ++K  G S +     
Sbjct:   558 ESFAENLIKIEPENPGSYVLLSNIYASAGRWNEVAKTRALLNDKGMKKVPGCSSIEIDSV 617

Query:   600 ASESIVENCPPHRKCIVYSMLGEI 623
               E I+ +    R   +Y ML E+
Sbjct:   618 VHEFIIGDKFHPRNREIYGMLEEM 641

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2038603 AT2G27610 "AT2G27610" [Arabidopsis thaliana (taxid:3702)]

 Score = 809 (289.8 bits), Expect = 1.4e-80, P = 1.4e-80
 Identities = 177/560 (31%), Positives = 295/560 (52%)

Query:    75 QIHTQLLVSGLSQDSFAASRXXXXXXXXXXXXXXXXXFFDGIQEPDAFMCNTIMKSFLML 134
             Q+HT ++ +GL + +   S                   FD  +       N+++  +   
Sbjct:   215 QVHTVVVKNGLDK-TIPVSNSLINLYLKCGNVRKARILFDKTEVKSVVTWNSMISGYAAN 273

Query:   135 NDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFV 194
                  AL  +Y  M   +V  +  +F  + K+CA ++ LR  +++H  +VK GF  D  +
Sbjct:   274 GLDLEALGMFYS-MRLNYVRLSESSFASVIKLCANLKELRFTEQLHCSVVKYGFLFDQNI 332

Query:   195 RNSLIHMYSVCGEVLDARKVFED-GPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERD 253
             R +L+  YS C  +LDA ++F++ G V ++V+W +MI G+++N     A +LF  M  + 
Sbjct:   333 RTALMVAYSKCTAMLDALRLFKEIGCVGNVVSWTAMISGFLQNDGKEEAVDLFSEMKRKG 392

Query:   254 I----FTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFD 309
             +    FT++ +++    +   E    +      R       ++D Y K+G V  A   F 
Sbjct:   393 VRPNEFTYSVILTALPVISPSEVHAQVVKTNYERSSTVGTALLDAYVKLGKVEEAAKVFS 452

Query:   310 RMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGV-ID 368
              +  +++V+W+ +LA Y +  +    +++F  + +G  KPNE +  S+L  CA     + 
Sbjct:   453 GIDDKDIVAWSAMLAGYAQTGETEAAIKMFGELTKGGIKPNEFTFSSILNVCAATNASMG 512

Query:   369 IGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYG 428
              G+  H +  K R+   + +S++LLTMYAK G ++ A  VF    EK++VSWNSMI GY 
Sbjct:   513 QGKQFHGFAIKSRLDSSLCVSSALLTMYAKKGNIESAEEVFKRQREKDLVSWNSMISGYA 572

Query:   429 MHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKV 488
              HGQ  KAL++F EM+KR    +  TFI V +ACTHAG+V EG  YFD+M R  KI P  
Sbjct:   573 QHGQAMKALDVFKEMKKRKVKMDGVTFIGVFAACTHAGLVEEGEKYFDIMVRDCKIAPTK 632

Query:   489 EHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLME 548
             EH  CMVDL  RAG +  + +++  +P  AG  +W  +L+AC  H  +ELG++ A+ ++ 
Sbjct:   633 EHNSCMVDLYSRAGQLEKAMKVIENMPNPAGSTIWRTILAACRVHKKTELGRLAAEKIIA 692

Query:   549 LEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENC 608
             ++P D   YVLLSN+YA  G W E   +R++M E+ ++K  G S +         +  + 
Sbjct:   693 MKPEDSAAYVLLSNMYAESGDWQERAKVRKLMNERNVKKEPGYSWIEVKNKTYSFLAGDR 752

Query:   609 PPHRKCIVYSMLGEIGAQMK 628
                 K  +Y  L ++  ++K
Sbjct:   753 SHPLKDQIYMKLEDLSTRLK 772

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2027554 AT1G56690 [Arabidopsis thaliana (taxid:3702)]

 Score = 807 (289.1 bits), Expect = 2.2e-80, P = 2.2e-80
 Identities = 154/393 (39%), Positives = 242/393 (61%)

Query:   206 GEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYV 265
             G V +AR +F++    ++VTW +MI GY +N  V  AR+LF+ MPE+   +W SM+ GY 
Sbjct:   186 GRVDEARLIFDEMRERNVVTWTTMITGYRQNNRVDVARKLFEVMPEKTEVSWTSMLLGYT 245

Query:   266 DVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLAL 325
               G +E A   F++MP + V++ N MI G+ ++G ++ AR  FD M  R+  +W  ++  
Sbjct:   246 LSGRIEDAEEFFEVMPMKPVIACNAMIVGFGEVGEISKARRVFDLMEDRDNATWRGMIKA 305

Query:   326 YVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPD 385
             Y R     E L LF +M +   +P+  SL+S+L+ CA +  +  G+ +H+++ +C+   D
Sbjct:   306 YERKGFELEALDLFAQMQKQGVRPSFPSLISILSVCATLASLQYGRQVHAHLVRCQFDDD 365

Query:   386 VLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEK 445
             V +++ L+TMY KCG +  A+ VFD  + K+++ WNS+I GY  HG GE+AL++F EM  
Sbjct:   366 VYVASVLMTMYVKCGELVKAKLVFDRFSSKDIIMWNSIISGYASHGLGEEALKIFHEMPS 425

Query:   446 RGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMR 505
              G  PN  T I +L+AC++AG + EG   F+ M+  + + P VEHY C VD+LGRAG + 
Sbjct:   426 SGTMPNKVTLIAILTACSYAGKLEEGLEIFESMESKFCVTPTVEHYSCTVDMLGRAGQVD 485

Query:   506 DSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYA 565
              + EL+  + ++    +WGALL AC THS  +L ++ A+ L E EP + G YVLLS+I A
Sbjct:   486 KAMELIESMTIKPDATVWGALLGACKTHSRLDLAEVAAKKLFENEPDNAGTYVLLSSINA 545

Query:   566 SEGKWDEVENLRRIMKEKELEKAVGSSLVHPGE 598
             S  KW +V  +R+ M+   + K  G S +  G+
Sbjct:   546 SRSKWGDVAVVRKNMRTNNVSKFPGCSWIEVGK 578

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

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)
Q9LS72	PP261_ARATH	No assigned EC number	0.3844	0.8751	0.935	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

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	641
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-107
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-89
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-59
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-42
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-39
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	8e-35
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-27
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-07
pfam01535	31	pfam01535, PPR, PPR repeat	3e-07
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	6e-05
pfam01535	31	pfam01535, PPR, PPR repeat	8e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	4e-04
pfam01535	31	pfam01535, PPR, PPR repeat	5e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.001
pfam01535	31	pfam01535, PPR, PPR repeat	0.001
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.001
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.003
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.004

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

 Score =  342 bits (879), Expect = e-107
 Identities = 180/495 (36%), Positives = 271/495 (54%), Gaps = 17/495 (3%)

Query: 111 LFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGI 170
           L FD +   D    N ++  +    +    L  ++  M    V+ +  T   +   C  +
Sbjct: 243 LVFDRMPRRDCISWNAMISGYFENGECLEGLELFF-TMRELSVDPDLMTITSVISACELL 301

Query: 171 RSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMI 230
              R G+++H  +VK GF +D+ V NSLI MY   G   +A KVF      D V+W +MI
Sbjct: 302 GDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMI 361

Query: 231 DGYVKNREVGFARELFDFMPER----DIFTWNSMISGYVDVGDMEAANGLFDLMP----F 282
            GY KN     A E +  M +     D  T  S++S    +GD++    L +L       
Sbjct: 362 SGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLI 421

Query: 283 RDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLA---LYVRCKDYCECLRLF 339
             VV  N +I+ Y+K   +  A   F  +  ++V+SW  ++A   L  RC    E L  F
Sbjct: 422 SYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRC---FEALIFF 478

Query: 340 DRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKC 399
            +M+    KPN  +L++ L+ACA +G +  G+ IH+++ +  I  D  L  +LL +Y +C
Sbjct: 479 RQML-LTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRC 537

Query: 400 GVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVL 459
           G M+ A N F N  EK+VVSWN ++ GY  HG+G  A+E+F  M + G  P++ TFI +L
Sbjct: 538 GRMNYAWNQF-NSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLL 596

Query: 460 SACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAG 519
            AC+ +GMV +G  YF  M+  Y I P ++HY C+VDLLGRAG + ++   ++K+P+   
Sbjct: 597 CACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPD 656

Query: 520 PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRI 579
           PA+WGALL+AC  H + ELG++ AQH+ EL+P   G Y+LL N+YA  GKWDEV  +R+ 
Sbjct: 657 PAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKT 716

Query: 580 MKEKELEKAVGSSLV 594
           M+E  L    G S V
Sbjct: 717 MRENGLTVDPGCSWV 731

Length = 857

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

 Score =  291 bits (746), Expect = 4e-89
 Identities = 144/466 (30%), Positives = 231/466 (49%), Gaps = 70/466 (15%)

Query: 159 TFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDG 218
           T+  L + C  ++S+R  K V+  +   GFE D ++ N ++ M+  CG ++DAR+     
Sbjct: 125 TYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARR----- 179

Query: 219 PVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFD 278
                                     LFD MPER++ +W ++I G VD G+   A  LF 
Sbjct: 180 --------------------------LFDEMPERNLASWGTIIGGLVDAGNYREAFALFR 213

Query: 279 LM-------PFRDVV--------SWN-----------------------C-MIDGYAKIG 299
            M         R  V          +                       C +ID Y+K G
Sbjct: 214 EMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCG 273

Query: 300 NVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLT 359
           ++  AR  FD M  +  V+WN +LA Y       E L L+  M       ++ +   ++ 
Sbjct: 274 DIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIR 333

Query: 360 ACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVS 419
             + + +++  +  H+ + +     D++ +T+L+ +Y+K G M+ ARNVFD M  KN++S
Sbjct: 334 IFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLIS 393

Query: 420 WNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQ 479
           WN++I GYG HG+G KA+EMF  M   G  PN  TF+ VLSAC ++G+  +GW  F  M 
Sbjct: 394 WNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMS 453

Query: 480 RIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELG 539
             ++I+P+  HY CM++LLGR GL+ ++  ++ + P +    +W ALL+AC  H N ELG
Sbjct: 454 ENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELG 513

Query: 540 KIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKEL 585
           ++ A+ L  + P     YV+L N+Y S G+  E   +   +K K L
Sbjct: 514 RLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGL 559

Length = 697

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

 Score =  212 bits (542), Expect = 3e-59
 Identities = 119/340 (35%), Positives = 185/340 (54%), Gaps = 10/340 (2%)

Query: 140 ALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLI 199
           AL  Y+ +M+   V  + YTFP + + C GI  L  G++VHA +V+ GFELD+ V N+LI
Sbjct: 171 ALCLYH-RMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALI 229

Query: 200 HMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPER----DIF 255
            MY  CG+V+ AR VF+  P  D ++WN+MI GY +N E     ELF  M E     D+ 
Sbjct: 230 TMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLM 289

Query: 256 TWNSMISGYVDVGDMEAANGLFDLMPFR----DVVSWNCMIDGYAKIGNVTSARNCFDRM 311
           T  S+IS    +GD      +   +       DV   N +I  Y  +G+   A   F RM
Sbjct: 290 TITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRM 349

Query: 312 CMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQ 371
             ++ VSW  +++ Y +     + L  +  M + +  P+E ++ SVL+ACA +G +D+G 
Sbjct: 350 ETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGV 409

Query: 372 WIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHG 431
            +H   ++  +   V+++ +L+ MY+KC  +D A  VF N+ EK+V+SW S+I G  ++ 
Sbjct: 410 KLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNN 469

Query: 432 QGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEG 471
           +  +AL  F +M      PN  T I  LSAC   G ++ G
Sbjct: 470 RCFEALIFFRQM-LLTLKPNSVTLIAALSACARIGALMCG 508

Length = 857

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

 Score =  163 bits (415), Expect = 2e-42
 Identities = 99/321 (30%), Positives = 156/321 (48%), Gaps = 18/321 (5%)

Query: 159 TFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDG 218
            +  L ++C   R++ EG +V +R +     L + + N+++ M+   GE++ A  VF   
Sbjct: 88  AYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKM 147

Query: 219 PVWDLVTWNSMIDGYVKNREVGFARELFDFMPER-------DIFTWNSMISGYVDVGDME 271
           P  DL +WN ++ GY K    G+  E               D++T+  ++     + D+ 
Sbjct: 148 PERDLFSWNVLVGGYAK---AGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLA 204

Query: 272 AANGL------FDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLAL 325
               +      F      DVV  N +I  Y K G+V SAR  FDRM  R+ +SWN +++ 
Sbjct: 205 RGREVHAHVVRFGFELDVDVV--NALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISG 262

Query: 326 YVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPD 385
           Y    +  E L LF  M      P+  ++ SV++AC  +G   +G+ +H Y+ K     D
Sbjct: 263 YFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVD 322

Query: 386 VLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEK 445
           V +  SL+ MY   G    A  VF  M  K+ VSW +MI GY  +G  +KALE +  ME+
Sbjct: 323 VSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQ 382

Query: 446 RGPTPNDATFICVLSACTHAG 466
              +P++ T   VLSAC   G
Sbjct: 383 DNVSPDEITIASVLSACACLG 403

Length = 857

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

 Score =  154 bits (391), Expect = 1e-39
 Identities = 114/405 (28%), Positives = 187/405 (46%), Gaps = 34/405 (8%)

Query: 64  LESCSTVKEFH---QIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVL-----FFDG 115
           +E+C  +K       ++  +  SG   D +  +RVL      L  V   +L      FD 
Sbjct: 130 VEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVL------LMHVKCGMLIDARRLFDE 183

Query: 116 IQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLRE 175
           + E +     TI+   +   +   A + + E M     +    TF ++ +  AG+ S R 
Sbjct: 184 MPERNLASWGTIIGGLVDAGNYREAFALFRE-MWEDGSDAEPRTFVVMLRASAGLGSARA 242

Query: 176 GKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVK 235
           G+++H  ++K G   D FV  +LI MYS CG++ DAR VF+  P    V WNSM+ GY  
Sbjct: 243 GQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYAL 302

Query: 236 NREVGFARELFDFMPER-------DIFTWNSMISGYVDVGDMEAAN----GLFDLMPFRD 284
           +   G++ E      E        D FT++ MI  +  +  +E A     GL       D
Sbjct: 303 H---GYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLD 359

Query: 285 VVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIR 344
           +V+   ++D Y+K G +  ARN FDRM  +N++SWN L+A Y       + + +F+RMI 
Sbjct: 360 IVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIA 419

Query: 345 GDAKPNEASLMSVLTACANMGVIDIGQWI-HSYIQKCRIKPDVLLSTSLLTMYAKCGVMD 403
               PN  + ++VL+AC   G+ + G  I  S  +  RIKP  +    ++ +  + G++D
Sbjct: 420 EGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLD 479

Query: 404 LARNVFDNMTEKNVVS-WNSMIMGYGMHGQ---GEKALEMFMEME 444
            A  +      K  V+ W +++    +H     G  A E    M 
Sbjct: 480 EAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMG 524

Length = 697

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

 Score =  140 bits (354), Expect = 8e-35
 Identities = 85/344 (24%), Positives = 148/344 (43%), Gaps = 61/344 (17%)

Query: 207 EVLDARKVFEDGPVWDL--VTWNSMIDGYVKNREVGFARELFDFMP----ERDIFTWNSM 260
           E L+  ++ E G  + L   T++++++  +  + +   + ++  +     E D +  N +
Sbjct: 105 EALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRV 164

Query: 261 ISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWN 320
           +  +V  G +  A  LFD MP R++ SW  +I G    GN                    
Sbjct: 165 LLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGN-------------------- 204

Query: 321 ILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKC 380
                      Y E   LF  M    +     + + +L A A +G    GQ +H  + K 
Sbjct: 205 -----------YREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKT 253

Query: 381 RIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMF 440
            +  D  +S +L+ MY+KCG ++ AR VFD M EK  V+WNSM+ GY +HG  E+AL ++
Sbjct: 254 GVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLY 313

Query: 441 MEMEKRGPTPNDATFICVLSACT-----------HAGMVLEGWWYFDLMQRIYKIEPKVE 489
            EM   G + +  TF  ++   +           HAG++  G                + 
Sbjct: 314 YEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTG------------FPLDIV 361

Query: 490 HYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTH 533
               +VDL  + G M D+  +  ++P +   + W AL++    H
Sbjct: 362 ANTALVDLYSKWGRMEDARNVFDRMPRKNLIS-WNALIAGYGNH 404

Length = 697

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

 Score =  118 bits (297), Expect = 1e-27
 Identities = 68/248 (27%), Positives = 127/248 (51%), Gaps = 14/248 (5%)

Query: 289 NCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAK 348
           N M+  + + G +  A   F +M  R++ SWN+L+  Y +   + E L L+ RM+    +
Sbjct: 125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVR 184

Query: 349 PNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNV 408
           P+  +   VL  C  +  +  G+ +H+++ +   + DV +  +L+TMY KCG +  AR V
Sbjct: 185 PDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLV 244

Query: 409 FDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMV 468
           FD M  ++ +SWN+MI GY  +G+  + LE+F  M +    P+  T   V+SAC   G  
Sbjct: 245 FDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDE 304

Query: 469 -----LEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPAL- 522
                + G+    +++  + ++  V     ++ +    G   ++E++ S+  ME   A+ 
Sbjct: 305 RLGREMHGY----VVKTGFAVD--VSVCNSLIQMYLSLGSWGEAEKVFSR--METKDAVS 356

Query: 523 WGALLSAC 530
           W A++S  
Sbjct: 357 WTAMISGY 364

Length = 857

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

 Score = 69.5 bits (170), Expect = 3e-12
 Identities = 34/129 (26%), Positives = 61/129 (47%)

Query: 334 ECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLL 393
           + L+L + M       +E + +++   C     ++ G  + S          V L  ++L
Sbjct: 69  QALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAML 128

Query: 394 TMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDA 453
           +M+ + G +  A  VF  M E+++ SWN ++ GY   G  ++AL ++  M   G  P+  
Sbjct: 129 SMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVY 188

Query: 454 TFICVLSAC 462
           TF CVL  C
Sbjct: 189 TFPCVLRTC 197

Length = 857

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

 Score = 57.8 bits (141), Expect = 4e-11
 Identities = 19/48 (39%), Positives = 32/48 (66%)

Query: 415 KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSAC 462
            +VV++N++I GY   G+ E+AL++F EM+KRG  PN  T+  ++   
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 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 = 52.0 bits (126), Expect = 4e-09
 Identities = 18/47 (38%), Positives = 32/47 (68%), Gaps = 4/47 (8%)

Query: 222 DLVTWNSMIDGYVKNREVGFARELFDFMPER----DIFTWNSMISGY 264
           D+VT+N++IDGY K  +V  A +LF+ M +R    +++T++ +I G 
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 = 51.6 bits (125), Expect = 6e-09
 Identities = 18/49 (36%), Positives = 29/49 (59%), Gaps = 4/49 (8%)

Query: 253 DIFTWNSMISGYVDVGDMEAANGLFDLMPFR----DVVSWNCMIDGYAK 297
           D+ T+N++I GY   G +E A  LF+ M  R    +V +++ +IDG  K
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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 57.6 bits (139), Expect = 2e-08
 Identities = 49/189 (25%), Positives = 88/189 (46%), Gaps = 17/189 (8%)

Query: 354 LMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMT 413
           LMSV   CA+   ID    +   +Q+  +K D  L T+L++  AK G +D    VF  M 
Sbjct: 443 LMSV---CASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMV 499

Query: 414 ----EKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVL 469
               E NV ++ ++I G    GQ  KA   +  M  +   P+   F  ++SAC  +G V 
Sbjct: 500 NAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVD 559

Query: 470 EGWWYFDLMQRI----YKIEPKVEHYGCMVDLLGRAGLMRDSEE---LVSKLPMEAGPAL 522
                FD++  +    + I+P     G ++     AG +  ++E   ++ +  ++  P +
Sbjct: 560 RA---FDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEV 616

Query: 523 WGALLSACS 531
           +   +++CS
Sbjct: 617 YTIAVNSCS 625

Length = 1060

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

 Score = 48.9 bits (118), Expect = 7e-08
 Identities = 19/44 (43%), Positives = 27/44 (61%), Gaps = 4/44 (9%)

Query: 284 DVVSWNCMIDGYAKIGNVTSARNCFDRMCMR----NVVSWNILL 323
           DVV++N +IDGY K G V  A   F+ M  R    NV +++IL+
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILI 45

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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 54.1 bits (130), Expect = 2e-07
 Identities = 49/196 (25%), Positives = 93/196 (47%), Gaps = 16/196 (8%)

Query: 284 DVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNV----VSWNILLALYVRCKDYCECLRLF 339
           +V ++  +IDG A+ G V  A   +  M  +NV    V +N   AL   C       R F
Sbjct: 506 NVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFN---ALISACGQSGAVDRAF 562

Query: 340 DRMIRGDA-----KPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLT 394
           D +    A      P+  ++ +++ ACAN G +D  + ++  I +  IK    + T  + 
Sbjct: 563 DVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVN 622

Query: 395 MYAKCGVMDLARNVFDNMTEKNV----VSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTP 450
             ++ G  D A +++D+M +K V    V +++++   G  G  +KA E+  +  K+G   
Sbjct: 623 SCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL 682

Query: 451 NDATFICVLSACTHAG 466
              ++  ++ AC++A 
Sbjct: 683 GTVSYSSLMGACSNAK 698

Length = 1060

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

 Score = 46.3 bits (111), Expect = 3e-07
 Identities = 15/30 (50%), Positives = 24/30 (80%)

Query: 418 VSWNSMIMGYGMHGQGEKALEMFMEMEKRG 447
           V++NS+I GY   G+ E+ALE+F EM+++G
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKG 30

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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 51.4 bits (123), Expect = 1e-06
 Identities = 82/370 (22%), Positives = 154/370 (41%), Gaps = 41/370 (11%)

Query: 159 TFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFED- 217
           TF +L  VCA  + +    +V   + + G + D  +  +LI   +  G+V    +VF + 
Sbjct: 439 TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEM 498

Query: 218 ---GPVWDLVTWNSMIDGYVKNREVGFARELFDFM------PERDIFTWNSMISGYVDVG 268
              G   ++ T+ ++IDG  +  +V  A   +  M      P+R +F  N++IS     G
Sbjct: 499 VNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVF--NALISACGQSG 556

Query: 269 DMEAANGLFDLM--------PFR-DVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVS- 318
            ++ A   FD++        P   D ++   ++   A  G V  A+  +  +   N+   
Sbjct: 557 AVDRA---FDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGT 613

Query: 319 ---WNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHS 375
              + I +    +  D+   L ++D M +   KP+E    +++    + G +D    I  
Sbjct: 614 PEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQ 673

Query: 376 YIQKCRIKPDVLLSTSLLTMYAKCGVMDL--ARNVFDNMT----EKNVVSWNSMIMGYGM 429
             +K  IK   +  +SL  M A     +   A  +++++        V + N++I     
Sbjct: 674 DARKQGIKLGTVSYSSL--MGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCE 731

Query: 430 HGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQ--RIYKIEPK 487
             Q  KALE+  EM++ G  PN  T+  +L A         G    DL+   +   I+P 
Sbjct: 732 GNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVG---LDLLSQAKEDGIKPN 788

Query: 488 VEHYGCMVDL 497
           +    C+  L
Sbjct: 789 LVMCRCITGL 798

Length = 1060

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

 Score = 43.9 bits (105), Expect = 4e-06
 Identities = 13/49 (26%), Positives = 24/49 (48%)

Query: 315 NVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACAN 363
           +VV++N L+  Y +     E L+LF+ M +   KPN  +   ++     
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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 40.1 bits (95), Expect = 6e-05
 Identities = 15/35 (42%), Positives = 25/35 (71%)

Query: 418 VSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPND 452
           V++N++I G    G+ E+ALE+F EM++RG  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 = 39.7 bits (94), Expect = 8e-05
 Identities = 14/31 (45%), Positives = 20/31 (64%)

Query: 224 VTWNSMIDGYVKNREVGFARELFDFMPERDI 254
           VT+NS+I GY K  ++  A ELF  M E+ +
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|205109 pfam12854, PPR_1, PPR repeat

 Score = 37.7 bits (89), Expect = 4e-04
 Identities = 13/29 (44%), Positives = 18/29 (62%)

Query: 222 DLVTWNSMIDGYVKNREVGFARELFDFMP 250
           D+VT+N++IDG  +   V  A EL D M 
Sbjct: 6   DVVTYNTLIDGLCRAGRVDEAVELLDEME 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

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

 Score = 37.4 bits (88), Expect = 5e-04
 Identities = 11/31 (35%), Positives = 16/31 (51%)

Query: 286 VSWNCMIDGYAKIGNVTSARNCFDRMCMRNV 316
           V++N +I GY K G +  A   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 = 37.1 bits (87), Expect = 7e-04
 Identities = 16/31 (51%), Positives = 19/31 (61%)

Query: 224 VTWNSMIDGYVKNREVGFARELFDFMPERDI 254
           VT+N++IDG  K   V  A ELF  M ER I
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGI 31

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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 37.0 bits (87), Expect = 0.001
 Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 4/44 (9%)

Query: 196 NSLIHMYSVCGEVLDARKVFED----GPVWDLVTWNSMIDGYVK 235
           N+LI  Y   G+V +A K+F +    G   ++ T++ +IDG  K
Sbjct: 7   NTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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 = 36.3 bits (85), Expect = 0.001
 Identities = 13/26 (50%), Positives = 16/26 (61%)

Query: 255 FTWNSMISGYVDVGDMEAANGLFDLM 280
            T+NS+ISGY   G +E A  LF  M
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEM 26

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 = 36.7 bits (86), Expect = 0.001
 Identities = 12/32 (37%), Positives = 16/32 (50%)

Query: 286 VSWNCMIDGYAKIGNVTSARNCFDRMCMRNVV 317
           V++N +IDG  K G V  A   F  M  R + 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIE 32

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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 35.8 bits (84), Expect = 0.003
 Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 4/48 (8%)

Query: 384 PDVLLSTSLLTMYAKCGVMDLARNVFDNMTEK----NVVSWNSMIMGY 427
           PDV+   +L+  Y K G ++ A  +F+ M ++    NV +++ +I G 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 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|205109 pfam12854, PPR_1, PPR repeat

 Score = 35.0 bits (82), Expect = 0.004
 Identities = 12/28 (42%), Positives = 16/28 (57%)

Query: 284 DVVSWNCMIDGYAKIGNVTSARNCFDRM 311
           DVV++N +IDG  + G V  A    D M
Sbjct: 6   DVVTYNTLIDGLCRAGRVDEAVELLDEM 33

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	641
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
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	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
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.95
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.95
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.93
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.93
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.93
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.92
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.9
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.87
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.86
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.85
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.85
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.84
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.84
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.84
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.82
PRK14574	822	hmsH outer membrane protein; Provisional	99.81
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.8
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.78
PRK14574	822	hmsH outer membrane protein; Provisional	99.77
KOG2076	895	consensus RNA polymerase III transcription factor	99.7
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.7
KOG2003	840	consensus TPR repeat-containing protein [General f	99.7
KOG2003	840	consensus TPR repeat-containing protein [General f	99.68
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.67
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.65
KOG1126	638	consensus DNA-binding cell division cycle control	99.63
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.63
KOG2076	895	consensus RNA polymerase III transcription factor	99.63
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.61
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.61
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.58
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.57
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.57
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.56
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.56
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.55
KOG1126	638	consensus DNA-binding cell division cycle control	99.53
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.53
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.53
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.48
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.48
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.48
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.46
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.45
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.44
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.41
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.4
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.39
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.39
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.36
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.36
KOG1129	478	consensus TPR repeat-containing protein [General f	99.3
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.29
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.29
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.29
PRK12370	553	invasion protein regulator; Provisional	99.28
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.28
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.27
PRK11189	296	lipoprotein NlpI; Provisional	99.25
PF13041	50	PPR_2: PPR repeat family	99.21
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.21
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.2
PF13041	50	PPR_2: PPR repeat family	99.2
PRK12370	553	invasion protein regulator; Provisional	99.2
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.19
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.17
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.16
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.16
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.16
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.15
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.14
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.14
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.14
PRK11189	296	lipoprotein NlpI; Provisional	99.1
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.09
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.08
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.07
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.07
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.06
KOG1125	579	consensus TPR repeat-containing protein [General f	99.05
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.04
KOG1129	478	consensus TPR repeat-containing protein [General f	99.04
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.02
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.0
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.99
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.98
PRK15359	144	type III secretion system chaperone protein SscB;	98.95
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.95
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.89
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.89
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.88
PRK04841	903	transcriptional regulator MalT; Provisional	98.87
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.85
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.84
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.82
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.78
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.73
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.71
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.7
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.67
PRK15359	144	type III secretion system chaperone protein SscB;	98.62
PLN02789	320	farnesyltranstransferase	98.62
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.61
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.6
PRK04841	903	transcriptional regulator MalT; Provisional	98.6
PLN02789	320	farnesyltranstransferase	98.6
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.58
PF12854	34	PPR_1: PPR repeat	98.57
KOG1125	579	consensus TPR repeat-containing protein [General f	98.57
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.54
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.54
PF12854	34	PPR_1: PPR repeat	98.5
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.47
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.47
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.46
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.46
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.45
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.45
KOG0553	304	consensus TPR repeat-containing protein [General f	98.44
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.43
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.42
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.39
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.39
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.36
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.33
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.31
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.31
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.3
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.24
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.23
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.23
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.2
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.19
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.16
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.13
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.08
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.05
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.05
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.02
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.02
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.02
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.01
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.99
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.98
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.95
PF13371	73	TPR_9: Tetratricopeptide repeat	97.95
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.94
KOG0553	304	consensus TPR repeat-containing protein [General f	97.92
PRK15331	165	chaperone protein SicA; Provisional	97.92
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.91
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.85
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.83
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.83
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.82
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.78
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.76
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.72
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.7
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.69
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.68
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.67
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.66
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.65
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.64
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.63
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.6
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.59
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.59
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.58
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.56
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.52
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.52
PRK10803	263	tol-pal system protein YbgF; Provisional	97.51
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.5
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.49
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.49
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.48
PF13431	34	TPR_17: Tetratricopeptide repeat	97.47
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.46
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.35
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.31
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.29
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.27
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.27
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.24
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.22
PF12688	120	TPR_5: Tetratrico peptide repeat	97.19
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.19
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.19
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.15
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.14
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.11
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.07
PF12688	120	TPR_5: Tetratrico peptide repeat	97.06
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.02
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.01
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.0
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	96.98
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.98
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.98
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.97
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	96.97
PF13428	44	TPR_14: Tetratricopeptide repeat	96.97
PF13428	44	TPR_14: Tetratricopeptide repeat	96.93
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.88
PRK10803	263	tol-pal system protein YbgF; Provisional	96.86
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.85
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.83
KOG4555	175	consensus TPR repeat-containing protein [Function	96.77
PF13371	73	TPR_9: Tetratricopeptide repeat	96.77
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.76
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.71
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.66
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.6
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.47
PF13512	142	TPR_18: Tetratricopeptide repeat	96.44
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.39
PRK11906	458	transcriptional regulator; Provisional	96.3
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.19
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.14
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.13
KOG4234	271	consensus TPR repeat-containing protein [General f	96.12
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.08
KOG1585	308	consensus Protein required for fusion of vesicles	96.03
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.02
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	95.94
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.83
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.79
KOG4648	536	consensus Uncharacterized conserved protein, conta	95.68
PRK15331	165	chaperone protein SicA; Provisional	95.52
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.48
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.48
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	95.45
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.44
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.4
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.34
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.25
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.23
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.21
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.17
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.17
PRK11906	458	transcriptional regulator; Provisional	95.16
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	95.14
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.11
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	95.1
PF13512	142	TPR_18: Tetratricopeptide repeat	95.09
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	95.09
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.03
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	95.03
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	94.98
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.98
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.96
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.79
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.79
KOG3941	406	consensus Intermediate in Toll signal transduction	94.74
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.73
KOG1258	577	consensus mRNA processing protein [RNA processing	94.72
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	94.66
KOG3941	406	consensus Intermediate in Toll signal transduction	94.63
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	94.57
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.52
COG4105	254	ComL DNA uptake lipoprotein [General function pred	94.19
KOG4234	271	consensus TPR repeat-containing protein [General f	94.14
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	94.0
KOG2610	491	consensus Uncharacterized conserved protein [Funct	93.68
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	93.55
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.42
PRK11619	644	lytic murein transglycosylase; Provisional	93.42
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.38
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.34
KOG1941	518	consensus Acetylcholine receptor-associated protei	93.33
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	93.32
KOG4555	175	consensus TPR repeat-containing protein [Function	93.31
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.26
KOG1585	308	consensus Protein required for fusion of vesicles	93.18
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	92.89
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.87
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	92.8
PRK09687	280	putative lyase; Provisional	92.72
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	92.32
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	92.25
KOG1586	288	consensus Protein required for fusion of vesicles	92.22
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	92.18
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	92.14
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	92.04
KOG1586	288	consensus Protein required for fusion of vesicles	91.92
KOG3364	149	consensus Membrane protein involved in organellar	91.92
COG3629	280	DnrI DNA-binding transcriptional activator of the	91.74
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	91.72
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	91.71
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	91.71
PRK10941	269	hypothetical protein; Provisional	91.54
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	91.52
COG1747	711	Uncharacterized N-terminal domain of the transcrip	91.51
KOG4648	536	consensus Uncharacterized conserved protein, conta	91.4
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	91.2
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	90.58
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	90.46
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	90.27
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	90.25
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	90.17
COG3947	361	Response regulator containing CheY-like receiver a	90.16
KOG1550	552	consensus Extracellular protein SEL-1 and related	90.01
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	89.92
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	89.86
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	89.16
KOG2610	491	consensus Uncharacterized conserved protein [Funct	89.06
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	88.88
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	88.88
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	88.71
PRK09687	280	putative lyase; Provisional	88.62
COG1747	711	Uncharacterized N-terminal domain of the transcrip	88.27
COG3629	280	DnrI DNA-binding transcriptional activator of the	87.78
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	87.57
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	86.79
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	86.59
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	86.18
PF13431	34	TPR_17: Tetratricopeptide repeat	86.06
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	85.94
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	85.68
PRK12798	421	chemotaxis protein; Reviewed	85.65
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	85.44
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	85.34
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	85.02
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	84.91
COG4455	273	ImpE Protein of avirulence locus involved in tempe	84.86
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	84.74
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	84.56
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	84.47
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	84.28
KOG1550	552	consensus Extracellular protein SEL-1 and related	84.24
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	83.97
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	83.62
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	83.29
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	82.99
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	82.8
KOG4570	418	consensus Uncharacterized conserved protein [Funct	82.42
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	82.19
PRK11619	644	lytic murein transglycosylase; Provisional	81.57
COG4455	273	ImpE Protein of avirulence locus involved in tempe	81.13
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	81.08
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	80.98
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	80.33
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	80.19
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	80.07

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.4e-85  Score=732.99  Aligned_cols=553  Identities=34%  Similarity=0.595  Sum_probs=531.8

Q ss_pred             HHHHHHHHHHHhCCCCChhHHHHHHHHHhhcCCChHHHHHhhhcCCCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHhc
Q 040576           72 EFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAK  151 (641)
Q Consensus        72 ~~~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~  151 (641)
                      .+.++|..+.+.|+.||..++|.+|. +|++.|+++.|.++|++|++||.++||+||.+|++.|++++|+++|. .|...
T Consensus       205 ~~~~~~~~~~~~g~~~~~~~~n~Li~-~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~-~M~~~  282 (857)
T PLN03077        205 RGREVHAHVVRFGFELDVDVVNALIT-MYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFF-TMREL  282 (857)
T ss_pred             hHHHHHHHHHHcCCCcccchHhHHHH-HHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHH-HHHHc
Confidence            33444444455555556666678888 78999999999999999999999999999999999999999999999 99999


Q ss_pred             CCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCeeHHHHHHH
Q 040576          152 FVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMID  231 (641)
Q Consensus       152 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~  231 (641)
                      |+.||..||+.++.+|++.|+++.|.+++..|.+.|+.||..+|++||.+|+++|++++|.++|++|..+|.++||++|.
T Consensus       283 g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~  362 (857)
T PLN03077        283 SVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMIS  362 (857)
T ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhCCChHHHHHHHhhC----CCCCchhHHHHHHHHhcCCChHHHHHHHhhcCC----CCchHHHHHHHHHHhcCChHH
Q 040576          232 GYVKNREVGFARELFDFM----PERDIFTWNSMISGYVDVGDMEAANGLFDLMPF----RDVVSWNCMIDGYAKIGNVTS  303 (641)
Q Consensus       232 ~~~~~g~~~~A~~~~~~m----~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~  303 (641)
                      +|++.|++++|+++|++|    ..||..||+.++.+|++.|+++.|.++++.+.+    ++..+|+.|+++|+++|++++
T Consensus       363 ~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~  442 (857)
T PLN03077        363 GYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDK  442 (857)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHH
Confidence            999999999999999999    679999999999999999999999999999975    568999999999999999999


Q ss_pred             HHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCC
Q 040576          304 ARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIK  383 (641)
Q Consensus       304 A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~  383 (641)
                      |.++|++|.++|+.+||.+|.+|++.|+.++|+.+|++|.. ++.||..||+.++.+|++.|+++.+.+++..+.+.|+.
T Consensus       443 A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~  521 (857)
T PLN03077        443 ALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIG  521 (857)
T ss_pred             HHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999986 69999999999999999999999999999999999999


Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 040576          384 PDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACT  463 (641)
Q Consensus       384 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~  463 (641)
                      ++..++++|+++|+++|++++|.++|+.+ .+|..+||+||.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|+
T Consensus       522 ~~~~~~naLi~~y~k~G~~~~A~~~f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~  600 (857)
T PLN03077        522 FDGFLPNALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACS  600 (857)
T ss_pred             ccceechHHHHHHHHcCCHHHHHHHHHhc-CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHh
Confidence            99999999999999999999999999999 99999999999999999999999999999999999999999999999999


Q ss_pred             hhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 040576          464 HAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVA  543 (641)
Q Consensus       464 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  543 (641)
                      +.|++++|.++|+.|.+.+|+.|+..+|++++++|++.|++++|.+++++|+.+|+..+|++|+.+|..+|+.+.|+.+.
T Consensus       601 ~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a  680 (857)
T PLN03077        601 RSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAA  680 (857)
T ss_pred             hcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHH
Confidence            99999999999999996699999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEE----EeeeeecccccccCCCCchhhHHHH
Q 040576          544 QHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLV----HPGEFASESIVENCPPHRKCIVYSM  619 (641)
Q Consensus       544 ~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~----~~~~~~~~~~~~~~p~~~~~~~~~~  619 (641)
                      +++++++|+++..|..|+++|+..|+|++|.++++.|+++|++|.||+||+    .+|.|.++  ++.||+..+  ||..
T Consensus       681 ~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~~~~~~~f~~~--d~~h~~~~~--i~~~  756 (857)
T PLN03077        681 QHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTD--DESHPQIKE--INTV  756 (857)
T ss_pred             HHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEEECCEEEEEecC--CCCCcchHH--HHHH
Confidence            999999999999999999999999999999999999999999999999999    89999999  999999999  9999


Q ss_pred             HHHHHHHHHhhhc
Q 040576          620 LGEIGAQMKMCRR  632 (641)
Q Consensus       620 l~~l~~~~~~~~~  632 (641)
                      |+.|..+|++.+=
T Consensus       757 l~~l~~~~~~~g~  769 (857)
T PLN03077        757 LEGFYEKMKASGL  769 (857)
T ss_pred             HHHHHHHHHhCCc
Confidence            9999999988764

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

Probab=100.00  E-value=2.3e-77  Score=651.45  Aligned_cols=511  Identities=30%  Similarity=0.514  Sum_probs=497.1

Q ss_pred             CCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHhcC-CCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHH
Q 040576          117 QEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKF-VEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVR  195 (641)
Q Consensus       117 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~  195 (641)
                      ..++..+|+.+|.++.+.|++++|+++|+ .|...+ ..||..||+.++.+|++.++++.|.+++..|.+.|+.||..+|
T Consensus        83 ~~~~~~~~~~~i~~l~~~g~~~~Al~~f~-~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~  161 (697)
T PLN03081         83 IRKSGVSLCSQIEKLVACGRHREALELFE-ILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMM  161 (697)
T ss_pred             CCCCceeHHHHHHHHHcCCCHHHHHHHHH-HHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHH
Confidence            34677899999999999999999999999 787754 7899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcCCCCCeeHHHHHHHHHHhCCChHHHHHHHhhC----CCCCchhHHHHHHHHhcCCChH
Q 040576          196 NSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFM----PERDIFTWNSMISGYVDVGDME  271 (641)
Q Consensus       196 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~~ll~~~~~~g~~~  271 (641)
                      +.|+.+|+++|++++|.++|++|..+|.++||.+|.+|++.|++++|+++|++|    ..||..||+.++.+|++.|+.+
T Consensus       162 n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~  241 (697)
T PLN03081        162 NRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSAR  241 (697)
T ss_pred             HHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHH
Confidence            999999999999999999999999999999999999999999999999999999    6799999999999999999999


Q ss_pred             HHHHHHhhcCC----CCchHHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCC
Q 040576          272 AANGLFDLMPF----RDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDA  347 (641)
Q Consensus       272 ~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  347 (641)
                      .+.+++..+.+    +|..+|+.|+++|+++|++++|.++|++|.++|+++||.+|.+|++.|++++|+++|++|.+.|+
T Consensus       242 ~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~  321 (697)
T PLN03081        242 AGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGV  321 (697)
T ss_pred             HHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Confidence            99999988764    67999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHH
Q 040576          348 KPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGY  427 (641)
Q Consensus       348 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~  427 (641)
                      .||..||+.++.+|++.|+++.|.+++..|.+.|+.||..++++|+++|+++|++++|.++|++|.++|..+||+||.+|
T Consensus       322 ~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y  401 (697)
T PLN03081        322 SIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGY  401 (697)
T ss_pred             CCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHH
Q 040576          428 GMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDS  507 (641)
Q Consensus       428 ~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  507 (641)
                      ++.|+.++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.|.+.+|+.|+..+|++++++|++.|++++|
T Consensus       402 ~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA  481 (697)
T PLN03081        402 GNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEA  481 (697)
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHH
Confidence            99999999999999999999999999999999999999999999999999988789999999999999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcc
Q 040576          508 EELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEK  587 (641)
Q Consensus       508 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  587 (641)
                      .+++++|+..|+..+|++|+.+|..+|+++.|+.+++++++++|++...|..|+++|++.|+|++|.++++.|.++|+++
T Consensus       482 ~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k  561 (697)
T PLN03081        482 YAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSM  561 (697)
T ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCceEEE----EeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhhc
Q 040576          588 AVGSSLV----HPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRR  632 (641)
Q Consensus       588 ~~~~~~~----~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~  632 (641)
                      .||+||+    .+|.|+++  +..||...+  +|..|..+..++++.+-
T Consensus       562 ~~g~s~i~~~~~~~~f~~~--d~~h~~~~~--i~~~l~~l~~~~~~~gy  606 (697)
T PLN03081        562 HPACTWIEVKKQDHSFFSG--DRLHPQSRE--IYQKLDELMKEISEYGY  606 (697)
T ss_pred             CCCeeEEEECCeEEEEccC--CCCCccHHH--HHHHHHHHHHHHHHcCC
Confidence            9999999    78999999  999999999  99999999999998663

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.8e-76  Score=658.38  Aligned_cols=553  Identities=28%  Similarity=0.411  Sum_probs=472.7

Q ss_pred             HHHHHHHHHHHHhCCCCChhHHHHHHHHHhhcCCChHHHHHhhhcCCCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHh
Q 040576           71 KEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMA  150 (641)
Q Consensus        71 ~~~~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~  150 (641)
                      ..+.++|..+.+.|..++...+|.++. .|++.|+++.|.++|++|++||+++||.+|.+|++.|++++|+++|+ .|..
T Consensus       103 ~~a~~~~~~~~~~~~~~~~~~~n~li~-~~~~~g~~~~A~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~-~M~~  180 (857)
T PLN03077        103 EEGSRVCSRALSSHPSLGVRLGNAMLS-MFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYH-RMLW  180 (857)
T ss_pred             HHHHHHHHHHHHcCCCCCchHHHHHHH-HHHhCCChHHHHHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHH-HHHH
Confidence            344445555555555556666688888 68999999999999999999999999999999999999999999999 8999


Q ss_pred             cCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCeeHHHHHH
Q 040576          151 KFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMI  230 (641)
Q Consensus       151 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li  230 (641)
                      .|+.||..||+.++++|+..+++..+.+++..|.+.|+.||..++++||.+|+++|++++|.++|++|..+|.++||++|
T Consensus       181 ~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li  260 (857)
T PLN03077        181 AGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMI  260 (857)
T ss_pred             cCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhCCChHHHHHHHhhC----CCCCchhHHHHHHHHhcCCChHHHHHHHhhcCC----CCchHHHHHHHHHHhcCChH
Q 040576          231 DGYVKNREVGFARELFDFM----PERDIFTWNSMISGYVDVGDMEAANGLFDLMPF----RDVVSWNCMIDGYAKIGNVT  302 (641)
Q Consensus       231 ~~~~~~g~~~~A~~~~~~m----~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~  302 (641)
                      .+|++.|++++|+++|++|    ..||..||+.++.+|++.|+++.|.+++..+.+    +|..+|+.|+.+|+++|+++
T Consensus       261 ~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~  340 (857)
T PLN03077        261 SGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWG  340 (857)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHH
Confidence            9999999999999999999    789999999999999999999999999999874    67999999999999999999


Q ss_pred             HHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 040576          303 SARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRI  382 (641)
Q Consensus       303 ~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  382 (641)
                      +|.++|++|..+|+.+||.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+.|+
T Consensus       341 ~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~  420 (857)
T PLN03077        341 EAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGL  420 (857)
T ss_pred             HHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 040576          383 KPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSAC  462 (641)
Q Consensus       383 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  462 (641)
                      .|+..++++|+++|+++|++++|.++|++|.++|..+|+.||.+|++.|+.++|+.+|++|.. ++.||..||..++.+|
T Consensus       421 ~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~  499 (857)
T PLN03077        421 ISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSAC  499 (857)
T ss_pred             CcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999986 5999999999999999


Q ss_pred             HhhccHHHHHHHHHHhHHhhCCCCchH------------------------------HHHHHHHHHhhcCCHHHHHHHHH
Q 040576          463 THAGMVLEGWWYFDLMQRIYKIEPKVE------------------------------HYGCMVDLLGRAGLMRDSEELVS  512 (641)
Q Consensus       463 ~~~g~~~~a~~~~~~~~~~~~~~p~~~------------------------------~~~~li~~~~~~g~~~~A~~~~~  512 (641)
                      ++.|+.+.+.+++..+.+ .|+.++..                              +|+.+|.+|++.|+.++|+++|+
T Consensus       500 ~~~g~l~~~~~i~~~~~~-~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~  578 (857)
T PLN03077        500 ARIGALMCGKEIHAHVLR-TGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFN  578 (857)
T ss_pred             hhhchHHHhHHHHHHHHH-hCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHH
Confidence            999888888888888877 66655544                              45555555555555555555555


Q ss_pred             hC---CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcc
Q 040576          513 KL---PMEAGPALWGALLSACSTHSNSELGKIVAQHLMELE--PRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEK  587 (641)
Q Consensus       513 ~~---~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  587 (641)
                      +|   ...||..+|+.++.+|.+.|++++|..+|+.+.+..  .++..+|..++++|.+.|++++|.+++++|.   ++|
T Consensus       579 ~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~---~~p  655 (857)
T PLN03077        579 RMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMP---ITP  655 (857)
T ss_pred             HHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCC---CCC
Confidence            55   245555555555555555556666666555555221  2233456666666666666666666666652   233


Q ss_pred             cCceEEE------------EeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhhcc
Q 040576          588 AVGSSLV------------HPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRRD  633 (641)
Q Consensus       588 ~~~~~~~------------~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~~  633 (641)
                      ++. .|-            ...+.++.++.+++|++..  .|..|.+++...++..+.
T Consensus       656 d~~-~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~--~y~ll~n~ya~~g~~~~a  710 (857)
T PLN03077        656 DPA-VWGALLNACRIHRHVELGELAAQHIFELDPNSVG--YYILLCNLYADAGKWDEV  710 (857)
T ss_pred             CHH-HHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcc--hHHHHHHHHHHCCChHHH
Confidence            321 121            3444556677889999999  999999988776665543

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2e-64  Score=551.42  Aligned_cols=537  Identities=16%  Similarity=0.189  Sum_probs=471.9

Q ss_pred             CCCCChhHHHHHHHHHhhcCCChHHHHHhhhcCCCCCcc-----cHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcc
Q 040576           84 GLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQEPDAF-----MCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHY  158 (641)
Q Consensus        84 g~~~~~~~~~~ll~~~~~~~~~~~~A~~~~~~~~~~~~~-----~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~  158 (641)
                      +-.++...+..++. .+.+.|++++|+++|++|++++..     +++.++.+|.+.|...+|+.+|+ .|..    ||..
T Consensus       365 ~~~~~~~~~~~~y~-~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~-~M~~----pd~~  438 (1060)
T PLN03218        365 SGKRKSPEYIDAYN-RLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAK-LIRN----PTLS  438 (1060)
T ss_pred             CCCCCchHHHHHHH-HHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHH-HcCC----CCHH
Confidence            44566777888888 578899999999999999765544     55667788999999999999999 7864    8999


Q ss_pred             hHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCC----CCCeeHHHHHHHHHH
Q 040576          159 TFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGP----VWDLVTWNSMIDGYV  234 (641)
Q Consensus       159 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~  234 (641)
                      +|+.++.+|++.|+++.|.++|+.|.+.|+.||..+|+.||.+|+++|++++|.++|++|.    .||..+|+.+|.+|+
T Consensus       439 Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~  518 (1060)
T PLN03218        439 TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCA  518 (1060)
T ss_pred             HHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999865    689999999999999


Q ss_pred             hCCChHHHHHHHhhC----CCCCchhHHHHHHHHhcCCChHHHHHHHhhcC------CCCchHHHHHHHHHHhcCChHHH
Q 040576          235 KNREVGFARELFDFM----PERDIFTWNSMISGYVDVGDMEAANGLFDLMP------FRDVVSWNCMIDGYAKIGNVTSA  304 (641)
Q Consensus       235 ~~g~~~~A~~~~~~m----~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~------~~~~~~~~~li~~~~~~~~~~~A  304 (641)
                      +.|++++|+++|++|    ..||..+|+.++.+|++.|++++|.++|++|.      .||..+|++|+.+|++.|++++|
T Consensus       519 k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA  598 (1060)
T PLN03218        519 RAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRA  598 (1060)
T ss_pred             HCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHH
Confidence            999999999999999    67999999999999999999999999999995      47899999999999999999999


Q ss_pred             HHHHHhcC----CCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 040576          305 RNCFDRMC----MRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKC  380 (641)
Q Consensus       305 ~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  380 (641)
                      .++|+.|.    .++..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++++.|.+.
T Consensus       599 ~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~  678 (1060)
T PLN03218        599 KEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQ  678 (1060)
T ss_pred             HHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Confidence            99999993    56779999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcC----CCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHH
Q 040576          381 RIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMT----EKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFI  456 (641)
Q Consensus       381 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~  456 (641)
                      |+.|+..+|++||.+|+++|++++|.++|++|.    .||..+|+.||.+|++.|++++|+++|++|...|+.||..||+
T Consensus       679 G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~  758 (1060)
T PLN03218        679 GIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYS  758 (1060)
T ss_pred             CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            999999999999999999999999999999995    5999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhh----c-------------------CCHHHHHHHHHh
Q 040576          457 CVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGR----A-------------------GLMRDSEELVSK  513 (641)
Q Consensus       457 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~----~-------------------g~~~~A~~~~~~  513 (641)
                      .++.+|++.|++++|.++|+.|.+ .|+.||..+|++++.+|.+    +                   +..++|..+|++
T Consensus       759 sLL~a~~k~G~le~A~~l~~~M~k-~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~e  837 (1060)
T PLN03218        759 ILLVASERKDDADVGLDLLSQAKE-DGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRE  837 (1060)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHH
Confidence            999999999999999999999998 8999999999999876432    2                   224679999999


Q ss_pred             C---CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-hcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccC
Q 040576          514 L---PMEAGPALWGALLSACSTHSNSELGKIVAQHLM-ELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAV  589 (641)
Q Consensus       514 ~---~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~  589 (641)
                      |   +..||..+|+.++.++...+..+.+..+++.+. .-.+++..+|..|++.+.+.  .++|..++++|...|+.|..
T Consensus       838 M~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~Gi~p~~  915 (1060)
T PLN03218        838 TISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLGVVPSV  915 (1060)
T ss_pred             HHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcCCCCCc
Confidence            9   578999999999988888888888888887654 33466778999999987332  36899999999999999876


Q ss_pred             c---eEEE-EeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhhccccccc
Q 040576          590 G---SSLV-HPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRRDVASQI  638 (641)
Q Consensus       590 ~---~~~~-~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~~  638 (641)
                      .   .-|. .++++-.+        ..++-+...|..+...+ +.+..+|...
T Consensus       916 ~~~~~~~~~d~~~~~~~--------aa~~~l~~wl~~~~~~~-~~g~~lp~~~  959 (1060)
T PLN03218        916 SFKKSPIVIDAEELPVF--------AAEVYLLTILKGLKHRL-AAGAKLPNVT  959 (1060)
T ss_pred             ccccCceEEEcccCcch--------hHHHHHHHHHHHHHHHH-hccCcCCcce
Confidence            4   2344 44443333        22211555566655554 3345555443

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3.4e-63  Score=541.74  Aligned_cols=489  Identities=16%  Similarity=0.193  Sum_probs=456.4

Q ss_pred             chHHHHHHhhcCChHHHHHHHHHHHHhCC-CCChhHHHHHHHHHhhcCCChHHHHHhhhcCCCCCcccHHHHHHHHHcCC
Q 040576           57 SHPILQKLESCSTVKEFHQIHTQLLVSGL-SQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQEPDAFMCNTIMKSFLMLN  135 (641)
Q Consensus        57 ~~~~~~~l~~~~~~~~~~~~~~~~~~~g~-~~~~~~~~~ll~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g  135 (641)
                      +..+...+..+++.+++.++++.|.+.|+ .++..+++.++. .|.+.|.+++|..+|+.|+.||..+||.+|.+|++.|
T Consensus       373 ~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~-~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~a~~k~g  451 (1060)
T PLN03218        373 YIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFK-ACKKQRAVKEAFRFAKLIRNPTLSTFNMLMSVCASSQ  451 (1060)
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHH-HHHHCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHhCc
Confidence            45566666778999999999999999996 567777778888 7899999999999999999999999999999999999


Q ss_pred             CchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHH
Q 040576          136 DPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVF  215 (641)
Q Consensus       136 ~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  215 (641)
                      ++++|.++|+ .|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|
T Consensus       452 ~~e~A~~lf~-~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf  530 (1060)
T PLN03218        452 DIDGALRVLR-LVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAY  530 (1060)
T ss_pred             CHHHHHHHHH-HHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            9999999999 899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcC----CCCCeeHHHHHHHHHHhCCChHHHHHHHhhC------CCCCchhHHHHHHHHhcCCChHHHHHHHhhcCC---
Q 040576          216 EDG----PVWDLVTWNSMIDGYVKNREVGFARELFDFM------PERDIFTWNSMISGYVDVGDMEAANGLFDLMPF---  282 (641)
Q Consensus       216 ~~~----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m------~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~---  282 (641)
                      ++|    ..||..+|+.+|.+|++.|++++|.++|++|      ..||..+|+.++.+|++.|++++|.++|+.|.+   
T Consensus       531 ~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi  610 (1060)
T PLN03218        531 GIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNI  610 (1060)
T ss_pred             HHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC
Confidence            875    4789999999999999999999999999999      368999999999999999999999999999985   


Q ss_pred             -CCchHHHHHHHHHHhcCChHHHHHHHHhc----CCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 040576          283 -RDVVSWNCMIDGYAKIGNVTSARNCFDRM----CMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSV  357 (641)
Q Consensus       283 -~~~~~~~~li~~~~~~~~~~~A~~~~~~~----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  357 (641)
                       ++..+|+.+|.+|++.|++++|.++|++|    ..||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+
T Consensus       611 ~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsL  690 (1060)
T PLN03218        611 KGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSL  690 (1060)
T ss_pred             CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence             45799999999999999999999999999    4689999999999999999999999999999999999999999999


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcC----CCChhHHHHHHHHHHHcCCh
Q 040576          358 LTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMT----EKNVVSWNSMIMGYGMHGQG  433 (641)
Q Consensus       358 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~~~~  433 (641)
                      +.+|++.|++++|.++|+.|.+.|+.||..+|+.||.+|++.|++++|.++|++|.    .||..+|+.++.+|++.|+.
T Consensus       691 I~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~l  770 (1060)
T PLN03218        691 MGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDA  770 (1060)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCH
Confidence            99999999999999999999999999999999999999999999999999999997    38999999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----h-------------------ccHHHHHHHHHHhHHhhCCCCchHH
Q 040576          434 EKALEMFMEMEKRGPTPNDATFICVLSACTH----A-------------------GMVLEGWWYFDLMQRIYKIEPKVEH  490 (641)
Q Consensus       434 ~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~-------------------g~~~~a~~~~~~~~~~~~~~p~~~~  490 (641)
                      ++|.++|.+|.+.|+.||..+|+.++..|.+    .                   +..+.|..+|++|.+ .|+.||..+
T Consensus       771 e~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~-~Gi~Pd~~T  849 (1060)
T PLN03218        771 DVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETIS-AGTLPTMEV  849 (1060)
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHH-CCCCCCHHH
Confidence            9999999999999999999999999876542    1                   123679999999999 899999999


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 040576          491 YGCMVDLLGRAGLMRDSEELVSKL---PMEAGPALWGALLSACSTHSNSELGKIVAQHLMELE  550 (641)
Q Consensus       491 ~~~li~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  550 (641)
                      |+.++.++++.+..+.+..+++.|   +..|+..+|++++.++.+.  .++|..+++.+.+.+
T Consensus       850 ~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~G  910 (1060)
T PLN03218        850 LSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLG  910 (1060)
T ss_pred             HHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcC
Confidence            999999999999999999999988   4567788999999998432  468999999998865

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

Probab=100.00  E-value=3.2e-61  Score=524.76  Aligned_cols=425  Identities=25%  Similarity=0.381  Sum_probs=405.2

Q ss_pred             chHHHHHHhhcCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHhhcCCChHHHHHhhhcCCCCCcccHHHHHHHHHcCCC
Q 040576           57 SHPILQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQEPDAFMCNTIMKSFLMLND  136 (641)
Q Consensus        57 ~~~~~~~l~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~  136 (641)
                      ++.++..+...++.+.+.++|..|.+.|+.||..++|.++. +|++.|+++.|.++|++|+.||.++||.+|.+|++.|+
T Consensus       126 ~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~-~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~  204 (697)
T PLN03081        126 YDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLL-MHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGN  204 (697)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHH-HHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcC
Confidence            44455555566677888999999999999999999999999 89999999999999999999999999999999999999


Q ss_pred             chhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHh
Q 040576          137 PFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFE  216 (641)
Q Consensus       137 ~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  216 (641)
                      +++|+++|+ .|.+.|+.||..||+.++.+|++.|+.+.+.+++..+.+.|+.||..+|++||++|+++|++++|.++|+
T Consensus       205 ~~~A~~lf~-~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~  283 (697)
T PLN03081        205 YREAFALFR-EMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFD  283 (697)
T ss_pred             HHHHHHHHH-HHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHH
Confidence            999999999 8999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCeeHHHHHHHHHHhCCChHHHHHHHhhC----CCCCchhHHHHHHHHhcCCChHHHHHHHhhcCC----CCchHH
Q 040576          217 DGPVWDLVTWNSMIDGYVKNREVGFARELFDFM----PERDIFTWNSMISGYVDVGDMEAANGLFDLMPF----RDVVSW  288 (641)
Q Consensus       217 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~----~~~~~~  288 (641)
                      +|.++|+++||++|.+|++.|++++|+++|++|    ..||..||+.++.+|++.|++++|.++++.|.+    +|..+|
T Consensus       284 ~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~  363 (697)
T PLN03081        284 GMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVAN  363 (697)
T ss_pred             hCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeeh
Confidence            999999999999999999999999999999999    789999999999999999999999999999974    678999


Q ss_pred             HHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHH
Q 040576          289 NCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVID  368 (641)
Q Consensus       289 ~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~  368 (641)
                      ++|+++|+++|++++|.++|++|.++|+.+||+||.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|++.|.++
T Consensus       364 ~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~  443 (697)
T PLN03081        364 TALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSE  443 (697)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHH-cCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcC-CCChhHHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 040576          369 IGQWIHSYIQK-CRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMT-EKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKR  446 (641)
Q Consensus       369 ~a~~~~~~~~~-~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  446 (641)
                      +|.++|+.|.+ .|+.|+..+|++++++|++.|++++|.+++++|. +|+..+|++|+.+|...|+.+.|..+++++.+.
T Consensus       444 ~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~  523 (697)
T PLN03081        444 QGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGM  523 (697)
T ss_pred             HHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCC
Confidence            99999999986 6999999999999999999999999999999997 589999999999999999999999999999754


Q ss_pred             CCCCC-HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC
Q 040576          447 GPTPN-DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP  486 (641)
Q Consensus       447 g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p  486 (641)
                        .|+ ..+|..+++.|++.|++++|.++++.|.+ .|+..
T Consensus       524 --~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~-~g~~k  561 (697)
T PLN03081        524 --GPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKR-KGLSM  561 (697)
T ss_pred             --CCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHH-cCCcc
Confidence              554 66999999999999999999999999998 77653

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

Probab=100.00  E-value=1e-31  Score=307.08  Aligned_cols=501  Identities=12%  Similarity=0.051  Sum_probs=326.9

Q ss_pred             HhhcCCChHHHHHhhhcCC---CCCcccHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchh
Q 040576           99 LCTSLSSVSLSVLFFDGIQ---EPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLRE  175 (641)
Q Consensus        99 ~~~~~~~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~  175 (641)
                      .+.+.|+++.|...|+++.   +.+...|..+...+...|++++|++.|. .+.... +.+......++..+.+.|++++
T Consensus       372 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~-~a~~~~-~~~~~~~~~l~~~~~~~~~~~~  449 (899)
T TIGR02917       372 AYLALGDFEKAAEYLAKATELDPENAAARTQLGISKLSQGDPSEAIADLE-TAAQLD-PELGRADLLLILSYLRSGQFDK  449 (899)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhCCChHHHHHHHH-HHHhhC-CcchhhHHHHHHHHHhcCCHHH
Confidence            3444455555555554431   2233344444444455555555555554 332221 1112233344445555555555


Q ss_pred             HHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcC---CCCCeeHHHHHHHHHHhCCChHHHHHHHhhC---
Q 040576          176 GKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDG---PVWDLVTWNSMIDGYVKNREVGFARELFDFM---  249 (641)
Q Consensus       176 a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---  249 (641)
                      |..+++.+.+.. +.+..++..+...|...|++++|.+.|++.   .+.+...+..+...+...|++++|.+.|+++   
T Consensus       450 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  528 (899)
T TIGR02917       450 ALAAAKKLEKKQ-PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTI  528 (899)
T ss_pred             HHHHHHHHHHhC-CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            555555555432 344556666666666666666666666652   2334445556666666666666666666666   


Q ss_pred             CCCCchhHHHHHHHHhcCCChHHHHHHHhhcCCC---CchHHHHHHHHHHhcCChHHHHHHHHhcC---CCCcchHHHHH
Q 040576          250 PERDIFTWNSMISGYVDVGDMEAANGLFDLMPFR---DVVSWNCMIDGYAKIGNVTSARNCFDRMC---MRNVVSWNILL  323 (641)
Q Consensus       250 ~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~li  323 (641)
                      .+.+..++..+...+.+.|+.++|...++++.+.   +...+..++..|.+.|++++|..+++.+.   ..+...|..+.
T Consensus       529 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  608 (899)
T TIGR02917       529 DPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLG  608 (899)
T ss_pred             CcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            2234456666666666667777777666666432   24555666677777777777777777663   23455677777


Q ss_pred             HHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHH
Q 040576          324 ALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMD  403 (641)
Q Consensus       324 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  403 (641)
                      .+|...|++++|...|+++.+.. +.+...+..+..++...|++++|..+++.+.+.. +.+...+..++..+...|+++
T Consensus       609 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  686 (899)
T TIGR02917       609 RAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTE  686 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHH
Confidence            77777777777777777776542 2344556666667777777777777777776643 345666777777777777777


Q ss_pred             HHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHH
Q 040576          404 LARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQR  480 (641)
Q Consensus       404 ~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  480 (641)
                      +|.++++.+.+   .+...+..++..+...|++++|...|+++...+  |+..++..+..++.+.|++++|.+.++.+.+
T Consensus       687 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  764 (899)
T TIGR02917       687 SAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLK  764 (899)
T ss_pred             HHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            77777777664   345566777777777888888888888777753  4446666677777788888888888887776


Q ss_pred             hhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHH
Q 040576          481 IYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL--PMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYV  558 (641)
Q Consensus       481 ~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  558 (641)
                        ..+.+...+..++..|.+.|++++|.+.|+++  ..++++..+..+...+...|+ .+|+..++++++..|+++..+.
T Consensus       765 --~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~  841 (899)
T TIGR02917       765 --THPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILD  841 (899)
T ss_pred             --hCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHH
Confidence              23445677777888888888888888888876  223456677778888888888 7788888888888888888888


Q ss_pred             HHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhhcccc
Q 040576          559 LLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRRDVA  635 (641)
Q Consensus       559 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~~~~  635 (641)
                      .++.+|...|++++|.+.++++                        .+..|.+..  ++..++.+..+.++..++..
T Consensus       842 ~~~~~~~~~g~~~~A~~~~~~a------------------------~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~  892 (899)
T TIGR02917       842 TLGWLLVEKGEADRALPLLRKA------------------------VNIAPEAAA--IRYHLALALLATGRKAEARK  892 (899)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHH------------------------HhhCCCChH--HHHHHHHHHHHcCCHHHHHH
Confidence            8888888888888888888888                        667788888  99999998888877666543

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=5.9e-31  Score=300.78  Aligned_cols=557  Identities=13%  Similarity=0.046  Sum_probs=290.8

Q ss_pred             hcCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHhhcCCChHHHHHhhhcCC---CCCcccHHHHHHHHHcCCCchhHHH
Q 040576           66 SCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQ---EPDAFMCNTIMKSFLMLNDPFGALS  142 (641)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~  142 (641)
                      ..++.+.+...+..+.+.+  |+.......+..++...|+++.|...|+...   +.+...+..+...+...|++++|..
T Consensus       273 ~~~~~~~A~~~~~~~l~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g~~~~A~~  350 (899)
T TIGR02917       273 QKKNYEDARETLQDALKSA--PEYLPALLLAGASEYQLGNLEQAYQYLNQILKYAPNSHQARRLLASIQLRLGRVDEAIA  350 (899)
T ss_pred             HhcCHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHCCCHHHHHH
Confidence            3455666666665555443  2222122222224455666666666666541   2234445555556666666666666


Q ss_pred             HHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCC---
Q 040576          143 FYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGP---  219 (641)
Q Consensus       143 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---  219 (641)
                      .+. .+... .+.+...+..+...+...|++++|..+++.+.+.. +.+...+..+...+...|++++|.+.|++..   
T Consensus       351 ~~~-~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~  427 (899)
T TIGR02917       351 TLS-PALGL-DPDDPAALSLLGEAYLALGDFEKAAEYLAKATELD-PENAAARTQLGISKLSQGDPSEAIADLETAAQLD  427 (899)
T ss_pred             HHH-HHHhc-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhC
Confidence            665 44332 12344455555566666666666666666655543 2244455555555666666666666665422   


Q ss_pred             CCCeeHHHHHHHHHHhCCChHHHHHHHhhC---CCCCchhHHHHHHHHhcCCChHHHHHHHhhcCC--C-CchHHHHHHH
Q 040576          220 VWDLVTWNSMIDGYVKNREVGFARELFDFM---PERDIFTWNSMISGYVDVGDMEAANGLFDLMPF--R-DVVSWNCMID  293 (641)
Q Consensus       220 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~  293 (641)
                      +.....+..++..+.+.|++++|..+++++   .+.+..++..+...+...|++++|.+.|+++.+  | +...+..+..
T Consensus       428 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~  507 (899)
T TIGR02917       428 PELGRADLLLILSYLRSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLAR  507 (899)
T ss_pred             CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCcHHHHHHHHH
Confidence            222334444555555666666666665555   223444555555556666666666666655542  1 2344455555


Q ss_pred             HHHhcCChHHHHHHHHhcCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHH
Q 040576          294 GYAKIGNVTSARNCFDRMCM---RNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIG  370 (641)
Q Consensus       294 ~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a  370 (641)
                      .+...|++++|.+.|+++..   .+..++..+...+.+.|++++|...++++...+ +.+...+..+...+...|++++|
T Consensus       508 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  586 (899)
T TIGR02917       508 IDIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKA  586 (899)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHH
Confidence            55555666666665555522   234455555555555556666655555555432 22333444555555555555555


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCC
Q 040576          371 QWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRG  447 (641)
Q Consensus       371 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g  447 (641)
                      ..+++.+.+.. +.+...+..+..+|...|++++|...|+.+.+   .+...+..++.+|...|++++|...|+++.+..
T Consensus       587 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  665 (899)
T TIGR02917       587 LAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELK  665 (899)
T ss_pred             HHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            55555555432 33445555555555555555555555555432   233445555555555555555555555555432


Q ss_pred             CCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHHHHHH
Q 040576          448 PTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPALWGAL  526 (641)
Q Consensus       448 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l  526 (641)
                       +.+..++..+...+...|++++|.++++.+.. . .+.+...+..++..+.+.|++++|.+.|+++ ...|+...+..+
T Consensus       666 -~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l  742 (899)
T TIGR02917       666 -PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQK-Q-HPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKL  742 (899)
T ss_pred             -CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh-h-CcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHH
Confidence             11344555555555555555555555555554 1 2233444555555555555555555555554 233444445555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceE---EE--Eee----
Q 040576          527 LSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSS---LV--HPG----  597 (641)
Q Consensus       527 ~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~---~~--~~~----  597 (641)
                      ..++...|+.++|...++++++..|+++..+..++.+|...|++++|.+.++++.+.++.......   |+  ...    
T Consensus       743 ~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~A  822 (899)
T TIGR02917       743 HRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKDPRA  822 (899)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCcHHH
Confidence            555555555555555555555555555555555555555555555555555555444322111000   00  000    


Q ss_pred             eeecccccccCCCCchhhHHHHHHHHHHHHHhhhccc
Q 040576          598 EFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRRDV  634 (641)
Q Consensus       598 ~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~~~  634 (641)
                      .....+.....|++..  ++..++.+...+++..+++
T Consensus       823 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~g~~~~A~  857 (899)
T TIGR02917       823 LEYAEKALKLAPNIPA--ILDTLGWLLVEKGEADRAL  857 (899)
T ss_pred             HHHHHHHHhhCCCCcH--HHHHHHHHHHHcCCHHHHH
Confidence            0001111466788888  8888888887776665543

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.

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.95  E-value=1.9e-23  Score=239.57  Aligned_cols=512  Identities=11%  Similarity=0.056  Sum_probs=285.6

Q ss_pred             HHHHhhcCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHhhcCCChHHHHHhhhcCC--CCCc-ccH-------------
Q 040576           61 LQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQ--EPDA-FMC-------------  124 (641)
Q Consensus        61 ~~~l~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~A~~~~~~~~--~~~~-~~~-------------  124 (641)
                      .+.-...++.+.+.+.+..+.... +.++........ ++...|+.++|.+.+++..  .|+. ..+             
T Consensus        35 ~~~~~~~~~~d~a~~~l~kl~~~~-p~~p~~~~~~~~-~~l~~g~~~~A~~~l~~l~~~~P~~~~~~~~~~~~~~~~~~~  112 (1157)
T PRK11447         35 VRLGEATHREDLVRQSLYRLELID-PNNPDVIAARFR-LLLRQGDSDGAQKLLDRLSQLAPDSNAYRSSRTTMLLSTPEG  112 (1157)
T ss_pred             HHHHHhhCChHHHHHHHHHHHccC-CCCHHHHHHHHH-HHHhCCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHhcCCch
Confidence            334456678889988888887553 234555555555 7789999999999999873  2332 222             


Q ss_pred             ---HHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcch-HHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHH
Q 040576          125 ---NTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYT-FPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIH  200 (641)
Q Consensus       125 ---~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  200 (641)
                         ..+.+.+...|++++|+..|+ ..... -+|+... ...........|+.++|...++.+.+.. +.+...+..+..
T Consensus       113 ~~~l~~A~ll~~~g~~~eA~~~~~-~~l~~-~p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~LA~  189 (1157)
T PRK11447        113 RQALQQARLLATTGRTEEALASYD-KLFNG-APPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTLAL  189 (1157)
T ss_pred             hhHHHHHHHHHhCCCHHHHHHHHH-HHccC-CCCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence               223346788999999999999 66543 2333321 1122222335689999999999999875 446778889999


Q ss_pred             HHHhcCCHHHHHHHHhcCCCCCee------HH-----------------HHHHHHHHhCCChHHHHHHHhhCC--CCCch
Q 040576          201 MYSVCGEVLDARKVFEDGPVWDLV------TW-----------------NSMIDGYVKNREVGFARELFDFMP--ERDIF  255 (641)
Q Consensus       201 ~~~~~g~~~~A~~~~~~~~~~~~~------~~-----------------~~li~~~~~~g~~~~A~~~~~~m~--~~~~~  255 (641)
                      .+...|+.++|++.|+++......      .|                 ...+..+-.....+.|...+.++.  .+|..
T Consensus       190 ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~  269 (1157)
T PRK11447        190 LLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPA  269 (1157)
T ss_pred             HHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcc
Confidence            999999999999999875321100      01                 000000000111122222222210  00110


Q ss_pred             -hHHHHHHHHhcCCChHHHHHHHhhcCC--C-CchHHHHHHHHHHhcCChHHHHHHHHhcCC--CCc---chHHH-----
Q 040576          256 -TWNSMISGYVDVGDMEAANGLFDLMPF--R-DVVSWNCMIDGYAKIGNVTSARNCFDRMCM--RNV---VSWNI-----  321 (641)
Q Consensus       256 -~~~~ll~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~---~~~~~-----  321 (641)
                       ........+...|++++|+..|++..+  | +..++..+...|.+.|++++|+..|++..+  |+.   ..|..     
T Consensus       270 ~~~~~~G~~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~  349 (1157)
T PRK11447        270 FRARAQGLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVN  349 (1157)
T ss_pred             hHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhh
Confidence             001112333444555555555544432  2 234444444555555555555555544421  110   01111     


Q ss_pred             -------HHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHH-----
Q 040576          322 -------LLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLS-----  389 (641)
Q Consensus       322 -------li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~-----  389 (641)
                             ....+.+.|++++|+..|+++.+.. +.+...+..+...+...|++++|.+.|+.+.+.. +.+...+     
T Consensus       350 ~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~  427 (1157)
T PRK11447        350 RYWLLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLAN  427 (1157)
T ss_pred             hHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence                   1223344455555555555544421 1122333344444445555555555555444432 1122222     


Q ss_pred             -------------------------------------HHHHHHHHhcCCHHHHHHHHhhcCC--C-ChhHHHHHHHHHHH
Q 040576          390 -------------------------------------TSLLTMYAKCGVMDLARNVFDNMTE--K-NVVSWNSMIMGYGM  429 (641)
Q Consensus       390 -------------------------------------~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~  429 (641)
                                                           ..+...+...|++++|.+.|++..+  | +...+..+...|.+
T Consensus       428 l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~  507 (1157)
T PRK11447        428 LYRQQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQ  507 (1157)
T ss_pred             HHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence                                                 2334445555666666666665543  2 33445555566666


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCch---------HHHHHHHHHHhh
Q 040576          430 HGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKV---------EHYGCMVDLLGR  500 (641)
Q Consensus       430 ~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~---------~~~~~li~~~~~  500 (641)
                      .|++++|...++++.+.... +...+..+...+...|+.++|...++.+.. ....++.         ..+..+...+..
T Consensus       508 ~G~~~~A~~~l~~al~~~P~-~~~~~~a~al~l~~~~~~~~Al~~l~~l~~-~~~~~~~~~l~~~l~~~~~l~~a~~l~~  585 (1157)
T PRK11447        508 AGQRSQADALMRRLAQQKPN-DPEQVYAYGLYLSGSDRDRAALAHLNTLPR-AQWNSNIQELAQRLQSDQVLETANRLRD  585 (1157)
T ss_pred             cCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHhCCc-hhcChhHHHHHHHHhhhHHHHHHHHHHH
Confidence            66666666666665553211 223333333344555666666666655432 1111111         112234556677


Q ss_pred             cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          501 AGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       501 ~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      .|+.++|+++++.-+  +++..+..+...+...|++++|+..|+++++.+|+++..+..++.+|...|++++|++.+++.
T Consensus       586 ~G~~~eA~~~l~~~p--~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~l  663 (1157)
T PRK11447        586 SGKEAEAEALLRQQP--PSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKL  663 (1157)
T ss_pred             CCCHHHHHHHHHhCC--CCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            788888888777543  344566777788888999999999999999999999989999999999999999999999887


Q ss_pred             hhC
Q 040576          581 KEK  583 (641)
Q Consensus       581 ~~~  583 (641)
                      .+.
T Consensus       664 l~~  666 (1157)
T PRK11447        664 PAT  666 (1157)
T ss_pred             hcc
Confidence            543

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.95  E-value=4.1e-23  Score=236.80  Aligned_cols=512  Identities=10%  Similarity=0.014  Sum_probs=367.5

Q ss_pred             HHHHhhcCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHhhcCCChHHHHHhhhcCC---CCCcccHHHHHHHHHcCCCc
Q 040576           61 LQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQ---EPDAFMCNTIMKSFLMLNDP  137 (641)
Q Consensus        61 ~~~l~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~  137 (641)
                      ..++...++.+++.+.+..+.+.. +|+......+...+....|+.++|.+.|+++.   +.+...+..+...+...|+.
T Consensus       119 A~ll~~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~~~~~~LA~ll~~~g~~  197 (1157)
T PRK11447        119 ARLLATTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNTGLRNTLALLLFSSGRR  197 (1157)
T ss_pred             HHHHHhCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHccCCH
Confidence            446677889999999999888653 34433333333323345689999999999873   33566788888999999999


Q ss_pred             hhHHHHHHHHHHhcCC----------------CCCcc---hHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHH
Q 040576          138 FGALSFYYEKMMAKFV----------------EHNHY---TFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSL  198 (641)
Q Consensus       138 ~~A~~~~~~~m~~~~~----------------~~~~~---~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  198 (641)
                      ++|+..|+ .+.....                .++..   .+...+..+-.......|...+..+.+....|+.. ...+
T Consensus       198 ~eAl~~l~-~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~-~~~~  275 (1157)
T PRK11447        198 DEGFAVLE-QMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFR-ARAQ  275 (1157)
T ss_pred             HHHHHHHH-HHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchH-HHHH
Confidence            99999998 6644311                00111   11111221222222344555555544433333322 2234


Q ss_pred             HHHHHhcCCHHHHHHHHhcC---CCCCeeHHHHHHHHHHhCCChHHHHHHHhhCC--CCCch---hHH------------
Q 040576          199 IHMYSVCGEVLDARKVFEDG---PVWDLVTWNSMIDGYVKNREVGFARELFDFMP--ERDIF---TWN------------  258 (641)
Q Consensus       199 i~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~--~~~~~---~~~------------  258 (641)
                      ...+...|++++|...|++.   .+.+...+..+...+.+.|++++|+..|++..  .|+..   .|.            
T Consensus       276 G~~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~  355 (1157)
T PRK11447        276 GLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLI  355 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHH
Confidence            56677899999999999874   34577788999999999999999999999883  33321   111            


Q ss_pred             HHHHHHhcCCChHHHHHHHhhcCCC---CchHHHHHHHHHHhcCChHHHHHHHHhcCC---CCcchHHHHHHHHHHcCCh
Q 040576          259 SMISGYVDVGDMEAANGLFDLMPFR---DVVSWNCMIDGYAKIGNVTSARNCFDRMCM---RNVVSWNILLALYVRCKDY  332 (641)
Q Consensus       259 ~ll~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~  332 (641)
                      .....+.+.|++++|+..|+++.+.   +...+..+...+...|++++|++.|++...   .+...+..+...|. .++.
T Consensus       356 ~~g~~~~~~g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~-~~~~  434 (1157)
T PRK11447        356 QQGDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYR-QQSP  434 (1157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-hcCH
Confidence            2234567899999999999998753   366777889999999999999999999843   34456666777664 4678


Q ss_pred             HHHHHHHHHHHHCCCC--------CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHH
Q 040576          333 CECLRLFDRMIRGDAK--------PNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDL  404 (641)
Q Consensus       333 ~~A~~~~~~m~~~g~~--------p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  404 (641)
                      ++|+..++.+......        .....+..+...+...|++++|...++...+.. +.+..++..+...|.+.|++++
T Consensus       435 ~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~  513 (1157)
T PRK11447        435 EKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQ  513 (1157)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            9999888765432100        011234456677888999999999999998865 4466777889999999999999


Q ss_pred             HHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH---------HHHHHHHHHHhhccHHHHH
Q 040576          405 ARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDA---------TFICVLSACTHAGMVLEGW  472 (641)
Q Consensus       405 A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~---------~~~~ll~~~~~~g~~~~a~  472 (641)
                      |...|+++.+   .+...+..+...+...++.++|+..++++......++..         .+..+...+...|+.++|.
T Consensus       514 A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~  593 (1157)
T PRK11447        514 ADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAE  593 (1157)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHH
Confidence            9999998753   345556666666778899999999998865432222221         1234566788889999999


Q ss_pred             HHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 040576          473 WYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELE  550 (641)
Q Consensus       473 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  550 (641)
                      ++++   .   .+.+...+..+...+.+.|++++|++.|++. ...| +...+..++..+...|+.++|+..++++.+..
T Consensus       594 ~~l~---~---~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~  667 (1157)
T PRK11447        594 ALLR---Q---QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPATA  667 (1157)
T ss_pred             HHHH---h---CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC
Confidence            9876   2   2345566778899999999999999999987 3334 46688889999999999999999999999999


Q ss_pred             CCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 040576          551 PRDPGPYVLLSNIYASEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       551 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  583 (641)
                      |+++..+..++.++...|++++|.++++++...
T Consensus       668 p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        668 NDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            999989999999999999999999999998543

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

Probab=99.93  E-value=2.7e-22  Score=194.70  Aligned_cols=434  Identities=12%  Similarity=0.117  Sum_probs=333.4

Q ss_pred             HHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCC
Q 040576          128 MKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGE  207 (641)
Q Consensus       128 i~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  207 (641)
                      ..-.-+.|++.+|.+.-.  |.-..-+.+..+...+-..+....+.+....--....+.. ..-..+|+.+.+.+-..|+
T Consensus        55 ah~~yq~gd~~~a~~h~n--mv~~~d~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~-~q~ae~ysn~aN~~kerg~  131 (966)
T KOG4626|consen   55 AHRLYQGGDYKQAEKHCN--MVGQEDPTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKN-PQGAEAYSNLANILKERGQ  131 (966)
T ss_pred             HHHHHhccCHHHHHHHHh--HhhccCCCcccceeeehhhhhcccchhhhhhhhhhhhhcc-chHHHHHHHHHHHHHHhch
Confidence            334446677777777654  3222222233333333344444444444333322333322 3345678888888888888


Q ss_pred             HHHHHHHHhcCC---CCCeeHHHHHHHHHHhCCChHHHHHHHhhCC--CCCchh-HHHHHHHHhcCCChHHHHHHHhhcC
Q 040576          208 VLDARKVFEDGP---VWDLVTWNSMIDGYVKNREVGFARELFDFMP--ERDIFT-WNSMISGYVDVGDMEAANGLFDLMP  281 (641)
Q Consensus       208 ~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~--~~~~~~-~~~ll~~~~~~g~~~~a~~~~~~~~  281 (641)
                      +++|+..++.+.   +..+..|..+..++...|+.+.|.+.|....  .|+... .+.+.......|++++|...|.+.+
T Consensus       132 ~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLlka~Grl~ea~~cYlkAi  211 (966)
T KOG4626|consen  132 LQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNLLKAEGRLEEAKACYLKAI  211 (966)
T ss_pred             HHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHHHHhhcccchhHHHHHHHH
Confidence            888888887643   3456678888888888888888888887773  344332 2334455566788888888888776


Q ss_pred             C--CC-chHHHHHHHHHHhcCChHHHHHHHHhcCCCCc---chHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH-HHH
Q 040576          282 F--RD-VVSWNCMIDGYAKIGNVTSARNCFDRMCMRNV---VSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNE-ASL  354 (641)
Q Consensus       282 ~--~~-~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~  354 (641)
                      +  |. ..+|+.|...+-..|++..|+..|++..+-|+   ..|-.|...|...+.+++|+..+.+...  ..|+. ..+
T Consensus       212 ~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~--lrpn~A~a~  289 (966)
T KOG4626|consen  212 ETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALN--LRPNHAVAH  289 (966)
T ss_pred             hhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHh--cCCcchhhc
Confidence            5  33 67888898899999999999999998855443   5788888899999999999999988876  35654 467


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcC
Q 040576          355 MSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHG  431 (641)
Q Consensus       355 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~  431 (641)
                      ..+...|...|.+|.|+..+++.++.. +.-...|+.|..++-..|++.+|...|.+...   ....+.+.|...|...|
T Consensus       290 gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgni~~E~~  368 (966)
T KOG4626|consen  290 GNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGNIYREQG  368 (966)
T ss_pred             cceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhc
Confidence            777777889999999999999998864 22367899999999999999999999998874   34568899999999999


Q ss_pred             ChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHH
Q 040576          432 QGEKALEMFMEMEKRGPTPN-DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEE  509 (641)
Q Consensus       432 ~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~  509 (641)
                      .+++|..+|....+  +.|. ...++.|...|-++|++++|+..+++..+   +.|+ ...|+.+...|...|+.+.|+.
T Consensus       369 ~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr---I~P~fAda~~NmGnt~ke~g~v~~A~q  443 (966)
T KOG4626|consen  369 KIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR---IKPTFADALSNMGNTYKEMGDVSAAIQ  443 (966)
T ss_pred             cchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh---cCchHHHHHHhcchHHHHhhhHHHHHH
Confidence            99999999999887  4555 35788999999999999999999999987   8898 6889999999999999999999


Q ss_pred             HHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHH
Q 040576          510 LVSKL-PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDE  572 (641)
Q Consensus       510 ~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  572 (641)
                      .+.+. ...|. ....+.|...|...|++.+|+..|+.+++++|+.+.+|..++-++---.+|.+
T Consensus       444 ~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~vcdw~D  508 (966)
T KOG4626|consen  444 CYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIVCDWTD  508 (966)
T ss_pred             HHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHHhcccc
Confidence            99987 56676 45788999999999999999999999999999999999999888766666654

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.93  E-value=6.5e-20  Score=200.95  Aligned_cols=524  Identities=9%  Similarity=0.006  Sum_probs=313.5

Q ss_pred             hhcCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHhhcCCChHHHHHhhhcCC--CC-CcccHHHHHHHHHcCCCchhHH
Q 040576           65 ESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQ--EP-DAFMCNTIMKSFLMLNDPFGAL  141 (641)
Q Consensus        65 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~A~  141 (641)
                      ...++.+++...+.+.++..... +.+...+.. +|...|+.++|+..+++.-  .| |...+.. +..+   +++.+|.
T Consensus        55 ~~~Gd~~~A~~~l~~Al~~dP~n-~~~~~~LA~-~yl~~g~~~~A~~~~~kAv~ldP~n~~~~~~-La~i---~~~~kA~  128 (987)
T PRK09782         55 QKNNDEATAIREFEYIHQQVPDN-IPLTLYLAE-AYRHFGHDDRARLLLEDQLKRHPGDARLERS-LAAI---PVEVKSV  128 (987)
T ss_pred             HhCCCHHHHHHHHHHHHHhCCCC-HHHHHHHHH-HHHHCCCHHHHHHHHHHHHhcCcccHHHHHH-HHHh---ccChhHH
Confidence            34488888888888887664322 444444444 8899999999999999863  23 3333333 3322   7888888


Q ss_pred             HHHHHHHHhcCCCCCcchHHHHHHHH-----hcCCCchhHHHHHHHHHHhCCCCChhHHHHH-HHHHHhcCCHHHHHHHH
Q 040576          142 SFYYEKMMAKFVEHNHYTFPLLGKVC-----AGIRSLREGKKVHARIVKCGFELDLFVRNSL-IHMYSVCGEVLDARKVF  215 (641)
Q Consensus       142 ~~~~~~m~~~~~~~~~~~~~~ll~~~-----~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l-i~~~~~~g~~~~A~~~~  215 (641)
                      ..|+ .+.... +-+..++..+....     .+-.+.++|.+.++ .......|+..+.... ...|.+.|++++|++.+
T Consensus       129 ~~ye-~l~~~~-P~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL  205 (987)
T PRK09782        129 TTVE-ELLAQQ-KACDAVPTLRCRSEVGQNALRLAQLPVARAQLN-DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLY  205 (987)
T ss_pred             HHHH-HHHHhC-CCChhHHHHHHHHhhccchhhhhhHHHHHHHHH-HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHH
Confidence            8888 555531 22233333333320     01122344444444 3333233334433333 56666666666666666


Q ss_pred             hcCCCC---CeeHHHHHHHHHHh-CCChHHHHHHHhhCCCCCchhHHHHHHHHhcCCChHHHHHHHhhcCC-----CC--
Q 040576          216 EDGPVW---DLVTWNSMIDGYVK-NREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPF-----RD--  284 (641)
Q Consensus       216 ~~~~~~---~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~--  284 (641)
                      .++.+.   +...+..+..+|.+ .++ +++..+++...+.|...+..+...+.+.|+.++|.++++.+..     |+  
T Consensus       206 ~~L~k~~pl~~~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~  284 (987)
T PRK09782        206 NEARQQNTLSAAERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEK  284 (987)
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccH
Confidence            553321   22224444445555 244 5555555443334555555555666666666666655555431     10  


Q ss_pred             ----------------------------chHHHHHHHHHHhc--------------------------------------
Q 040576          285 ----------------------------VVSWNCMIDGYAKI--------------------------------------  298 (641)
Q Consensus       285 ----------------------------~~~~~~li~~~~~~--------------------------------------  298 (641)
                                                  ....-.++..+.+.                                      
T Consensus       285 ~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~  364 (987)
T PRK09782        285 SWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRL  364 (987)
T ss_pred             HHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHH
Confidence                                        00011113333444                                      


Q ss_pred             -------------------------CChHHHHHHHHhcCC--CCc----chHHHHHHHHHHcCC---hHHHHHH------
Q 040576          299 -------------------------GNVTSARNCFDRMCM--RNV----VSWNILLALYVRCKD---YCECLRL------  338 (641)
Q Consensus       299 -------------------------~~~~~A~~~~~~~~~--~~~----~~~~~li~~~~~~g~---~~~A~~~------  338 (641)
                                               |+.++|.++|+....  ++.    ..-+-++..|.+.+.   ..++..+      
T Consensus       365 ~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~  444 (987)
T PRK09782        365 ARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPL  444 (987)
T ss_pred             HHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhcccccc
Confidence                                     444444444444421  111    112233444444433   2222111      


Q ss_pred             ----------------HHHHHHC-CC-CC--CHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHh
Q 040576          339 ----------------FDRMIRG-DA-KP--NEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAK  398 (641)
Q Consensus       339 ----------------~~~m~~~-g~-~p--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  398 (641)
                                      ++..... +. ++  +...|..+..++.. ++.++|...+.......  |+......+...+..
T Consensus       445 ~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~  521 (987)
T PRK09782        445 AEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQ  521 (987)
T ss_pred             chhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHH
Confidence                            1111110 11 12  33444444444444 67777777666665543  444433344555567


Q ss_pred             cCCHHHHHHHHhhcCC--CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhhccHHHHHHHH
Q 040576          399 CGVMDLARNVFDNMTE--KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPND-ATFICVLSACTHAGMVLEGWWYF  475 (641)
Q Consensus       399 ~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~  475 (641)
                      .|++++|...|+++..  ++...+..+..++.+.|+.++|...+++..+.+  |+. ..+..+...+...|++++|...+
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 VEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG--LGDNALYWWLHAQRYIPGQPELALNDL  599 (987)
T ss_pred             CCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            8889999888887664  444566677778888899999999998888764  333 33333444455668999999999


Q ss_pred             HHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 040576          476 DLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRD  553 (641)
Q Consensus       476 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  553 (641)
                      ++..+   ..|+...+..+..++.+.|++++|+..+++. ...|+ ...+..+..++...|+.++|+..++++++++|++
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 TRSLN---IAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDD  676 (987)
T ss_pred             HHHHH---hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            88877   5577778888888899999999999988887 34454 5567777778888999999999999999999999


Q ss_pred             CchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhhc
Q 040576          554 PGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRR  632 (641)
Q Consensus       554 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~  632 (641)
                      +..+..++.+|...|++++|...+++.                        .++.|++..  +....+++...-...++
T Consensus       677 ~~a~~nLA~al~~lGd~~eA~~~l~~A------------------------l~l~P~~a~--i~~~~g~~~~~~~~~~~  729 (987)
T PRK09782        677 PALIRQLAYVNQRLDDMAATQHYARLV------------------------IDDIDNQAL--ITPLTPEQNQQRFNFRR  729 (987)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHH------------------------HhcCCCCch--hhhhhhHHHHHHHHHHH
Confidence            999999999999999999999999988                        677788888  77777776655443333

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.93  E-value=1e-20  Score=207.11  Aligned_cols=492  Identities=9%  Similarity=-0.019  Sum_probs=346.0

Q ss_pred             hcCCChHHHHHhhhcC---CCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHH
Q 040576          101 TSLSSVSLSVLFFDGI---QEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGK  177 (641)
Q Consensus       101 ~~~~~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  177 (641)
                      ...|++++|...|+..   .+.+...+..+.+.|...|++++|+..++ ...+.  .|+...|..++..+   ++..+|.
T Consensus        55 ~~~Gd~~~A~~~l~~Al~~dP~n~~~~~~LA~~yl~~g~~~~A~~~~~-kAv~l--dP~n~~~~~~La~i---~~~~kA~  128 (987)
T PRK09782         55 QKNNDEATAIREFEYIHQQVPDNIPLTLYLAEAYRHFGHDDRARLLLE-DQLKR--HPGDARLERSLAAI---PVEVKSV  128 (987)
T ss_pred             HhCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHH-HHHhc--CcccHHHHHHHHHh---ccChhHH
Confidence            4459999999999986   34457788999999999999999999999 55543  55555555554333   8889999


Q ss_pred             HHHHHHHHhCCCCChhHHHHHHHH--------HHhcCCHHHHHHHHhcCCCCC--eeHHH-HHHHHHHhCCChHHHHHHH
Q 040576          178 KVHARIVKCGFELDLFVRNSLIHM--------YSVCGEVLDARKVFEDGPVWD--LVTWN-SMIDGYVKNREVGFARELF  246 (641)
Q Consensus       178 ~~~~~~~~~g~~~~~~~~~~li~~--------~~~~g~~~~A~~~~~~~~~~~--~~~~~-~li~~~~~~g~~~~A~~~~  246 (641)
                      .+++++.+.. +-+..++..+...        |.+.+...++++  .+...++  ..+.. .+...|.+.|++++|++++
T Consensus       129 ~~ye~l~~~~-P~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~--lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL  205 (987)
T PRK09782        129 TTVEELLAQQ-KACDAVPTLRCRSEVGQNALRLAQLPVARAQLN--DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLY  205 (987)
T ss_pred             HHHHHHHHhC-CCChhHHHHHHHHhhccchhhhhhHHHHHHHHH--HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHH
Confidence            9999999875 3356677666666        888777777777  3333343  44334 4489999999999999999


Q ss_pred             hhCC--CCC-chhHHHHHHHHhc-CCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhcCC-----CCcc
Q 040576          247 DFMP--ERD-IFTWNSMISGYVD-VGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCM-----RNVV  317 (641)
Q Consensus       247 ~~m~--~~~-~~~~~~ll~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-----~~~~  317 (641)
                      +++.  .|. ..-...+..+|.. .++ +.+..++....+.+..+...+.+.|.+.|+.++|.+.++++..     |...
T Consensus       206 ~~L~k~~pl~~~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~  284 (987)
T PRK09782        206 NEARQQNTLSAAERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEK  284 (987)
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccH
Confidence            9993  333 3345566667777 477 8888888876667889999999999999999999999998821     1100


Q ss_pred             h------------------------------HHHHHHHHHHc--------------------------------------
Q 040576          318 S------------------------------WNILLALYVRC--------------------------------------  329 (641)
Q Consensus       318 ~------------------------------~~~li~~~~~~--------------------------------------  329 (641)
                      +                              .-.++..+.+.                                      
T Consensus       285 ~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~  364 (987)
T PRK09782        285 SWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRL  364 (987)
T ss_pred             HHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHH
Confidence            0                              00112222333                                      


Q ss_pred             -------------------------CChHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHccCCH---HHHHHH------
Q 040576          330 -------------------------KDYCECLRLFDRMIRG--DAKPNEASLMSVLTACANMGVI---DIGQWI------  373 (641)
Q Consensus       330 -------------------------g~~~~A~~~~~~m~~~--g~~p~~~~~~~ll~~~~~~g~~---~~a~~~------  373 (641)
                                               |+.++|.++|+.....  ...++......++..+.+.+.+   ..+..+      
T Consensus       365 ~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~  444 (987)
T PRK09782        365 ARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPL  444 (987)
T ss_pred             HHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhcccccc
Confidence                                     3444444444444331  0112222233445555444431   111111      


Q ss_pred             ----------------HHHHHHc-CC-CC--chhHHHHHHHHHHhcCCHHHHHHHHhhcCC--CChhHHHHHHHHHHHcC
Q 040576          374 ----------------HSYIQKC-RI-KP--DVLLSTSLLTMYAKCGVMDLARNVFDNMTE--KNVVSWNSMIMGYGMHG  431 (641)
Q Consensus       374 ----------------~~~~~~~-~~-~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~  431 (641)
                                      ....... +. ++  +...+..+..++.. ++.++|...|.+...  |+......+...+...|
T Consensus       445 ~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~Pd~~~~L~lA~al~~~G  523 (987)
T PRK09782        445 AEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQPDAWQHRAVAYQAYQVE  523 (987)
T ss_pred             chhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhCCchHHHHHHHHHHHHCC
Confidence                            1111111 11 23  45566666666665 677778887766654  44333223344446889


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHH
Q 040576          432 QGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEEL  510 (641)
Q Consensus       432 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~  510 (641)
                      ++++|...|+++...  .|+...+..+..++.+.|+.++|..+++...+   ..|+ ...+..+...+.+.|++++|+..
T Consensus       524 r~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~---l~P~~~~l~~~La~~l~~~Gr~~eAl~~  598 (987)
T PRK09782        524 DYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQ---RGLGDNALYWWLHAQRYIPGQPELALND  598 (987)
T ss_pred             CHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCccHHHHHHHHHHHHhCCCHHHHHHH
Confidence            999999999987654  44555566677788889999999999999887   2343 33344444455566999999999


Q ss_pred             HHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccC
Q 040576          511 VSKL-PMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAV  589 (641)
Q Consensus       511 ~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~  589 (641)
                      +++. ...|+...+..+..++.+.|++++|+..++++++++|+++..+..++.++...|++++|+..+++.         
T Consensus       599 ~~~AL~l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~A---------  669 (987)
T PRK09782        599 LTRSLNIAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERA---------  669 (987)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH---------
Confidence            9987 456788889999999999999999999999999999999999999999999999999999999998         


Q ss_pred             ceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhhccc
Q 040576          590 GSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRRDV  634 (641)
Q Consensus       590 ~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~~~  634 (641)
                                     .+++|++..  ++..|+.+...+++..++.
T Consensus       670 ---------------L~l~P~~~~--a~~nLA~al~~lGd~~eA~  697 (987)
T PRK09782        670 ---------------HKGLPDDPA--LIRQLAYVNQRLDDMAATQ  697 (987)
T ss_pred             ---------------HHhCCCCHH--HHHHHHHHHHHCCCHHHHH
Confidence                           788999999  9999999999888776654

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

Probab=99.92  E-value=6.7e-23  Score=198.89  Aligned_cols=409  Identities=11%  Similarity=0.097  Sum_probs=335.9

Q ss_pred             HHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhc---CCCCCeeHHHHHHHHHHhCCCh
Q 040576          163 LGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFED---GPVWDLVTWNSMIDGYVKNREV  239 (641)
Q Consensus       163 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~---~~~~~~~~~~~li~~~~~~g~~  239 (641)
                      +..-.-+.|++++|++.-..+-... +.+....-.+-..+....+++....--..   ..+.-..+|..+.+.+-..|++
T Consensus        54 lah~~yq~gd~~~a~~h~nmv~~~d-~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~~q~ae~ysn~aN~~kerg~~  132 (966)
T KOG4626|consen   54 LAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKERGQL  132 (966)
T ss_pred             HHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHhchH
Confidence            3344556789999987665444332 22222333333445555555554433222   2234556899999999999999


Q ss_pred             HHHHHHHhhCC--CC-CchhHHHHHHHHhcCCChHHHHHHHhhcCCCCc---hHHHHHHHHHHhcCChHHHHHHHHhcCC
Q 040576          240 GFARELFDFMP--ER-DIFTWNSMISGYVDVGDMEAANGLFDLMPFRDV---VSWNCMIDGYAKIGNVTSARNCFDRMCM  313 (641)
Q Consensus       240 ~~A~~~~~~m~--~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~A~~~~~~~~~  313 (641)
                      ++|+.+++.++  +| ....|..+..++...|+.+.|.+.|.+..+-++   .+.+.+...+-..|++.+|...+.+..+
T Consensus       133 ~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLlka~Grl~ea~~cYlkAi~  212 (966)
T KOG4626|consen  133 QDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNLLKAEGRLEEAKACYLKAIE  212 (966)
T ss_pred             HHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHHHHhhcccchhHHHHHHHHh
Confidence            99999999993  33 467899999999999999999999999987554   3344566677778999999999988744


Q ss_pred             --C-CcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHH
Q 040576          314 --R-NVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPN-EASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLS  389 (641)
Q Consensus       314 --~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  389 (641)
                        | -.+.|+.|...+-..|+...|+.-|++...  +.|+ ...|-.+...|...+.++.|...+....... +....++
T Consensus       213 ~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvk--ldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-pn~A~a~  289 (966)
T KOG4626|consen  213 TQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVK--LDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-PNHAVAH  289 (966)
T ss_pred             hCCceeeeehhcchHHhhcchHHHHHHHHHHhhc--CCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-Ccchhhc
Confidence              3 346899999999999999999999999987  4565 3578889999999999999999988887653 3456778


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcCC--C-ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhh
Q 040576          390 TSLLTMYAKCGVMDLARNVFDNMTE--K-NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPN-DATFICVLSACTHA  465 (641)
Q Consensus       390 ~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~  465 (641)
                      ..+...|-..|.++.|+..|++..+  | -..+|+.|..++...|+..+|++.|.+....  .|+ ....+.|...+...
T Consensus       290 gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l--~p~hadam~NLgni~~E~  367 (966)
T KOG4626|consen  290 GNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRL--CPNHADAMNNLGNIYREQ  367 (966)
T ss_pred             cceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHh
Confidence            8888889999999999999999885  3 3478999999999999999999999999885  555 45888999999999


Q ss_pred             ccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHH
Q 040576          466 GMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG-PALWGALLSACSTHSNSELGKIV  542 (641)
Q Consensus       466 g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~  542 (641)
                      |.+++|..+|....+   +.|. ....+.|...|-.+|++++|+..+++. .++|+ ...++.+...|...|+++.|...
T Consensus       368 ~~~e~A~~ly~~al~---v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v~~A~q~  444 (966)
T KOG4626|consen  368 GKIEEATRLYLKALE---VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDVSAAIQC  444 (966)
T ss_pred             ccchHHHHHHHHHHh---hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhHHHHHHH
Confidence            999999999999977   6676 567889999999999999999999987 67888 45899999999999999999999


Q ss_pred             HHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          543 AQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       543 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      +.+++..+|.-++++..|+.+|-.+|+..+|++-+++.
T Consensus       445 y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~a  482 (966)
T KOG4626|consen  445 YTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTA  482 (966)
T ss_pred             HHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHH
Confidence            99999999999999999999999999999999999998

>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=99.90  E-value=1.8e-19  Score=194.28  Aligned_cols=416  Identities=11%  Similarity=-0.014  Sum_probs=281.6

Q ss_pred             HHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcC---CCCCeeHHHHHHHHHHhC
Q 040576          160 FPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDG---PVWDLVTWNSMIDGYVKN  236 (641)
Q Consensus       160 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~  236 (641)
                      +......+.+.|+++.|...|+..++.  .|+...|..+..+|.+.|++++|++.++..   .+.+..+|..+..+|...
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~~l  207 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDGL  207 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHc
Confidence            344455666778888888888877764  456677777778888888888888877763   344555777777788888


Q ss_pred             CChHHHHHHHhhCC---CCCchhHHHHHHHHhcCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhcCC
Q 040576          237 REVGFARELFDFMP---ERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCM  313 (641)
Q Consensus       237 g~~~~A~~~~~~m~---~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  313 (641)
                      |++++|+.-|....   ..+......++..+........+...++.-. .+...+..+.. |....+......-++....
T Consensus       208 g~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  285 (615)
T TIGR00990       208 GKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKP-ENLPSVTFVGN-YLQSFRPKPRPAGLEDSNE  285 (615)
T ss_pred             CCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCC-CCCCCHHHHHH-HHHHccCCcchhhhhcccc
Confidence            88888877665541   1111111112211111111122333332211 11122222222 2221122222221222111


Q ss_pred             CCc---chHHHHHHH---HHHcCChHHHHHHHHHHHHCC-CCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCc
Q 040576          314 RNV---VSWNILLAL---YVRCKDYCECLRLFDRMIRGD-AKPN-EASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPD  385 (641)
Q Consensus       314 ~~~---~~~~~li~~---~~~~g~~~~A~~~~~~m~~~g-~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~  385 (641)
                      .+.   ..+..+...   ....+++++|++.|++..+.+ ..|+ ...+..+...+...|++++|...++...+.. +..
T Consensus       286 ~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~  364 (615)
T TIGR00990       286 LDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRV  364 (615)
T ss_pred             cccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCc
Confidence            111   111111111   123478999999999998764 2343 4467777778888999999999999998864 334


Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 040576          386 VLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSAC  462 (641)
Q Consensus       386 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  462 (641)
                      ...|..+..++...|++++|...|++..+   .+...|..+...+...|++++|+..|++..+... .+...+..+...+
T Consensus       365 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P-~~~~~~~~la~~~  443 (615)
T TIGR00990       365 TQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDP-DFIFSHIQLGVTQ  443 (615)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCc-cCHHHHHHHHHHH
Confidence            66788888999999999999999998764   4567899999999999999999999999988642 2456777788889


Q ss_pred             HhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCH-H-------HHHHHHHHHHhc
Q 040576          463 THAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGP-A-------LWGALLSACSTH  533 (641)
Q Consensus       463 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~-~-------~~~~l~~~~~~~  533 (641)
                      .+.|++++|+..|+...+  ..+.+...+..+..++...|++++|++.|++. ...|+. .       .++..+..+...
T Consensus       444 ~~~g~~~eA~~~~~~al~--~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~  521 (615)
T TIGR00990       444 YKEGSIASSMATFRRCKK--NFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWK  521 (615)
T ss_pred             HHCCCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHh
Confidence            999999999999999987  23334778889999999999999999999985 333321 1       112222234457


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 040576          534 SNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       534 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  583 (641)
                      |++++|...++++++++|++...+..++.++...|++++|++.+++..+.
T Consensus       522 ~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       522 QDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             hhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            99999999999999999999989999999999999999999999998543

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.87  E-value=1.2e-19  Score=185.81  Aligned_cols=314  Identities=13%  Similarity=0.090  Sum_probs=235.3

Q ss_pred             HHHHHhcCChHHHHHHHHhcCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHccC
Q 040576          292 IDGYAKIGNVTSARNCFDRMCM---RNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPN---EASLMSVLTACANMG  365 (641)
Q Consensus       292 i~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~g  365 (641)
                      ...+...|++++|...|.++..   .+..+|..+...+...|++++|..+++.+...+..++   ...+..+...+...|
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g  121 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAG  121 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCC
Confidence            3345566777777777777733   2344677777888888888888888888876532222   245667777788888


Q ss_pred             CHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC--C------hhHHHHHHHHHHHcCChHHHH
Q 040576          366 VIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEK--N------VVSWNSMIMGYGMHGQGEKAL  437 (641)
Q Consensus       366 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~------~~~~~~li~~~~~~~~~~~A~  437 (641)
                      +++.|..+|..+.+.. +.+..++..++.+|.+.|++++|.+.++.+.+.  +      ...|..++..+.+.|++++|.
T Consensus       122 ~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  200 (389)
T PRK11788        122 LLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAAR  200 (389)
T ss_pred             CHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHH
Confidence            8888888888887653 445677888888888888888888888887642  1      124566778888999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc--hHHHHHHHHHHhhcCCHHHHHHHHHhC-
Q 040576          438 EMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK--VEHYGCMVDLLGRAGLMRDSEELVSKL-  514 (641)
Q Consensus       438 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~-  514 (641)
                      ..|+++.+.. +.+...+..+...+.+.|++++|.++|+++.. .  .|+  ...+..++.+|.+.|++++|.+.++++ 
T Consensus       201 ~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~-~--~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~  276 (389)
T PRK11788        201 ALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEE-Q--DPEYLSEVLPKLMECYQALGDEAEGLEFLRRAL  276 (389)
T ss_pred             HHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-H--ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999998763 22455777888899999999999999999987 2  343  456788999999999999999999987 


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh---cCChHHHHHHHHHhhhCCCcccCce
Q 040576          515 PMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYAS---EGKWDEVENLRRIMKEKELEKAVGS  591 (641)
Q Consensus       515 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~---~g~~~~A~~~~~~m~~~~~~~~~~~  591 (641)
                      ...|+...+..++..+...|++++|..+++++++..|+++ .+..+...+..   .|+.+++..++++|.+++++++|. 
T Consensus       277 ~~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~-~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~-  354 (389)
T PRK11788        277 EEYPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLR-GFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR-  354 (389)
T ss_pred             HhCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHH-HHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC-
Confidence            4467777778888899999999999999999999999876 45555555443   569999999999999999988887 


Q ss_pred             EEE-EeeeeecccccccCCCCch
Q 040576          592 SLV-HPGEFASESIVENCPPHRK  613 (641)
Q Consensus       592 ~~~-~~~~~~~~~~~~~~p~~~~  613 (641)
                       |+ .-..++..+..-.+|.++.
T Consensus       355 -~~c~~cg~~~~~~~~~c~~c~~  376 (389)
T PRK11788        355 -YRCRNCGFTARTLYWHCPSCKA  376 (389)
T ss_pred             -EECCCCCCCCccceeECcCCCC
Confidence             33 2233333322344555543

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.86  E-value=1.2e-17  Score=183.47  Aligned_cols=393  Identities=9%  Similarity=-0.065  Sum_probs=237.6

Q ss_pred             hHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhc---CCCCCeeHHHHHHHHHHh
Q 040576          159 TFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFED---GPVWDLVTWNSMIDGYVK  235 (641)
Q Consensus       159 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~---~~~~~~~~~~~li~~~~~  235 (641)
                      ...-.+......|+.++|.+++....... +.+...+..+...+.+.|++++|.++|++   ..+.+...+..++..+..
T Consensus        17 ~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~   95 (765)
T PRK10049         17 QIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLAD   95 (765)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            33444445556666666666666665422 33444566666666666666666666665   333344555566666666


Q ss_pred             CCChHHHHHHHhhC--CCC-CchhHHHHHHHHhcCCChHHHHHHHhhcCC--CC-chHHHHHHHHHHhcCChHHHHHHHH
Q 040576          236 NREVGFARELFDFM--PER-DIFTWNSMISGYVDVGDMEAANGLFDLMPF--RD-VVSWNCMIDGYAKIGNVTSARNCFD  309 (641)
Q Consensus       236 ~g~~~~A~~~~~~m--~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~--~~-~~~~~~li~~~~~~~~~~~A~~~~~  309 (641)
                      .|++++|+..+++.  ..| +.. +..+..++...|+.++|+..++++.+  |+ ...+..+..++...+..++|++.++
T Consensus        96 ~g~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al~~l~  174 (765)
T PRK10049         96 AGQYDEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPALGAID  174 (765)
T ss_pred             CCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHHHHHH
Confidence            66666666666665  222 223 55555555556666666665555543  22 2333334444444455555555554


Q ss_pred             hcCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-----HccCCH---HHHHHHHHHHHHc-
Q 040576          310 RMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTAC-----ANMGVI---DIGQWIHSYIQKC-  380 (641)
Q Consensus       310 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~-----~~~g~~---~~a~~~~~~~~~~-  380 (641)
                      .... ++.....                         ...  .....++...     ...+++   +.|...++.+.+. 
T Consensus       175 ~~~~-~p~~~~~-------------------------l~~--~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~  226 (765)
T PRK10049        175 DANL-TPAEKRD-------------------------LEA--DAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALW  226 (765)
T ss_pred             hCCC-CHHHHHH-------------------------HHH--HHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhc
Confidence            4432 1110000                         000  0000111111     111122   4556666666543 


Q ss_pred             CCCCchh-HH----HHHHHHHHhcCCHHHHHHHHhhcCCCC---hh-HHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC-
Q 040576          381 RIKPDVL-LS----TSLLTMYAKCGVMDLARNVFDNMTEKN---VV-SWNSMIMGYGMHGQGEKALEMFMEMEKRGPTP-  450 (641)
Q Consensus       381 ~~~~~~~-~~----~~li~~~~~~g~~~~A~~~~~~~~~~~---~~-~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-  450 (641)
                      ...|+.. .+    ...+.++...|++++|+..|+.+.+.+   +. .-..+..+|...|++++|+..|+++.+..... 
T Consensus       227 ~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~  306 (765)
T PRK10049        227 HDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIA  306 (765)
T ss_pred             ccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCC
Confidence            1122211 11    111223446678888888888877532   11 12225667888888888888888877643211 


Q ss_pred             --CHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhC----------CCCc---hHHHHHHHHHHhhcCCHHHHHHHHHhC-
Q 040576          451 --NDATFICVLSACTHAGMVLEGWWYFDLMQRIYK----------IEPK---VEHYGCMVDLLGRAGLMRDSEELVSKL-  514 (641)
Q Consensus       451 --~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~----------~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~~-  514 (641)
                        .......+..++...|++++|.++++.+.....          -.|+   ...+..++..+...|++++|+++++++ 
T Consensus       307 ~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al  386 (765)
T PRK10049        307 DLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELA  386 (765)
T ss_pred             CCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence              123455666677888899999888888876210          1123   234566788899999999999999987 


Q ss_pred             C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          515 P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       515 ~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      . .+.+...+..+...+...|++++|+..++++++++|+++..+..++..+.+.|++++|..+++++.
T Consensus       387 ~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll  454 (765)
T PRK10049        387 YNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVV  454 (765)
T ss_pred             HhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            2 234466888899999999999999999999999999999999999999999999999999999993

>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=2.1e-17  Score=178.26  Aligned_cols=436  Identities=10%  Similarity=-0.019  Sum_probs=302.4

Q ss_pred             HHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHH
Q 040576          124 CNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYS  203 (641)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~  203 (641)
                      +......+.+.|++++|+..|+ ....  +.|+...|..+..++...|++++|...++..++.. +.+...+..+..+|.
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~-~al~--~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~  205 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYS-KAIE--CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHH-HHHh--cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHH
Confidence            4456678888999999999999 5444  46777788888889999999999999999988864 335668888999999


Q ss_pred             hcCCHHHHHHHHhcCCC---CCeeHHHHHHHHHHhCCChHHHHHHHhhCCCCCchhHHHHHHHHhcCCChHHHHHHHhhc
Q 040576          204 VCGEVLDARKVFEDGPV---WDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLM  280 (641)
Q Consensus       204 ~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~  280 (641)
                      ..|++++|..-|.....   .+......++.-+........+...++. .+++...+..+...+ .....+....-+...
T Consensus       206 ~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~-~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~  283 (615)
T TIGR00990       206 GLGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILET-KPENLPSVTFVGNYL-QSFRPKPRPAGLEDS  283 (615)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhc-CCCCCCCHHHHHHHH-HHccCCcchhhhhcc
Confidence            99999999887764321   1211112222222211112233333332 222223333222222 111111111112211


Q ss_pred             CCCC---chHHHHHHHH---HHhcCChHHHHHHHHhcCCC------CcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCC
Q 040576          281 PFRD---VVSWNCMIDG---YAKIGNVTSARNCFDRMCMR------NVVSWNILLALYVRCKDYCECLRLFDRMIRGDAK  348 (641)
Q Consensus       281 ~~~~---~~~~~~li~~---~~~~~~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  348 (641)
                      .+.+   ...+..+...   ....+++++|.+.|+.....      +...|+.+...+...|++++|+..|++..+.  .
T Consensus       284 ~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l--~  361 (615)
T TIGR00990       284 NELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIEL--D  361 (615)
T ss_pred             cccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--C
Confidence            1111   1111111111   12347899999999987432      3456888888999999999999999999874  4


Q ss_pred             CC-HHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHH
Q 040576          349 PN-EASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMI  424 (641)
Q Consensus       349 p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li  424 (641)
                      |+ ...|..+...+...|++++|...++.+.+.. +.+..++..+..+|...|++++|...|++..+   .+...|..+.
T Consensus       362 P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la  440 (615)
T TIGR00990       362 PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLG  440 (615)
T ss_pred             CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHH
Confidence            55 4578888888999999999999999998864 45678888999999999999999999999875   3566788889


Q ss_pred             HHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCch-H-------HHHHHHH
Q 040576          425 MGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKV-E-------HYGCMVD  496 (641)
Q Consensus       425 ~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~-~-------~~~~li~  496 (641)
                      ..+.+.|++++|+..|++..+.. +-+...+..+...+...|++++|++.|+....   +.|+. .       .++....
T Consensus       441 ~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~---l~p~~~~~~~~~~~l~~~a~~  516 (615)
T TIGR00990       441 VTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIE---LEKETKPMYMNVLPLINKALA  516 (615)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHh---cCCccccccccHHHHHHHHHH
Confidence            99999999999999999998753 22467888899999999999999999999987   33321 1       1222223


Q ss_pred             HHhhcCCHHHHHHHHHhC-CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHH
Q 040576          497 LLGRAGLMRDSEELVSKL-PMEAGP-ALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVE  574 (641)
Q Consensus       497 ~~~~~g~~~~A~~~~~~~-~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  574 (641)
                      .+...|++++|.+++++. ...|+. ..+..+...+...|++++|...|+++.++.+.....+        ....+.+|.
T Consensus       517 ~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~~~~e~~--------~a~~~~~a~  588 (615)
T TIGR00990       517 LFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAELARTEGELV--------QAISYAEAT  588 (615)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhccHHHHH--------HHHHHHHHH
Confidence            344579999999999986 444554 4688899999999999999999999999877643322        222355556


Q ss_pred             HHHHHh
Q 040576          575 NLRRIM  580 (641)
Q Consensus       575 ~~~~~m  580 (641)
                      ++..+.
T Consensus       589 ~~~~~~  594 (615)
T TIGR00990       589 RTQIQV  594 (615)
T ss_pred             HHHHHH
Confidence            555444

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.85  E-value=1e-18  Score=179.00  Aligned_cols=278  Identities=13%  Similarity=0.114  Sum_probs=112.4

Q ss_pred             CCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCCCC-C------eeHHHHHHHHHHhCCChHHH
Q 040576          170 IRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVW-D------LVTWNSMIDGYVKNREVGFA  242 (641)
Q Consensus       170 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~------~~~~~~li~~~~~~g~~~~A  242 (641)
                      .|++++|...+..+.+.+ +.+..++..+...+...|++++|..+++.+... +      ...+..++..|.+.|++++|
T Consensus        48 ~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A  126 (389)
T PRK11788         48 NEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRA  126 (389)
T ss_pred             cCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            344444444444444432 122334444444444444444444444432211 0      01233334444444444444


Q ss_pred             HHHHhhCCC---CCchhHHHHHHHHhcCCChHHHHHHHhhcCCCC--------chHHHHHHHHHHhcCChHHHHHHHHhc
Q 040576          243 RELFDFMPE---RDIFTWNSMISGYVDVGDMEAANGLFDLMPFRD--------VVSWNCMIDGYAKIGNVTSARNCFDRM  311 (641)
Q Consensus       243 ~~~~~~m~~---~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--------~~~~~~li~~~~~~~~~~~A~~~~~~~  311 (641)
                      ..+|+++..   .+..++..++..+.+.|++++|.+.++.+.+.+        ...+..+...+.+.|++++|.+.|+++
T Consensus       127 ~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a  206 (389)
T PRK11788        127 EELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKA  206 (389)
T ss_pred             HHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            444444411   222333333444444444444444433332211        011233344444445555555544444


Q ss_pred             CC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhH
Q 040576          312 CM---RNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLL  388 (641)
Q Consensus       312 ~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  388 (641)
                      .+   .+...+..+...|.+.|++++|.++|+++.+.+......++..+..+|...|++++|...++.+.+..  |+...
T Consensus       207 l~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~  284 (389)
T PRK11788        207 LAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY--PGADL  284 (389)
T ss_pred             HhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchH
Confidence            21   12234444445555555555555555555443211112234444444444444444444444444432  22233


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcCC--CChhHHHHHHHHHHH---cCChHHHHHHHHHHHHCCCCC
Q 040576          389 STSLLTMYAKCGVMDLARNVFDNMTE--KNVVSWNSMIMGYGM---HGQGEKALEMFMEMEKRGPTP  450 (641)
Q Consensus       389 ~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~---~~~~~~A~~~~~~m~~~g~~p  450 (641)
                      +..++..+.+.|++++|..+|+++.+  |+...++.++..+..   .|+.++++.++++|.+.++.|
T Consensus       285 ~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~  351 (389)
T PRK11788        285 LLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKR  351 (389)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhC
Confidence            34444444444444444444443332  333344443333332   224444444444444433333

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.84  E-value=1.9e-17  Score=177.97  Aligned_cols=323  Identities=8%  Similarity=-0.029  Sum_probs=245.9

Q ss_pred             HHHHHHHHHhCCChHHHHHHHhhC---CCCCchhHHHHHHHHhcCCChHHHHHHHhhcCC--CC-chHHHHHHHHHHhcC
Q 040576          226 WNSMIDGYVKNREVGFARELFDFM---PERDIFTWNSMISGYVDVGDMEAANGLFDLMPF--RD-VVSWNCMIDGYAKIG  299 (641)
Q Consensus       226 ~~~li~~~~~~g~~~~A~~~~~~m---~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~--~~-~~~~~~li~~~~~~~  299 (641)
                      ...++..+.+.|++++|+.+++..   .+.+...+..++.++...|+++.|...++++.+  |+ ...+..+...+.+.|
T Consensus        45 ~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~~~g  124 (656)
T PRK15174         45 IILFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLLKSK  124 (656)
T ss_pred             HHHHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcC
Confidence            344566777788888888887777   333344555666667778888888888888764  33 567777888888888


Q ss_pred             ChHHHHHHHHhcCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Q 040576          300 NVTSARNCFDRMCM---RNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSY  376 (641)
Q Consensus       300 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~  376 (641)
                      ++++|...|++...   .+...+..+...+...|++++|...++.+......+ ...+.. +..+...|++++|...++.
T Consensus       125 ~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~-~~a~~~-~~~l~~~g~~~eA~~~~~~  202 (656)
T PRK15174        125 QYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPR-GDMIAT-CLSFLNKSRLPEDHDLARA  202 (656)
T ss_pred             CHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCC-HHHHHH-HHHHHHcCCHHHHHHHHHH
Confidence            99999888888733   345678888888999999999999998887643222 222323 3347788999999999988


Q ss_pred             HHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHH----HHHHHHHHHHCCCC
Q 040576          377 IQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEK----ALEMFMEMEKRGPT  449 (641)
Q Consensus       377 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~----A~~~~~~m~~~g~~  449 (641)
                      +.+....++......+...+...|++++|...|++...   .+...+..+...|...|++++    |...|++..+....
T Consensus       203 ~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~  282 (656)
T PRK15174        203 LLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSD  282 (656)
T ss_pred             HHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCC
Confidence            87764334444555567788899999999999988774   356678888999999999886    79999999885322


Q ss_pred             CCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHH-HHHH
Q 040576          450 PNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPAL-WGAL  526 (641)
Q Consensus       450 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~~-~~~l  526 (641)
                       +...+..+...+...|++++|...++++..   ..|+ ...+..+..+|.+.|++++|++.++++ ...|+... +..+
T Consensus       283 -~~~a~~~lg~~l~~~g~~~eA~~~l~~al~---l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~  358 (656)
T PRK15174        283 -NVRIVTLYADALIRTGQNEKAIPLLQQSLA---THPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWNRYA  358 (656)
T ss_pred             -CHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHHHHH
Confidence             456888888999999999999999999987   3454 566777889999999999999999987 34566544 3445


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 040576          527 LSACSTHSNSELGKIVAQHLMELEPRDP  554 (641)
Q Consensus       527 ~~~~~~~g~~~~a~~~~~~~~~~~p~~~  554 (641)
                      ..++...|+.++|...|+++++..|++.
T Consensus       359 a~al~~~G~~deA~~~l~~al~~~P~~~  386 (656)
T PRK15174        359 AAALLQAGKTSEAESVFEHYIQARASHL  386 (656)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhChhhc
Confidence            6678899999999999999999998864

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.84  E-value=7.8e-17  Score=177.00  Aligned_cols=406  Identities=10%  Similarity=0.007  Sum_probs=279.9

Q ss_pred             HHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHH
Q 040576          124 CNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYS  203 (641)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~  203 (641)
                      -.-.+......|+.++|+++|. ..... -+.+...+..+...+...|++++|..+++..++.. +.+...+..+..++.
T Consensus        18 ~~d~~~ia~~~g~~~~A~~~~~-~~~~~-~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~   94 (765)
T PRK10049         18 IADWLQIALWAGQDAEVITVYN-RYRVH-MQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLA   94 (765)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHH-HHHhh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            3445667778999999999998 55542 24445568888899999999999999999998864 445677888999999


Q ss_pred             hcCCHHHHHHHHhcC---CCCCeeHHHHHHHHHHhCCChHHHHHHHhhC--CCCC-chhHHHHHHHHhcCCChHHHHHHH
Q 040576          204 VCGEVLDARKVFEDG---PVWDLVTWNSMIDGYVKNREVGFARELFDFM--PERD-IFTWNSMISGYVDVGDMEAANGLF  277 (641)
Q Consensus       204 ~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~~-~~~~~~ll~~~~~~g~~~~a~~~~  277 (641)
                      ..|++++|...+++.   .+.+.. |..+...+...|+.++|+..++++  ..|+ ...+..+..++...|..+.|+..+
T Consensus        95 ~~g~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al~~l  173 (765)
T PRK10049         95 DAGQYDEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPALGAI  173 (765)
T ss_pred             HCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHHHHH
Confidence            999999999999874   344556 888999999999999999999999  3444 445566777888899999999999


Q ss_pred             hhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCCh---HHHHHHHHHHHHC-CCCCCHH-
Q 040576          278 DLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDY---CECLRLFDRMIRG-DAKPNEA-  352 (641)
Q Consensus       278 ~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~---~~A~~~~~~m~~~-g~~p~~~-  352 (641)
                      +.+.. ++.....+ .       .+.+.....-          .+.......+++   ++|++.++.+.+. ...|+.. 
T Consensus       174 ~~~~~-~p~~~~~l-~-------~~~~~~~~r~----------~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~  234 (765)
T PRK10049        174 DDANL-TPAEKRDL-E-------ADAAAELVRL----------SFMPTRSEKERYAIADRALAQYDALEALWHDNPDATA  234 (765)
T ss_pred             HhCCC-CHHHHHHH-H-------HHHHHHHHHh----------hcccccChhHHHHHHHHHHHHHHHHHhhcccCCccch
Confidence            88775 22100000 0       0000000000          000001112223   5566666666643 1222221 


Q ss_pred             HHH----HHHHHHHccCCHHHHHHHHHHHHHcCCC-CchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCC-------hhHH
Q 040576          353 SLM----SVLTACANMGVIDIGQWIHSYIQKCRIK-PDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKN-------VVSW  420 (641)
Q Consensus       353 ~~~----~ll~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-------~~~~  420 (641)
                      .+.    ..+.++...|++++|...|+.+.+.+.+ |+ .....+..+|...|++++|+..|+++.+.+       ...+
T Consensus       235 ~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~-~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~  313 (765)
T PRK10049        235 DYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPP-WAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEEL  313 (765)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCH-HHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHH
Confidence            111    1133445557777777777777665422 22 122224567777777777777777765321       1235


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCCC-----------CCCH---HHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC
Q 040576          421 NSMIMGYGMHGQGEKALEMFMEMEKRGP-----------TPND---ATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP  486 (641)
Q Consensus       421 ~~li~~~~~~~~~~~A~~~~~~m~~~g~-----------~p~~---~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p  486 (641)
                      ..+..++...|++++|..+++++.....           .|+.   ..+..+...+...|+.++|+++++++..  ..+.
T Consensus       314 ~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~--~~P~  391 (765)
T PRK10049        314 ADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAY--NAPG  391 (765)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCC
Confidence            5566677788888888888888776521           2332   2445667788899999999999999987  2344


Q ss_pred             chHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 040576          487 KVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPG  555 (641)
Q Consensus       487 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  555 (641)
                      +...+..++..+...|++++|++.+++. ...|+ ...+..+...+...|++++|+.+++++++..|+++.
T Consensus       392 n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~~  462 (765)
T PRK10049        392 NQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDPG  462 (765)
T ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHH
Confidence            4778888999999999999999999987 44566 456677777889999999999999999999999983

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.84  E-value=4.5e-17  Score=175.02  Aligned_cols=324  Identities=9%  Similarity=-0.045  Sum_probs=265.4

Q ss_pred             hhHHHHHHHHhcCCChHHHHHHHhhcCC--C-CchHHHHHHHHHHhcCChHHHHHHHHhcCC---CCcchHHHHHHHHHH
Q 040576          255 FTWNSMISGYVDVGDMEAANGLFDLMPF--R-DVVSWNCMIDGYAKIGNVTSARNCFDRMCM---RNVVSWNILLALYVR  328 (641)
Q Consensus       255 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~  328 (641)
                      .....++..+.+.|++++|..+++....  | +......++......|++++|...|+++..   .+...|..+...+..
T Consensus        43 ~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~~  122 (656)
T PRK15174         43 QNIILFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLLK  122 (656)
T ss_pred             cCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Confidence            3455677888999999999999998864  3 355667777778889999999999999833   455678888999999


Q ss_pred             cCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHH
Q 040576          329 CKDYCECLRLFDRMIRGDAKPN-EASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARN  407 (641)
Q Consensus       329 ~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  407 (641)
                      .|++++|...++++.+.  .|+ ...+..+...+...|++++|...+..+...... +...+..+ ..+...|++++|..
T Consensus       123 ~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~  198 (656)
T PRK15174        123 SKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHD  198 (656)
T ss_pred             cCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHH
Confidence            99999999999999884  454 557778888999999999999999988776432 33334333 34788999999999


Q ss_pred             HHhhcCCC----ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHH----HHHHHHHhH
Q 040576          408 VFDNMTEK----NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLE----GWWYFDLMQ  479 (641)
Q Consensus       408 ~~~~~~~~----~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~----a~~~~~~~~  479 (641)
                      .++.+.+.    +...+..+..++...|++++|+..++++.+.... +...+..+...+...|++++    |...|+++.
T Consensus       199 ~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~-~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al  277 (656)
T PRK15174        199 LARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLD-GAALRRSLGLAYYQSGRSREAKLQAAEHWRHAL  277 (656)
T ss_pred             HHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHH
Confidence            99987652    2334455677889999999999999999986432 46677788899999999986    899999998


Q ss_pred             HhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch
Q 040576          480 RIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGP  556 (641)
Q Consensus       480 ~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  556 (641)
                      +   ..|+ ...+..+...+.+.|++++|+..+++. ...|+ ...+..+..++...|++++|...++++.+..|+++..
T Consensus       278 ~---l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~  354 (656)
T PRK15174        278 Q---FNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKW  354 (656)
T ss_pred             h---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHH
Confidence            7   4454 678889999999999999999999987 33455 5567778888999999999999999999999998877


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhhhCCCc
Q 040576          557 YVLLSNIYASEGKWDEVENLRRIMKEKELE  586 (641)
Q Consensus       557 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  586 (641)
                      +..++.++...|++++|...+++..+..+.
T Consensus       355 ~~~~a~al~~~G~~deA~~~l~~al~~~P~  384 (656)
T PRK15174        355 NRYAAAALLQAGKTSEAESVFEHYIQARAS  384 (656)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhChh
Confidence            777889999999999999999999665543

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

Probab=99.82  E-value=6e-16  Score=159.12  Aligned_cols=508  Identities=10%  Similarity=0.031  Sum_probs=353.2

Q ss_pred             ChHHHHHHHHHHHHh--CCCCChhHHHHHHHHHhhcCCChHHHHHhhhcCCCCCcccHHHHHHHH---Hc---CCCchhH
Q 040576           69 TVKEFHQIHTQLLVS--GLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQEPDAFMCNTIMKSF---LM---LNDPFGA  140 (641)
Q Consensus        69 ~~~~~~~~~~~~~~~--g~~~~~~~~~~ll~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~---~~---~g~~~~A  140 (641)
                      +...+..++..++..  ...||+.+.   +..++.+.|+.+.|+..|...-+-|+..-++++...   ..   ...+..+
T Consensus       179 dY~~al~yyk~al~inp~~~aD~rIg---ig~Cf~kl~~~~~a~~a~~ralqLdp~~v~alv~L~~~~l~~~d~~s~~~~  255 (1018)
T KOG2002|consen  179 DYRGALKYYKKALRINPACKADVRIG---IGHCFWKLGMSEKALLAFERALQLDPTCVSALVALGEVDLNFNDSDSYKKG  255 (1018)
T ss_pred             cHHHHHHHHHHHHhcCcccCCCccch---hhhHHHhccchhhHHHHHHHHHhcChhhHHHHHHHHHHHHHccchHHHHHH
Confidence            445556666664332  345666543   223667788888888888876544443333333211   11   2234455


Q ss_pred             HHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCC--ChhHHHHHHHHHHhcCCHHHHHHHHhcC
Q 040576          141 LSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFEL--DLFVRNSLIHMYSVCGEVLDARKVFEDG  218 (641)
Q Consensus       141 ~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~  218 (641)
                      +.++...-...  +.|+...+.|...+.-.|+++.+..+...+...-..-  -...|--+.++|-..|+++.|.+.|.+.
T Consensus       256 ~~ll~~ay~~n--~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s  333 (1018)
T KOG2002|consen  256 VQLLQRAYKEN--NENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMES  333 (1018)
T ss_pred             HHHHHHHHhhc--CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHH
Confidence            55555222332  4466778888888888899999999998888764211  2234677889999999999999999763


Q ss_pred             C--CCC--eeHHHHHHHHHHhCCChHHHHHHHhhC---CCCCchhHHHHHHHHhcCC----ChHHHHHHHhhcCCCC---
Q 040576          219 P--VWD--LVTWNSMIDGYVKNREVGFARELFDFM---PERDIFTWNSMISGYVDVG----DMEAANGLFDLMPFRD---  284 (641)
Q Consensus       219 ~--~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~~~~~~~~ll~~~~~~g----~~~~a~~~~~~~~~~~---  284 (641)
                      .  .+|  +..+-.+...|.+.|+++.+...|+.+   .+.+..|...+...|+..+    ..+.|..++....++.   
T Consensus       334 ~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d  413 (1018)
T KOG2002|consen  334 LKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVD  413 (1018)
T ss_pred             HccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhccccc
Confidence            3  233  334556788899999999999999998   3344567777777777665    5677777777776543   


Q ss_pred             chHHHHHHHHHHhcCChHHHHHHHHhc--------CCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHC---CCCCCH--
Q 040576          285 VVSWNCMIDGYAKIGNVTSARNCFDRM--------CMRNVVSWNILLALYVRCKDYCECLRLFDRMIRG---DAKPNE--  351 (641)
Q Consensus       285 ~~~~~~li~~~~~~~~~~~A~~~~~~~--------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---g~~p~~--  351 (641)
                      ...|-.+..++-..+-+. ++.+|...        ....+...|.+...+...|++++|...|++....   ...+|.  
T Consensus       414 ~~a~l~laql~e~~d~~~-sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~  492 (1018)
T KOG2002|consen  414 SEAWLELAQLLEQTDPWA-SLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGK  492 (1018)
T ss_pred             HHHHHHHHHHHHhcChHH-HHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccc
Confidence            555655655555443332 24444333        2345567888999999999999999999988654   122332  


Q ss_pred             ----HHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHH
Q 040576          352 ----ASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMI  424 (641)
Q Consensus       352 ----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li  424 (641)
                          .+--.+....-..++.+.|.+.|..+.+.. +.-+..|-.++.+....+...+|...+.....   .++..|+.+.
T Consensus       493 ~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh-p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G  571 (1018)
T KOG2002|consen  493 STNLTLKYNLARLLEELHDTEVAEEMYKSILKEH-PGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLG  571 (1018)
T ss_pred             cchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC-chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHH
Confidence                222334445567779999999999998864 22233344444333344778889888888774   6778888888


Q ss_pred             HHHHHcCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHh------------hccHHHHHHHHHHhHHhhCCCCchHHH
Q 040576          425 MGYGMHGQGEKALEMFMEMEKR-GPTPNDATFICVLSACTH------------AGMVLEGWWYFDLMQRIYKIEPKVEHY  491 (641)
Q Consensus       425 ~~~~~~~~~~~A~~~~~~m~~~-g~~p~~~~~~~ll~~~~~------------~g~~~~a~~~~~~~~~~~~~~p~~~~~  491 (641)
                      ..+.....+..|.+-|....+. ...+|..+...|.+.|.+            .+..+.|++.|.++.+  .-+-|...-
T Consensus       572 ~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~--~dpkN~yAA  649 (1018)
T KOG2002|consen  572 NLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLR--NDPKNMYAA  649 (1018)
T ss_pred             HHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHh--cCcchhhhc
Confidence            8999999999998877776654 223566676677775543            2456788888888877  334456777


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CCCCchHHHHHHHHHhc
Q 040576          492 GCMVDLLGRAGLMRDSEELVSKLP--MEAGPALWGALLSACSTHSNSELGKIVAQHLMELE--PRDPGPYVLLSNIYASE  567 (641)
Q Consensus       492 ~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~~~~~  567 (641)
                      +.+.-.++..|++.+|.++|.+..  ......+|..+.++|...|++..|+++|+..++..  .+++.....|+.++.+.
T Consensus       650 NGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~  729 (1018)
T KOG2002|consen  650 NGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEA  729 (1018)
T ss_pred             cchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHh
Confidence            788889999999999999999873  22355689999999999999999999999998854  45778899999999999


Q ss_pred             CChHHHHHHHHHhhhCCC
Q 040576          568 GKWDEVENLRRIMKEKEL  585 (641)
Q Consensus       568 g~~~~A~~~~~~m~~~~~  585 (641)
                      |+|.+|.+.+.......+
T Consensus       730 ~~~~eak~~ll~a~~~~p  747 (1018)
T KOG2002|consen  730 GKLQEAKEALLKARHLAP  747 (1018)
T ss_pred             hhHHHHHHHHHHHHHhCC
Confidence            999999999988855443

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.81  E-value=2.7e-15  Score=161.63  Aligned_cols=189  Identities=12%  Similarity=0.017  Sum_probs=147.9

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCCCC----hhHHHHHHHHHHHcCChHHHHHHHHHHHHCCC-----CCCHHHHHHHHHHH
Q 040576          392 LLTMYAKCGVMDLARNVFDNMTEKN----VVSWNSMIMGYGMHGQGEKALEMFMEMEKRGP-----TPNDATFICVLSAC  462 (641)
Q Consensus       392 li~~~~~~g~~~~A~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~-----~p~~~~~~~ll~~~  462 (641)
                      .+-++...|++.++++.|+.+..+.    ..+-..+..+|...+++++|+.+|+++.....     .++......|.-++
T Consensus       298 rl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~  377 (822)
T PRK14574        298 RLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSL  377 (822)
T ss_pred             HHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHH
Confidence            3446677888888888888888422    23456678888888899999999888866421     22333356788888


Q ss_pred             HhhccHHHHHHHHHHhHHhhC----------CCCc---hHHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHHHHHHHH
Q 040576          463 THAGMVLEGWWYFDLMQRIYK----------IEPK---VEHYGCMVDLLGRAGLMRDSEELVSKL--PMEAGPALWGALL  527 (641)
Q Consensus       463 ~~~g~~~~a~~~~~~~~~~~~----------~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~  527 (641)
                      ...+++++|..+++.+.+...          -.|+   ...+..++..+...|++.+|++.++++  ..+.|...+..+.
T Consensus       378 ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A  457 (822)
T PRK14574        378 NESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIALA  457 (822)
T ss_pred             HhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            889999999999988876211          0122   234455778889999999999999988  2335677888889


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          528 SACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       528 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      ..+...|.+.+|+..++.+..++|++..+...++.++...|+|.+|..+.+..
T Consensus       458 ~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l  510 (822)
T PRK14574        458 SIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDV  510 (822)
T ss_pred             HHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999988

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

Probab=99.80  E-value=4e-15  Score=153.12  Aligned_cols=518  Identities=10%  Similarity=0.052  Sum_probs=348.8

Q ss_pred             hHHHHHhhhcCC---CCCcccHHHHHHHH--HcCCCchhHHHHHHHHHHh-cCCCCCcchHHHHHHHHhcCCCchhHHHH
Q 040576          106 VSLSVLFFDGIQ---EPDAFMCNTIMKSF--LMLNDPFGALSFYYEKMMA-KFVEHNHYTFPLLGKVCAGIRSLREGKKV  179 (641)
Q Consensus       106 ~~~A~~~~~~~~---~~~~~~~~~li~~~--~~~g~~~~A~~~~~~~m~~-~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  179 (641)
                      ++.|...|...-   ++|+-.  -+.+++  ...|++..|+.+|...+.. ...+||..  ..+..++.+.|+.+.|...
T Consensus       146 ~~~A~a~F~~Vl~~sp~Nil~--LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~r--Igig~Cf~kl~~~~~a~~a  221 (1018)
T KOG2002|consen  146 MDDADAQFHFVLKQSPDNILA--LLGKARIAYNKKDYRGALKYYKKALRINPACKADVR--IGIGHCFWKLGMSEKALLA  221 (1018)
T ss_pred             HHHHHHHHHHHHhhCCcchHH--HHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCcc--chhhhHHHhccchhhHHHH
Confidence            478888888763   233322  233333  3568999999999932222 23455553  2333556788999999999


Q ss_pred             HHHHHHhCCCCChhHHHHHHHHHHhcC---CHHHHHHHHhc---CCCCCeeHHHHHHHHHHhCCChHHHHHHHhhCCCC-
Q 040576          180 HARIVKCGFELDLFVRNSLIHMYSVCG---EVLDARKVFED---GPVWDLVTWNSMIDGYVKNREVGFARELFDFMPER-  252 (641)
Q Consensus       180 ~~~~~~~g~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-  252 (641)
                      |.+..+... -++.++..|...-....   .+..+...+..   ....|+++.+.|.+.|.-.|++..+..+...+... 
T Consensus       222 ~~ralqLdp-~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t  300 (1018)
T KOG2002|consen  222 FERALQLDP-TCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKENNENPVALNHLANHFYFKKDYERVWHLAEHAIKNT  300 (1018)
T ss_pred             HHHHHhcCh-hhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhh
Confidence            999887642 23334433333322333   35556666654   34668899999999999999999999999888332 


Q ss_pred             -----CchhHHHHHHHHhcCCChHHHHHHHhhcCCCC----chHHHHHHHHHHhcCChHHHHHHHHhcCC---CCcchHH
Q 040576          253 -----DIFTWNSMISGYVDVGDMEAANGLFDLMPFRD----VVSWNCMIDGYAKIGNVTSARNCFDRMCM---RNVVSWN  320 (641)
Q Consensus       253 -----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~A~~~~~~~~~---~~~~~~~  320 (641)
                           -..+|-.+..++-..|++++|...|-+..+.+    +..+..|..+|.+.|+++.+...|+.+..   .+..+..
T Consensus       301 ~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~  380 (1018)
T KOG2002|consen  301 ENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMK  380 (1018)
T ss_pred             hhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHH
Confidence                 23568889999999999999999999887633    45567789999999999999999999833   3455666


Q ss_pred             HHHHHHHHcC----ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH----HHcCCCCchhHHHHH
Q 040576          321 ILLALYVRCK----DYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYI----QKCRIKPDVLLSTSL  392 (641)
Q Consensus       321 ~li~~~~~~g----~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~----~~~~~~~~~~~~~~l  392 (641)
                      .|...|+..+    ..+.|..++.+..+.- +-|...|..+...+.. ++......++..+    ...+..+.+...|.+
T Consensus       381 iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~-~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNv  458 (1018)
T KOG2002|consen  381 ILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQ-TDPWASLDAYGNALDILESKGKQIPPEVLNNV  458 (1018)
T ss_pred             HHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHh-cChHHHHHHHHHHHHHHHHcCCCCCHHHHHhH
Confidence            7777777775    4566777777766532 3445566655555544 4444446666544    345656788899999


Q ss_pred             HHHHHhcCCHHHHHHHHhhcCC-------CCh------hHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH-HHHHH
Q 040576          393 LTMYAKCGVMDLARNVFDNMTE-------KNV------VSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDA-TFICV  458 (641)
Q Consensus       393 i~~~~~~g~~~~A~~~~~~~~~-------~~~------~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~-~~~~l  458 (641)
                      ...+...|++..|...|.....       +|.      .+-..+...+-..++++.|.+.|....+.  .|+-+ .|..+
T Consensus       459 aslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl  536 (1018)
T KOG2002|consen  459 ASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKE--HPGYIDAYLRL  536 (1018)
T ss_pred             HHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHh
Confidence            9999999999999999987653       222      12334566667778899999999998885  45533 45555


Q ss_pred             HHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC----CCCCCHHHHHHHHHHHHh--
Q 040576          459 LSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL----PMEAGPALWGALLSACST--  532 (641)
Q Consensus       459 l~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~~~~~~~~~l~~~~~~--  532 (641)
                      +-.....+...+|...++.+..  ....++..+..+.+.+.+...+.-|.+-|+.+    ...+|+.+..+|.+.|.+  
T Consensus       537 ~~ma~~k~~~~ea~~~lk~~l~--~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l  614 (1018)
T KOG2002|consen  537 GCMARDKNNLYEASLLLKDALN--IDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQAL  614 (1018)
T ss_pred             hHHHHhccCcHHHHHHHHHHHh--cccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHh
Confidence            5344455788889888888877  33444555666777888888887777744443    344677777777775542  


Q ss_pred             ----------cCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEE-----Eee
Q 040576          533 ----------HSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLV-----HPG  597 (641)
Q Consensus       533 ----------~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~-----~~~  597 (641)
                                .+..++|++.|.++++.+|.|..+-+-++-+++..|++.+|..+|.+.++...+-.+.+-.+     ...
T Consensus       615 ~~~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~  694 (1018)
T KOG2002|consen  615 HNPSRNPEKEKKHQEKALQLYGKVLRNDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQG  694 (1018)
T ss_pred             cccccChHHHHHHHHHHHHHHHHHHhcCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHH
Confidence                      34578888888888889999988888889899999999999999999887654332222222     001


Q ss_pred             eeecc------cc-cccCCCCchhhHHHHHHHHHHHHHhhhccccc
Q 040576          598 EFASE------SI-VENCPPHRKCIVYSMLGEIGAQMKMCRRDVAS  636 (641)
Q Consensus       598 ~~~~~------~~-~~~~p~~~~~~~~~~l~~l~~~~~~~~~~~~~  636 (641)
                      .|..+      -+ .....++.+  +..-|++...+.+...+.+..
T Consensus       695 qy~~AIqmYe~~lkkf~~~~~~~--vl~~Lara~y~~~~~~eak~~  738 (1018)
T KOG2002|consen  695 QYRLAIQMYENCLKKFYKKNRSE--VLHYLARAWYEAGKLQEAKEA  738 (1018)
T ss_pred             HHHHHHHHHHHHHHHhcccCCHH--HHHHHHHHHHHhhhHHHHHHH
Confidence            11100      00 112233444  777777777777776665544

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.78  E-value=2.3e-14  Score=134.26  Aligned_cols=418  Identities=14%  Similarity=0.118  Sum_probs=258.5

Q ss_pred             ccchHHHHHHhhcCChHHHHHHHHHHHHhCCCCChhHHHHHHHHH-hhcCCChH-HHHHhhhc-----------------
Q 040576           55 DLSHPILQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKL-CTSLSSVS-LSVLFFDG-----------------  115 (641)
Q Consensus        55 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ll~~~-~~~~~~~~-~A~~~~~~-----------------  115 (641)
                      .+-+.++.. .+.+.++...-+++.|.+.|++-++.....|++-+ |..+.++. .-.+-|-.                 
T Consensus       117 ~~E~nL~km-IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~v  195 (625)
T KOG4422|consen  117 ETENNLLKM-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGAV  195 (625)
T ss_pred             cchhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccccccH
Confidence            344555544 46688899999999999999998888877777632 22222221 11222222                 


Q ss_pred             ------CCCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCC
Q 040576          116 ------IQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFE  189 (641)
Q Consensus       116 ------~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~  189 (641)
                            ..+.+..+|..||+++|+--..++|.++|+ .......+.+..+||.+|.+-.-    ....+++.+|....+.
T Consensus       196 AdL~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~k-E~~~~k~kv~~~aFN~lI~~~S~----~~~K~Lv~EMisqkm~  270 (625)
T KOG4422|consen  196 ADLLFETLPKTDETVSIMIAGLCKFSSLERARELYK-EHRAAKGKVYREAFNGLIGASSY----SVGKKLVAEMISQKMT  270 (625)
T ss_pred             HHHHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHH-HHHHhhheeeHHhhhhhhhHHHh----hccHHHHHHHHHhhcC
Confidence                  223456689999999999999999999999 77777788899999999887653    3337899999999999


Q ss_pred             CChhHHHHHHHHHHhcCCHHHHHHHHhc--------CCCCCeeHHHHHHHHHHhCCChHH-HHHHHhhC-----------
Q 040576          190 LDLFVRNSLIHMYSVCGEVLDARKVFED--------GPVWDLVTWNSMIDGYVKNREVGF-ARELFDFM-----------  249 (641)
Q Consensus       190 ~~~~~~~~li~~~~~~g~~~~A~~~~~~--------~~~~~~~~~~~li~~~~~~g~~~~-A~~~~~~m-----------  249 (641)
                      ||..|+|+++.+.++.|+++.|.+.+-+        +.+|...+|..+|..+++.++..+ |..++.++           
T Consensus       271 Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp  350 (625)
T KOG4422|consen  271 PNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKP  350 (625)
T ss_pred             CchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccC
Confidence            9999999999999999998888766532        567888899999998888887744 33444333           


Q ss_pred             -CCCCchhHHHHHHHHhcCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHH
Q 040576          250 -PERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVR  328 (641)
Q Consensus       250 -~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~  328 (641)
                       .+.|...|...+..|.+..+.+.|.++.......+               +++..-..++     ...-|..+....++
T Consensus       351 ~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~---------------N~~~ig~~~~-----~~fYyr~~~~licq  410 (625)
T KOG4422|consen  351 ITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGD---------------NWKFIGPDQH-----RNFYYRKFFDLICQ  410 (625)
T ss_pred             CCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCC---------------chhhcChHHH-----HHHHHHHHHHHHHH
Confidence             12345567778888888888888877766544211               0000000000     01123445555666


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHH
Q 040576          329 CKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNV  408 (641)
Q Consensus       329 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  408 (641)
                      ....+.-+..|+.|.-.-+-|+..+...++.+....|.++-..+++..++..|.........-+...+++..-       
T Consensus       411 ~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~-------  483 (625)
T KOG4422|consen  411 MESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKL-------  483 (625)
T ss_pred             HHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCC-------
Confidence            6666777777777766666677777777777777777777777777777766644433333333333333220       


Q ss_pred             HhhcCCCChh---HHHHHHHHHHHcCChHHH-HHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCC
Q 040576          409 FDNMTEKNVV---SWNSMIMGYGMHGQGEKA-LEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKI  484 (641)
Q Consensus       409 ~~~~~~~~~~---~~~~li~~~~~~~~~~~A-~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~  484 (641)
                           .|+..   -+.....-++  -++.++ ...-.+|.+...  .....+.+.-.+.+.|..++|.++|..+.++..-
T Consensus       484 -----hp~tp~r~Ql~~~~ak~a--ad~~e~~e~~~~R~r~~~~--~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~  554 (625)
T KOG4422|consen  484 -----HPLTPEREQLQVAFAKCA--ADIKEAYESQPIRQRAQDW--PATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNK  554 (625)
T ss_pred             -----CCCChHHHHHHHHHHHHH--HHHHHHHHhhHHHHHhccC--ChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCc
Confidence                 11111   1111111111  011111 122334444333  3344555555666777777777777777543333


Q ss_pred             CCchHHHH---HHHHHHhhcCCHHHHHHHHHhC
Q 040576          485 EPKVEHYG---CMVDLLGRAGLMRDSEELVSKL  514 (641)
Q Consensus       485 ~p~~~~~~---~li~~~~~~g~~~~A~~~~~~~  514 (641)
                      .|.....+   .+++.-.+.+....|+.+++-|
T Consensus       555 ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a  587 (625)
T KOG4422|consen  555 IPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLA  587 (625)
T ss_pred             CCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            33333333   4555556667777777777666

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.77  E-value=2.2e-14  Score=154.67  Aligned_cols=432  Identities=9%  Similarity=-0.015  Sum_probs=298.4

Q ss_pred             hhcCCChHHHHHhhhcCC--CCCcc-cHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCC-cchHHHH--HHHHhcCCCc
Q 040576          100 CTSLSSVSLSVLFFDGIQ--EPDAF-MCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHN-HYTFPLL--GKVCAGIRSL  173 (641)
Q Consensus       100 ~~~~~~~~~A~~~~~~~~--~~~~~-~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~-~~~~~~l--l~~~~~~~~~  173 (641)
                      ..+.|+++.|+..|++..  .|+.. ....++..+...|+.++|+..++ ...    .|+ ...+..+  ...+...|++
T Consensus        44 ~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~e-ka~----~p~n~~~~~llalA~ly~~~gdy  118 (822)
T PRK14574         44 RARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYE-RYQ----SSMNISSRGLASAARAYRNEKRW  118 (822)
T ss_pred             HHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHH-Hhc----cCCCCCHHHHHHHHHHHHHcCCH
Confidence            478899999999999874  34431 23388888888999999999988 443    332 2333333  4577788999


Q ss_pred             hhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCeeHHHHHHHHHHh--CCChHHHHHHHhhC--
Q 040576          174 REGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVK--NREVGFARELFDFM--  249 (641)
Q Consensus       174 ~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~--~g~~~~A~~~~~~m--  249 (641)
                      +.|.++++.+.+.. +-+...+..++..|...++.++|++.+++..+.++.....+..++..  .++..+|++.++++  
T Consensus       119 d~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~  197 (822)
T PRK14574        119 DQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVR  197 (822)
T ss_pred             HHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHH
Confidence            99999999999875 33567778888899999999999999998776555443334444444  55665699999998  


Q ss_pred             CCC-CchhHHHHHHHHhcCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHH
Q 040576          250 PER-DIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVR  328 (641)
Q Consensus       250 ~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~  328 (641)
                      ..| +...+..+..++.+.|-...|.++..+-..  ..+-......     ..+.|.+..+....++..          .
T Consensus       198 ~~P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~--~f~~~~~~~l-----~~~~~a~~vr~a~~~~~~----------~  260 (822)
T PRK14574        198 LAPTSEEVLKNHLEILQRNRIVEPALRLAKENPN--LVSAEHYRQL-----ERDAAAEQVRMAVLPTRS----------E  260 (822)
T ss_pred             hCCCCHHHHHHHHHHHHHcCCcHHHHHHHHhCcc--ccCHHHHHHH-----HHHHHHHHHhhccccccc----------c
Confidence            334 455667788888888888888887776442  1100000000     011111111111101000          0


Q ss_pred             cCC---hHHHHHHHHHHHHC-CCCCCH-HH----HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhc
Q 040576          329 CKD---YCECLRLFDRMIRG-DAKPNE-AS----LMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKC  399 (641)
Q Consensus       329 ~g~---~~~A~~~~~~m~~~-g~~p~~-~~----~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  399 (641)
                      ..+   .+.|+.-++.+... +-.|.. ..    ..-.+.++...|+..++++.++.+...+.+....+-..+.++|...
T Consensus       261 ~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~  340 (822)
T PRK14574        261 TERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDR  340 (822)
T ss_pred             hhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhc
Confidence            112   23444445554431 222322 11    2234556778888888888888888887666667778888888888


Q ss_pred             CCHHHHHHHHhhcCCC---------ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCC-----------CCC--HH-HHH
Q 040576          400 GVMDLARNVFDNMTEK---------NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGP-----------TPN--DA-TFI  456 (641)
Q Consensus       400 g~~~~A~~~~~~~~~~---------~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~-----------~p~--~~-~~~  456 (641)
                      +++++|..+|..+...         +......|.-+|...+++++|..+++++.+.-.           .||  -. .+.
T Consensus       341 ~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~  420 (822)
T PRK14574        341 RLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQT  420 (822)
T ss_pred             CCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHH
Confidence            8888888888887532         223346788888999999999999999887321           233  22 334


Q ss_pred             HHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcC
Q 040576          457 CVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG-PALWGALLSACSTHS  534 (641)
Q Consensus       457 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g  534 (641)
                      .++..+.-.|+..+|++.++++..  .-+-|......+.+.+...|.+.+|++.++.. ...|+ ..+....+.++...+
T Consensus       421 l~a~~~~~~gdl~~Ae~~le~l~~--~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~  498 (822)
T PRK14574        421 LLVQSLVALNDLPTAQKKLEDLSS--TAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQ  498 (822)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhh
Confidence            456678889999999999999977  34456888889999999999999999999876 34555 446667888889999


Q ss_pred             CHHHHHHHHHHHHhcCCCCCch
Q 040576          535 NSELGKIVAQHLMELEPRDPGP  556 (641)
Q Consensus       535 ~~~~a~~~~~~~~~~~p~~~~~  556 (641)
                      ++++|..+.+.+.+..|+++..
T Consensus       499 e~~~A~~~~~~l~~~~Pe~~~~  520 (822)
T PRK14574        499 EWHQMELLTDDVISRSPEDIPS  520 (822)
T ss_pred             hHHHHHHHHHHHHhhCCCchhH
Confidence            9999999999999999999843

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.70  E-value=1.7e-12  Score=133.23  Aligned_cols=519  Identities=10%  Similarity=0.018  Sum_probs=321.7

Q ss_pred             hhcCCChHHHHHhhhcC---CCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhH
Q 040576          100 CTSLSSVSLSVLFFDGI---QEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREG  176 (641)
Q Consensus       100 ~~~~~~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a  176 (641)
                      +++ |+.+.|.+++.++   .+.+...|.+|...|-+.|+.+.++..+-  ...+-.+-|...|..+..-....|.++.|
T Consensus       150 far-g~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~l--lAAHL~p~d~e~W~~ladls~~~~~i~qA  226 (895)
T KOG2076|consen  150 FAR-GDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWL--LAAHLNPKDYELWKRLADLSEQLGNINQA  226 (895)
T ss_pred             HHh-CCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHH--HHHhcCCCChHHHHHHHHHHHhcccHHHH
Confidence            444 9999999999987   34567889999999999999999988854  33333444666788888888899999999


Q ss_pred             HHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCe----eHHH----HHHHHHHhCCChHHHHHHHhh
Q 040576          177 KKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDL----VTWN----SMIDGYVKNREVGFARELFDF  248 (641)
Q Consensus       177 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~----~~~~----~li~~~~~~g~~~~A~~~~~~  248 (641)
                      .-.+.++++.. +++...+-.-...|-+.|+...|...|.++.+.++    .-..    .++..+...++-+.|.+.++.
T Consensus       227 ~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~  305 (895)
T KOG2076|consen  227 RYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEG  305 (895)
T ss_pred             HHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            99999999875 45555666677888899999999988887543333    2122    234566677777888888877


Q ss_pred             CCC-----CCchhHHHHHHHHhcCCChHHHHHHHhhcCC----CC---------------------------chH-HHHH
Q 040576          249 MPE-----RDIFTWNSMISGYVDVGDMEAANGLFDLMPF----RD---------------------------VVS-WNCM  291 (641)
Q Consensus       249 m~~-----~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~----~~---------------------------~~~-~~~l  291 (641)
                      ...     -+...++.++..+.+...++.|.........    +|                           ..+ +..+
T Consensus       306 ~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~i  385 (895)
T KOG2076|consen  306 ALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMI  385 (895)
T ss_pred             HHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhh
Confidence            722     3445778888888888888888776655432    11                           122 1122


Q ss_pred             HHHHHhcCChHHHHHHHHhc----CCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH
Q 040576          292 IDGYAKIGNVTSARNCFDRM----CMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVI  367 (641)
Q Consensus       292 i~~~~~~~~~~~A~~~~~~~----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~  367 (641)
                      --...+.+...+++..|-.-    ...++..|.-+..+|...|++.+|+.+|..+.....--+...|..+..+|...|..
T Consensus       386 cL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~  465 (895)
T KOG2076|consen  386 CLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEY  465 (895)
T ss_pred             hhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhH
Confidence            22223334444444433322    22345678888899999999999999999998875555677888899999999999


Q ss_pred             HHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChh------------HHHHHHHHHHHcCChHH
Q 040576          368 DIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVV------------SWNSMIMGYGMHGQGEK  435 (641)
Q Consensus       368 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~------------~~~~li~~~~~~~~~~~  435 (641)
                      +.|.+.|+.++... +.+...-..|...|.+.|+.++|.++++.+..||..            .--.....+.+.|+.++
T Consensus       466 e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~  544 (895)
T KOG2076|consen  466 EEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREE  544 (895)
T ss_pred             HHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHH
Confidence            99999999998864 445666677888899999999999999998765521            11223345566677665


Q ss_pred             HHHHHHHHHHCC----------------------CCCCHHHHHHHHHHHHhhccHHHHHHHHHHh-----HHhhCCCCc-
Q 040576          436 ALEMFMEMEKRG----------------------PTPNDATFICVLSACTHAGMVLEGWWYFDLM-----QRIYKIEPK-  487 (641)
Q Consensus       436 A~~~~~~m~~~g----------------------~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~-----~~~~~~~p~-  487 (641)
                      =+..-..|...+                      ..-.......++.+-.+.++..........-     ....++.-+ 
T Consensus       545 fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Lsidd  624 (895)
T KOG2076|consen  545 FINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLSIDD  624 (895)
T ss_pred             HHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCcHHH
Confidence            444433333211                      0111112222333333333322211111111     000122222 


Q ss_pred             -hHHHHHHHHHHhhcCCHHHHHHHHHhCC-----CCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHhc-----CCCC
Q 040576          488 -VEHYGCMVDLLGRAGLMRDSEELVSKLP-----MEAGP---ALWGALLSACSTHSNSELGKIVAQHLMEL-----EPRD  553 (641)
Q Consensus       488 -~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~p~~  553 (641)
                       -..+.-++..+++.+++++|+.++..+.     ..+..   ..-...+.++...+++..|...++.++..     +|..
T Consensus       625 wfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~~~~~q  704 (895)
T KOG2076|consen  625 WFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFYLDVYQ  704 (895)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhhhhHH
Confidence             1334456667777777777777766551     11221   11233445566677777777777776655     4544


Q ss_pred             CchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEE-------------EeeeeecccccccCCCCchhhHHHHH
Q 040576          554 PGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLV-------------HPGEFASESIVENCPPHRKCIVYSML  620 (641)
Q Consensus       554 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~-------------~~~~~~~~~~~~~~p~~~~~~~~~~l  620 (641)
                      ...|+...+...+.|+-.--.+++......+...+|....+             ++.+..-.  ...+|+++-  +--.|
T Consensus       705 ~~l~n~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra--~~~~pd~Pl--~nl~l  780 (895)
T KOG2076|consen  705 LNLWNLDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRA--FRQNPDSPL--INLCL  780 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHH--HHhCCCCcH--HHHHH
Confidence            44555444555555554444455555444444444544444             22222222  567888777  66666


Q ss_pred             HHHHHHH
Q 040576          621 GEIGAQM  627 (641)
Q Consensus       621 ~~l~~~~  627 (641)
                      |--.-++
T Consensus       781 glafih~  787 (895)
T KOG2076|consen  781 GLAFIHL  787 (895)
T ss_pred             HHHHHHH
Confidence            6544443

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

Probab=99.70  E-value=5e-12  Score=124.93  Aligned_cols=437  Identities=12%  Similarity=0.063  Sum_probs=305.5

Q ss_pred             CCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHH----HHhCCCCChhHHHHHHHHHHhcCCHHH
Q 040576          135 NDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARI----VKCGFELDLFVRNSLIHMYSVCGEVLD  210 (641)
Q Consensus       135 g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~g~~~~~~~~~~li~~~~~~g~~~~  210 (641)
                      .-++.|..+++ ..++. ++-+...|.+....=-.+|+.+...+++++-    ...|+..+...|-.=...+-+.|..-.
T Consensus       420 etYenAkkvLN-kaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~T  497 (913)
T KOG0495|consen  420 ETYENAKKVLN-KAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVIT  497 (913)
T ss_pred             HHHHHHHHHHH-HHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhh
Confidence            33344444444 33332 4444444444444334444444444444332    223444444444443444444444433


Q ss_pred             HHHHHhcC----C--CCCeeHHHHHHHHHHhCCChHHHHHHHhhC---CCCCchhHHHHHHHHhcCCChHHHHHHHhhcC
Q 040576          211 ARKVFEDG----P--VWDLVTWNSMIDGYVKNREVGFARELFDFM---PERDIFTWNSMISGYVDVGDMEAANGLFDLMP  281 (641)
Q Consensus       211 A~~~~~~~----~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  281 (641)
                      +..+....    .  +.-..+|+.-...|.+.+.++-|..+|...   .+.+...|......--..|..+.-..+++++.
T Consensus       498 cQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav  577 (913)
T KOG0495|consen  498 CQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAV  577 (913)
T ss_pred             HHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            33333221    1  111235666666666667777777776666   23344556655555566677777777777765


Q ss_pred             C--C-CchHHHHHHHHHHhcCChHHHHHHHHhcCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHH
Q 040576          282 F--R-DVVSWNCMIDGYAKIGNVTSARNCFDRMCM---RNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLM  355 (641)
Q Consensus       282 ~--~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  355 (641)
                      .  | ....|-....-+...|++..|..++....+   .+...|-+-+..-..+..++.|..+|.+...  ..|+...|.
T Consensus       578 ~~~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~m  655 (913)
T KOG0495|consen  578 EQCPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWM  655 (913)
T ss_pred             HhCCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhH
Confidence            3  2 245566666777788999999988888733   3556788888888889999999999988876  457777777


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-ChhHHHHHHHHHHHcCC
Q 040576          356 SVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE--K-NVVSWNSMIMGYGMHGQ  432 (641)
Q Consensus       356 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~~~  432 (641)
                      .-+..---.++.++|.++++..++. ++.-...|-.+.+.+-..++++.|.+.|..-.+  | .+..|-.|...--+.|+
T Consensus       656 Ks~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~  734 (913)
T KOG0495|consen  656 KSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQ  734 (913)
T ss_pred             HHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcc
Confidence            7666667788899999999888875 344466788888889999999999998887664  4 44578888888888889


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHH
Q 040576          433 GEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVS  512 (641)
Q Consensus       433 ~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  512 (641)
                      .-+|..++++..-.+++ +...|...|..-.+.|+.+.|..++.++.+  ..+.+-..|..-|.+..+.++-..+.+.++
T Consensus       735 ~~rAR~ildrarlkNPk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQ--ecp~sg~LWaEaI~le~~~~rkTks~DALk  811 (913)
T KOG0495|consen  735 LVRARSILDRARLKNPK-NALLWLESIRMELRAGNKEQAELLMAKALQ--ECPSSGLLWAEAIWLEPRPQRKTKSIDALK  811 (913)
T ss_pred             hhhHHHHHHHHHhcCCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCccchhHHHHHHhccCcccchHHHHHHH
Confidence            99999999998887644 677888889998999999999999888877  355556778888888888888888888888


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          513 KLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       513 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      +..  .|+.....+...+-....++.|...|.++...+|++..+|..+...+.+.|.-++-.+++.+-.
T Consensus       812 kce--~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~  878 (913)
T KOG0495|consen  812 KCE--HDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCE  878 (913)
T ss_pred             hcc--CCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHh
Confidence            875  5566666677777788899999999999999999999999999999999998888888888773

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

Probab=99.70  E-value=4.1e-14  Score=133.45  Aligned_cols=418  Identities=11%  Similarity=0.059  Sum_probs=222.0

Q ss_pred             hHHHHH---HHHhcCCCchhHHHHHHHHHHhCCCCChhHH-HHHHHHHHhcCCHHHHHHHHhc----CCCCCe----eHH
Q 040576          159 TFPLLG---KVCAGIRSLREGKKVHARIVKCGFELDLFVR-NSLIHMYSVCGEVLDARKVFED----GPVWDL----VTW  226 (641)
Q Consensus       159 ~~~~ll---~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~-~~li~~~~~~g~~~~A~~~~~~----~~~~~~----~~~  226 (641)
                      ||+.|.   .-|.......+|...++.+.+...-|+.... ..+.+.+.+...+.+|++.+.-    .+..+.    ...
T Consensus       200 tfsvl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil  279 (840)
T KOG2003|consen  200 TFSVLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKIL  279 (840)
T ss_pred             hHHHHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHH
Confidence            555544   3444556678899999999888877776643 3455677888899999998864    332222    234


Q ss_pred             HHHHHHHHhCCChHHHHHHHhhC--CCCCchhHHHHHHHHhcCCChHHHHHHHhhcCC----CC--------chHHHHHH
Q 040576          227 NSMIDGYVKNREVGFARELFDFM--PERDIFTWNSMISGYVDVGDMEAANGLFDLMPF----RD--------VVSWNCMI  292 (641)
Q Consensus       227 ~~li~~~~~~g~~~~A~~~~~~m--~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~----~~--------~~~~~~li  292 (641)
                      +.+.-.+++.|+++.|+..|+..  ..||..+--.++-++...|+.++..+.|.+++.    +|        ...-..|+
T Consensus       280 ~nigvtfiq~gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll  359 (840)
T KOG2003|consen  280 NNIGVTFIQAGQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLL  359 (840)
T ss_pred             hhcCeeEEecccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHH
Confidence            55555688999999999999988  567777666666677778999999999998863    11        11112222


Q ss_pred             HHHHhcCC--------hHHHHHHH---Hhc----CCCCcc---hHH----------H--------HHHHHHHcCChHHHH
Q 040576          293 DGYAKIGN--------VTSARNCF---DRM----CMRNVV---SWN----------I--------LLALYVRCKDYCECL  336 (641)
Q Consensus       293 ~~~~~~~~--------~~~A~~~~---~~~----~~~~~~---~~~----------~--------li~~~~~~g~~~~A~  336 (641)
                      .--.+...        -..|.+..   -++    ..|+-.   -|.          .        -..-|.++|+++.|+
T Consensus       360 ~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~ai  439 (840)
T KOG2003|consen  360 NEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAI  439 (840)
T ss_pred             HHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHH
Confidence            22222111        11222221   111    222211   011          1        123478899999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHc--cCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC
Q 040576          337 RLFDRMIRGDAKPNEASLMSVLTACAN--MGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE  414 (641)
Q Consensus       337 ~~~~~m~~~g~~p~~~~~~~ll~~~~~--~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  414 (641)
                      ++++-..+..-+.-...-+.+-..+.-  ..++..|.++-+...... .-+....+.-.+.-...|++++|.+.|.+...
T Consensus       440 eilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~ykeal~  518 (840)
T KOG2003|consen  440 EILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKEALN  518 (840)
T ss_pred             HHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHHHHc
Confidence            999888765433322222222222211  224455555444443322 11222222122222334566666666666655


Q ss_pred             CChhHHHHHH---HHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHH
Q 040576          415 KNVVSWNSMI---MGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHY  491 (641)
Q Consensus       415 ~~~~~~~~li---~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~  491 (641)
                      .|...-.+|.   -.+-..|+.++|++.|-++..- +..+......+.+.|....+..+|++++.....  -++-|+...
T Consensus       519 ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~s--lip~dp~il  595 (840)
T KOG2003|consen  519 NDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANS--LIPNDPAIL  595 (840)
T ss_pred             CchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc--cCCCCHHHH
Confidence            5444333322   2344556666666665554432 122344445555555555556666665555433  233335555


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 040576          492 GCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGK  569 (641)
Q Consensus       492 ~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  569 (641)
                      ..|.+.|-+.|+-..|.+..-+- . ..-+..+..-|...|....-.++++..|+++.-+.|+....-..++.++.+.|+
T Consensus       596 skl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgn  675 (840)
T KOG2003|consen  596 SKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGN  675 (840)
T ss_pred             HHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhccc
Confidence            55566666666555555543222 1 112333333344444555555555555555555555544333333444445555


Q ss_pred             hHHHHHHHHHh
Q 040576          570 WDEVENLRRIM  580 (641)
Q Consensus       570 ~~~A~~~~~~m  580 (641)
                      +..|.++++..
T Consensus       676 yqka~d~yk~~  686 (840)
T KOG2003|consen  676 YQKAFDLYKDI  686 (840)
T ss_pred             HHHHHHHHHHH
Confidence            55555555555

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

Probab=99.68  E-value=2.4e-14  Score=134.92  Aligned_cols=435  Identities=13%  Similarity=0.076  Sum_probs=299.8

Q ss_pred             HHHHcCCCchhHHHHHHHHHHhcCCCCCcchHH-HHHHHHhcCCCchhHHHHHHHHHHhCCCCC----hhHHHHHHHHHH
Q 040576          129 KSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFP-LLGKVCAGIRSLREGKKVHARIVKCGFELD----LFVRNSLIHMYS  203 (641)
Q Consensus       129 ~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~----~~~~~~li~~~~  203 (641)
                      +-|..+....+|+..|+ .+.+...-||.-... .+...+.+.+.+..|.+.+.-....-...+    ....+.+.-.+.
T Consensus       209 qqy~~ndm~~ealntye-iivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvtfi  287 (840)
T KOG2003|consen  209 QQYEANDMTAEALNTYE-IIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVTFI  287 (840)
T ss_pred             HHhhhhHHHHHHhhhhh-hhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCeeEE
Confidence            44555666788888888 777776777765432 234556677788888888877665422222    234556666678


Q ss_pred             hcCCHHHHHHHHhcCC--CCCeeHHHHHHHHHHhCCChHHHHHHHhhCCC----------------CCchhHHHHH----
Q 040576          204 VCGEVLDARKVFEDGP--VWDLVTWNSMIDGYVKNREVGFARELFDFMPE----------------RDIFTWNSMI----  261 (641)
Q Consensus       204 ~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----------------~~~~~~~~ll----  261 (641)
                      +.|.+++|+..|+...  .|+..+--.|+-++.--|+.++..+.|.+|+.                |+....+..+    
T Consensus       288 q~gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai~nd~  367 (840)
T KOG2003|consen  288 QAGQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIKNDH  367 (840)
T ss_pred             ecccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHHhhHH
Confidence            8999999999998743  34555444455555667888888888888811                2222222222    


Q ss_pred             -HHHhcCC--ChHHHH----HHHhhcCCCC-------------chHHHH--------HHHHHHhcCChHHHHHHHHhcCC
Q 040576          262 -SGYVDVG--DMEAAN----GLFDLMPFRD-------------VVSWNC--------MIDGYAKIGNVTSARNCFDRMCM  313 (641)
Q Consensus       262 -~~~~~~g--~~~~a~----~~~~~~~~~~-------------~~~~~~--------li~~~~~~~~~~~A~~~~~~~~~  313 (641)
                       .-.-+.+  +.++++    ++..-++.|+             ...+..        -..-|.+.|+++.|++++.-..+
T Consensus       368 lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieilkv~~~  447 (840)
T KOG2003|consen  368 LKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEILKVFEK  447 (840)
T ss_pred             HHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHHHHHHh
Confidence             1122221  222222    2222223343             011111        12347889999999999988866


Q ss_pred             CCcchHHHH------HHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchh
Q 040576          314 RNVVSWNIL------LALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVL  387 (641)
Q Consensus       314 ~~~~~~~~l------i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  387 (641)
                      .|..+-.+.      +.-+.--+++..|...-+...... +-+......-.......|++++|.+.+.+.....-.....
T Consensus       448 kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc~ea  526 (840)
T KOG2003|consen  448 KDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDASCTEA  526 (840)
T ss_pred             ccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHHHHH
Confidence            555433222      222222346777777776665432 2333333333334456789999999999998765443444


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 040576          388 LSTSLLTMYAKCGVMDLARNVFDNMT---EKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTH  464 (641)
Q Consensus       388 ~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~  464 (641)
                      .|| +.-.+-..|++++|++.|-++.   ..++.....+...|-...+..+|++++.+.... ++.|+....-|...|-+
T Consensus       527 lfn-iglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilskl~dlydq  604 (840)
T KOG2003|consen  527 LFN-IGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSKLADLYDQ  604 (840)
T ss_pred             HHH-hcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHHHHHhhc
Confidence            444 3445778899999999998775   367778888889999999999999998776553 34467788889999999


Q ss_pred             hccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHHHHHHHHH-HHhcCCHHHHHHH
Q 040576          465 AGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPALWGALLSA-CSTHSNSELGKIV  542 (641)
Q Consensus       465 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~-~~~~g~~~~a~~~  542 (641)
                      .|+-.+|.+.+-.--+  -++-+.++...|..-|....-+++|+.+|++. -++|+..-|..++.. +++.|++++|...
T Consensus       605 egdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgnyqka~d~  682 (840)
T KOG2003|consen  605 EGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGNYQKAFDL  682 (840)
T ss_pred             ccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhcccHHHHHHH
Confidence            9999999988765533  35567888888999999999999999999998 478999999988876 5788999999999


Q ss_pred             HHHHHhcCCCCCchHHHHHHHHHhcCC
Q 040576          543 AQHLMELEPRDPGPYVLLSNIYASEGK  569 (641)
Q Consensus       543 ~~~~~~~~p~~~~~~~~l~~~~~~~g~  569 (641)
                      |+...+..|.+...+..|..++...|.
T Consensus       683 yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  683 YKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHhCccchHHHHHHHHHhccccc
Confidence            999999999999999999999887773

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.67  E-value=3e-12  Score=120.30  Aligned_cols=416  Identities=13%  Similarity=0.088  Sum_probs=248.7

Q ss_pred             cccHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHh--cCCCchhH-HHHHHHHHHhCCCCChhHHHH
Q 040576          121 AFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCA--GIRSLREG-KKVHARIVKCGFELDLFVRNS  197 (641)
Q Consensus       121 ~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~--~~~~~~~a-~~~~~~~~~~g~~~~~~~~~~  197 (641)
                      +++=|.|+.. ..+|...++.-+|+ .|+..|+..+...-..+++.-+  ...++.-+ .+-|-.|.+.| +.+..+|  
T Consensus       116 V~~E~nL~km-IS~~EvKDs~ilY~-~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~-E~S~~sW--  190 (625)
T KOG4422|consen  116 VETENNLLKM-ISSREVKDSCILYE-RMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFG-EDSTSSW--  190 (625)
T ss_pred             hcchhHHHHH-HhhcccchhHHHHH-HHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccc-ccccccc--
Confidence            3444555543 33567777777777 7777777766665555544332  22222222 12333344444 2222222  


Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCCCCeeHHHHHHHHHHhCCChHHHHHHHhhC----CCCCchhHHHHHHHHhcCCChHHH
Q 040576          198 LIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFM----PERDIFTWNSMISGYVDVGDMEAA  273 (641)
Q Consensus       198 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~~ll~~~~~~g~~~~a  273 (641)
                            +.|++.+   ++-+..++...++..||.++|+.-..++|.+++++-    .+-+..+||.+|.+-.-..+    
T Consensus       191 ------K~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----  257 (625)
T KOG4422|consen  191 ------KSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----  257 (625)
T ss_pred             ------ccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----
Confidence                  2444433   555555666667777777777777777777777665    33455566666554322211    


Q ss_pred             HHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhc----CCCCcchHHHHHHHHHHcCChHH----HHHHHHHHHHC
Q 040576          274 NGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRM----CMRNVVSWNILLALYVRCKDYCE----CLRLFDRMIRG  345 (641)
Q Consensus       274 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~----~~~~~~~~~~li~~~~~~g~~~~----A~~~~~~m~~~  345 (641)
                                                     .++..+|    ..||..|+|+++++..+.|+++.    |++++.+|.+-
T Consensus       258 -------------------------------K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKei  306 (625)
T KOG4422|consen  258 -------------------------------KKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEI  306 (625)
T ss_pred             -------------------------------HHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHh
Confidence                                           2333333    34666666666666666666554    45667777888


Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHH-HHHHHHHHHH----cCCCC----chhHHHHHHHHHHhcCCHHHHHHHHhhcCC--
Q 040576          346 DAKPNEASLMSVLTACANMGVIDI-GQWIHSYIQK----CRIKP----DVLLSTSLLTMYAKCGVMDLARNVFDNMTE--  414 (641)
Q Consensus       346 g~~p~~~~~~~ll~~~~~~g~~~~-a~~~~~~~~~----~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--  414 (641)
                      |+.|...+|..++..+++.++..+ +..+..++..    ..++|    |...|...+..|.+..+.+-|.++-.-...  
T Consensus       307 GVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~  386 (625)
T KOG4422|consen  307 GVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGD  386 (625)
T ss_pred             CCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCC
Confidence            888888888888887777776644 2333333322    22222    455566666777777777777776655442  


Q ss_pred             ------C---ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCC
Q 040576          415 ------K---NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIE  485 (641)
Q Consensus       415 ------~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  485 (641)
                            +   ...-|..+....|+....+.-+.+|+.|.-.-+-|+..+...++++..-.|.++-.-++|..++. +|..
T Consensus       387 N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~-~ght  465 (625)
T KOG4422|consen  387 NWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKE-YGHT  465 (625)
T ss_pred             chhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHH-hhhh
Confidence                  1   12345666777777777888888888888777777888888888888888888888888887777 6655


Q ss_pred             CchHHHHHHHHHHhhcC-C--------HHH-----HHHHHH-------hC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 040576          486 PKVEHYGCMVDLLGRAG-L--------MRD-----SEELVS-------KL-PMEAGPALWGALLSACSTHSNSELGKIVA  543 (641)
Q Consensus       486 p~~~~~~~li~~~~~~g-~--------~~~-----A~~~~~-------~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  543 (641)
                      -+......+...+++.. +        +..     |..+++       ++ ..+-.+...+..+-.+.+.|..++|.+++
T Consensus       466 ~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l  545 (625)
T KOG4422|consen  466 FRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQDWPATSLNCIAILLLRAGRTQKAWEML  545 (625)
T ss_pred             hhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCChhHHHHHHHHHHHcchHHHHHHHH
Confidence            44444444444444443 1        111     111111       11 13344556666777788999999999999


Q ss_pred             HHHHhcC---CCCCc--hHHHHHHHHHhcCChHHHHHHHHHhhhCCCc
Q 040576          544 QHLMELE---PRDPG--PYVLLSNIYASEGKWDEVENLRRIMKEKELE  586 (641)
Q Consensus       544 ~~~~~~~---p~~~~--~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  586 (641)
                      ..+.+..   |..+.  +...+.+.-.+.+....|...++-|.+.+..
T Consensus       546 ~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n~~  593 (625)
T KOG4422|consen  546 GLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFNLP  593 (625)
T ss_pred             HHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCch
Confidence            9886543   33331  2234555566778888999999998766543

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

Probab=99.65  E-value=1.5e-11  Score=121.70  Aligned_cols=454  Identities=13%  Similarity=0.049  Sum_probs=361.8

Q ss_pred             hhcCCChHHHHHhhhcCC---CCCcccHHHHHHHHHcCCCchhHHHHHHHH---HHhcCCCCCcchHHHHHHHHhcCCCc
Q 040576          100 CTSLSSVSLSVLFFDGIQ---EPDAFMCNTIMKSFLMLNDPFGALSFYYEK---MMAKFVEHNHYTFPLLGKVCAGIRSL  173 (641)
Q Consensus       100 ~~~~~~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~---m~~~~~~~~~~~~~~ll~~~~~~~~~  173 (641)
                      +++..-++.|..++....   +.+...|-+--..=-.+|+.+....+..+.   +...|+..+...|..=...|-..|..
T Consensus       416 larLetYenAkkvLNkaRe~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv  495 (913)
T KOG0495|consen  416 LARLETYENAKKVLNKAREIIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSV  495 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCCh
Confidence            455566788888887653   456667766555556688888777776543   45688999999999999999999999


Q ss_pred             hhHHHHHHHHHHhCCCCC--hhHHHHHHHHHHhcCCHHHHHHHHhcC---CCCCeeHHHHHHHHHHhCCChHHHHHHHhh
Q 040576          174 REGKKVHARIVKCGFELD--LFVRNSLIHMYSVCGEVLDARKVFEDG---PVWDLVTWNSMIDGYVKNREVGFARELFDF  248 (641)
Q Consensus       174 ~~a~~~~~~~~~~g~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  248 (641)
                      -.+..+....+..|++..  ..||..--..|.+.+.++-|..+|...   .+.+...|...+..--..|..++-..+|++
T Consensus       496 ~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqk  575 (913)
T KOG0495|consen  496 ITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQK  575 (913)
T ss_pred             hhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            999999999998887543  348888889999999999999999763   355677888888777788999999999999


Q ss_pred             C---CCCCchhHHHHHHHHhcCCChHHHHHHHhhcCC--C-CchHHHHHHHHHHhcCChHHHHHHHHhc--CCCCcchHH
Q 040576          249 M---PERDIFTWNSMISGYVDVGDMEAANGLFDLMPF--R-DVVSWNCMIDGYAKIGNVTSARNCFDRM--CMRNVVSWN  320 (641)
Q Consensus       249 m---~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~A~~~~~~~--~~~~~~~~~  320 (641)
                      .   .+.....|-......-..|++..|..++..+.+  | +..+|-+-+........++.|..+|.+.  ..++...|.
T Consensus       576 av~~~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~m  655 (913)
T KOG0495|consen  576 AVEQCPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWM  655 (913)
T ss_pred             HHHhCCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhH
Confidence            8   333445555556677778999999999998875  2 3677888889999999999999999988  557777888


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhc
Q 040576          321 ILLALYVRCKDYCECLRLFDRMIRGDAKPN-EASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKC  399 (641)
Q Consensus       321 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  399 (641)
                      .-+..---.++.++|++++++.++.  -|+ ...|..+...+-+.++++.|...|..-.+. ++..+..|-.|...--+.
T Consensus       656 Ks~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~  732 (913)
T KOG0495|consen  656 KSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKD  732 (913)
T ss_pred             HHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHh
Confidence            7777777889999999999998873  455 346777777888888999988887665543 355678898999999999


Q ss_pred             CCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHH
Q 040576          400 GVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFD  476 (641)
Q Consensus       400 g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  476 (641)
                      |.+-.|..++++..-   .|...|...|..-.+.|+.+.|..+..+..+. ++.+...|..-|....+.++-......++
T Consensus       733 ~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkTks~DALk  811 (913)
T KOG0495|consen  733 GQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKTKSIDALK  811 (913)
T ss_pred             cchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccCcccchHHHHHHH
Confidence            999999999998773   46789999999999999999999999988876 34345567767776666666554444443


Q ss_pred             HhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 040576          477 LMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDP  554 (641)
Q Consensus       477 ~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  554 (641)
                      +      ..-|.++...+...+-...++++|.+.|.+. ...|| ..+|.-+...+..+|.-+.-.+++.+....+|.+.
T Consensus       812 k------ce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~~EP~hG  885 (913)
T KOG0495|consen  812 K------CEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCETAEPTHG  885 (913)
T ss_pred             h------ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCCC
Confidence            3      4456777888888999999999999999987 44555 45888888899999999999999999999999998


Q ss_pred             chHHHHHHH
Q 040576          555 GPYVLLSNI  563 (641)
Q Consensus       555 ~~~~~l~~~  563 (641)
                      ..|.....-
T Consensus       886 ~~W~avSK~  894 (913)
T KOG0495|consen  886 ELWQAVSKD  894 (913)
T ss_pred             cHHHHHhhh
Confidence            888777654

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.63  E-value=4.1e-14  Score=140.59  Aligned_cols=158  Identities=11%  Similarity=0.098  Sum_probs=82.2

Q ss_pred             ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHH-
Q 040576          416 NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTP-NDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGC-  493 (641)
Q Consensus       416 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~-  493 (641)
                      .+.+|.++..+|.-+++.+.|++.|++..+.  .| ...+|+.+..-+.....+|.|...|+....     .+..+|++ 
T Consensus       420 sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~-----~~~rhYnAw  492 (638)
T KOG1126|consen  420 SPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALG-----VDPRHYNAW  492 (638)
T ss_pred             CcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhc-----CCchhhHHH
Confidence            3455555555555555555555555555542  33 334454444445555555555555555533     33333332 


Q ss_pred             --HHHHHhhcCCHHHHHHHHHhC-CCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 040576          494 --MVDLLGRAGLMRDSEELVSKL-PMEAGPA-LWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGK  569 (641)
Q Consensus       494 --li~~~~~~g~~~~A~~~~~~~-~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  569 (641)
                        |.-.|.+.++++.|+-.|+++ .+.|... ....++..+.+.|+.++|+.+++++.-++|.|+-.-+..+.++...++
T Consensus       493 YGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~il~~~~~  572 (638)
T KOG1126|consen  493 YGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASILFSLGR  572 (638)
T ss_pred             HhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHHHHhhcc
Confidence              344455555555555555554 3344433 233334445555555555555555555555555555555555555555


Q ss_pred             hHHHHHHHHHh
Q 040576          570 WDEVENLRRIM  580 (641)
Q Consensus       570 ~~~A~~~~~~m  580 (641)
                      +++|++.++++
T Consensus       573 ~~eal~~LEeL  583 (638)
T KOG1126|consen  573 YVEALQELEEL  583 (638)
T ss_pred             hHHHHHHHHHH
Confidence            55555555555

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.63  E-value=1.1e-15  Score=148.25  Aligned_cols=256  Identities=17%  Similarity=0.173  Sum_probs=113.6

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHH-HHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhc
Q 040576          321 ILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMS-VLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKC  399 (641)
Q Consensus       321 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~-ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  399 (641)
                      .+...+.+.|++++|++++++......+|+...|.. +...+...++.+.|...++.+...+.. +...+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccc
Confidence            446777888999999999976555432455554444 444566788899999999998876532 56667777777 688


Q ss_pred             CCHHHHHHHHhhcCC--CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhhccHHHHHHHHH
Q 040576          400 GVMDLARNVFDNMTE--KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRG-PTPNDATFICVLSACTHAGMVLEGWWYFD  476 (641)
Q Consensus       400 g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  476 (641)
                      +++++|.++++...+  ++...+..++..+...++++++..+++++.... ..++...|..+...+.+.|+.++|++.++
T Consensus        91 ~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~  170 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYR  170 (280)
T ss_dssp             ---------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHH
T ss_pred             ccccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            999999998887653  566778888899999999999999999987643 34566778888889999999999999999


Q ss_pred             HhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 040576          477 LMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKLP--MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRD  553 (641)
Q Consensus       477 ~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  553 (641)
                      ++.+   ..|+ ......++..+...|+.+++.++++...  ...++..|..+..++...|+.++|...++++.+..|+|
T Consensus       171 ~al~---~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d  247 (280)
T PF13429_consen  171 KALE---LDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDD  247 (280)
T ss_dssp             HHHH---H-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-
T ss_pred             HHHH---cCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccccc
Confidence            9988   4564 7788889999999999999888877662  23455678899999999999999999999999999999


Q ss_pred             CchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          554 PGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       554 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      +.....++.++...|+.++|.+++++..
T Consensus       248 ~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  248 PLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHHHHHHHHHHT----------------
T ss_pred             cccccccccccccccccccccccccccc
Confidence            9999999999999999999999998874

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.63  E-value=1.3e-12  Score=134.14  Aligned_cols=348  Identities=15%  Similarity=0.149  Sum_probs=212.3

Q ss_pred             hCCChHHHHHHHhhC---CCCCchhHHHHHHHHhcCCChHHHHHHHhhcC---CCCchHHHHHHHHHHhcCChHHHHHHH
Q 040576          235 KNREVGFARELFDFM---PERDIFTWNSMISGYVDVGDMEAANGLFDLMP---FRDVVSWNCMIDGYAKIGNVTSARNCF  308 (641)
Q Consensus       235 ~~g~~~~A~~~~~~m---~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~  308 (641)
                      -.|+.++|.+++.++   .+.+...|.+|...|-+.|+.+++...+-.+-   ..|...|..+.+...+.|+++.|.-.|
T Consensus       151 arg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~cy  230 (895)
T KOG2076|consen  151 ARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARYCY  230 (895)
T ss_pred             HhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHHH
Confidence            347777777777777   33445677777777777777777766554332   344566777777777777777777777


Q ss_pred             HhcCCCCcchH---HHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHccCCHHHHHHHHHHHHHc-
Q 040576          309 DRMCMRNVVSW---NILLALYVRCKDYCECLRLFDRMIRGDAKPNE----ASLMSVLTACANMGVIDIGQWIHSYIQKC-  380 (641)
Q Consensus       309 ~~~~~~~~~~~---~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-  380 (641)
                      .+..+.++.-|   ---+..|.+.|+...|++-|.++.+...+.|.    .+...++..+...++-+.|.++++..... 
T Consensus       231 ~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~  310 (895)
T KOG2076|consen  231 SRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKE  310 (895)
T ss_pred             HHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhc
Confidence            77644333322   33445667777777777777777664221111    11222333444444445555555444431 


Q ss_pred             CCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC----CChhHHHHHHHHHHHcCChHHHHHHHHHHHH--CCCCCCHHH
Q 040576          381 RIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE----KNVVSWNSMIMGYGMHGQGEKALEMFMEMEK--RGPTPNDAT  454 (641)
Q Consensus       381 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~--~g~~p~~~~  454 (641)
                      +-..+...++.++.+|.+...++.|......+..    +|..-|..-     ..++     .-+.-...  .++.++...
T Consensus       311 ~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~-----~~~~-----~~~~~~~~~~~~~s~~l~v  380 (895)
T KOG2076|consen  311 KDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTD-----ERRR-----EEPNALCEVGKELSYDLRV  380 (895)
T ss_pred             cccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhh-----hhcc-----ccccccccCCCCCCccchh
Confidence            1122333444455555555555555444433321    111111000     0000     00000000  122233222


Q ss_pred             HHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC--chHHHHHHHHHHhhcCCHHHHHHHHHhCC---CCCCHHHHHHHHHH
Q 040576          455 FICVLSACTHAGMVLEGWWYFDLMQRIYKIEP--KVEHYGCMVDLLGRAGLMRDSEELVSKLP---MEAGPALWGALLSA  529 (641)
Q Consensus       455 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~~l~~~  529 (641)
                       ..+.-++.+....+....+...... ..+.|  +...|.-+.++|.+.|++.+|+.+|..+.   ...+...|..+..+
T Consensus       381 -~rl~icL~~L~~~e~~e~ll~~l~~-~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c  458 (895)
T KOG2076|consen  381 -IRLMICLVHLKERELLEALLHFLVE-DNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARC  458 (895)
T ss_pred             -HhHhhhhhcccccchHHHHHHHHHH-hcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHH
Confidence             1233334444444444444444444 44434  46788899999999999999999999882   23446689999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEE
Q 040576          530 CSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLV  594 (641)
Q Consensus       530 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~  594 (641)
                      |...|.+++|.+.|++++...|++..+-..|+.+|.+.|+.++|.+.+..|..-+....+++.|.
T Consensus       459 ~~~l~e~e~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~  523 (895)
T KOG2076|consen  459 YMELGEYEEAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWE  523 (895)
T ss_pred             HHHHhhHHHHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhcccc
Confidence            99999999999999999999999999999999999999999999999999976665666777776

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.61  E-value=8.3e-12  Score=118.76  Aligned_cols=362  Identities=11%  Similarity=0.098  Sum_probs=230.3

Q ss_pred             HHHhCCChHHHHHHHhhCCCCCchhHHHHHHHHhcCCChHHHHHHHhhcCCCC-chHHHHHHHHHHhcCChHHHHHHHHh
Q 040576          232 GYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRD-VVSWNCMIDGYAKIGNVTSARNCFDR  310 (641)
Q Consensus       232 ~~~~~g~~~~A~~~~~~m~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~A~~~~~~  310 (641)
                      .+.+.|..+.|...|...+..-+..|...+....-.-+.+.+..+.......+ ...---+..++-.....+++..-.+.
T Consensus       173 v~k~~~~~s~A~~sfv~~v~~~P~~W~AWleL~~lit~~e~~~~l~~~l~~~~h~M~~~F~~~a~~el~q~~e~~~k~e~  252 (559)
T KOG1155|consen  173 VLKELGLLSLAIDSFVEVVNRYPWFWSAWLELSELITDIEILSILVVGLPSDMHWMKKFFLKKAYQELHQHEEALQKKER  252 (559)
T ss_pred             HHHhhchHHHHHHHHHHHHhcCCcchHHHHHHHHhhchHHHHHHHHhcCcccchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455666666666666543333334443433333333444333332222211 11111223334444455555444444


Q ss_pred             cCC---CC-cchHHHHHHHHHHcCChHHHHHHHHHHHHCCC-C-CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC
Q 040576          311 MCM---RN-VVSWNILLALYVRCKDYCECLRLFDRMIRGDA-K-PNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKP  384 (641)
Q Consensus       311 ~~~---~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  384 (641)
                      ...   ++ ...-+....+.-...|+++|+.+|+++.+... + -|..+|+.++-.-.....+.    ++..-.-.--+.
T Consensus       253 l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs----~LA~~v~~idKy  328 (559)
T KOG1155|consen  253 LSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLS----YLAQNVSNIDKY  328 (559)
T ss_pred             HHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHH----HHHHHHHHhccC
Confidence            321   12 22222333444566778888888888877521 1 14456666654322211111    111111000122


Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcCCC---ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 040576          385 DVLLSTSLLTMYAKCGVMDLARNVFDNMTEK---NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSA  461 (641)
Q Consensus       385 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  461 (641)
                      -+.|...+.+-|.-.++.++|...|++..+-   -...|+.|..-|...++...|++-+++..+-... |-..|..|.++
T Consensus       329 R~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~-DyRAWYGLGQa  407 (559)
T KOG1155|consen  329 RPETCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPR-DYRAWYGLGQA  407 (559)
T ss_pred             CccceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCch-hHHHHhhhhHH
Confidence            3456666778888888999999999988863   3467999999999999999999999999886422 67788899999


Q ss_pred             HHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHH
Q 040576          462 CTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKLP--MEAGPALWGALLSACSTHSNSEL  538 (641)
Q Consensus       462 ~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~  538 (641)
                      |.-.+...-|+-+|+++..   ++|+ ...|.+|.++|.+.++.++|++.|...-  .+-+...+..|...+.+.++.++
T Consensus       408 Yeim~Mh~YaLyYfqkA~~---~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~e  484 (559)
T KOG1155|consen  408 YEIMKMHFYALYYFQKALE---LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNE  484 (559)
T ss_pred             HHHhcchHHHHHHHHHHHh---cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHH
Confidence            9999999999999999977   5554 7889999999999999999999999872  23345778889999999999999


Q ss_pred             HHHHHHHHHh-------cCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCC
Q 040576          539 GKIVAQHLME-------LEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPH  611 (641)
Q Consensus       539 a~~~~~~~~~-------~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~  611 (641)
                      |...|++.++       .+|.-..+...|+.-+.+.+++++|..+..+.                        ..-+++.
T Consensus       485 Aa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~------------------------~~~~~e~  540 (559)
T KOG1155|consen  485 AAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLV------------------------LKGETEC  540 (559)
T ss_pred             HHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHH------------------------hcCCchH
Confidence            9999998876       33433445555777788999999999888776                        3335677


Q ss_pred             chhhHHHHHHHHHHHH
Q 040576          612 RKCIVYSMLGEIGAQM  627 (641)
Q Consensus       612 ~~~~~~~~l~~l~~~~  627 (641)
                      ++  ...+|..+...+
T Consensus       541 ee--ak~LlReir~~~  554 (559)
T KOG1155|consen  541 EE--AKALLREIRKIQ  554 (559)
T ss_pred             HH--HHHHHHHHHHhc
Confidence            77  666666655443

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.61  E-value=1.5e-11  Score=120.08  Aligned_cols=279  Identities=11%  Similarity=0.035  Sum_probs=224.2

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 040576          317 VSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMY  396 (641)
Q Consensus       317 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  396 (641)
                      ........-+...+++.+..++++...+. .++....+..-|.++...|+..+-..+-..+.+. .|....+|-++.--|
T Consensus       245 dll~~~ad~~y~~c~f~~c~kit~~lle~-dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YY  322 (611)
T KOG1173|consen  245 DLLAEKADRLYYGCRFKECLKITEELLEK-DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYY  322 (611)
T ss_pred             HHHHHHHHHHHHcChHHHHHHHhHHHHhh-CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHH
Confidence            33444555677889999999999998874 3445555555566778888877777776677765 356778899999889


Q ss_pred             HhcCCHHHHHHHHhhcCCC---ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHH
Q 040576          397 AKCGVMDLARNVFDNMTEK---NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWW  473 (641)
Q Consensus       397 ~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~  473 (641)
                      ...|+.++|++.|.+...-   -...|-....+|.-.|..|+|+..+...-+. ++-....+..+.--|.+.++.+.|.+
T Consensus       323 l~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe~  401 (611)
T KOG1173|consen  323 LMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAEK  401 (611)
T ss_pred             HHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHHH
Confidence            9999999999999987743   3468999999999999999999999887764 12222334445666888999999999


Q ss_pred             HHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhCC--------CCC-CHHHHHHHHHHHHhcCCHHHHHHHH
Q 040576          474 YFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKLP--------MEA-GPALWGALLSACSTHSNSELGKIVA  543 (641)
Q Consensus       474 ~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~--------~~~-~~~~~~~l~~~~~~~g~~~~a~~~~  543 (641)
                      +|.++..   +.|+ +..++-+.-.....+.+.+|..+|+...        ..+ -..+++.|+.+|++.+.+++|+..+
T Consensus       402 Ff~~A~a---i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~  478 (611)
T KOG1173|consen  402 FFKQALA---IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYY  478 (611)
T ss_pred             HHHHHHh---cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHH
Confidence            9999866   6565 6677777777778899999999988651        112 2456888999999999999999999


Q ss_pred             HHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHH
Q 040576          544 QHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEI  623 (641)
Q Consensus       544 ~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l  623 (641)
                      ++++.+.|.++.+|..++-+|...|+++.|++.+.+.                        .-+.|++.-  +-++|+.-
T Consensus       479 q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKa------------------------L~l~p~n~~--~~~lL~~a  532 (611)
T KOG1173|consen  479 QKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKA------------------------LALKPDNIF--ISELLKLA  532 (611)
T ss_pred             HHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHH------------------------HhcCCccHH--HHHHHHHH
Confidence            9999999999999999999999999999999999998                        788899999  88999876


Q ss_pred             HHHH
Q 040576          624 GAQM  627 (641)
Q Consensus       624 ~~~~  627 (641)
                      ....
T Consensus       533 ie~~  536 (611)
T KOG1173|consen  533 IEDS  536 (611)
T ss_pred             HHhh
Confidence            6553

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.58  E-value=1.4e-12  Score=132.42  Aligned_cols=273  Identities=9%  Similarity=0.041  Sum_probs=155.4

Q ss_pred             cCChHHHHHHHHhcCCC--Ccc-hHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHH--HHHHHHHccCCHHHHHH
Q 040576          298 IGNVTSARNCFDRMCMR--NVV-SWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLM--SVLTACANMGVIDIGQW  372 (641)
Q Consensus       298 ~~~~~~A~~~~~~~~~~--~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~--~ll~~~~~~g~~~~a~~  372 (641)
                      .|+++.|.+.+......  ++. .|.....+..+.|+++.|.+.+.++.+  ..|+.....  .....+...|+++.|..
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 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAE--LADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            57777777766665332  122 222223444667777777777777765  334443222  22445666677777777


Q ss_pred             HHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCC---h--------hHHHHHHHHHHHcCChHHHHHHHH
Q 040576          373 IHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKN---V--------VSWNSMIMGYGMHGQGEKALEMFM  441 (641)
Q Consensus       373 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~--------~~~~~li~~~~~~~~~~~A~~~~~  441 (641)
                      .++.+.+.. +-+..+...+...|.+.|++++|.+++..+.+..   .        .+|..++.......+.+...++|+
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            777776654 4455666666777777777777776666665421   1        122233333333344455555555


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-
Q 040576          442 EMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG-  519 (641)
Q Consensus       442 ~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~-  519 (641)
                      .+.+. .+.++.....+..++...|+.++|.+.+++..+   ..|+....  ++.+....++.+++++.+++. ...|+ 
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            55332 233555666666666677777777777766655   23333221  122233446666666666655 22333 


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          520 PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       520 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      +.....+...|...+++++|...|+++.+..|++. .+..++.++.+.|+.++|.+.+++.
T Consensus       328 ~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~-~~~~La~~~~~~g~~~~A~~~~~~~  387 (398)
T PRK10747        328 PLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAY-DYAWLADALDRLHKPEEAAAMRRDG  387 (398)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33455666667777777777777777777666653 4556677777777777776666654

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.57  E-value=1.6e-11  Score=117.66  Aligned_cols=215  Identities=17%  Similarity=0.097  Sum_probs=173.2

Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHH
Q 040576          361 CANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKAL  437 (641)
Q Consensus       361 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~  437 (641)
                      +.-.|+.-.+..-|+..++....+ ...|--+..+|....+.++-.+.|+...+   .|..+|..-...+.-.+++++|.
T Consensus       336 ~fL~g~~~~a~~d~~~~I~l~~~~-~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~  414 (606)
T KOG0547|consen  336 HFLKGDSLGAQEDFDAAIKLDPAF-NSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAI  414 (606)
T ss_pred             hhhcCCchhhhhhHHHHHhcCccc-chHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHH
Confidence            445678888888888888875333 33366677889999999999999998875   56778888888888899999999


Q ss_pred             HHHHHHHHCCCCCC-HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-C
Q 040576          438 EMFMEMEKRGPTPN-DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-P  515 (641)
Q Consensus       438 ~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~  515 (641)
                      .-|++.+..  .|+ ...|..+--+..+.+.++++...|++.++  .++--++.|+.....+...+++++|.+.|+.. .
T Consensus       415 aDF~Kai~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk--kFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  415 ADFQKAISL--DPENAYAYIQLCCALYRQHKIAESMKTFEEAKK--KFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHHHhhc--ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            999999875  444 44677777777789999999999999988  45555788999999999999999999999976 3


Q ss_pred             CCCC---------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          516 MEAG---------PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       516 ~~~~---------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      ..|.         +.+-..++-. .=.+++..|+.+++++++++|....+|..|+..-...|+.++|+++|++..
T Consensus       491 LE~~~~~~~v~~~plV~Ka~l~~-qwk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  491 LEPREHLIIVNAAPLVHKALLVL-QWKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             hccccccccccchhhhhhhHhhh-chhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            3333         2222223222 234899999999999999999999999999999999999999999999863

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.57  E-value=1.7e-14  Score=139.88  Aligned_cols=251  Identities=12%  Similarity=0.092  Sum_probs=119.0

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcC-CCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC---ChhHHHHHHHHHHHcC
Q 040576          356 SVLTACANMGVIDIGQWIHSYIQKCR-IKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEK---NVVSWNSMIMGYGMHG  431 (641)
Q Consensus       356 ~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~  431 (641)
                      .+...+.+.|++++|.+++....... .+.+...+..+.......++++.|...++++...   +...+..++.. ...+
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKANPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccc
Confidence            45777889999999999996655444 3456677777888888899999999999999863   34567777777 6899


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHH
Q 040576          432 QGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELV  511 (641)
Q Consensus       432 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  511 (641)
                      ++++|.+++.+..+.  .+++..+..++..+...++++++..+++.+......+.+...|..+...+.+.|+.++|++.+
T Consensus        92 ~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~  169 (280)
T PF13429_consen   92 DPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDY  169 (280)
T ss_dssp             ----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHH
T ss_pred             ccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            999999999887665  356667778888899999999999999998763445667888999999999999999999999


Q ss_pred             HhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccC
Q 040576          512 SKL-PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAV  589 (641)
Q Consensus       512 ~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~  589 (641)
                      ++. ...|+ ......++..+...|+.+++..+++...+..|+++..+..++.+|...|+.++|+.++++.         
T Consensus       170 ~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~---------  240 (280)
T PF13429_consen  170 RKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKA---------  240 (280)
T ss_dssp             HHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHH---------
T ss_pred             HHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccc---------
Confidence            987 44565 6678899999999999999999999999988999999999999999999999999999998         


Q ss_pred             ceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhhcccc
Q 040576          590 GSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRRDVA  635 (641)
Q Consensus       590 ~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~~~~  635 (641)
                                     .+.+|+|..  +...++.+..+.|+..++..
T Consensus       241 ---------------~~~~p~d~~--~~~~~a~~l~~~g~~~~A~~  269 (280)
T PF13429_consen  241 ---------------LKLNPDDPL--WLLAYADALEQAGRKDEALR  269 (280)
T ss_dssp             ---------------HHHSTT-HH--HHHHHHHHHT----------
T ss_pred             ---------------ccccccccc--cccccccccccccccccccc
Confidence                           778899999  99999999999998887754

>TIGR00540 hemY_coli hemY protein

Probab=99.56  E-value=2.6e-12  Score=131.18  Aligned_cols=279  Identities=11%  Similarity=0.014  Sum_probs=169.2

Q ss_pred             HHcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHH
Q 040576          327 VRCKDYCECLRLFDRMIRGDAKPNE-ASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLA  405 (641)
Q Consensus       327 ~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  405 (641)
                      ...|+++.|.+.+.+..+.  .|+. ..+.....+....|+.+.+..++....+..-.+...+.......+...|+++.|
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            3567777777777766553  3433 233344455666777777777777766543122222333346667777888888


Q ss_pred             HHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHH-HHH---HHHhhccHHHHHHHHHHh
Q 040576          406 RNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFIC-VLS---ACTHAGMVLEGWWYFDLM  478 (641)
Q Consensus       406 ~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~-ll~---~~~~~g~~~~a~~~~~~~  478 (641)
                      ...++.+.+   .+...+..+...+.+.|++++|.+++.++.+.++. +...+.. -..   .....+..+++.+.+..+
T Consensus       173 l~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~  251 (409)
T TIGR00540       173 RHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLNW  251 (409)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            877777764   24556777777788888888888888888777643 3232211 111   112223333333344444


Q ss_pred             HHhh--CCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHH---HHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 040576          479 QRIY--KIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPAL---WGALLSACSTHSNSELGKIVAQHLMELEPR  552 (641)
Q Consensus       479 ~~~~--~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~~---~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  552 (641)
                      .+..  ..+.+...+..++..+...|+.++|.+.+++. ...|+...   ...........++.+.+...++++.+..|+
T Consensus       252 ~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~  331 (409)
T TIGR00540       252 WKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDD  331 (409)
T ss_pred             HHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCC
Confidence            4311  01125677777778888888888888888776 33444432   111112233456777788888888888888


Q ss_pred             CC--chHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhh
Q 040576          553 DP--GPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMC  630 (641)
Q Consensus       553 ~~--~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~  630 (641)
                      ++  .....+++++.+.|+|++|.+.+++...                      .+.+|+++.   +..|+.+..++++.
T Consensus       332 ~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a----------------------~~~~p~~~~---~~~La~ll~~~g~~  386 (409)
T TIGR00540       332 KPKCCINRALGQLLMKHGEFIEAADAFKNVAA----------------------CKEQLDAND---LAMAADAFDQAGDK  386 (409)
T ss_pred             ChhHHHHHHHHHHHHHcccHHHHHHHHHHhHH----------------------hhcCCCHHH---HHHHHHHHHHcCCH
Confidence            88  7777888888888888888888884211                      345565544   44777777777665


Q ss_pred             hcc
Q 040576          631 RRD  633 (641)
Q Consensus       631 ~~~  633 (641)
                      .++
T Consensus       387 ~~A  389 (409)
T TIGR00540       387 AEA  389 (409)
T ss_pred             HHH
Confidence            443

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.

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.56  E-value=5.6e-12  Score=120.64  Aligned_cols=211  Identities=17%  Similarity=0.142  Sum_probs=173.6

Q ss_pred             HHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHH
Q 040576          395 MYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEG  471 (641)
Q Consensus       395 ~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a  471 (641)
                      .+.-+|+.-.|..-|+...+   .+...|--+...|....+.++-...|.+..+.+.. |+.+|..-.....-.+++++|
T Consensus       335 F~fL~g~~~~a~~d~~~~I~l~~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A  413 (606)
T KOG0547|consen  335 FHFLKGDSLGAQEDFDAAIKLDPAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEA  413 (606)
T ss_pred             hhhhcCCchhhhhhHHHHHhcCcccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHH
Confidence            34557888888888888775   23334888889999999999999999999886533 667888888888888999999


Q ss_pred             HHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040576          472 WWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL--PMEAGPALWGALLSACSTHSNSELGKIVAQHLME  548 (641)
Q Consensus       472 ~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  548 (641)
                      ..=|++.+.   +.|+ +..|-.+.-+..|.+++++++..|++.  ..+..+..|+.....+...++++.|.+.|+++++
T Consensus       414 ~aDF~Kai~---L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  414 IADFQKAIS---LDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKKFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHHHHhh---cChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            999999987   6665 566777777788999999999999987  3444577888899999999999999999999999


Q ss_pred             cCCC------CCchHHHHHHHHH-hcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHH
Q 040576          549 LEPR------DPGPYVLLSNIYA-SEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLG  621 (641)
Q Consensus       549 ~~p~------~~~~~~~l~~~~~-~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~  621 (641)
                      ++|.      ++..+..-+-+.. =.+++..|.+++++.                        .+++|.++.  .|+.|+
T Consensus       491 LE~~~~~~~v~~~plV~Ka~l~~qwk~d~~~a~~Ll~KA------------------------~e~Dpkce~--A~~tla  544 (606)
T KOG0547|consen  491 LEPREHLIIVNAAPLVHKALLVLQWKEDINQAENLLRKA------------------------IELDPKCEQ--AYETLA  544 (606)
T ss_pred             hccccccccccchhhhhhhHhhhchhhhHHHHHHHHHHH------------------------HccCchHHH--HHHHHH
Confidence            9998      6666555444333 238899999999998                        889999999  999999


Q ss_pred             HHHHHHHhhhcccc
Q 040576          622 EIGAQMKMCRRDVA  635 (641)
Q Consensus       622 ~l~~~~~~~~~~~~  635 (641)
                      .+.-++++..++++
T Consensus       545 q~~lQ~~~i~eAie  558 (606)
T KOG0547|consen  545 QFELQRGKIDEAIE  558 (606)
T ss_pred             HHHHHHhhHHHHHH
Confidence            99999988887764

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.55  E-value=1.1e-11  Score=125.82  Aligned_cols=278  Identities=10%  Similarity=0.005  Sum_probs=217.8

Q ss_pred             cCCChHHHHHHHhhcCCCC--chHHHHH-HHHHHhcCChHHHHHHHHhcCC--CCcchHH--HHHHHHHHcCChHHHHHH
Q 040576          266 DVGDMEAANGLFDLMPFRD--VVSWNCM-IDGYAKIGNVTSARNCFDRMCM--RNVVSWN--ILLALYVRCKDYCECLRL  338 (641)
Q Consensus       266 ~~g~~~~a~~~~~~~~~~~--~~~~~~l-i~~~~~~~~~~~A~~~~~~~~~--~~~~~~~--~li~~~~~~g~~~~A~~~  338 (641)
                      ..|+++.|.+......+..  +..+..+ .....+.|+++.|.+.|.++.+  |+...+.  .....+...|++++|.+.
T Consensus        96 ~eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~  175 (398)
T PRK10747         96 AEGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHG  175 (398)
T ss_pred             hCCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHH
Confidence            3799999999988776532  3333333 4445889999999999999844  3332222  336788999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchh-------HHHHHHHHHHhcCCHHHHHHHHhh
Q 040576          339 FDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVL-------LSTSLLTMYAKCGVMDLARNVFDN  411 (641)
Q Consensus       339 ~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-------~~~~li~~~~~~g~~~~A~~~~~~  411 (641)
                      ++++.+.. +-+......+...|.+.|+++.+..++..+.+.+..++..       .|..++.......+.+...++++.
T Consensus       176 l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~  254 (398)
T PRK10747        176 VDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKN  254 (398)
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHh
Confidence            99998854 3345678888899999999999999999999987553321       333344444455667888888888


Q ss_pred             cCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCch
Q 040576          412 MTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKV  488 (641)
Q Consensus       412 ~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~  488 (641)
                      +++   .++.....+..++...|+.++|..++++..+.  .|+....  ++.+....++.+++.+..+...+  ..+-|.
T Consensus       255 lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk--~~P~~~  328 (398)
T PRK10747        255 QSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIK--QHGDTP  328 (398)
T ss_pred             CCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHh--hCCCCH
Confidence            874   57788899999999999999999999999884  4454322  33344456999999999999987  233446


Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 040576          489 EHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPALWGALLSACSTHSNSELGKIVAQHLMELE  550 (641)
Q Consensus       489 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  550 (641)
                      ..+.++...+.+.|++++|.+.|++. ...|+...+..+...+.+.|+.++|..++++.+.+.
T Consensus       329 ~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~  391 (398)
T PRK10747        329 LLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAAMRRDGLMLT  391 (398)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence            67889999999999999999999987 567999999999999999999999999999988754

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.53  E-value=1.7e-12  Score=129.21  Aligned_cols=273  Identities=14%  Similarity=0.051  Sum_probs=208.4

Q ss_pred             ChHHHHHHHHhcCC--CCc-chHHHHHHHHHHcCChHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHccCCHHHHHHHH
Q 040576          300 NVTSARNCFDRMCM--RNV-VSWNILLALYVRCKDYCECLRLFDRMIRGD--AKPNEASLMSVLTACANMGVIDIGQWIH  374 (641)
Q Consensus       300 ~~~~A~~~~~~~~~--~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~p~~~~~~~ll~~~~~~g~~~~a~~~~  374 (641)
                      +..+|...|...+.  .|. .....+.++|...+++++|.++|+...+..  ..-+...|.+.+..+-+    +-+..++
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            45677778877532  233 334567788999999999999999887732  11244566666643321    1222222


Q ss_pred             -HHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC---ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC
Q 040576          375 -SYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEK---NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTP  450 (641)
Q Consensus       375 -~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p  450 (641)
                       +.+.+. -+..+.+|.++.++|.-.++.+.|++.|++...-   ...+|+.+..=+.....+|.|...|+.....  .|
T Consensus       410 aq~Li~~-~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~--~~  486 (638)
T KOG1126|consen  410 AQDLIDT-DPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGV--DP  486 (638)
T ss_pred             HHHHHhh-CCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcC--Cc
Confidence             222332 2556889999999999999999999999998863   4578888888888999999999999988753  44


Q ss_pred             CH-HHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHHHHHHH
Q 040576          451 ND-ATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-PME-AGPALWGAL  526 (641)
Q Consensus       451 ~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l  526 (641)
                      .. -.|..+...|.+.++++.|.-.|+++..   +.|. ......+...+-+.|+.++|+++++++ ..+ .++..---.
T Consensus       487 rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~---INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~  563 (638)
T KOG1126|consen  487 RHYNAWYGLGTVYLKQEKLEFAEFHFQKAVE---INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHR  563 (638)
T ss_pred             hhhHHHHhhhhheeccchhhHHHHHHHhhhc---CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHH
Confidence            33 3666788889999999999999999977   7776 455667788899999999999999997 223 334444445


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          527 LSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       527 ~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      +..+...+++++|...++++.++-|++...|..++.+|-+.|+.+.|+.-+.-|.+
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~  619 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALD  619 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhc
Confidence            66677889999999999999999999999999999999999999999998888843

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.53  E-value=7.3e-10  Score=105.92  Aligned_cols=472  Identities=13%  Similarity=0.073  Sum_probs=331.7

Q ss_pred             cCCChHHHHHhhhcC---CCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcc-hHHHHHHHHhcCCCchhHH
Q 040576          102 SLSSVSLSVLFFDGI---QEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHY-TFPLLGKVCAGIRSLREGK  177 (641)
Q Consensus       102 ~~~~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~  177 (641)
                      .++++..|+.+|+..   ...+...|-..+..=.++.++..|..+++ .....  -|-+. .|-..+..=-..|++..|+
T Consensus        85 sq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~d-RAvt~--lPRVdqlWyKY~ymEE~LgNi~gaR  161 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWD-RAVTI--LPRVDQLWYKYIYMEEMLGNIAGAR  161 (677)
T ss_pred             hHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHH-HHHHh--cchHHHHHHHHHHHHHHhcccHHHH
Confidence            467788999999976   45677788888888888889999999988 44332  23222 2333333344568999999


Q ss_pred             HHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhc--CCCCCeeHHHHHHHHHHhCCChHHHHHHHhhCCC--CC
Q 040576          178 KVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFED--GPVWDLVTWNSMIDGYVKNREVGFARELFDFMPE--RD  253 (641)
Q Consensus       178 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~--~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~~  253 (641)
                      ++|+.-.+  ..|+...|++.|+.-.+-..++.|..++++  +..|++.+|--...---+.|+...|..+|+..++  .|
T Consensus       162 qiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~  239 (677)
T KOG1915|consen  162 QIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGD  239 (677)
T ss_pred             HHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhh
Confidence            99998876  479999999999999999999999999998  5678999998888888899999999999988722  22


Q ss_pred             c----hhHHHHHHHHhcCCChHHHHHHHhhcCC--C-C--chHHHHHHHHHHhcCC---hHHHHHH-----HHhcCCCCc
Q 040576          254 I----FTWNSMISGYVDVGDMEAANGLFDLMPF--R-D--VVSWNCMIDGYAKIGN---VTSARNC-----FDRMCMRNV  316 (641)
Q Consensus       254 ~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~--~-~--~~~~~~li~~~~~~~~---~~~A~~~-----~~~~~~~~~  316 (641)
                      .    ..+.+...--.+...++.|.-+|.-.+.  | +  ...|..+...--+-|+   +++++--     ++.+...|+
T Consensus       240 d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~np  319 (677)
T KOG1915|consen  240 DEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKNP  319 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhCC
Confidence            2    2333333333455667778877776653  1 2  3445555544444444   4444332     233344444


Q ss_pred             ---chHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHH---HccCCHHHHHHHHHHHHHcCCC
Q 040576          317 ---VSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNE-------ASLMSVLTAC---ANMGVIDIGQWIHSYIQKCRIK  383 (641)
Q Consensus       317 ---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-------~~~~~ll~~~---~~~g~~~~a~~~~~~~~~~~~~  383 (641)
                         .+|--.++.-...|+.+...++|++.... ++|-.       ..|..+=.+|   ....+.+.+.++++..++. ++
T Consensus       320 ~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l-IP  397 (677)
T KOG1915|consen  320 YNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL-IP  397 (677)
T ss_pred             CCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-cC
Confidence               45666677777889999999999999874 56632       1222222222   3467899999999999883 45


Q ss_pred             CchhHHHHHHHHHH----hcCCHHHHHHHHhhcCC--CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 040576          384 PDVLLSTSLLTMYA----KCGVMDLARNVFDNMTE--KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFIC  457 (641)
Q Consensus       384 ~~~~~~~~li~~~~----~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~  457 (641)
                      ....++..+=-+|+    ++.++..|.+++.....  |-...|..-|..-.+.+++|.+..+|++..+-++. |..++..
T Consensus       398 HkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe-~c~~W~k  476 (677)
T KOG1915|consen  398 HKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPE-NCYAWSK  476 (677)
T ss_pred             cccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChH-hhHHHHH
Confidence            56666665544554    67899999999988773  77788888898889999999999999999997533 6677877


Q ss_pred             HHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHH-----
Q 040576          458 VLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPALWGALLSACS-----  531 (641)
Q Consensus       458 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~-----  531 (641)
                      ....-...|+.+.|..+|+.+.....+......|.+.|+.=...|.++.|..+++++ ...+...+|.++..--.     
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            777777889999999999999873333344567778888888999999999999987 33345557776665432     


Q ss_pred             hcC-----------CHHHHHHHHHHHHhc----CCCCC--chHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          532 THS-----------NSELGKIVAQHLMEL----EPRDP--GPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       532 ~~g-----------~~~~a~~~~~~~~~~----~p~~~--~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      ..+           ++..|..+|+++...    +|...  ..+...-+.=...|...+...+-..|.
T Consensus       557 ~~~~~~~~~e~~~~~~~~AR~iferAn~~~k~~~~KeeR~~LLEaw~~~E~~~G~~~d~~~V~s~mP  623 (677)
T KOG1915|consen  557 QEDEDLAELEITDENIKRARKIFERANTYLKESTPKEERLMLLEAWKNMEETFGTEGDVERVQSKMP  623 (677)
T ss_pred             ccccchhhhhcchhHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCchhhHHHHHHhcc
Confidence            333           577889999988653    23221  122223333345566666666666663

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.53  E-value=1.9e-11  Score=116.36  Aligned_cols=253  Identities=13%  Similarity=0.069  Sum_probs=115.2

Q ss_pred             HHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCC--CchhHHHHHHHHHHhcCC
Q 040576          324 ALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIK--PDVLLSTSLLTMYAKCGV  401 (641)
Q Consensus       324 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~  401 (641)
                      .++......++++.-.+.....|++-+...-+....+.....++++|+.+|+++.+...-  .|..+|+.++-.-..+.+
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~sk  314 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSK  314 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHH
Confidence            344444455555555555555444444333333333444455555555555555554210  133444433322211111


Q ss_pred             HHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHh
Q 040576          402 MDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRI  481 (641)
Q Consensus       402 ~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  481 (641)
                      +.---...-.+-+--+.|...+..-|.-.++.++|...|++..+.+.. ....++.+..-|....+...|++-++.+.+ 
T Consensus       315 Ls~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd-  392 (559)
T KOG1155|consen  315 LSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVD-  392 (559)
T ss_pred             HHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHh-
Confidence            111111111122223334444444455555555555555555543211 223344444445555555555555555544 


Q ss_pred             hCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHH
Q 040576          482 YKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYV  558 (641)
Q Consensus       482 ~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  558 (641)
                        +.| |-..|-.|..+|.-.+...-|+-+|++. ..+| |...|.+|..+|.+.++.++|+..|++++....-+...|.
T Consensus       393 --i~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~  470 (559)
T KOG1155|consen  393 --INPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALV  470 (559)
T ss_pred             --cCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHH
Confidence              222 3444555555555555555555555554 2222 2335555555555555555555555555555444444555


Q ss_pred             HHHHHHHhcCChHHHHHHHHHh
Q 040576          559 LLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       559 ~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      .|+++|-+.++.++|.+.+++-
T Consensus       471 ~LakLye~l~d~~eAa~~yek~  492 (559)
T KOG1155|consen  471 RLAKLYEELKDLNEAAQYYEKY  492 (559)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHH
Confidence            5555555555555555555544

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.48  E-value=1.6e-10  Score=118.35  Aligned_cols=105  Identities=14%  Similarity=0.095  Sum_probs=76.2

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhCC-----CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc---CCCCCchHHHH
Q 040576          489 EHYGCMVDLLGRAGLMRDSEELVSKLP-----MEAGPALWGALLSACSTHSNSELGKIVAQHLMEL---EPRDPGPYVLL  560 (641)
Q Consensus       489 ~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~p~~~~~~~~l  560 (641)
                      ..|..||+.+....+.++|..+.++..     ..-+..-+..+.....+.+....+..+++...+.   .|.-......+
T Consensus       492 g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~  571 (1088)
T KOG4318|consen  492 GLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTILYEDKSSAENEPLVAIILFPL  571 (1088)
T ss_pred             hHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHHHhhhhHHhhCCchHHHHHHHH
Confidence            456778888888888888888888873     2233444566777777888888888887776652   23334566677


Q ss_pred             HHHHHhcCChHHHHHHHHHhhhCCCcccCceEEE
Q 040576          561 SNIYASEGKWDEVENLRRIMKEKELEKAVGSSLV  594 (641)
Q Consensus       561 ~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~  594 (641)
                      .+..+..|+.+...++.+-+...|+.- .|.-|.
T Consensus       572 lns~a~agqqe~Lkkl~d~lvslgl~e-tgPl~~  604 (1088)
T KOG4318|consen  572 LNSGAPAGQQEKLKKLADILVSLGLSE-TGPLWM  604 (1088)
T ss_pred             HhhhhhccCHHHHHHHHHHHHHhhhhh-cccceE
Confidence            777888899999999999888888877 366666

>TIGR00540 hemY_coli hemY protein

Probab=99.48  E-value=1.2e-10  Score=119.08  Aligned_cols=222  Identities=11%  Similarity=0.004  Sum_probs=110.0

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHH-------HHHHH
Q 040576          323 LALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLST-------SLLTM  395 (641)
Q Consensus       323 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-------~li~~  395 (641)
                      ...+...|+++.|...++.+.+.. +-+...+..+...+...|+++.+.+++..+.+.+..+......       .++..
T Consensus       160 a~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~  238 (409)
T TIGR00540       160 TRILLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDE  238 (409)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHH
Confidence            445555566666666666665542 1233345555555566666666666666665554332221111       11111


Q ss_pred             HHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHH--HHHH-HHHHHhhccHH
Q 040576          396 YAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDAT--FICV-LSACTHAGMVL  469 (641)
Q Consensus       396 ~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~--~~~l-l~~~~~~g~~~  469 (641)
                      -......+...+.++..++   .+...+..++..+...|++++|.+++++..+..  ||...  +..+ .......++.+
T Consensus       239 ~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~  316 (409)
T TIGR00540       239 AMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNE  316 (409)
T ss_pred             HHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChH
Confidence            1112223344444554443   356666667777777777777777777776652  33221  1111 11122235555


Q ss_pred             HHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHh--C-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 040576          470 EGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSK--L-PMEAGPALWGALLSACSTHSNSELGKIVAQHL  546 (641)
Q Consensus       470 ~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~--~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  546 (641)
                      .+.+.++...+...-.|+.....++...+.+.|++++|.+.|+.  . ...|+...+..+...+.+.|+.++|..++++.
T Consensus       317 ~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       317 KLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             HHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            55555555554111111113444555556666666666666662  2 33455555555555566666666666666554


Q ss_pred             H
Q 040576          547 M  547 (641)
Q Consensus       547 ~  547 (641)
                      +
T Consensus       397 l  397 (409)
T TIGR00540       397 L  397 (409)
T ss_pred             H
Confidence            3

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=99.48  E-value=1.5e-09  Score=103.81  Aligned_cols=184  Identities=16%  Similarity=0.181  Sum_probs=100.0

Q ss_pred             HHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCCeeHHHHHHHHHHhC
Q 040576          160 FPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGP---VWDLVTWNSMIDGYVKN  236 (641)
Q Consensus       160 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~  236 (641)
                      |.....-=...+++..|+.+|+..+... ..+...|-..+.+-.++..+..|..++++..   +.-...|-..+..--..
T Consensus        76 WikYaqwEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~L  154 (677)
T KOG1915|consen   76 WIKYAQWEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYMEEML  154 (677)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHHHHHh
Confidence            3333333344566667777777776544 3455566666666667777777777776522   22222344444444455


Q ss_pred             CChHHHHHHHhhC--CCCCchhHHHHHHHHhcCCChHHHHHHHhhcC--CCCchHHHHHHHHHHhcCChHHHHHHHHhcC
Q 040576          237 REVGFARELFDFM--PERDIFTWNSMISGYVDVGDMEAANGLFDLMP--FRDVVSWNCMIDGYAKIGNVTSARNCFDRMC  312 (641)
Q Consensus       237 g~~~~A~~~~~~m--~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  312 (641)
                      |++..|.++|++-  -+|+...|.+.+.--.+-+.++.|..+|+...  .|++..|-.....--++|.+..|..+|+...
T Consensus       155 gNi~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAi  234 (677)
T KOG1915|consen  155 GNIAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAI  234 (677)
T ss_pred             cccHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            6666666666655  45666666666666666666666666666543  4555555555555555566666665555542


Q ss_pred             C------CCcchHHHHHHHHHHcCChHHHHHHHHHHHH
Q 040576          313 M------RNVVSWNILLALYVRCKDYCECLRLFDRMIR  344 (641)
Q Consensus       313 ~------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  344 (641)
                      +      .+...+++...-=.+++.++.|.-+|+-.++
T Consensus       235 e~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld  272 (677)
T KOG1915|consen  235 EFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALD  272 (677)
T ss_pred             HHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2      1112233333333344445555555555444

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.46  E-value=1.2e-08  Score=101.49  Aligned_cols=153  Identities=13%  Similarity=0.078  Sum_probs=77.9

Q ss_pred             HHHHHHHHHhhcCCChHHHHHhhhcC----C-CCCcccHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHH
Q 040576           91 AASRVLKKLCTSLSSVSLSVLFFDGI----Q-EPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGK  165 (641)
Q Consensus        91 ~~~~ll~~~~~~~~~~~~A~~~~~~~----~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~  165 (641)
                      ++...+. +..++|++...+..|++.    | ......|...+.-....|-++-++++|++.+ +    .++..-.--|.
T Consensus       104 Iwl~Ylq-~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYL-k----~~P~~~eeyie  177 (835)
T KOG2047|consen  104 IWLDYLQ-FLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYL-K----VAPEAREEYIE  177 (835)
T ss_pred             HHHHHHH-HHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHH-h----cCHHHHHHHHH
Confidence            3333444 345566666666666643    1 1233456666666666666666666666222 2    12223444555


Q ss_pred             HHhcCCCchhHHHHHHHHHHh------CCCCChhHHHHHHHHHHhcCCHHH---HHHHHhcCCCC--C--eeHHHHHHHH
Q 040576          166 VCAGIRSLREGKKVHARIVKC------GFELDLFVRNSLIHMYSVCGEVLD---ARKVFEDGPVW--D--LVTWNSMIDG  232 (641)
Q Consensus       166 ~~~~~~~~~~a~~~~~~~~~~------g~~~~~~~~~~li~~~~~~g~~~~---A~~~~~~~~~~--~--~~~~~~li~~  232 (641)
                      .++..+++++|.+.+......      ..+.+...|.-+.+..++..+.-.   ...++..|...  |  ...|++|.+-
T Consensus       178 ~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdY  257 (835)
T KOG2047|consen  178 YLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADY  257 (835)
T ss_pred             HHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHH
Confidence            556666666666666554421      112333444444444443322111   12222332221  2  2357777788


Q ss_pred             HHhCCChHHHHHHHhhC
Q 040576          233 YVKNREVGFARELFDFM  249 (641)
Q Consensus       233 ~~~~g~~~~A~~~~~~m  249 (641)
                      |++.|++++|..+|++.
T Consensus       258 YIr~g~~ekarDvyeea  274 (835)
T KOG2047|consen  258 YIRSGLFEKARDVYEEA  274 (835)
T ss_pred             HHHhhhhHHHHHHHHHH
Confidence            88888888888777765

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.45  E-value=8.9e-11  Score=106.88  Aligned_cols=260  Identities=13%  Similarity=0.146  Sum_probs=154.4

Q ss_pred             CCChHHHHHHHhhCCCCCchhH---HHHHHHHhcCCChHHHHHHHhhcCC-CC------chHHHHHHHHHHhcCChHHHH
Q 040576          236 NREVGFARELFDFMPERDIFTW---NSMISGYVDVGDMEAANGLFDLMPF-RD------VVSWNCMIDGYAKIGNVTSAR  305 (641)
Q Consensus       236 ~g~~~~A~~~~~~m~~~~~~~~---~~ll~~~~~~g~~~~a~~~~~~~~~-~~------~~~~~~li~~~~~~~~~~~A~  305 (641)
                      .++.++|.++|-+|.+.|..||   .++.+.|.+.|..+.|+.+++.+.+ ||      ..+...|..-|...|-+|.|+
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE  127 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAE  127 (389)
T ss_pred             hcCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHH
Confidence            4677888888888865555544   3567788888888888888887764 54      344556677788888888888


Q ss_pred             HHHHhcCCCCc---chHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 040576          306 NCFDRMCMRNV---VSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRI  382 (641)
Q Consensus       306 ~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  382 (641)
                      .+|..+.+...   ...-.|+..|....+|++|++.-++..+.|-++...-.                            
T Consensus       128 ~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eI----------------------------  179 (389)
T COG2956         128 DIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEI----------------------------  179 (389)
T ss_pred             HHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHH----------------------------
Confidence            88888755332   34566788888888888888888887775544332211                            


Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC---ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 040576          383 KPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEK---NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVL  459 (641)
Q Consensus       383 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll  459 (641)
                         ...|.-|...+....+.+.|..++.+..+.   .+.+--.+...+...|+++.|++.|+...+.+..--..+...|.
T Consensus       180 ---AqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~  256 (389)
T COG2956         180 ---AQFYCELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLY  256 (389)
T ss_pred             ---HHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHH
Confidence               112223333334444555555555554432   22233344555666667777777776666654333344555666


Q ss_pred             HHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHH-HHhCCCCCCHHHHHHHHHH
Q 040576          460 SACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEEL-VSKLPMEAGPALWGALLSA  529 (641)
Q Consensus       460 ~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~-~~~~~~~~~~~~~~~l~~~  529 (641)
                      .+|.+.|+.++....+..+.+   ..++...-..+.+......-.+.|... .+.+..+|+...+..++..
T Consensus       257 ~~Y~~lg~~~~~~~fL~~~~~---~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~  324 (389)
T COG2956         257 ECYAQLGKPAEGLNFLRRAME---TNTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDY  324 (389)
T ss_pred             HHHHHhCCHHHHHHHHHHHHH---ccCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHh
Confidence            666666777766666666655   223333333333333333333444433 3334445666655555543

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.44  E-value=2.2e-10  Score=107.68  Aligned_cols=247  Identities=13%  Similarity=0.104  Sum_probs=150.3

Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHH
Q 040576          329 CKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNV  408 (641)
Q Consensus       329 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  408 (641)
                      .|+|.+|.++..+-.+.+-.| ...|..-..+.-..|+.+.+..++.++-+..-.++..+.-+........|+++.|..-
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            466677766666655554333 2234444555566667777777766666653345555555666666667777776666


Q ss_pred             HhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHhhccHHHHHHHHHHh
Q 040576          409 FDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPND-------ATFICVLSACTHAGMVLEGWWYFDLM  478 (641)
Q Consensus       409 ~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-------~~~~~ll~~~~~~g~~~~a~~~~~~~  478 (641)
                      .+.+.+   .+.........+|.+.|++.+...++.+|.+.|.--+.       .+|..+++-+...+..+.-...|+..
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            655443   45566666677777777777777777777776644332       24555555555555555555566665


Q ss_pred             HHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchH
Q 040576          479 QRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPY  557 (641)
Q Consensus       479 ~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  557 (641)
                      ..+  .+-++..-.+++.-+.++|+.++|.+++++. +..-|+.  -...-.+..-++.+.-+...++..+..|++|..+
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 PRK--LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR--LCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLL  331 (400)
T ss_pred             cHH--hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh--HHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHH
Confidence            542  2333444555666677777777777766654 3223333  2233345566666666777777777777777777


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHh
Q 040576          558 VLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       558 ~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      ..|+..|.+.+.|.+|.+.++..
T Consensus       332 ~tLG~L~~k~~~w~kA~~~leaA  354 (400)
T COG3071         332 STLGRLALKNKLWGKASEALEAA  354 (400)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHH
Confidence            77777777777777777777765

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.41  E-value=3.7e-09  Score=104.18  Aligned_cols=437  Identities=13%  Similarity=0.078  Sum_probs=252.4

Q ss_pred             HHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHH--HHHHHH--
Q 040576          128 MKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNS--LIHMYS--  203 (641)
Q Consensus       128 i~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~--li~~~~--  203 (641)
                      +.-+...|++++|..... .+...+ +-|...+..=+-++...+.+++|..+.+   ..+.   ..+++.  +=.+||  
T Consensus        19 ln~~~~~~e~e~a~k~~~-Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ik---k~~~---~~~~~~~~fEKAYc~Y   90 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTAN-KILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIK---KNGA---LLVINSFFFEKAYCEY   90 (652)
T ss_pred             HHHhccchHHHHHHHHHH-HHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHH---hcch---hhhcchhhHHHHHHHH
Confidence            445556777888888777 555543 4455566666667777788888775433   2221   112222  234454  


Q ss_pred             hcCCHHHHHHHHhcCCCCCeeHHHHHHHHHHhCCChHHHHHHHhhCCCCCchhHHHHHHHH-hcCCChHHHHHHHhhcCC
Q 040576          204 VCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGY-VDVGDMEAANGLFDLMPF  282 (641)
Q Consensus       204 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~ll~~~-~~~g~~~~a~~~~~~~~~  282 (641)
                      +.+..++|++.++...+.|..+...-...+.+.|++++|+.+|+.+.+.+...+..-+.+- ...+-.-.+. +.+....
T Consensus        91 rlnk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~-~~q~v~~  169 (652)
T KOG2376|consen   91 RLNKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQ-LLQSVPE  169 (652)
T ss_pred             HcccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHH-HHHhccC
Confidence            6788888888888544445445566667778888888888888888665555554443321 1111111121 2333322


Q ss_pred             C---CchHHHHHHHHHHhcCChHHHHHHHHhc--------CCCCc----------chHHHHHHHHHHcCChHHHHHHHHH
Q 040576          283 R---DVVSWNCMIDGYAKIGNVTSARNCFDRM--------CMRNV----------VSWNILLALYVRCKDYCECLRLFDR  341 (641)
Q Consensus       283 ~---~~~~~~~li~~~~~~~~~~~A~~~~~~~--------~~~~~----------~~~~~li~~~~~~g~~~~A~~~~~~  341 (641)
                      .   +...+-.....+...|++.+|+++++..        ...|.          ..-..|.-++...|+.++|..++..
T Consensus       170 v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~  249 (652)
T KOG2376|consen  170 VPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVD  249 (652)
T ss_pred             CCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence            1   2223333445566778888888888776        11111          1123455667788888888888888


Q ss_pred             HHHCCCCCCHHHHHHH---HHHHHccCCHHH--HHHHHHHH-----------HHcCCCCchhHHHHHHHHHHhcCCHHHH
Q 040576          342 MIRGDAKPNEASLMSV---LTACANMGVIDI--GQWIHSYI-----------QKCRIKPDVLLSTSLLTMYAKCGVMDLA  405 (641)
Q Consensus       342 m~~~g~~p~~~~~~~l---l~~~~~~g~~~~--a~~~~~~~-----------~~~~~~~~~~~~~~li~~~~~~g~~~~A  405 (641)
                      .++.. .+|.......   +.+...-.++-.  ....++..           ....-.-....-+.++.+|  .+..+.+
T Consensus       250 ~i~~~-~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~--tnk~~q~  326 (652)
T KOG2376|consen  250 IIKRN-PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALF--TNKMDQV  326 (652)
T ss_pred             HHHhc-CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH--hhhHHHH
Confidence            88764 3444222221   112222222111  11111111           0000001111222333333  3566777


Q ss_pred             HHHHhhcCCCC-hhHHHHHHH-HHH-HcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHH------
Q 040576          406 RNVFDNMTEKN-VVSWNSMIM-GYG-MHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFD------  476 (641)
Q Consensus       406 ~~~~~~~~~~~-~~~~~~li~-~~~-~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~------  476 (641)
                      .++-...+... ...+..++. ++. +...+..|.+++...-+....-........+......|+++.|.+++.      
T Consensus       327 r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~  406 (652)
T KOG2376|consen  327 RELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESW  406 (652)
T ss_pred             HHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhh
Confidence            77777776422 233444443 332 233577888888877765322223455556667788999999999998      


Q ss_pred             --HhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC--------CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHH
Q 040576          477 --LMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL--------PMEAGP-ALWGALLSACSTHSNSELGKIVAQH  545 (641)
Q Consensus       477 --~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--------~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~  545 (641)
                        .+.+ .+..|  .+...++..|.+.++.+-|..++.+.        ...+.. .+|.-+...-.++|+.++|..++++
T Consensus       407 ~ss~~~-~~~~P--~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~lee  483 (652)
T KOG2376|consen  407 KSSILE-AKHLP--GTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEE  483 (652)
T ss_pred             hhhhhh-hccCh--hHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHH
Confidence              4444 33344  45566777888888766666665543        222222 2334444445677999999999999


Q ss_pred             HHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          546 LMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       546 ~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      +++.+|++......++.+|++.. .+.|..+-+.+
T Consensus       484 l~k~n~~d~~~l~~lV~a~~~~d-~eka~~l~k~L  517 (652)
T KOG2376|consen  484 LVKFNPNDTDLLVQLVTAYARLD-PEKAESLSKKL  517 (652)
T ss_pred             HHHhCCchHHHHHHHHHHHHhcC-HHHHHHHhhcC
Confidence            99999999999999999998764 66777665554

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.40  E-value=8.3e-11  Score=111.00  Aligned_cols=197  Identities=12%  Similarity=0.087  Sum_probs=162.3

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 040576          385 DVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSA  461 (641)
Q Consensus       385 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  461 (641)
                      ....+..+...|...|++++|...+++..+   .+...+..+...+...|++++|.+.+++..+... .+...+..+...
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~~~~  108 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNP-NNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHH
Confidence            356677788888899999999999987763   3456788888999999999999999999988643 355677778888


Q ss_pred             HHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHH
Q 040576          462 CTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELG  539 (641)
Q Consensus       462 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a  539 (641)
                      +...|++++|.+.++.+............+..+...+...|++++|.+.+++. ...| +...+..+...+...|++++|
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999999872222233556777888999999999999999887 2233 456788888889999999999


Q ss_pred             HHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          540 KIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       540 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      ...++++.+..|.++..+..++.++...|+.++|..+.+.+..
T Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       189 RAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            9999999999888888888999999999999999999888754

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.

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.39  E-value=1.1e-07  Score=94.84  Aligned_cols=496  Identities=13%  Similarity=0.141  Sum_probs=308.5

Q ss_pred             HHHHHHHHH-HhCCCCChhHHHHHHHHHhhcCCChHHHHHhhhcCCCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHhc
Q 040576           73 FHQIHTQLL-VSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAK  151 (641)
Q Consensus        73 ~~~~~~~~~-~~g~~~~~~~~~~ll~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~  151 (641)
                      -+..++..+ +..+.....++...+. +....|-++-+.+++++.-.-++..-+-.|.-++..++.++|.+.+. .....
T Consensus       121 tR~tfdrALraLpvtqH~rIW~lyl~-Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~d~~~eaa~~la-~vln~  198 (835)
T KOG2047|consen  121 TRRTFDRALRALPVTQHDRIWDLYLK-FVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKSDRLDEAAQRLA-TVLNQ  198 (835)
T ss_pred             HHHHHHHHHHhCchHhhccchHHHHH-HHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhccchHHHHHHHH-HhcCc
Confidence            344444433 4456666677777887 56778888899999988654444456777888999999999998887 44322


Q ss_pred             ------CCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCC--CCCh--hHHHHHHHHHHhcCCHHHHHHHHhcCCCC
Q 040576          152 ------FVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGF--ELDL--FVRNSLIHMYSVCGEVLDARKVFEDGPVW  221 (641)
Q Consensus       152 ------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~--~~~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~  221 (641)
                            ..+-+...|..+-...++..+.-....+ +.+++.|+  -+|.  ..|.+|.+-|.+.|+++.|..+|++....
T Consensus       199 d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnv-daiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~  277 (835)
T KOG2047|consen  199 DEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNV-DAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQT  277 (835)
T ss_pred             hhhhhhcccchhhHHHHHHHHHHhCcchhcccCH-HHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh
Confidence                  2344556677777777666544333322 22223332  3443  47899999999999999999999884432


Q ss_pred             --CeeHHHHHHHHHHhCC----------------C------hHHHHHHHhhCCC---------------CCchhHHHHHH
Q 040576          222 --DLVTWNSMIDGYVKNR----------------E------VGFARELFDFMPE---------------RDIFTWNSMIS  262 (641)
Q Consensus       222 --~~~~~~~li~~~~~~g----------------~------~~~A~~~~~~m~~---------------~~~~~~~~ll~  262 (641)
                        .+.-|+.+.++|++-.                +      ++-.+.-|+.+..               .+..+|..-+.
T Consensus       278 v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~  357 (835)
T KOG2047|consen  278 VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVK  357 (835)
T ss_pred             heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhh
Confidence              3333455555544321                1      1112222332211               12223333222


Q ss_pred             HHhcCCChHHHHHHHhhcCC-------CC--chHHHHHHHHHHhcCChHHHHHHHHhcCCCCc-------chHHHHHHHH
Q 040576          263 GYVDVGDMEAANGLFDLMPF-------RD--VVSWNCMIDGYAKIGNVTSARNCFDRMCMRNV-------VSWNILLALY  326 (641)
Q Consensus       263 ~~~~~g~~~~a~~~~~~~~~-------~~--~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~-------~~~~~li~~~  326 (641)
                        ...|+..+-...|.++.+       ++  ...|..+.+.|-..|+++.|..+|++..+-+-       .+|......=
T Consensus       358 --l~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemE  435 (835)
T KOG2047|consen  358 --LYEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEME  435 (835)
T ss_pred             --hhcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHH
Confidence              234555555566665542       23  55788999999999999999999999855332       3455555666


Q ss_pred             HHcCChHHHHHHHHHHHHCCCC-----------C------CHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHH
Q 040576          327 VRCKDYCECLRLFDRMIRGDAK-----------P------NEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLS  389 (641)
Q Consensus       327 ~~~g~~~~A~~~~~~m~~~g~~-----------p------~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  389 (641)
                      .+..+++.|+++++.....--.           +      +...|...+..--..|-++....+++.+++..+... .+.
T Consensus       436 lrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLriaTP-qii  514 (835)
T KOG2047|consen  436 LRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIATP-QII  514 (835)
T ss_pred             HhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCH-HHH
Confidence            6778899999988877542111           1      122344455555567888889999999998875432 222


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcCC----CCh-hHHHHHHHHHHH---cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 040576          390 TSLLTMYAKCGVMDLARNVFDNMTE----KNV-VSWNSMIMGYGM---HGQGEKALEMFMEMEKRGPTPNDATFICVLSA  461 (641)
Q Consensus       390 ~~li~~~~~~g~~~~A~~~~~~~~~----~~~-~~~~~li~~~~~---~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  461 (641)
                      ......+-...-++++.++|++-..    |++ ..|+.-+.-+.+   ..+.+.|..+|++..+ |.+|...-+..|+-+
T Consensus       515 ~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA  593 (835)
T KOG2047|consen  515 INYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYA  593 (835)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHH
Confidence            2233345566678999999998764    554 357666555443   3568999999999999 677766543334333


Q ss_pred             --HHhhccHHHHHHHHHHhHHhhCCCCc--hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHH---HHHHHHHHHhc
Q 040576          462 --CTHAGMVLEGWWYFDLMQRIYKIEPK--VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPAL---WGALLSACSTH  533 (641)
Q Consensus       462 --~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~~---~~~l~~~~~~~  533 (641)
                        =.+.|....|+.+++++..  ++++.  ...|+..|.--...=-+..-.++|+++ ..-|+...   .......-.+.
T Consensus       594 ~lEEe~GLar~amsiyerat~--~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~Lp~~~~r~mclrFAdlEtkl  671 (835)
T KOG2047|consen  594 KLEEEHGLARHAMSIYERATS--AVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIESLPDSKAREMCLRFADLETKL  671 (835)
T ss_pred             HHHHHhhHHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHhCChHHHHHHHHHHHHHhhhh
Confidence              2356889999999999876  55554  456777665433222222223333333 11234332   22233345678


Q ss_pred             CCHHHHHHHHHHHHhcCCC--CCchHHHHHHHHHhcCChHHHHHHH
Q 040576          534 SNSELGKIVAQHLMELEPR--DPGPYVLLSNIYASEGKWDEVENLR  577 (641)
Q Consensus       534 g~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~A~~~~  577 (641)
                      |.++.|..+|....++.++  +...|...-..=.+.|+-+...+++
T Consensus       672 GEidRARaIya~~sq~~dPr~~~~fW~twk~FEvrHGnedT~keML  717 (835)
T KOG2047|consen  672 GEIDRARAIYAHGSQICDPRVTTEFWDTWKEFEVRHGNEDTYKEML  717 (835)
T ss_pred             hhHHHHHHHHHhhhhcCCCcCChHHHHHHHHHHHhcCCHHHHHHHH
Confidence            9999999999998887654  4556777777777888854444433

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.39  E-value=4.5e-10  Score=102.41  Aligned_cols=290  Identities=12%  Similarity=0.071  Sum_probs=204.3

Q ss_pred             cCChHHHHHHHHhcCCCCcchHH---HHHHHHHHcCChHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHccCCHHHHH
Q 040576          298 IGNVTSARNCFDRMCMRNVVSWN---ILLALYVRCKDYCECLRLFDRMIRGDAKPNE---ASLMSVLTACANMGVIDIGQ  371 (641)
Q Consensus       298 ~~~~~~A~~~~~~~~~~~~~~~~---~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~---~~~~~ll~~~~~~g~~~~a~  371 (641)
                      .++.++|.++|-+|.+.|..++.   +|.+.|-+.|..+.|+++-+.+.++---+..   .....+..-|...|-+|.|+
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE  127 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAE  127 (389)
T ss_pred             hcCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHH
Confidence            35677777777777665555443   5667777888888888887777663111111   22334555677888888888


Q ss_pred             HHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChh--------HHHHHHHHHHHcCChHHHHHHHHHH
Q 040576          372 WIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVV--------SWNSMIMGYGMHGQGEKALEMFMEM  443 (641)
Q Consensus       372 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--------~~~~li~~~~~~~~~~~A~~~~~~m  443 (641)
                      .+|..+.+.+ ..-......|+..|-...+|++|+++-+++.+-+..        .|.-+...+....+.+.|..++.+.
T Consensus       128 ~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kA  206 (389)
T COG2956         128 DIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKA  206 (389)
T ss_pred             HHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            8888887754 233455667888888888999988888877653332        3444556666778899999999999


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHH
Q 040576          444 EKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPAL  522 (641)
Q Consensus       444 ~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~~  522 (641)
                      .+.+.+ ....-..+.+.....|+++.|.+.++.+.+ .+..--..+...|..+|...|+.++....+.++ ...+....
T Consensus       207 lqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~e-Qn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~  284 (389)
T COG2956         207 LQADKK-CVRASIILGRVELAKGDYQKAVEALERVLE-QNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADA  284 (389)
T ss_pred             HhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHH-hChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccH
Confidence            886432 222333566778889999999999999988 443333677888999999999999999998876 44566666


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH--hcCChHHHHHHHHHhhhCCCcccCc
Q 040576          523 WGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYA--SEGKWDEVENLRRIMKEKELEKAVG  590 (641)
Q Consensus       523 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~--~~g~~~~A~~~~~~m~~~~~~~~~~  590 (641)
                      ...+...-....-.+.|...+.+-+...|.-...|..+-.-..  ..|.+.+-+.+++.|..+.++..|.
T Consensus       285 ~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge~l~~~~~  354 (389)
T COG2956         285 ELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGEQLRRKPR  354 (389)
T ss_pred             HHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHHHHhhcCC
Confidence            6666665556666788888888888888875544444433333  3466899999999999887776663

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.36  E-value=3.9e-09  Score=99.47  Aligned_cols=279  Identities=13%  Similarity=0.072  Sum_probs=156.4

Q ss_pred             CCChHHHHHHHhhC---CCCCchhHHHHHHHHhcCCChHHHHHHHhhcCCC--C--chHHHHHHHHHHhcCChHHHHHHH
Q 040576          236 NREVGFARELFDFM---PERDIFTWNSMISGYVDVGDMEAANGLFDLMPFR--D--VVSWNCMIDGYAKIGNVTSARNCF  308 (641)
Q Consensus       236 ~g~~~~A~~~~~~m---~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~--~--~~~~~~li~~~~~~~~~~~A~~~~  308 (641)
                      .|++.+|+++..+-   -+.....|..-..+.-+.|+.+.+-..+.++.++  |  ..++-+........|+.+.|..-.
T Consensus        97 eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v  176 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENV  176 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHH
Confidence            56677776666554   1222334444445555666666666666655543  2  333334444455555555554444


Q ss_pred             Hhc---CCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCc
Q 040576          309 DRM---CMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPD  385 (641)
Q Consensus       309 ~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~  385 (641)
                      ++.   ...++........+|.+.|++.+...++.+|.+.|+--+...-.                            ..
T Consensus       177 ~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~----------------------------le  228 (400)
T COG3071         177 DQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAAR----------------------------LE  228 (400)
T ss_pred             HHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHH----------------------------HH
Confidence            433   23344444555555555555555555555555554433321100                            01


Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 040576          386 VLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSAC  462 (641)
Q Consensus       386 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  462 (641)
                      ..+++.+++=....+..+.-...|+..+.   .++..-.+++.-+.+.|+.++|.++..+..+++..|+.    ...-.+
T Consensus       229 ~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L----~~~~~~  304 (400)
T COG3071         229 QQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRL----CRLIPR  304 (400)
T ss_pred             HHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhH----HHHHhh
Confidence            22344444444444444444556666552   45566666677777777777777777777777666552    122234


Q ss_pred             HhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 040576          463 THAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPALWGALLSACSTHSNSELGKI  541 (641)
Q Consensus       463 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~  541 (641)
                      .+.++...-++..++-.+..+..|  ..+.+|...|.+.+.+.+|.+.|+.. +..|+...|.-+..++.+.|+.++|..
T Consensus       305 l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~  382 (400)
T COG3071         305 LRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQ  382 (400)
T ss_pred             cCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHH
Confidence            556666666666666655333333  55666777777777777777777754 556777777777777777777777777


Q ss_pred             HHHHHHh
Q 040576          542 VAQHLME  548 (641)
Q Consensus       542 ~~~~~~~  548 (641)
                      +.+..+.
T Consensus       383 ~r~e~L~  389 (400)
T COG3071         383 VRREALL  389 (400)
T ss_pred             HHHHHHH
Confidence            7776654

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.36  E-value=2.2e-09  Score=105.30  Aligned_cols=277  Identities=9%  Similarity=-0.046  Sum_probs=217.4

Q ss_pred             CchHHHHHHHHHHhcCChHHHHHHHHhcCCC---CcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 040576          284 DVVSWNCMIDGYAKIGNVTSARNCFDRMCMR---NVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTA  360 (641)
Q Consensus       284 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  360 (641)
                      +..+.....+-+...+++.+..++++...+.   +...+..-|.++...|+..+-..+-.++.+. .+-...+|-++.--
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~Y  321 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCY  321 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHH
Confidence            3556666777788889999999999998543   4456667777889999999988888888874 34556789999988


Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-ChhHHHHHHHHHHHcCChHHHH
Q 040576          361 CANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE--K-NVVSWNSMIMGYGMHGQGEKAL  437 (641)
Q Consensus       361 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~A~  437 (641)
                      |...|+.++|.++|......+ +.-...|-.+.+.|+-.|..++|+..+....+  + .-..+--+..-|.+.++.+.|.
T Consensus       322 Yl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe  400 (611)
T KOG1173|consen  322 YLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAE  400 (611)
T ss_pred             HHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHH
Confidence            999999999999999887654 22345788889999999999999998877653  1 1112233455678899999999


Q ss_pred             HHHHHHHHCCCCC-CHHHHHHHHHHHHhhccHHHHHHHHHHhHHhh-CCCC----chHHHHHHHHHHhhcCCHHHHHHHH
Q 040576          438 EMFMEMEKRGPTP-NDATFICVLSACTHAGMVLEGWWYFDLMQRIY-KIEP----KVEHYGCMVDLLGRAGLMRDSEELV  511 (641)
Q Consensus       438 ~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~p----~~~~~~~li~~~~~~g~~~~A~~~~  511 (641)
                      ++|.+....  -| |+..++-+.-...+.+.+.+|..+|+...... .+.+    ...+++.|..+|.+.+++++|+..+
T Consensus       401 ~Ff~~A~ai--~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~  478 (611)
T KOG1173|consen  401 KFFKQALAI--APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYY  478 (611)
T ss_pred             HHHHHHHhc--CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHH
Confidence            999988874  44 56677777777777899999999999887411 1111    2456788999999999999999999


Q ss_pred             HhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 040576          512 SKL--PMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIY  564 (641)
Q Consensus       512 ~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  564 (641)
                      ++.  ..+.+..++.++.-.|...|+++.|...|.+++.+.|++..+-..|..+.
T Consensus       479 q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  479 QKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLAI  533 (611)
T ss_pred             HHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHHH
Confidence            987  34567888999999999999999999999999999999976666666543

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.30  E-value=1.9e-10  Score=104.72  Aligned_cols=231  Identities=13%  Similarity=0.072  Sum_probs=151.5

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhc
Q 040576          320 NILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKC  399 (641)
Q Consensus       320 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  399 (641)
                      +.+.++|.+.|.+.+|.+-|+.....  .|-..||..+-.+|.+..+...|..++.+-.+. ++.++.....+...+...
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            45677778888888887777777663  455566766777777777777777777666654 234444444555555556


Q ss_pred             CCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHH
Q 040576          400 GVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFD  476 (641)
Q Consensus       400 g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  476 (641)
                      ++.++|.++|+...+   .++.+.-++...|.-.++++-|+.+|+++.+.|+. ++..|+.+.-+|.-.+.++-++.-|.
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            666666666665553   23344444455555566666666666666666644 55555555555555555555555555


Q ss_pred             HhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch
Q 040576          477 LMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGP  556 (641)
Q Consensus       477 ~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  556 (641)
                      +... .--.|+                              .-..+|..+.......||+..|.+.|+-++.-+|++.+.
T Consensus       383 RAls-tat~~~------------------------------~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ea  431 (478)
T KOG1129|consen  383 RALS-TATQPG------------------------------QAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEA  431 (478)
T ss_pred             HHHh-hccCcc------------------------------hhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHH
Confidence            4443 111111                              123467777777788889999999999999999999999


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 040576          557 YVLLSNIYASEGKWDEVENLRRIMKEKEL  585 (641)
Q Consensus       557 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  585 (641)
                      ++.|+.+-.+.|+.++|..++.......+
T Consensus       432 lnNLavL~~r~G~i~~Arsll~~A~s~~P  460 (478)
T KOG1129|consen  432 LNNLAVLAARSGDILGARSLLNAAKSVMP  460 (478)
T ss_pred             HHhHHHHHhhcCchHHHHHHHHHhhhhCc
Confidence            99999999999999999999988765443

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.29  E-value=7.1e-08  Score=91.09  Aligned_cols=284  Identities=9%  Similarity=-0.019  Sum_probs=201.6

Q ss_pred             CCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHH-HHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHH
Q 040576          312 CMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASL-MSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLST  390 (641)
Q Consensus       312 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~-~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  390 (641)
                      .+.|+.....+...+...|+.++|...|++.+.  +.|+..+- ....-.+...|+.+....+...+.... ..+...|-
T Consensus       228 lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~--~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wf  304 (564)
T KOG1174|consen  228 LRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLC--ANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWF  304 (564)
T ss_pred             CCccHHHHHHHhhhhhhhcCchHHHHHHHHHhh--CChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhh
Confidence            345777788888888888999999888888765  34544321 111222456777777777776665532 12333333


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhhc
Q 040576          391 SLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTP-NDATFICVLSACTHAG  466 (641)
Q Consensus       391 ~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g  466 (641)
                      .-.......++++.|+.+-++...   .+...|-.-...+...|+.++|.-.|+..+..  .| +...|..|+.+|...|
T Consensus       305 V~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~L--ap~rL~~Y~GL~hsYLA~~  382 (564)
T KOG1174|consen  305 VHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQML--APYRLEIYRGLFHSYLAQK  382 (564)
T ss_pred             hhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhc--chhhHHHHHHHHHHHHhhc
Confidence            334445566788888888887765   44455555567788889999999999888764  43 5678999999999999


Q ss_pred             cHHHHHHHHHHhHHhhCCCCchHHHHHHH-HHHhh-cCCHHHHHHHHHhC-CCCCCH-HHHHHHHHHHHhcCCHHHHHHH
Q 040576          467 MVLEGWWYFDLMQRIYKIEPKVEHYGCMV-DLLGR-AGLMRDSEELVSKL-PMEAGP-ALWGALLSACSTHSNSELGKIV  542 (641)
Q Consensus       467 ~~~~a~~~~~~~~~~~~~~p~~~~~~~li-~~~~~-~g~~~~A~~~~~~~-~~~~~~-~~~~~l~~~~~~~g~~~~a~~~  542 (641)
                      .+.+|.-.-+...+  -+.-+..+...+. ..+.- -..-++|.+++++. ...|+. ...+.+...|...|..+.++.+
T Consensus       383 ~~kEA~~~An~~~~--~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~L  460 (564)
T KOG1174|consen  383 RFKEANALANWTIR--LFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKL  460 (564)
T ss_pred             hHHHHHHHHHHHHH--HhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHH
Confidence            99998877766655  2333444444332 22221 22347888888876 566774 4667777788899999999999


Q ss_pred             HHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHH
Q 040576          543 AQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGE  622 (641)
Q Consensus       543 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~  622 (641)
                      +++.+...|+.. .+..|++.+...+.+.+|++.+...                        ..++|+++.  ...-|.+
T Consensus       461 Le~~L~~~~D~~-LH~~Lgd~~~A~Ne~Q~am~~y~~A------------------------Lr~dP~~~~--sl~Gl~~  513 (564)
T KOG1174|consen  461 LEKHLIIFPDVN-LHNHLGDIMRAQNEPQKAMEYYYKA------------------------LRQDPKSKR--TLRGLRL  513 (564)
T ss_pred             HHHHHhhccccH-HHHHHHHHHHHhhhHHHHHHHHHHH------------------------HhcCccchH--HHHHHHH
Confidence            999998888864 7888999999999999999999888                        788888888  8888888


Q ss_pred             HHHHHHh
Q 040576          623 IGAQMKM  629 (641)
Q Consensus       623 l~~~~~~  629 (641)
                      +.+++.+
T Consensus       514 lEK~~~~  520 (564)
T KOG1174|consen  514 LEKSDDE  520 (564)
T ss_pred             HHhccCC
Confidence            8877764

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.29  E-value=7.8e-10  Score=104.32  Aligned_cols=188  Identities=9%  Similarity=0.054  Sum_probs=154.0

Q ss_pred             ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHH
Q 040576          416 NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMV  495 (641)
Q Consensus       416 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li  495 (641)
                      ....+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.+++..+ . .+.+...+..+.
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~-~-~~~~~~~~~~~~  106 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALT-L-NPNNGDVLNNYG  106 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh-h-CCCCHHHHHHHH
Confidence            34577888999999999999999999998763 22456778888899999999999999999987 2 233456788889


Q ss_pred             HHHhhcCCHHHHHHHHHhCCC----CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChH
Q 040576          496 DLLGRAGLMRDSEELVSKLPM----EAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWD  571 (641)
Q Consensus       496 ~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  571 (641)
                      ..+...|++++|.+.+++...    ......+..+...+...|++++|...++++++..|+++..+..++.++...|+++
T Consensus       107 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  186 (234)
T TIGR02521       107 TFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYK  186 (234)
T ss_pred             HHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHH
Confidence            999999999999999998731    2234567778888999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhhc
Q 040576          572 EVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRR  632 (641)
Q Consensus       572 ~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~  632 (641)
                      +|...+++..                        ...|.+..  .+..+..+....++..+
T Consensus       187 ~A~~~~~~~~------------------------~~~~~~~~--~~~~~~~~~~~~~~~~~  221 (234)
T TIGR02521       187 DARAYLERYQ------------------------QTYNQTAE--SLWLGIRIARALGDVAA  221 (234)
T ss_pred             HHHHHHHHHH------------------------HhCCCCHH--HHHHHHHHHHHHhhHHH
Confidence            9999999984                        33456666  66666666666555444

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.

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.29  E-value=3.3e-08  Score=100.72  Aligned_cols=388  Identities=9%  Similarity=0.006  Sum_probs=256.7

Q ss_pred             hCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CCeeHHHHHHHHHHhCCChHHHHHHHhhC--CC--CC-chhH
Q 040576          186 CGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPV---WDLVTWNSMIDGYVKNREVGFARELFDFM--PE--RD-IFTW  257 (641)
Q Consensus       186 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~--~~-~~~~  257 (641)
                      ..+.-|..+|..|.-+..++|+++.+.+.|++..+   .....|+.+...|.-.|.-..|+.+++.-  ..  |+ ...+
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            34567889999999999999999999999998443   35567999999999999999999999887  22  33 3333


Q ss_pred             HHHHHHHh-cCCChHHHHHHHhhcCC--------CCchHHHHHHHHHHhc-----------CChHHHHHHHHhcCCC---
Q 040576          258 NSMISGYV-DVGDMEAANGLFDLMPF--------RDVVSWNCMIDGYAKI-----------GNVTSARNCFDRMCMR---  314 (641)
Q Consensus       258 ~~ll~~~~-~~g~~~~a~~~~~~~~~--------~~~~~~~~li~~~~~~-----------~~~~~A~~~~~~~~~~---  314 (641)
                      -..-..|. +.+.+++++..-.++..        .....|-.+.-+|...           ....++.+.+++..+.   
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            33334443 45666666655554442        1244555555555433           1234667777777332   


Q ss_pred             CcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHc-CCCCchhHHHHHH
Q 040576          315 NVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKC-RIKPDVLLSTSLL  393 (641)
Q Consensus       315 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~li  393 (641)
                      |+..--.+.--|+-.++.+.|++..++..+-+-.-+...|..+.-.+...+++..|+.+.+..... |.  |-.....-+
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 DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGD--NHVLMDGKI  554 (799)
T ss_pred             CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhh--hhhhchhhh
Confidence            332222234457778899999999999998766778888888888888999999999998776643 21  111111111


Q ss_pred             HHHHhcCCHHHHHHHHhhcCC-------------------------------CC-hhHHHHHHHHHHHcC---ChHHHHH
Q 040576          394 TMYAKCGVMDLARNVFDNMTE-------------------------------KN-VVSWNSMIMGYGMHG---QGEKALE  438 (641)
Q Consensus       394 ~~~~~~g~~~~A~~~~~~~~~-------------------------------~~-~~~~~~li~~~~~~~---~~~~A~~  438 (641)
                      +.-...++.++|......+..                               .+ +.++..+..-....+   ..+..  
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 HIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELK--  632 (799)
T ss_pred             hhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccc--
Confidence            222223444444443322210                               01 112222221111111   11111  


Q ss_pred             HHHHHHHCCCC--CCHH------HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHH
Q 040576          439 MFMEMEKRGPT--PNDA------TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEEL  510 (641)
Q Consensus       439 ~~~~m~~~g~~--p~~~------~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  510 (641)
                          |...-+.  |+..      .+......+.+.+..++|...+.+..+  -.......|......+...|.+++|.+.
T Consensus       633 ----Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~~~~~~G~~~~~~~~~~EA~~a  706 (799)
T KOG4162|consen  633 ----LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK--IDPLSASVYYLRGLLLEVKGQLEEAKEA  706 (799)
T ss_pred             ----cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchhhHHHHHHhhHHHHHHHhhHHHHHH
Confidence                1211122  2211      233445567778888899888877766  2233466777778889999999999999


Q ss_pred             HHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHH--HHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 040576          511 VSKL-PMEAG-PALWGALLSACSTHSNSELGKI--VAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       511 ~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~--~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  583 (641)
                      |... ...|+ .....++...+.+.|+...|..  ++..+.+++|.++..|+.++.++-+.|+.++|.+-|+...+-
T Consensus       707 f~~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  707 FLVALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQL  783 (799)
T ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhh
Confidence            8876 45666 4578899999999999888888  999999999999999999999999999999999999987654

>PRK12370 invasion protein regulator; Provisional

Probab=99.28  E-value=1.7e-09  Score=114.88  Aligned_cols=245  Identities=14%  Similarity=0.024  Sum_probs=177.4

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHH---------ccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC
Q 040576          331 DYCECLRLFDRMIRGDAKPNEA-SLMSVLTACA---------NMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCG  400 (641)
Q Consensus       331 ~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~---------~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  400 (641)
                      ++++|..+|++..+.  .|+.. .|..+..++.         ..+++++|...++.+.+.+ +.+...+..+..++...|
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            457888888888773  45543 4444443332         2345789999999988875 456778888888999999


Q ss_pred             CHHHHHHHHhhcCC--C-ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHH
Q 040576          401 VMDLARNVFDNMTE--K-NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDL  477 (641)
Q Consensus       401 ~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~  477 (641)
                      ++++|...|++..+  | +...|..+...+...|++++|+..+++..+.... +...+..++..+...|++++|...+++
T Consensus       353 ~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~~  431 (553)
T PRK12370        353 EYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGITKLWITYYHTGIDDAIRLGDE  431 (553)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHHHHH
Confidence            99999999999774  3 4567888999999999999999999999986433 222333445556678999999999999


Q ss_pred             hHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 040576          478 MQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPA-LWGALLSACSTHSNSELGKIVAQHLMELEPRDP  554 (641)
Q Consensus       478 ~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  554 (641)
                      +.. . ..|+ ...+..+..+|...|++++|.+.++++ +..|+.. .++.+...+...|  +.|...++.+.+..-..+
T Consensus       432 ~l~-~-~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~  507 (553)
T PRK12370        432 LRS-Q-HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRID  507 (553)
T ss_pred             HHH-h-ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhh
Confidence            876 2 2343 555777888999999999999999987 3445544 3455555667777  478888887776443333


Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 040576          555 GPYVLLSNIYASEGKWDEVENLRRIMKEKE  584 (641)
Q Consensus       555 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  584 (641)
                      .....+..+|.-.|+-+.+..+ +++.+.+
T Consensus       508 ~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        508 NNPGLLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             cCchHHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            2334477788888888888777 8886654

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.28  E-value=3.6e-09  Score=108.79  Aligned_cols=227  Identities=10%  Similarity=0.037  Sum_probs=107.4

Q ss_pred             HHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCeeHH
Q 040576          147 KMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTW  226 (641)
Q Consensus       147 ~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~  226 (641)
                      .|...|+.||..||..+|.-||..|+.+.|- +|..|.-...+.+..+++.++.+..+.|+.+.+.       .|...+|
T Consensus        15 ~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~aDty   86 (1088)
T KOG4318|consen   15 LHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPLADTY   86 (1088)
T ss_pred             HHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCchhHH
Confidence            4555566666666666666666666665555 5555555555555555666665555555554443       4455556


Q ss_pred             HHHHHHHHhCCChHHHHHHHhhCCCCCchhHHHHHHHHhcCCChHHHHHHHhhcC-CCC-chHHHHHHHHHHhcCChHHH
Q 040576          227 NSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMP-FRD-VVSWNCMIDGYAKIGNVTSA  304 (641)
Q Consensus       227 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~-~~~-~~~~~~li~~~~~~~~~~~A  304 (641)
                      +.|..+|.+.|++.- ++..++       ....+...+...|....-..++-.+. .|. ...-...+....-.|.++.+
T Consensus        87 t~Ll~ayr~hGDli~-fe~veq-------dLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaql  158 (1088)
T KOG4318|consen   87 TNLLKAYRIHGDLIL-FEVVEQ-------DLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQL  158 (1088)
T ss_pred             HHHHHHHHhccchHH-HHHHHH-------HHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHH
Confidence            666666666655443 111111       11222333333443333333333321 111 11112233333444555555


Q ss_pred             HHHHHhcCCCCc-chHHHHHHHHHHcC-ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 040576          305 RNCFDRMCMRNV-VSWNILLALYVRCK-DYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRI  382 (641)
Q Consensus       305 ~~~~~~~~~~~~-~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  382 (641)
                      ++++..++...- .+....++-+.... .+++-....+...+   .|+..+|..++.+-...|+.+.|..++..|.+.|+
T Consensus       159 lkll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gf  235 (1088)
T KOG4318|consen  159 LKLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGF  235 (1088)
T ss_pred             HHHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCC
Confidence            665555532110 01111122221111 22222222222221   36666677777766667777777777777777776


Q ss_pred             CCchhHHHHH
Q 040576          383 KPDVLLSTSL  392 (641)
Q Consensus       383 ~~~~~~~~~l  392 (641)
                      +.+..-|-.|
T Consensus       236 pir~HyFwpL  245 (1088)
T KOG4318|consen  236 PIRAHYFWPL  245 (1088)
T ss_pred             Ccccccchhh
Confidence            6655544333

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.27  E-value=1.1e-09  Score=110.81  Aligned_cols=191  Identities=18%  Similarity=0.223  Sum_probs=134.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCC-------C----ChhHHHHHHHHHHHcCChHHHHHHHHHHHHC-----CCCC-CHH
Q 040576          391 SLLTMYAKCGVMDLARNVFDNMTE-------K----NVVSWNSMIMGYGMHGQGEKALEMFMEMEKR-----GPTP-NDA  453 (641)
Q Consensus       391 ~li~~~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~-----g~~p-~~~  453 (641)
                      .+...|...+++++|..+|+++..       +    -..+++.|..+|.+.|++++|...+++..+-     |..+ ...
T Consensus       246 ~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~  325 (508)
T KOG1840|consen  246 ILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVA  325 (508)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHH
Confidence            355566666777666666666542       1    1235666677777777777777766665431     2222 222


Q ss_pred             -HHHHHHHHHHhhccHHHHHHHHHHhHHhhC--CCCc----hHHHHHHHHHHhhcCCHHHHHHHHHhCC-------C--C
Q 040576          454 -TFICVLSACTHAGMVLEGWWYFDLMQRIYK--IEPK----VEHYGCMVDLLGRAGLMRDSEELVSKLP-------M--E  517 (641)
Q Consensus       454 -~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~--~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~-------~--~  517 (641)
                       .++.+...|...+.+++|..++....+...  +.++    ..+++.|...|...|++++|.++++++-       .  .
T Consensus       326 ~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~  405 (508)
T KOG1840|consen  326 AQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKD  405 (508)
T ss_pred             HHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcC
Confidence             455667778888999999988887766332  2222    4578889999999999999999988761       1  1


Q ss_pred             CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHh----cCCCCC---chHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          518 AG-PALWGALLSACSTHSNSELGKIVAQHLME----LEPRDP---GPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       518 ~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      +. ...++.|...|.+.+++++|..+|.....    .+|+++   .+|..|+.+|.+.|++++|.++.+...
T Consensus       406 ~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  406 YGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             hhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            22 34567788889999999999999887764    345554   578889999999999999999988875

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.25  E-value=1.5e-09  Score=105.42  Aligned_cols=188  Identities=18%  Similarity=0.112  Sum_probs=101.0

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHH
Q 040576          387 LLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPN-DATFICVLSAC  462 (641)
Q Consensus       387 ~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~  462 (641)
                      ..|..+...|...|+.++|...|++..+   .+...|+.+...+...|++++|...|++..+.  .|+ ..++..+..++
T Consensus        65 ~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l  142 (296)
T PRK11189         65 QLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAYLNRGIAL  142 (296)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            3455555566666666666666665543   24456666666677777777777777766654  333 34555566666


Q ss_pred             HhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 040576          463 THAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIV  542 (641)
Q Consensus       463 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  542 (641)
                      ...|++++|.+.|+...+   ..|+..........+...+++++|.+.|++....-++..|. ........|+...+ ..
T Consensus       143 ~~~g~~~eA~~~~~~al~---~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~~~~~~~-~~~~~~~lg~~~~~-~~  217 (296)
T PRK11189        143 YYGGRYELAQDDLLAFYQ---DDPNDPYRALWLYLAESKLDPKQAKENLKQRYEKLDKEQWG-WNIVEFYLGKISEE-TL  217 (296)
T ss_pred             HHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhCCccccH-HHHHHHHccCCCHH-HH
Confidence            666777777777766665   33432211111222334556677777665431111111121 11122223333222 12


Q ss_pred             HHHHH-------hcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          543 AQHLM-------ELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       543 ~~~~~-------~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      ++.+.       ++.|+.+..|..++.+|.+.|++++|+..+++..
T Consensus       218 ~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al  263 (296)
T PRK11189        218 MERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLAL  263 (296)
T ss_pred             HHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            22222       3445555677777777777777777777777773

>PF13041 PPR_2: PPR repeat family

Probab=99.21  E-value=3.7e-11  Score=81.42  Aligned_cols=50  Identities=24%  Similarity=0.486  Sum_probs=45.5

Q ss_pred             CCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 040576          314 RNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACAN  363 (641)
Q Consensus       314 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~  363 (641)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++
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            68889999999999999999999999999999999999999999998874

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.21  E-value=1.6e-07  Score=86.98  Aligned_cols=404  Identities=11%  Similarity=0.061  Sum_probs=193.9

Q ss_pred             HHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCH
Q 040576          129 KSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEV  208 (641)
Q Consensus       129 ~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~  208 (641)
                      -++.+.|++++|+..|.-.|.+  -.++...+..+..+..-.|.+.+|+.+....     +.++..-..|.+.-.+.|+-
T Consensus        65 ~C~fhLgdY~~Al~~Y~~~~~~--~~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka-----~k~pL~~RLlfhlahklndE  137 (557)
T KOG3785|consen   65 HCYFHLGDYEEALNVYTFLMNK--DDAPAELGVNLACCKFYLGQYIEAKSIAEKA-----PKTPLCIRLLFHLAHKLNDE  137 (557)
T ss_pred             HHHHhhccHHHHHHHHHHHhcc--CCCCcccchhHHHHHHHHHHHHHHHHHHhhC-----CCChHHHHHHHHHHHHhCcH
Confidence            3445567777777777632332  2344444444444444456666666654322     11222223333444455554


Q ss_pred             HHHHHHHhcCCCCCeeHHHHHHHHHHhCCChHHHHHHHhhC--CCCCchhHHHHHH-HHhcCCChHHHHHHHhhcCC--C
Q 040576          209 LDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFM--PERDIFTWNSMIS-GYVDVGDMEAANGLFDLMPF--R  283 (641)
Q Consensus       209 ~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~~~~~~~~ll~-~~~~~g~~~~a~~~~~~~~~--~  283 (641)
                      ++-...-++... ...---++.+...-.-++.+|++++++.  ..|+-...|.-+. +|.+...++-+.+++.-..+  |
T Consensus       138 k~~~~fh~~LqD-~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~p  216 (557)
T KOG3785|consen  138 KRILTFHSSLQD-TLEDQLSLASVHYMRMHYQEAIDVYKRVLQDNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFP  216 (557)
T ss_pred             HHHHHHHHHHhh-hHHHHHhHHHHHHHHHHHHHHHHHHHHHHhcChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCC
Confidence            444443333221 1122233444444445667777777776  3344445554443 44566666666665554432  3


Q ss_pred             C-chHHHHHHHHHHhc--CChHHHHHHHHhcCCCCcchHHHHHHHHHHc-----CChHHHHHHHHHHHHCCCCCCHHHHH
Q 040576          284 D-VVSWNCMIDGYAKI--GNVTSARNCFDRMCMRNVVSWNILLALYVRC-----KDYCECLRLFDRMIRGDAKPNEASLM  355 (641)
Q Consensus       284 ~-~~~~~~li~~~~~~--~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~~~~  355 (641)
                      | ....|.......+.  |+..++  -...+...-...|- .+.-.++.     .+-+.|++++-.+.+  +.|..  -.
T Consensus       217 dStiA~NLkacn~fRl~ngr~ae~--E~k~ladN~~~~~~-f~~~l~rHNLVvFrngEgALqVLP~L~~--~IPEA--Rl  289 (557)
T KOG3785|consen  217 DSTIAKNLKACNLFRLINGRTAED--EKKELADNIDQEYP-FIEYLCRHNLVVFRNGEGALQVLPSLMK--HIPEA--RL  289 (557)
T ss_pred             CcHHHHHHHHHHHhhhhccchhHH--HHHHHHhcccccch-hHHHHHHcCeEEEeCCccHHHhchHHHh--hChHh--hh
Confidence            3 22223222222221  222111  11111000000011 11111111     234555555554443  22222  22


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHH-----HHHhcCCHHHHHHHHhhcCC-----CChhHHHHHHH
Q 040576          356 SVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLT-----MYAKCGVMDLARNVFDNMTE-----KNVVSWNSMIM  425 (641)
Q Consensus       356 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~-----~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~  425 (641)
                      .++-.|.+.+++.+|..+.+.+.-  ..|-......++.     -......+.-|...|+-.-+     ..+.--.++..
T Consensus       290 NL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs  367 (557)
T KOG3785|consen  290 NLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMAS  367 (557)
T ss_pred             hheeeecccccHHHHHHHHhhcCC--CChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHH
Confidence            334445666666666655443321  0111111111111     11111224445555554432     22233455666


Q ss_pred             HHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHH-HHHHHHhhcCCH
Q 040576          426 GYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYG-CMVDLLGRAGLM  504 (641)
Q Consensus       426 ~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~-~li~~~~~~g~~  504 (641)
                      ++.-..++++.+-.+.....-=.. |..--..+..+.+..|++.+|.++|-.+.. ..+ .|..+|. .|.++|.+++++
T Consensus       368 ~fFL~~qFddVl~YlnSi~sYF~N-dD~Fn~N~AQAk~atgny~eaEelf~~is~-~~i-kn~~~Y~s~LArCyi~nkkP  444 (557)
T KOG3785|consen  368 YFFLSFQFDDVLTYLNSIESYFTN-DDDFNLNLAQAKLATGNYVEAEELFIRISG-PEI-KNKILYKSMLARCYIRNKKP  444 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcC-cchhhhHHHHHHHHhcChHHHHHHHhhhcC-hhh-hhhHHHHHHHHHHHHhcCCc
Confidence            666667777777777766654222 333233466777777888888888776654 222 2334444 466778888888


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHH-HHHHhcCCHHHHHHHHHHHHhcCCC
Q 040576          505 RDSEELVSKLPMEAGPALWGALL-SACSTHSNSELGKIVAQHLMELEPR  552 (641)
Q Consensus       505 ~~A~~~~~~~~~~~~~~~~~~l~-~~~~~~g~~~~a~~~~~~~~~~~p~  552 (641)
                      +-|.+++-++....+..+...++ +-|.+.+.+--|-..|+.+..++|.
T Consensus       445 ~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~  493 (557)
T KOG3785|consen  445 QLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPT  493 (557)
T ss_pred             hHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCC
Confidence            88888887775434444444444 3477777777777888877777765

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.20  E-value=2.9e-08  Score=97.20  Aligned_cols=233  Identities=9%  Similarity=0.017  Sum_probs=166.9

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChh----------HHHHH
Q 040576          354 LMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVV----------SWNSM  423 (641)
Q Consensus       354 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~----------~~~~l  423 (641)
                      ...+..+..+..+++.+.+-+.......  -++.-++....+|...|.+..+...-+...+....          ++..+
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~  304 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARL  304 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHh
Confidence            4556677777778888888888887765  55666677778888888877777666654432211          22224


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchH-HHHHHHHHHhhcC
Q 040576          424 IMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVE-HYGCMVDLLGRAG  502 (641)
Q Consensus       424 i~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~-~~~~li~~~~~~g  502 (641)
                      ..+|.+.++++.|+..|.+.......|+..         .+....+++....+...-   +.|... -.-.-...+.+.|
T Consensus       305 g~a~~k~~~~~~ai~~~~kaLte~Rt~~~l---------s~lk~~Ek~~k~~e~~a~---~~pe~A~e~r~kGne~Fk~g  372 (539)
T KOG0548|consen  305 GNAYTKREDYEGAIKYYQKALTEHRTPDLL---------SKLKEAEKALKEAERKAY---INPEKAEEEREKGNEAFKKG  372 (539)
T ss_pred             hhhhhhHHhHHHHHHHHHHHhhhhcCHHHH---------HHHHHHHHHHHHHHHHHh---hChhHHHHHHHHHHHHHhcc
Confidence            446667788888888888876654443322         223444444444444332   444421 1112256778999


Q ss_pred             CHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          503 LMRDSEELVSKL-PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       503 ~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      ++.+|+..|.++ ...|+ ...|....-+|.+.|.+..|+.-.+..++++|+....|..-+.++....+|++|.+.+++.
T Consensus       373 dy~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~ea  452 (539)
T KOG0548|consen  373 DYPEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEA  452 (539)
T ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999987 33344 6688889999999999999999999999999999999999999999999999999999998


Q ss_pred             hhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHH
Q 040576          581 KEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQ  626 (641)
Q Consensus       581 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~  626 (641)
                                              .+.+|.+.+  +.+.+.+-...
T Consensus       453 ------------------------le~dp~~~e--~~~~~~rc~~a  472 (539)
T KOG0548|consen  453 ------------------------LELDPSNAE--AIDGYRRCVEA  472 (539)
T ss_pred             ------------------------HhcCchhHH--HHHHHHHHHHH
Confidence                                    667788888  66666665543

>PF13041 PPR_2: PPR repeat family

Probab=99.20  E-value=5.5e-11  Score=80.59  Aligned_cols=50  Identities=36%  Similarity=0.641  Sum_probs=45.7

Q ss_pred             CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 040576          415 KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTH  464 (641)
Q Consensus       415 ~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~  464 (641)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++++|++
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            68889999999999999999999999999999999999999999998864

>PRK12370 invasion protein regulator; Provisional

Probab=99.20  E-value=4.9e-09  Score=111.40  Aligned_cols=212  Identities=13%  Similarity=0.014  Sum_probs=164.7

Q ss_pred             CCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHh---------cCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCC
Q 040576          365 GVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAK---------CGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQ  432 (641)
Q Consensus       365 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~---------~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~  432 (641)
                      +++++|...+++..+.. +.+...+..+..+|..         .+++++|...+++..+   .+...|..+...+...|+
T Consensus       275 ~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        275 YSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccC
Confidence            34678899999988764 3345566666655542         2458899999998875   366788888889999999


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCch-HHHHHHHHHHhhcCCHHHHHHHH
Q 040576          433 GEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKV-EHYGCMVDLLGRAGLMRDSEELV  511 (641)
Q Consensus       433 ~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~  511 (641)
                      +++|...|++..+.+.. +...+..+...+...|++++|...++++.+   +.|+. ..+..++..+...|++++|++.+
T Consensus       354 ~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~---l~P~~~~~~~~~~~~~~~~g~~eeA~~~~  429 (553)
T PRK12370        354 YIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINECLK---LDPTRAAAGITKLWITYYHTGIDDAIRLG  429 (553)
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCChhhHHHHHHHHHhccCHHHHHHHH
Confidence            99999999999986422 456778888899999999999999999988   45653 23334455577789999999999


Q ss_pred             HhCC--CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 040576          512 SKLP--MEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       512 ~~~~--~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  583 (641)
                      ++..  ..|+ +..+..+..++...|+.++|...++++....|.+......++..|...|  ++|...++.+.+.
T Consensus       430 ~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~  502 (553)
T PRK12370        430 DELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLES  502 (553)
T ss_pred             HHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHH
Confidence            8862  2354 4456677778889999999999999998888888888888888888888  4888888887553

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.19  E-value=1.6e-06  Score=88.73  Aligned_cols=401  Identities=13%  Similarity=0.049  Sum_probs=261.1

Q ss_pred             HHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCC--C--C-
Q 040576          147 KMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGP--V--W-  221 (641)
Q Consensus       147 ~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~--~-  221 (641)
                      .+....+.-|...|..+.-++...|+++.+-+.|++....- .-....|+.+--.|..+|.-..|..++++..  .  | 
T Consensus       313 k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~-~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps  391 (799)
T KOG4162|consen  313 KLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFS-FGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPS  391 (799)
T ss_pred             HHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhh-hhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCC
Confidence            34445566788889999888899999999999999987654 3366788889999999999999999998632  2  2 


Q ss_pred             CeeHHHHHHHHHHh-CCChHHHHHHHhhCC--------CCCchhHHHHHHHHhcC-----------CChHHHHHHHhhcC
Q 040576          222 DLVTWNSMIDGYVK-NREVGFARELFDFMP--------ERDIFTWNSMISGYVDV-----------GDMEAANGLFDLMP  281 (641)
Q Consensus       222 ~~~~~~~li~~~~~-~g~~~~A~~~~~~m~--------~~~~~~~~~ll~~~~~~-----------g~~~~a~~~~~~~~  281 (641)
                      |+..+-..-..|.+ .+.+++++..-.+.+        ......|..+.-+|...           ..-.++++.+++..
T Consensus       392 ~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av  471 (799)
T KOG4162|consen  392 DISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAV  471 (799)
T ss_pred             cchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHH
Confidence            33334333344443 466666666555541        22344555555444322           12345677777775


Q ss_pred             C---CCchHHHHHHHHHHhcCChHHHHHHHHhc----CCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHC-CCCCCHHH
Q 040576          282 F---RDVVSWNCMIDGYAKIGNVTSARNCFDRM----CMRNVVSWNILLALYVRCKDYCECLRLFDRMIRG-DAKPNEAS  353 (641)
Q Consensus       282 ~---~~~~~~~~li~~~~~~~~~~~A~~~~~~~----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~~  353 (641)
                      +   .|+.+.-.+.--|+..++++.|.+...+.    ...+...|..+.-.+...+++.+|+.+.+..... |.  |..-
T Consensus       472 ~~d~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~--N~~l  549 (799)
T KOG4162|consen  472 QFDPTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGD--NHVL  549 (799)
T ss_pred             hcCCCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhh--hhhh
Confidence            4   33444455555677888999998888776    3456788999999999999999999999887653 21  1100


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHH---------------------HcCC-------CCchhHHHHHHHHHHhcC---CH
Q 040576          354 LMSVLTACANMGVIDIGQWIHSYIQ---------------------KCRI-------KPDVLLSTSLLTMYAKCG---VM  402 (641)
Q Consensus       354 ~~~ll~~~~~~g~~~~a~~~~~~~~---------------------~~~~-------~~~~~~~~~li~~~~~~g---~~  402 (641)
                      ...-+..-...++.+++......+.                     +.|+       .....++..+.......+   ..
T Consensus       550 ~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~s  629 (799)
T KOG4162|consen  550 MDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGS  629 (799)
T ss_pred             chhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhccc
Confidence            0000111111233333322211111                     0111       111233333322222111   11


Q ss_pred             HHHHHHHhhcCCCC------hhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHH
Q 040576          403 DLARNVFDNMTEKN------VVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFD  476 (641)
Q Consensus       403 ~~A~~~~~~~~~~~------~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  476 (641)
                      +..+..+.....|+      ...|......+.+.++.++|...+.+..... .-....|......+...|.+++|.+.|.
T Consensus       630 e~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~  708 (799)
T KOG4162|consen  630 ELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFL  708 (799)
T ss_pred             ccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHH
Confidence            11111122222233      2356677788889999999988888777642 2244566666777888999999999999


Q ss_pred             HhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHH--HHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 040576          477 LMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEE--LVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEP  551 (641)
Q Consensus       477 ~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~--~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  551 (641)
                      ....   +.|+ +....++..++.+.|+..-|..  ++..+ ...| ++..|..+...+...|+.++|...|+-+.++++
T Consensus       709 ~Al~---ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~  785 (799)
T KOG4162|consen  709 VALA---LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEE  785 (799)
T ss_pred             HHHh---cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhcc
Confidence            9876   6776 6788899999999998877777  77776 4444 477999999999999999999999999999998


Q ss_pred             CCC
Q 040576          552 RDP  554 (641)
Q Consensus       552 ~~~  554 (641)
                      .+|
T Consensus       786 S~P  788 (799)
T KOG4162|consen  786 SNP  788 (799)
T ss_pred             CCC
Confidence            776

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.17  E-value=2.2e-07  Score=93.84  Aligned_cols=184  Identities=13%  Similarity=0.162  Sum_probs=80.2

Q ss_pred             HHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHH
Q 040576          327 VRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLAR  406 (641)
Q Consensus       327 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  406 (641)
                      ...+.|.+|+.+++.++.....  .--|..+...|+..|+++.|+++|...-         .++-.|.+|.+.|+|.+|.
T Consensus       743 i~akew~kai~ildniqdqk~~--s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~  811 (1636)
T KOG3616|consen  743 IGAKEWKKAISILDNIQDQKTA--SGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAF  811 (1636)
T ss_pred             hhhhhhhhhHhHHHHhhhhccc--cccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHH
Confidence            3444455555555544442211  1123344444555555555555543221         2233445555555555555


Q ss_pred             HHHhhcCCCC--hhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCC
Q 040576          407 NVFDNMTEKN--VVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKI  484 (641)
Q Consensus       407 ~~~~~~~~~~--~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~  484 (641)
                      ++-++...|.  ...|-+-..-+-.+|++.+|.++|-...    .|+     ..|..|-+.|..+..+++.++-.     
T Consensus       812 kla~e~~~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~-----~aiqmydk~~~~ddmirlv~k~h-----  877 (1636)
T KOG3616|consen  812 KLAEECHGPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPD-----KAIQMYDKHGLDDDMIRLVEKHH-----  877 (1636)
T ss_pred             HHHHHhcCchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----Cch-----HHHHHHHhhCcchHHHHHHHHhC-----
Confidence            5555444332  2233333334444555555555443322    222     12344445555554444433221     


Q ss_pred             CCc--hHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 040576          485 EPK--VEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIV  542 (641)
Q Consensus       485 ~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  542 (641)
                       |+  ..+-..+..-|...|++.+|.+-|-+..      -|.+-++.|...+-++.|.++
T Consensus       878 -~d~l~dt~~~f~~e~e~~g~lkaae~~flea~------d~kaavnmyk~s~lw~dayri  930 (1636)
T KOG3616|consen  878 -GDHLHDTHKHFAKELEAEGDLKAAEEHFLEAG------DFKAAVNMYKASELWEDAYRI  930 (1636)
T ss_pred             -hhhhhHHHHHHHHHHHhccChhHHHHHHHhhh------hHHHHHHHhhhhhhHHHHHHH
Confidence             11  1223334444555555555555554443      244444455555555444433

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.16  E-value=6.8e-09  Score=105.05  Aligned_cols=162  Identities=12%  Similarity=0.114  Sum_probs=116.7

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhcCC----------CCh-hHHHHHHHHHHHcCChHHHHHHHHHHHHC---CCCCC-
Q 040576          387 LLSTSLLTMYAKCGVMDLARNVFDNMTE----------KNV-VSWNSMIMGYGMHGQGEKALEMFMEMEKR---GPTPN-  451 (641)
Q Consensus       387 ~~~~~li~~~~~~g~~~~A~~~~~~~~~----------~~~-~~~~~li~~~~~~~~~~~A~~~~~~m~~~---g~~p~-  451 (641)
                      .+++.|..+|.+.|++++|...+++..+          +.+ ..++.++..++..+++++|..++++..+.   -+.++ 
T Consensus       284 ~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~  363 (508)
T KOG1840|consen  284 ATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDN  363 (508)
T ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccc
Confidence            4445555566666666666665554432          222 23566677788888899988888876542   12223 


Q ss_pred             ---HHHHHHHHHHHHhhccHHHHHHHHHHhHHhh----C-CCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC--------
Q 040576          452 ---DATFICVLSACTHAGMVLEGWWYFDLMQRIY----K-IEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL--------  514 (641)
Q Consensus       452 ---~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~----~-~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~--------  514 (641)
                         ..+++.+...|.+.|++++|.++|+++....    + ..+. ...++.|...|.+.+++++|.++|.+.        
T Consensus       364 ~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g  443 (508)
T KOG1840|consen  364 VNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCG  443 (508)
T ss_pred             hHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhC
Confidence               3478899999999999999999999987643    1 1222 456788899999999999998888875        


Q ss_pred             CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040576          515 PMEAGP-ALWGALLSACSTHSNSELGKIVAQHLME  548 (641)
Q Consensus       515 ~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~  548 (641)
                      +..|+. .+|..|...|...|+++.|+++.+.+..
T Consensus       444 ~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  444 PDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             CCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            344554 4788999999999999999999998874

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.16  E-value=9e-08  Score=88.22  Aligned_cols=312  Identities=12%  Similarity=0.061  Sum_probs=163.3

Q ss_pred             HHHHHHHHHhCCChHHHHHHHhhCCCCCchhHHHHH---HHHhcCCChHHHHHHHhhcCC--CCc-hHHHHHHHHHHhcC
Q 040576          226 WNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMI---SGYVDVGDMEAANGLFDLMPF--RDV-VSWNCMIDGYAKIG  299 (641)
Q Consensus       226 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~ll---~~~~~~g~~~~a~~~~~~~~~--~~~-~~~~~li~~~~~~~  299 (641)
                      .-.+.+.+.-.|++..|+.-|...++-|+..|-++.   ..|...|+...|+.-+..+.+  ||. ...-.-...+.+.|
T Consensus        41 hlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~vllK~G  120 (504)
T KOG0624|consen   41 HLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVVLLKQG  120 (504)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchhhhhcc
Confidence            345667777777888888877777766666665544   345566666666665555543  331 11111223455566


Q ss_pred             ChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 040576          300 NVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQK  379 (641)
Q Consensus       300 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  379 (641)
                      .++.|..-|+.+...++.- +....++.+.       .+.+++.         .....+..+...|+...++.....+++
T Consensus       121 ele~A~~DF~~vl~~~~s~-~~~~eaqskl-------~~~~e~~---------~l~~ql~s~~~~GD~~~ai~~i~~llE  183 (504)
T KOG0624|consen  121 ELEQAEADFDQVLQHEPSN-GLVLEAQSKL-------ALIQEHW---------VLVQQLKSASGSGDCQNAIEMITHLLE  183 (504)
T ss_pred             cHHHHHHHHHHHHhcCCCc-chhHHHHHHH-------HhHHHHH---------HHHHHHHHHhcCCchhhHHHHHHHHHh
Confidence            6666666665553322210 0000111110       1111111         122233344556667777777666666


Q ss_pred             cCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHH
Q 040576          380 CRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMT---EKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFI  456 (641)
Q Consensus       380 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~  456 (641)
                      .. +.|...+..-..+|...|++..|+.-+....   ..+...+.-+-..+...|+.+.++...++-.+  +.||.....
T Consensus       184 i~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ldpdHK~Cf  260 (504)
T KOG0624|consen  184 IQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLK--LDPDHKLCF  260 (504)
T ss_pred             cC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCcchhhHH
Confidence            43 4567777777777777777777766555443   34555555666666667777777766666655  355544211


Q ss_pred             HHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCH-----HHHHHHHHHH
Q 040576          457 CVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGP-----ALWGALLSAC  530 (641)
Q Consensus       457 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~-----~~~~~l~~~~  530 (641)
                      ..   |   ..+.+..+.++.|.                 ...+.++|.++++..++. ...|..     ..+..+-.++
T Consensus       261 ~~---Y---KklkKv~K~les~e-----------------~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~  317 (504)
T KOG0624|consen  261 PF---Y---KKLKKVVKSLESAE-----------------QAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCY  317 (504)
T ss_pred             HH---H---HHHHHHHHHHHHHH-----------------HHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecc
Confidence            10   0   11111111111111                 123344455555444432 223331     1223334445


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          531 STHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       531 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      ...|++.+|++...+++.++|+|..++..-+.+|.-...|++|+.-++..
T Consensus       318 ~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A  367 (504)
T KOG0624|consen  318 REDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKA  367 (504)
T ss_pred             cccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            56666677777777777777776666666677777666777777766666

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.16  E-value=8.7e-07  Score=88.84  Aligned_cols=114  Identities=12%  Similarity=0.019  Sum_probs=49.6

Q ss_pred             cCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHH
Q 040576          133 MLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDAR  212 (641)
Q Consensus       133 ~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~  212 (641)
                      ..|+-++|.+.....++  +-.-+.+.|+.+.-......++++|.+.+..+.+.+ +.|...+.-|--.-+..|+++...
T Consensus        53 ~lg~~~ea~~~vr~glr--~d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~  129 (700)
T KOG1156|consen   53 CLGKKEEAYELVRLGLR--NDLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYL  129 (700)
T ss_pred             cccchHHHHHHHHHHhc--cCcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHH
Confidence            34555555555441111  112233344444444444455555555555555443 223344444433334444444443


Q ss_pred             HHHhcC---CCCCeeHHHHHHHHHHhCCChHHHHHHHhhC
Q 040576          213 KVFEDG---PVWDLVTWNSMIDGYVKNREVGFARELFDFM  249 (641)
Q Consensus       213 ~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  249 (641)
                      ..-...   .+..-..|..+..++.-.|+...|..+++..
T Consensus       130 ~tr~~LLql~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef  169 (700)
T KOG1156|consen  130 ETRNQLLQLRPSQRASWIGFAVAQHLLGEYKMALEILEEF  169 (700)
T ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333321   1223334555555555555555555555444

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.15  E-value=5.2e-09  Score=91.34  Aligned_cols=162  Identities=10%  Similarity=0.073  Sum_probs=139.3

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHH
Q 040576          419 SWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPN-DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVD  496 (641)
Q Consensus       419 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~  496 (641)
                      +..-|.-+|.+.|++..|..-+++..+.  .|+ ..++..+...|.+.|..+.|.+.|++..+   +.|+ -.+.|...-
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~--DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls---l~p~~GdVLNNYG~  111 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEH--DPSYYLAHLVRAHYYQKLGENDLADESYRKALS---LAPNNGDVLNNYGA  111 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHh---cCCCccchhhhhhH
Confidence            4556778899999999999999999986  444 45888888889999999999999999987   5565 677888899


Q ss_pred             HHhhcCCHHHHHHHHHhCCCCC---C-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHH
Q 040576          497 LLGRAGLMRDSEELVSKLPMEA---G-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDE  572 (641)
Q Consensus       497 ~~~~~g~~~~A~~~~~~~~~~~---~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  572 (641)
                      .+|..|++++|...|++....|   . ..+|..+..+..+.|+.+.|...|++.++++|+++.....++....+.|++-.
T Consensus       112 FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~  191 (250)
T COG3063         112 FLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAP  191 (250)
T ss_pred             HHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchH
Confidence            9999999999999999873233   3 44788888888999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhhCCC
Q 040576          573 VENLRRIMKEKEL  585 (641)
Q Consensus       573 A~~~~~~m~~~~~  585 (641)
                      |...+++....+.
T Consensus       192 Ar~~~~~~~~~~~  204 (250)
T COG3063         192 ARLYLERYQQRGG  204 (250)
T ss_pred             HHHHHHHHHhccc
Confidence            9999999876654

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.14  E-value=7.9e-07  Score=82.46  Aligned_cols=441  Identities=11%  Similarity=0.038  Sum_probs=243.6

Q ss_pred             HHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHH-HHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcC
Q 040576          128 MKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPL-LGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCG  206 (641)
Q Consensus       128 i~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~-ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g  206 (641)
                      +.-+....++..|+.+++ .-...+-. ....... +..++.+.|++++|...+..+.+.. .++...+..|..++.-.|
T Consensus        29 Ledfls~rDytGAislLe-fk~~~~~E-EE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg  105 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLE-FKLNLDRE-EEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLG  105 (557)
T ss_pred             HHHHHhcccchhHHHHHH-Hhhccchh-hhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHH
Confidence            344455667777777776 22211111 1112333 3334457788888888888777643 566666666766666677


Q ss_pred             CHHHHHHHHhcCCCCCeeHHHHHHHHHHhCCChHHHHHHHhhCCCCCchhHHHHHHHHhcCCChHHHHHHHhhcCCCC--
Q 040576          207 EVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRD--  284 (641)
Q Consensus       207 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--  284 (641)
                      .+.+|..+-.+.. .++..-..|...-.+.++-++-..+-+.+.... ..--++.......-.+++|+.++..+...+  
T Consensus       106 ~Y~eA~~~~~ka~-k~pL~~RLlfhlahklndEk~~~~fh~~LqD~~-EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn~e  183 (557)
T KOG3785|consen  106 QYIEAKSIAEKAP-KTPLCIRLLFHLAHKLNDEKRILTFHSSLQDTL-EDQLSLASVHYMRMHYQEAIDVYKRVLQDNPE  183 (557)
T ss_pred             HHHHHHHHHhhCC-CChHHHHHHHHHHHHhCcHHHHHHHHHHHhhhH-HHHHhHHHHHHHHHHHHHHHHHHHHHHhcChh
Confidence            8888877765432 223333344455556666655555444431111 111122222223345677777777766433  


Q ss_pred             chHHHH-HHHHHHhcCChHHHHHHHHhc---CCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 040576          285 VVSWNC-MIDGYAKIGNVTSARNCFDRM---CMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTA  360 (641)
Q Consensus       285 ~~~~~~-li~~~~~~~~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  360 (641)
                      ....|. +.-+|.+.+-++-+.++++--   ...++..-|.......+.=+-..|.+-.+++.+.+-..    |- .+.-
T Consensus       184 y~alNVy~ALCyyKlDYydvsqevl~vYL~q~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~----~~-f~~~  258 (557)
T KOG3785|consen  184 YIALNVYMALCYYKLDYYDVSQEVLKVYLRQFPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQE----YP-FIEY  258 (557)
T ss_pred             hhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhccccc----ch-hHHH
Confidence            222222 233455666565555554443   22233344444433333333333333334443322111    10 1111


Q ss_pred             HHcc-----CCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCC---
Q 040576          361 CANM-----GVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQ---  432 (641)
Q Consensus       361 ~~~~-----g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~---  432 (641)
                      .++.     .+-+.|.+++--+.+.  -|.  .--.|+--|.+.+++.+|..+...+....+.-|-.-.-.++..|+   
T Consensus       259 l~rHNLVvFrngEgALqVLP~L~~~--IPE--ARlNL~iYyL~q~dVqeA~~L~Kdl~PttP~EyilKgvv~aalGQe~g  334 (557)
T KOG3785|consen  259 LCRHNLVVFRNGEGALQVLPSLMKH--IPE--ARLNLIIYYLNQNDVQEAISLCKDLDPTTPYEYILKGVVFAALGQETG  334 (557)
T ss_pred             HHHcCeEEEeCCccHHHhchHHHhh--ChH--hhhhheeeecccccHHHHHHHHhhcCCCChHHHHHHHHHHHHhhhhcC
Confidence            1221     2334555554444332  222  223356678899999999999998876555444333333333333   


Q ss_pred             ----hHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHH
Q 040576          433 ----GEKALEMFMEMEKRGPTPNDA-TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDS  507 (641)
Q Consensus       433 ----~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  507 (641)
                          ..-|.+.|+-.-+.+..-|.. ---++..++.-..++++.+-++..+.. +-...|...+ .+..+++..|++.+|
T Consensus       335 SreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~s-YF~NdD~Fn~-N~AQAk~atgny~ea  412 (557)
T KOG3785|consen  335 SREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIES-YFTNDDDFNL-NLAQAKLATGNYVEA  412 (557)
T ss_pred             cHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHH-HhcCcchhhh-HHHHHHHHhcChHHH
Confidence                455666665554444333322 122344555556788999999999887 5444444444 478999999999999


Q ss_pred             HHHHHhCC--CCCCHHHHHHHH-HHHHhcCCHHHHHHHHHHHHhcC-CCC-CchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          508 EELVSKLP--MEAGPALWGALL-SACSTHSNSELGKIVAQHLMELE-PRD-PGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       508 ~~~~~~~~--~~~~~~~~~~l~-~~~~~~g~~~~a~~~~~~~~~~~-p~~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      +++|-.+.  .-.+..+|.+++ .+|.+.+.++.|..++   ++.+ |.+ ...+..+++.|.+.+.+--|.+.|+.+..
T Consensus       413 Eelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~---lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~  489 (557)
T KOG3785|consen  413 EELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMM---LKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEI  489 (557)
T ss_pred             HHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHH---HhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHc
Confidence            99998873  113455665554 5678899998887665   3333 222 23456678889999999999999988866


Q ss_pred             CCCcc
Q 040576          583 KELEK  587 (641)
Q Consensus       583 ~~~~~  587 (641)
                      .++.|
T Consensus       490 lDP~p  494 (557)
T KOG3785|consen  490 LDPTP  494 (557)
T ss_pred             cCCCc
Confidence            55544

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.14  E-value=4.4e-06  Score=87.69  Aligned_cols=144  Identities=13%  Similarity=0.226  Sum_probs=117.4

Q ss_pred             ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHH
Q 040576          416 NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMV  495 (641)
Q Consensus       416 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li  495 (641)
                      .+..|..+..+-.+.|...+|++-|-+..      |+..|..+++.+.+.|.|++-.+++..+++ ..-.|.++  +.|+
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyikad------Dps~y~eVi~~a~~~~~~edLv~yL~MaRk-k~~E~~id--~eLi 1173 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYIKAD------DPSNYLEVIDVASRTGKYEDLVKYLLMARK-KVREPYID--SELI 1173 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHHhcC------CcHHHHHHHHHHHhcCcHHHHHHHHHHHHH-hhcCccch--HHHH
Confidence            44689999999999999999998876542      678899999999999999999999988877 55566654  5689


Q ss_pred             HHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHH
Q 040576          496 DLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVEN  575 (641)
Q Consensus       496 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  575 (641)
                      -+|++.+++.+-++++.    .|+......+..-|...|.++.|.-+|..        ...|..|+..+...|++..|..
T Consensus      1174 ~AyAkt~rl~elE~fi~----gpN~A~i~~vGdrcf~~~~y~aAkl~y~~--------vSN~a~La~TLV~LgeyQ~AVD 1241 (1666)
T KOG0985|consen 1174 FAYAKTNRLTELEEFIA----GPNVANIQQVGDRCFEEKMYEAAKLLYSN--------VSNFAKLASTLVYLGEYQGAVD 1241 (1666)
T ss_pred             HHHHHhchHHHHHHHhc----CCCchhHHHHhHHHhhhhhhHHHHHHHHH--------hhhHHHHHHHHHHHHHHHHHHH
Confidence            99999999998877764    47777788888889999999999888864        4457778888888888877776


Q ss_pred             HHHHh
Q 040576          576 LRRIM  580 (641)
Q Consensus       576 ~~~~m  580 (641)
                      .-+++
T Consensus      1242 ~aRKA 1246 (1666)
T KOG0985|consen 1242 AARKA 1246 (1666)
T ss_pred             Hhhhc
Confidence            55554

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.14  E-value=4e-07  Score=86.15  Aligned_cols=189  Identities=8%  Similarity=-0.031  Sum_probs=129.5

Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHH
Q 040576          363 NMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEM  439 (641)
Q Consensus       363 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~  439 (641)
                      ..++++.|..+-+..++.+ +-+...+-.-..++...|+.++|.-.|+....   -+..+|.-|+.+|...|++.+|..+
T Consensus       312 ~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~  390 (564)
T KOG1174|consen  312 DEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANAL  390 (564)
T ss_pred             hhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHH
Confidence            3344444444444444432 12233333334455666777777777766553   3567788888888888888888777


Q ss_pred             HHHHHHCCCCCCHHHHHHHH-HHH-HhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-C
Q 040576          440 FMEMEKRGPTPNDATFICVL-SAC-THAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-P  515 (641)
Q Consensus       440 ~~~m~~~g~~p~~~~~~~ll-~~~-~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~  515 (641)
                      -+..... +.-+..+...+. ..| .....-++|.+++++..+   +.|+ ....+.+...+.+.|..++++.++++. .
T Consensus       391 An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~---~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~  466 (564)
T KOG1174|consen  391 ANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK---INPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLI  466 (564)
T ss_pred             HHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc---cCCccHHHHHHHHHHHHhhCccchHHHHHHHHHh
Confidence            6655443 233444554442 222 233345778888888765   6677 556677888999999999999999986 5


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch
Q 040576          516 MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGP  556 (641)
Q Consensus       516 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  556 (641)
                      ..||....+.|...+...+.+++|...|..+++++|++..+
T Consensus       467 ~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~~~s  507 (564)
T KOG1174|consen  467 IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKSKRT  507 (564)
T ss_pred             hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccchHH
Confidence            67899999999999999999999999999999999998543

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.10  E-value=6.9e-08  Score=93.83  Aligned_cols=229  Identities=10%  Similarity=-0.025  Sum_probs=156.1

Q ss_pred             CChHHHHHHHHHHHHCC-CCCC--HHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHH
Q 040576          330 KDYCECLRLFDRMIRGD-AKPN--EASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLAR  406 (641)
Q Consensus       330 g~~~~A~~~~~~m~~~g-~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  406 (641)
                      +..+.++.-+.++.... ..|+  ...|..+...+...|+.++|...|....+.. +.+...|+.+...|...|++++|.
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            45667777777776532 2222  2346666677888888888888888888765 446788888999999999999999


Q ss_pred             HHHhhcCC--C-ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhC
Q 040576          407 NVFDNMTE--K-NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYK  483 (641)
Q Consensus       407 ~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  483 (641)
                      ..|++..+  | +..+|..+..++...|++++|++.|++..+.  .|+..........+...++.++|...|+....  .
T Consensus       119 ~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~--~  194 (296)
T PRK11189        119 EAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYE--K  194 (296)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh--h
Confidence            99998864  3 4567888888999999999999999999885  44433222222234456789999999977654  2


Q ss_pred             CCCchHHHHHHHHHHhhcCCH--HHHHHHHHhC-CC----CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-CCC
Q 040576          484 IEPKVEHYGCMVDLLGRAGLM--RDSEELVSKL-PM----EA-GPALWGALLSACSTHSNSELGKIVAQHLMELEP-RDP  554 (641)
Q Consensus       484 ~~p~~~~~~~li~~~~~~g~~--~~A~~~~~~~-~~----~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p-~~~  554 (641)
                      ..|+...+ .+...  ..|+.  +++.+.+.+. ..    .| ....|..+...+...|++++|+..|+++++.+| +..
T Consensus       195 ~~~~~~~~-~~~~~--~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~~  271 (296)
T PRK11189        195 LDKEQWGW-NIVEF--YLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNFV  271 (296)
T ss_pred             CCccccHH-HHHHH--HccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchHH
Confidence            33433222 23333  34444  3334333322 11    11 235788899999999999999999999999997 555


Q ss_pred             chHHHHHHHHHh
Q 040576          555 GPYVLLSNIYAS  566 (641)
Q Consensus       555 ~~~~~l~~~~~~  566 (641)
                      ++-..++.....
T Consensus       272 e~~~~~~e~~~~  283 (296)
T PRK11189        272 EHRYALLELALL  283 (296)
T ss_pred             HHHHHHHHHHHH
Confidence            555555554443

>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=99.09  E-value=2.1e-06  Score=88.34  Aligned_cols=411  Identities=12%  Similarity=0.074  Sum_probs=223.7

Q ss_pred             HHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcC--
Q 040576          129 KSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCG--  206 (641)
Q Consensus       129 ~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g--  206 (641)
                      ..+...|++++|++.+. . ....+......+......+.+.|+.++|..++..+++.+ +.+..-|..|..+..-..  
T Consensus        12 ~il~e~g~~~~AL~~L~-~-~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLE-K-NEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHCCCHHHHHHHHH-h-hhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhccc
Confidence            45567788888888887 3 222244444456666777788888888888888888876 234445555555553222  


Q ss_pred             ---CHHHHHHHHhcCCCCCee--HHHHHHHHHHhCCChHHHHHHHhhCCCCCchhHHHHHHHHhcCCChHHHHHHHhhcC
Q 040576          207 ---EVLDARKVFEDGPVWDLV--TWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMP  281 (641)
Q Consensus       207 ---~~~~A~~~~~~~~~~~~~--~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  281 (641)
                         +.+...+++++.....+.  +...+.-.+.....+..                              .+...+..+.
T Consensus        89 ~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~------------------------------~~~~yl~~~l  138 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKE------------------------------RLDEYLRPQL  138 (517)
T ss_pred             ccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHH------------------------------HHHHHHHHHH
Confidence               334444444432211111  00001000111011111                              1112222222


Q ss_pred             CCC-chHHHHHHHHHHhcCChHHHHHHHHhc------------------CCCCcc--hHHHHHHHHHHcCChHHHHHHHH
Q 040576          282 FRD-VVSWNCMIDGYAKIGNVTSARNCFDRM------------------CMRNVV--SWNILLALYVRCKDYCECLRLFD  340 (641)
Q Consensus       282 ~~~-~~~~~~li~~~~~~~~~~~A~~~~~~~------------------~~~~~~--~~~~li~~~~~~g~~~~A~~~~~  340 (641)
                      +.+ +.+++.|-..|....+.+-..+++...                  ..|...  ++..+...|...|++++|++.++
T Consensus       139 ~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id  218 (517)
T PF12569_consen  139 RKGVPSLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYID  218 (517)
T ss_pred             hcCCchHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            333 234444444444333333333333332                  112222  34566778888999999999999


Q ss_pred             HHHHCCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChh-
Q 040576          341 RMIRGDAKPN-EASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVV-  418 (641)
Q Consensus       341 ~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-  418 (641)
                      +.++.  .|+ ...|..-...+-+.|++.+|...++...... .-|..+-+..+..+.++|++++|.+++.....++.. 
T Consensus       219 ~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~  295 (517)
T PF12569_consen  219 KAIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDP  295 (517)
T ss_pred             HHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCc
Confidence            88885  455 4567777778888999999999998888876 457777777888888999999999988887764421 


Q ss_pred             ---------HH--HHHHHHHHHcCChHHHHHHHHHHHHC--CC---CCCHHHH----------HHHHHHHHhhc------
Q 040576          419 ---------SW--NSMIMGYGMHGQGEKALEMFMEMEKR--GP---TPNDATF----------ICVLSACTHAG------  466 (641)
Q Consensus       419 ---------~~--~~li~~~~~~~~~~~A~~~~~~m~~~--g~---~p~~~~~----------~~ll~~~~~~g------  466 (641)
                               .|  .....+|.+.|++..|+.-|....+.  .+   +-|-++|          ..++...-+..      
T Consensus       296 ~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k~f~~~~~DQfDFH~Yc~RK~t~r~Y~~~L~~ed~l~~~~~y~  375 (517)
T PF12569_consen  296 LSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLKHFDDFEEDQFDFHSYCLRKMTLRAYVDMLRWEDKLRSHPFYR  375 (517)
T ss_pred             ccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcccccHHHHHHhhccHHHHHHHHHHHHHhhcCHHHH
Confidence                     23  33467788889888888776655442  11   2222233          22222211111      


Q ss_pred             -cHHHHHHHHHHhHHhhCCCC-----------chHHHHHHHHHH---hhcCCHHHHHHHHH-----------hC----C-
Q 040576          467 -MVLEGWWYFDLMQRIYKIEP-----------KVEHYGCMVDLL---GRAGLMRDSEELVS-----------KL----P-  515 (641)
Q Consensus       467 -~~~~a~~~~~~~~~~~~~~p-----------~~~~~~~li~~~---~~~g~~~~A~~~~~-----------~~----~-  515 (641)
                       -...|++++-.+-.......           +..--..+..-.   .+...-+++...-.           +.    + 
T Consensus       376 raa~~ai~iYl~l~d~~~~~~~~~~~~~~~~~~~~e~Kk~~kK~kK~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  455 (517)
T PF12569_consen  376 RAAKGAIRIYLELHDKPEAKQGEEQEADNENMSAAERKKAKKKAKKAAKKAKKEEAEKAAKKEPKKQQNKSKKKEKVEPK  455 (517)
T ss_pred             HHHHHHHHHHHHHhcCcccccccccccccccCChHHHHHHHHHHHHHHHHHhHHHHHHHHhhhhhhhhccccccccccCC
Confidence             11233444433332110000           000000011000   11111111211110           00    1 


Q ss_pred             -CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHH
Q 040576          516 -MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRI  579 (641)
Q Consensus       516 -~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  579 (641)
                       ..+|+.. ..|+   ....-.++|..+++-+.+..|++..+|..-..+|.+.|++--|++.+.+
T Consensus       456 ~~D~Dp~G-ekL~---~t~dPLe~A~kfl~pL~~~a~~~~et~~laFeVy~Rk~K~LLaLqaL~k  516 (517)
T PF12569_consen  456 KKDDDPLG-EKLL---KTEDPLEEAMKFLKPLLELAPDNIETHLLAFEVYLRKGKYLLALQALKK  516 (517)
T ss_pred             cCCCCccH-HHHh---cCCcHHHHHHHHHHHHHHhCccchhhHHHHhHHHHhcCcHHHHHHHHHh
Confidence             1222211 1122   2233578899999999999999999999999999999999999887764

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 [], [].

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.08  E-value=1.3e-06  Score=86.75  Aligned_cols=430  Identities=13%  Similarity=0.029  Sum_probs=253.6

Q ss_pred             HhhcCCChHHHHHhhhcCC---CCCcccHHHHHHHHHcCCCchhHHHHHHHHHHhcC--CCCCcchHHHHHHHHhcCCCc
Q 040576           99 LCTSLSSVSLSVLFFDGIQ---EPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKF--VEHNHYTFPLLGKVCAGIRSL  173 (641)
Q Consensus        99 ~~~~~~~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~--~~~~~~~~~~ll~~~~~~~~~  173 (641)
                      .+.+.|.+++|....+.+-   +.+...+..-+-++.+.+.+++|+.+.+    ..+  ...+.+.|... -+.-+.+..
T Consensus        21 ~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ik----k~~~~~~~~~~~fEKA-Yc~Yrlnk~   95 (652)
T KOG2376|consen   21 RHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIK----KNGALLVINSFFFEKA-YCEYRLNKL   95 (652)
T ss_pred             HhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHH----hcchhhhcchhhHHHH-HHHHHcccH
Confidence            4688999999999988873   3456677777888899999999996655    222  11122222222 223378999


Q ss_pred             hhHHHHHHHHHHhCCCCCh-hHHHHHHHHHHhcCCHHHHHHHHhcCCCCCeeHHHHHHHHHHh-CCChHHHHHHHhhCCC
Q 040576          174 REGKKVHARIVKCGFELDL-FVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVK-NREVGFARELFDFMPE  251 (641)
Q Consensus       174 ~~a~~~~~~~~~~g~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~  251 (641)
                      ++|...++     |..++. .+...-...+.+.|++++|.++|+.+...+...+..-+.+-+- .+-.-.+ ++.+....
T Consensus        96 Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~-~~~q~v~~  169 (652)
T KOG2376|consen   96 DEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQV-QLLQSVPE  169 (652)
T ss_pred             HHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhH-HHHHhccC
Confidence            99998877     444433 3666666778899999999999999877766666555443222 1111122 23444433


Q ss_pred             CCchhHHHHHH---HHhcCCChHHHHHHHhhcC--------CCC----------chHHHHHHHHHHhcCChHHHHHHHHh
Q 040576          252 RDIFTWNSMIS---GYVDVGDMEAANGLFDLMP--------FRD----------VVSWNCMIDGYAKIGNVTSARNCFDR  310 (641)
Q Consensus       252 ~~~~~~~~ll~---~~~~~g~~~~a~~~~~~~~--------~~~----------~~~~~~li~~~~~~~~~~~A~~~~~~  310 (641)
                      ....+|..+.+   .++..|++.+|+++++...        ..|          ..+..-|.-.+-..|+.++|..++..
T Consensus       170 v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~  249 (652)
T KOG2376|consen  170 VPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVD  249 (652)
T ss_pred             CCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence            33445555543   4567899999999999882        111          22334455667788999999999998


Q ss_pred             cCCC---Ccch----HHHHHHHHHHcCChH-HHHHHHHHHHHCCCCC----------CHHHHHHHHHHHHccCCHHHHHH
Q 040576          311 MCMR---NVVS----WNILLALYVRCKDYC-ECLRLFDRMIRGDAKP----------NEASLMSVLTACANMGVIDIGQW  372 (641)
Q Consensus       311 ~~~~---~~~~----~~~li~~~~~~g~~~-~A~~~~~~m~~~g~~p----------~~~~~~~ll~~~~~~g~~~~a~~  372 (641)
                      ....   |...    -|.|+..-....-++ .++..++........-          .....+..+-. ...+..+.+.+
T Consensus       250 ~i~~~~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~-l~tnk~~q~r~  328 (652)
T KOG2376|consen  250 IIKRNPADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLA-LFTNKMDQVRE  328 (652)
T ss_pred             HHHhcCCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH-HHhhhHHHHHH
Confidence            8443   3322    333333322222233 2333444332210000          00001111111 11122222222


Q ss_pred             HHHHHHHcCCCCchhHHHHHHHHHHh--cCCHHHHHHHHhhcCCC----ChhHHHHHHHHHHHcCChHHHHHHHH-----
Q 040576          373 IHSYIQKCRIKPDVLLSTSLLTMYAK--CGVMDLARNVFDNMTEK----NVVSWNSMIMGYGMHGQGEKALEMFM-----  441 (641)
Q Consensus       373 ~~~~~~~~~~~~~~~~~~~li~~~~~--~g~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~~~~~~A~~~~~-----  441 (641)
                      +....-  +..|. ..+..++....+  .....+|.+++....+.    ....--+++......|+++.|++++.     
T Consensus       329 ~~a~lp--~~~p~-~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~  405 (652)
T KOG2376|consen  329 LSASLP--GMSPE-SLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLES  405 (652)
T ss_pred             HHHhCC--ccCch-HHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh
Confidence            221111  12222 333344433322  22466777777766642    23456667778889999999999999     


Q ss_pred             ---HHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCC-Cc----hHHHHHHHHHHhhcCCHHHHHHHHHh
Q 040576          442 ---EMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIE-PK----VEHYGCMVDLLGRAGLMRDSEELVSK  513 (641)
Q Consensus       442 ---~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~-p~----~~~~~~li~~~~~~g~~~~A~~~~~~  513 (641)
                         ...+.+..|.  +...++..+.+.++-+.|..++......+... +.    ..++.-++..-.+.|+-++|..++++
T Consensus       406 ~~ss~~~~~~~P~--~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~lee  483 (652)
T KOG2376|consen  406 WKSSILEAKHLPG--TVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEE  483 (652)
T ss_pred             hhhhhhhhccChh--HHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHH
Confidence               5555555554  44556667777777666777776665522111 11    23344445555688999999999999


Q ss_pred             CC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 040576          514 LP--MEAGPALWGALLSACSTHSNSELGKIVAQHL  546 (641)
Q Consensus       514 ~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  546 (641)
                      +.  ..++..+...++.+|... |++.|+.+-+++
T Consensus       484 l~k~n~~d~~~l~~lV~a~~~~-d~eka~~l~k~L  517 (652)
T KOG2376|consen  484 LVKFNPNDTDLLVQLVTAYARL-DPEKAESLSKKL  517 (652)
T ss_pred             HHHhCCchHHHHHHHHHHHHhc-CHHHHHHHhhcC
Confidence            82  456677888899888776 788887776654

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.07  E-value=6.8e-08  Score=84.51  Aligned_cols=195  Identities=13%  Similarity=0.031  Sum_probs=126.2

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCC
Q 040576          356 SVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQ  432 (641)
Q Consensus       356 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~  432 (641)
                      .+...|...|+...|..-++..+++. +.+..++..+...|.+.|..+.|.+.|++..+   .+....|....-+|..|+
T Consensus        40 qLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~  118 (250)
T COG3063          40 QLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGR  118 (250)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCC
Confidence            34445556666666666666666553 33455566666667777777777777766553   345566666777777777


Q ss_pred             hHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHH
Q 040576          433 GEKALEMFMEMEKRGPTP-NDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEEL  510 (641)
Q Consensus       433 ~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~  510 (641)
                      +++|...|++....---| -..||..+.-+..+.|+.+.|.++|++..+   ..|+ ......+.+.....|++-.|..+
T Consensus       119 ~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~---~dp~~~~~~l~~a~~~~~~~~y~~Ar~~  195 (250)
T COG3063         119 PEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALE---LDPQFPPALLELARLHYKAGDYAPARLY  195 (250)
T ss_pred             hHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHH---hCcCCChHHHHHHHHHHhcccchHHHHH
Confidence            777777777776642111 234677777777777777777777777766   3343 44556667777777777777777


Q ss_pred             HHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 040576          511 VSKL--PMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDP  554 (641)
Q Consensus       511 ~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  554 (641)
                      ++..  ...++..+....+..-...||.+.+.+.-..+.+..|...
T Consensus       196 ~~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~s~  241 (250)
T COG3063         196 LERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPYSE  241 (250)
T ss_pred             HHHHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcH
Confidence            7765  2336666666666666777777777777777777777654

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.07  E-value=3.1e-06  Score=85.76  Aligned_cols=356  Identities=13%  Similarity=0.104  Sum_probs=225.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHh--cCCCCCeeHHHHHHHHHHhCCChHHHHHHHhhCCCCCch--------hHH-------
Q 040576          196 NSLIHMYSVCGEVLDARKVFE--DGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIF--------TWN-------  258 (641)
Q Consensus       196 ~~li~~~~~~g~~~~A~~~~~--~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~--------~~~-------  258 (641)
                      -+-|..|.+.|....|.+...  +....|......+..++.+..-+++|-.+|+++..+|..        .|.       
T Consensus       619 laaiqlyika~~p~~a~~~a~n~~~l~~de~il~~ia~alik~elydkagdlfeki~d~dkale~fkkgdaf~kaielar  698 (1636)
T KOG3616|consen  619 LAAIQLYIKAGKPAKAARAALNDEELLADEEILEHIAAALIKGELYDKAGDLFEKIHDFDKALECFKKGDAFGKAIELAR  698 (1636)
T ss_pred             HHHHHHHHHcCCchHHHHhhcCHHHhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhCHHHHHHHHHcccHHHHHHHHHH
Confidence            356777888888777766542  223344444555555555555555555555555332210        000       


Q ss_pred             ------------HHHHHHhcCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhcCCCCcc--hHHHHHH
Q 040576          259 ------------SMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVV--SWNILLA  324 (641)
Q Consensus       259 ------------~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~li~  324 (641)
                                  .....+...|+++.|..-|-+.     ...-.-+.+......|.+|+.+++.+...++.  -|..+..
T Consensus       699 fafp~evv~lee~wg~hl~~~~q~daainhfiea-----~~~~kaieaai~akew~kai~ildniqdqk~~s~yy~~iad  773 (1636)
T KOG3616|consen  699 FAFPEEVVKLEEAWGDHLEQIGQLDAAINHFIEA-----NCLIKAIEAAIGAKEWKKAISILDNIQDQKTASGYYGEIAD  773 (1636)
T ss_pred             hhCcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHh-----hhHHHHHHHHhhhhhhhhhHhHHHHhhhhccccccchHHHH
Confidence                        1111122233333333222221     11122344556667888899999888665554  4778889


Q ss_pred             HHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHH
Q 040576          325 LYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDL  404 (641)
Q Consensus       325 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  404 (641)
                      .|...|+++.|.++|.+.-         .++-.+..|.+.|+++.|.++-....  |.......|-+-..-+-+.|++.+
T Consensus       774 hyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf~e  842 (1636)
T KOG3616|consen  774 HYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAE  842 (1636)
T ss_pred             HhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhh
Confidence            9999999999999997652         35566788999999999988765543  334456677766777788999999


Q ss_pred             HHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCC
Q 040576          405 ARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKI  484 (641)
Q Consensus       405 A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~  484 (641)
                      |.++|-.+..|+.     -|..|-+.|..+..+++..+-.-.   .-..|-..+..-+...|+...|...|-+...    
T Consensus       843 aeqlyiti~~p~~-----aiqmydk~~~~ddmirlv~k~h~d---~l~dt~~~f~~e~e~~g~lkaae~~flea~d----  910 (1636)
T KOG3616|consen  843 AEQLYITIGEPDK-----AIQMYDKHGLDDDMIRLVEKHHGD---HLHDTHKHFAKELEAEGDLKAAEEHFLEAGD----  910 (1636)
T ss_pred             hhheeEEccCchH-----HHHHHHhhCcchHHHHHHHHhChh---hhhHHHHHHHHHHHhccChhHHHHHHHhhhh----
Confidence            9999999998875     477899999999998888764321   1234666777788889999999988876644    


Q ss_pred             CCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCH-----HHHHH------HHHHHHhcCCHHHHHHHH------HHHH
Q 040576          485 EPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGP-----ALWGA------LLSACSTHSNSELGKIVA------QHLM  547 (641)
Q Consensus       485 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-----~~~~~------l~~~~~~~g~~~~a~~~~------~~~~  547 (641)
                            |.+-+++|-..+.+++|.++-+.-+ ..+.     ..|..      .+..+-++|-.+.|+...      +-++
T Consensus       911 ------~kaavnmyk~s~lw~dayriakteg-g~n~~k~v~flwaksiggdaavkllnk~gll~~~id~a~d~~afd~af  983 (1636)
T KOG3616|consen  911 ------FKAAVNMYKASELWEDAYRIAKTEG-GANAEKHVAFLWAKSIGGDAAVKLLNKHGLLEAAIDFAADNCAFDFAF  983 (1636)
T ss_pred             ------HHHHHHHhhhhhhHHHHHHHHhccc-cccHHHHHHHHHHHhhCcHHHHHHHHhhhhHHHHhhhhhcccchhhHH
Confidence                  4556778888888888888766542 1121     12211      112233445444444321      1111


Q ss_pred             h-----cCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCc
Q 040576          548 E-----LEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELE  586 (641)
Q Consensus       548 ~-----~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  586 (641)
                      +     ....-+.....++.-+...|++++|.+-+-+..+.+.-
T Consensus       984 dlari~~k~k~~~vhlk~a~~ledegk~edaskhyveaiklnty 1027 (1636)
T KOG3616|consen  984 DLARIAAKDKMGEVHLKLAMFLEDEGKFEDASKHYVEAIKLNTY 1027 (1636)
T ss_pred             HHHHHhhhccCccchhHHhhhhhhccchhhhhHhhHHHhhcccc
Confidence            1     22334567788888889999999998877776655433

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.06  E-value=2.5e-06  Score=85.69  Aligned_cols=377  Identities=10%  Similarity=0.010  Sum_probs=188.7

Q ss_pred             HHhcCCHHHHHHHHhcCCC---CCeeHHHHHHHHHHhCCChHHHHHHHhhC--CCC-CchhHHHHHHHHhcCCChHHHHH
Q 040576          202 YSVCGEVLDARKVFEDGPV---WDLVTWNSMIDGYVKNREVGFARELFDFM--PER-DIFTWNSMISGYVDVGDMEAANG  275 (641)
Q Consensus       202 ~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~-~~~~~~~ll~~~~~~g~~~~a~~  275 (641)
                      +...|+.++|......+..   .+.++|..+.-.+-...++++|++.|...  ..| |...|.-+.-.-++.|+++....
T Consensus        51 L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~  130 (700)
T KOG1156|consen   51 LNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLE  130 (700)
T ss_pred             hhcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHH
Confidence            3344555555555554332   23445555555555555566666665555  222 23333333333344455554444


Q ss_pred             HHhhcCC--CC-chHHHHHHHHHHhcCChHHHHHHHHhcCC-----CCcchHHHH------HHHHHHcCChHHHHHHHHH
Q 040576          276 LFDLMPF--RD-VVSWNCMIDGYAKIGNVTSARNCFDRMCM-----RNVVSWNIL------LALYVRCKDYCECLRLFDR  341 (641)
Q Consensus       276 ~~~~~~~--~~-~~~~~~li~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~l------i~~~~~~g~~~~A~~~~~~  341 (641)
                      ......+  |+ ...|..+.-++.-.|+...|..+.+...+     ++...|...      .......|.+++|++.+..
T Consensus       131 tr~~LLql~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~  210 (700)
T KOG1156|consen  131 TRNQLLQLRPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLD  210 (700)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHh
Confidence            4333332  11 23344444444444555555544444311     222222111      1233445555555555444


Q ss_pred             HHHCCCCCCHHHH-HHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhH-HHHHHHHHHhcCCHHHHH-HHHhhcCC--CC
Q 040576          342 MIRGDAKPNEASL-MSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLL-STSLLTMYAKCGVMDLAR-NVFDNMTE--KN  416 (641)
Q Consensus       342 m~~~g~~p~~~~~-~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~li~~~~~~g~~~~A~-~~~~~~~~--~~  416 (641)
                      -...  ..|...+ ..-...+.+.+++++|..++..++..+  ||..- |..+..++.+-.+.-++. .+|....+  |-
T Consensus       211 ~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn--Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r  286 (700)
T KOG1156|consen  211 NEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN--PDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPR  286 (700)
T ss_pred             hhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC--chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcc
Confidence            3221  1122211 122334555666666666666666553  33333 333333443333333333 44444332  10


Q ss_pred             hhHHHHHHHHHHHcCC-hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHh---hC---------
Q 040576          417 VVSWNSMIMGYGMHGQ-GEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRI---YK---------  483 (641)
Q Consensus       417 ~~~~~~li~~~~~~~~-~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~---~~---------  483 (641)
                      ...-..+-.......+ .+..-.++..+.+.|+++-   |..+...|-.....+-..++...+...   .|         
T Consensus       287 ~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~v---f~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~  363 (700)
T KOG1156|consen  287 HECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSV---FKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGK  363 (700)
T ss_pred             cccchhccHHHhCcchhHHHHHHHHHHHhhcCCCch---hhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccc
Confidence            0000000001111122 2333445566667776543   333333332222111111111111110   00         


Q ss_pred             -CCCchHH--HHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHH
Q 040576          484 -IEPKVEH--YGCMVDLLGRAGLMRDSEELVSKL-PMEAGPA-LWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYV  558 (641)
Q Consensus       484 -~~p~~~~--~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  558 (641)
                       -+|....  +..++..+-+.|+++.|..+++.. ...|+.. .|..-...+.+.|+.++|...++.+.+++-.|...-.
T Consensus       364 ~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INs  443 (700)
T KOG1156|consen  364 QEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINS  443 (700)
T ss_pred             cCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHH
Confidence             1455444  445788899999999999999987 4456643 5555567789999999999999999999977765555


Q ss_pred             HHHHHHHhcCChHHHHHHHHHhhhCCC
Q 040576          559 LLSNIYASEGKWDEVENLRRIMKEKEL  585 (641)
Q Consensus       559 ~l~~~~~~~g~~~~A~~~~~~m~~~~~  585 (641)
                      .-++-..++++.++|.++.......|.
T Consensus       444 KcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  444 KCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHHHccccHHHHHHHHHhhhccc
Confidence            677778899999999999998877764

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.05  E-value=1.6e-08  Score=99.77  Aligned_cols=215  Identities=13%  Similarity=0.062  Sum_probs=155.8

Q ss_pred             HccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHH
Q 040576          362 ANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALE  438 (641)
Q Consensus       362 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~  438 (641)
                      .+.|++.+|.-.|+..++.. +-+...|..|.......++-..|+..+.+..+   .|....-+|.-.|...|.-.+|+.
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            34455555555555555543 33556666666666666666666666666654   344555666667777777777887


Q ss_pred             HHHHHHHCCCCCCHHHHHHHH-----------HHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHH
Q 040576          439 MFMEMEKRGPTPNDATFICVL-----------SACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDS  507 (641)
Q Consensus       439 ~~~~m~~~g~~p~~~~~~~ll-----------~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  507 (641)
                      .++.-....++     |..+.           ..+.....+....++|-.+....+..+|..++..|.-.|.-.|++++|
T Consensus       375 ~L~~Wi~~~p~-----y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdra  449 (579)
T KOG1125|consen  375 MLDKWIRNKPK-----YVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRA  449 (579)
T ss_pred             HHHHHHHhCcc-----chhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHH
Confidence            77776553211     00010           122233345556666766666567668888999999999999999999


Q ss_pred             HHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          508 EELVSKL-PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       508 ~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      ++.|+.+ .++|+ ...|+.|..++....+.++|+..|.+++++.|.-....+.|+-.|+..|.|+||.+.+=....
T Consensus       450 iDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  450 VDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            9999987 55666 558999999999999999999999999999999999999999999999999999998877643

>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=99.04  E-value=1.2e-08  Score=97.45  Aligned_cols=145  Identities=16%  Similarity=0.093  Sum_probs=88.4

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchH---HHHHHHHHHhhcCC
Q 040576          427 YGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVE---HYGCMVDLLGRAGL  503 (641)
Q Consensus       427 ~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~---~~~~li~~~~~~g~  503 (641)
                      +...|++++|++++.+.      .+.......+..+.+.++++.|.+.++.|.+   +..|..   ...+++..+.-.+.
T Consensus       112 ~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~---~~eD~~l~qLa~awv~l~~g~e~  182 (290)
T PF04733_consen  112 LFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQ---IDEDSILTQLAEAWVNLATGGEK  182 (290)
T ss_dssp             HCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC---CSCCHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCcHHHHHHHHHHHHHHhCchh
Confidence            44456666666665432      2445555566666677777777777776654   333321   12223333333345


Q ss_pred             HHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCh-HHHHHHHHHh
Q 040576          504 MRDSEELVSKLP--MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKW-DEVENLRRIM  580 (641)
Q Consensus       504 ~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~-~~A~~~~~~m  580 (641)
                      +.+|.-+|+++.  ..+++.+.+.+..++...|++++|+.+++.+++.+|+++.++..++.+....|+. +.+.+++.++
T Consensus       183 ~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL  262 (290)
T PF04733_consen  183 YQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQL  262 (290)
T ss_dssp             CCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHH
Confidence            777777777762  3356667777777777788888888888888877888877777777777777777 5566777776

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.

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.04  E-value=1.3e-08  Score=92.92  Aligned_cols=221  Identities=12%  Similarity=0.077  Sum_probs=165.7

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhc--CCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHHccC
Q 040576          289 NCMIDGYAKIGNVTSARNCFDRM--CMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLM-SVLTACANMG  365 (641)
Q Consensus       289 ~~li~~~~~~~~~~~A~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~-~ll~~~~~~g  365 (641)
                      +.+..+|.+.|.+.+|.+.|...  ..+-+.+|-.|-++|.+..++..|+.++.+-.+  ..|-.+||. .+...+...+
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld--~fP~~VT~l~g~ARi~eam~  304 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLD--SFPFDVTYLLGQARIHEAME  304 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhh--cCCchhhhhhhhHHHHHHHH
Confidence            45777888888888888888776  346677888888888888888888888888776  356666654 3555677788


Q ss_pred             CHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHH
Q 040576          366 VIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFME  442 (641)
Q Consensus       366 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~  442 (641)
                      +.+++.++++...+.. +.++....++...|.-.++.+-|+..|+++..   .++..|+.+.-+|.-.+++|-++.-|.+
T Consensus       305 ~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~speLf~NigLCC~yaqQ~D~~L~sf~R  383 (478)
T KOG1129|consen  305 QQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPELFCNIGLCCLYAQQIDLVLPSFQR  383 (478)
T ss_pred             hHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChHHHhhHHHHHHhhcchhhhHHHHHH
Confidence            8888888888888764 44566666677778888888888888888764   5777888888888888888988888888


Q ss_pred             HHHCCCCCCH--HHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC
Q 040576          443 MEKRGPTPND--ATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL  514 (641)
Q Consensus       443 m~~~g~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  514 (641)
                      ....--.|+.  ..|..+.......|++..|.+.|+....  .-.-..+.++.|.-.-.+.|++++|..+++..
T Consensus       384 Alstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~--~d~~h~ealnNLavL~~r~G~i~~Arsll~~A  455 (478)
T KOG1129|consen  384 ALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALT--SDAQHGEALNNLAVLAARSGDILGARSLLNAA  455 (478)
T ss_pred             HHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhc--cCcchHHHHHhHHHHHhhcCchHHHHHHHHHh
Confidence            8765444443  3566666666777888888888887766  22233567777777777888888888777765

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.02  E-value=1.3e-06  Score=91.61  Aligned_cols=177  Identities=12%  Similarity=0.024  Sum_probs=108.5

Q ss_pred             HHHHHHHHHHHhCCCCChhHHHHHHHHHhhcCCChHHHHHhhhcC---CCCCcccHHHHHHHHHcCCCchhHHHHHHHHH
Q 040576           72 EFHQIHTQLLVSGLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGI---QEPDAFMCNTIMKSFLMLNDPFGALSFYYEKM  148 (641)
Q Consensus        72 ~~~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m  148 (641)
                      ....++..+....+.+.-......+...|+..-+...|.+.|+..   ...+...+-.....|++..+++.|..+.-..-
T Consensus       474 ~~~al~ali~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~  553 (1238)
T KOG1127|consen  474 SALALHALIRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAA  553 (1238)
T ss_pred             HHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHh
Confidence            334555555555666665555556665666666777888888765   34556677788888888888888887743111


Q ss_pred             HhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCeeHHH-
Q 040576          149 MAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWN-  227 (641)
Q Consensus       149 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~-  227 (641)
                      .......-...|....-.+-..++...+..-|+...+.. +-|...|..|..+|.++|++..|.++|++...-++.++- 
T Consensus       554 qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~  632 (1238)
T KOG1127|consen  554 QKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYG  632 (1238)
T ss_pred             hhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHH
Confidence            111111111223333334455667777777777766654 336678888889999999999999998775443333322 


Q ss_pred             --HHHHHHHhCCChHHHHHHHhhC
Q 040576          228 --SMIDGYVKNREVGFARELFDFM  249 (641)
Q Consensus       228 --~li~~~~~~g~~~~A~~~~~~m  249 (641)
                        -..-..+..|.+.+|+..+...
T Consensus       633 ~fk~A~~ecd~GkYkeald~l~~i  656 (1238)
T KOG1127|consen  633 RFKEAVMECDNGKYKEALDALGLI  656 (1238)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHH
Confidence              1222345567777777776665

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.00  E-value=8.7e-06  Score=83.74  Aligned_cols=236  Identities=14%  Similarity=0.082  Sum_probs=142.8

Q ss_pred             CChhHHHHHHHH-HhhcCCChHHHHHhhhcCCCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHhc-C--------CCCC
Q 040576           87 QDSFAASRVLKK-LCTSLSSVSLSVLFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAK-F--------VEHN  156 (641)
Q Consensus        87 ~~~~~~~~ll~~-~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~-~--------~~~~  156 (641)
                      -|+.+--.++.. +|..-|+.+.|.+-.+.++  +...|..|.+.|++..+.+-|.-.+- .|... |        -.|+
T Consensus       724 Cd~~TRkaml~FSfyvtiG~MD~AfksI~~Ik--S~~vW~nmA~McVkT~RLDVAkVClG-hm~~aRgaRAlR~a~q~~~  800 (1416)
T KOG3617|consen  724 CDESTRKAMLDFSFYVTIGSMDAAFKSIQFIK--SDSVWDNMASMCVKTRRLDVAKVCLG-HMKNARGARALRRAQQNGE  800 (1416)
T ss_pred             cCHHHHHhhhceeEEEEeccHHHHHHHHHHHh--hhHHHHHHHHHhhhhccccHHHHhhh-hhhhhhhHHHHHHHHhCCc
Confidence            566677777763 4667799988887776664  34578888888887776666655554 33321 1        1222


Q ss_pred             cchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCCCC-CeeHHHHHHHHHHh
Q 040576          157 HYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVW-DLVTWNSMIDGYVK  235 (641)
Q Consensus       157 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~  235 (641)
                       .+=..+.-.....|.+++|+.+|.+.++.         ..|=..|-..|.|++|.++-+.-..- --.||.....-+-.
T Consensus       801 -e~eakvAvLAieLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lea  870 (1416)
T KOG3617|consen  801 -EDEAKVAVLAIELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEA  870 (1416)
T ss_pred             -chhhHHHHHHHHHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHh
Confidence             22222222335678899999999887654         23445667789999999887643221 12345555555666


Q ss_pred             CCChHHHHHHHhhCC-----------------------CCCchhHHHHHHHHhcCCChHHHHHHHhhcCCCCchHHHHHH
Q 040576          236 NREVGFARELFDFMP-----------------------ERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMI  292 (641)
Q Consensus       236 ~g~~~~A~~~~~~m~-----------------------~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li  292 (641)
                      .++.+.|++.|++..                       ..|...|......+-..|+.+.|+.+|....     -|-+++
T Consensus       871 r~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~-----D~fs~V  945 (1416)
T KOG3617|consen  871 RRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAK-----DYFSMV  945 (1416)
T ss_pred             hccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhh-----hhhhhe
Confidence            778888888887761                       1355666666777777888998888887764     233444


Q ss_pred             HHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHHHHH
Q 040576          293 DGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRM  342 (641)
Q Consensus       293 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  342 (641)
                      ...|-.|+.++|.++-++  ..|......|.+.|-..|++.+|...|.+.
T Consensus       946 rI~C~qGk~~kAa~iA~e--sgd~AAcYhlaR~YEn~g~v~~Av~FfTrA  993 (1416)
T KOG3617|consen  946 RIKCIQGKTDKAARIAEE--SGDKAACYHLARMYENDGDVVKAVKFFTRA  993 (1416)
T ss_pred             eeEeeccCchHHHHHHHh--cccHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            444445555555554443  223333444555555555555555555443

>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=98.99  E-value=6.5e-07  Score=92.05  Aligned_cols=124  Identities=13%  Similarity=0.107  Sum_probs=71.8

Q ss_pred             HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCC-CHHHHHHHHHHH
Q 040576          454 TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKLP-MEA-GPALWGALLSAC  530 (641)
Q Consensus       454 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~  530 (641)
                      ++..+...|...|++++|+++.++.+.   ..|+ ++.|..-.+.|-+.|++++|.+.++... ..+ |..+-+-....+
T Consensus       196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~---htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~  272 (517)
T PF12569_consen  196 TLYFLAQHYDYLGDYEKALEYIDKAIE---HTPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKYL  272 (517)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHh---cCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHH
Confidence            334445556666777777777776666   3455 5666666666777777777777766652 222 233333444456


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCc-------hH--HHHHHHHHhcCChHHHHHHHHHh
Q 040576          531 STHSNSELGKIVAQHLMELEPRDPG-------PY--VLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       531 ~~~g~~~~a~~~~~~~~~~~p~~~~-------~~--~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      .+.|++++|+..+....+.+-+...       .|  ...+.+|.+.|++..|++-+..+
T Consensus       273 LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v  331 (517)
T PF12569_consen  273 LRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAV  331 (517)
T ss_pred             HHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            6677777777766666544321111       22  23466677777777777665554

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=98.98  E-value=9e-07  Score=80.21  Aligned_cols=414  Identities=11%  Similarity=0.016  Sum_probs=231.5

Q ss_pred             cCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCCC--CCeeHHHH
Q 040576          151 KFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPV--WDLVTWNS  228 (641)
Q Consensus       151 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~  228 (641)
                      .|+..-.--|..++..+.+..++..|.+++..-.+.. +.+....+.|..+|....++..|-..++....  |...-|..
T Consensus         4 ~g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrl   82 (459)
T KOG4340|consen    4 SGAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRL   82 (459)
T ss_pred             ccccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHH
Confidence            3444445557777777777778888888877766654 22566677777888888888888888877542  22222322


Q ss_pred             -HHHHHHhCCChHHHHHHHhhCCC-CCchhHHHHHHH--HhcCCChHHHHHHHhhcCC-CCchHHHHHHHHHHhcCChHH
Q 040576          229 -MIDGYVKNREVGFARELFDFMPE-RDIFTWNSMISG--YVDVGDMEAANGLFDLMPF-RDVVSWNCMIDGYAKIGNVTS  303 (641)
Q Consensus       229 -li~~~~~~g~~~~A~~~~~~m~~-~~~~~~~~ll~~--~~~~g~~~~a~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~  303 (641)
                       -...+.+.+.+..|+.+...|.. ++...-..-+.+  ....+++..+..+.++... .+..+.+.......+.|+.+.
T Consensus        83 Y~AQSLY~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEa  162 (459)
T KOG4340|consen   83 YQAQSLYKACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEA  162 (459)
T ss_pred             HHHHHHHHhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHH
Confidence             23556677788888888877743 332222222222  2345677777777777763 445566666666667777777


Q ss_pred             HHHHHHhcCC----CCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHH----HHHHHHHHccCCHHHHHHHHH
Q 040576          304 ARNCFDRMCM----RNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASL----MSVLTACANMGVIDIGQWIHS  375 (641)
Q Consensus       304 A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~----~~ll~~~~~~g~~~~a~~~~~  375 (641)
                      |.+-|....+    .....||..+ +..+.|+++.|++...++.+.|++-.+..-    .-.+.+ ...|+.   ..+  
T Consensus       163 AvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDv-rsvgNt---~~l--  235 (459)
T KOG4340|consen  163 AVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDV-RSVGNT---LVL--  235 (459)
T ss_pred             HHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCch-hcccch---HHH--
Confidence            7777766532    2334555444 334556777777777777776664322100    000000 000000   000  


Q ss_pred             HHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC
Q 040576          376 YIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE-----KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTP  450 (641)
Q Consensus       376 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p  450 (641)
                        ..++   -+..+|.-...+.+.|+++.|.+.+..|+.     .|+++...+.-.- ..+++.+..+-+.-+.+.++ -
T Consensus       236 --h~Sa---l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nP-f  308 (459)
T KOG4340|consen  236 --HQSA---LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNP-F  308 (459)
T ss_pred             --HHHH---HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCC-C
Confidence              0000   012233334456688999999999999984     4677776654332 23455555555555555543 3


Q ss_pred             CHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHh-hcCCHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 040576          451 NDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLG-RAGLMRDSEELVSKLPMEAGPALWGALLSA  529 (641)
Q Consensus       451 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~-~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~  529 (641)
                      ...||..++-.|++..-++.|-.++.+-....-.-.+...|+ |++++. ..-..++|++-++.+...-....-..-+..
T Consensus       309 P~ETFANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~La~~l~~kLRklAi~v  387 (459)
T KOG4340|consen  309 PPETFANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGLAGMLTEKLRKLAIQV  387 (459)
T ss_pred             ChHHHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            467999999999999988888877754322000012233333 344444 344667776665554200001111111111


Q ss_pred             -HHhcCC----HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 040576          530 -CSTHSN----SELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       530 -~~~~g~----~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  583 (641)
                       -.++.+    ...++.-|+..+++-   -.....-++.|.+..++..+.++|+.-.+-
T Consensus       388 Qe~r~~~dd~a~R~ai~~Yd~~LE~Y---LPVlMa~AkiyW~~~Dy~~vEk~Fr~Svef  443 (459)
T KOG4340|consen  388 QEARHNRDDEAIRKAVNEYDETLEKY---LPVLMAQAKIYWNLEDYPMVEKIFRKSVEF  443 (459)
T ss_pred             HHHHhcccHHHHHHHHHHHHHHHHHH---HHHHHHHHHhhccccccHHHHHHHHHHHhh
Confidence             111111    222333344444432   225667788899999999999999887553

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.95  E-value=4.2e-08  Score=83.74  Aligned_cols=125  Identities=9%  Similarity=-0.064  Sum_probs=101.4

Q ss_pred             HHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 040576          473 WYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELE  550 (641)
Q Consensus       473 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  550 (641)
                      .++++..+   +.|+.  +..+...+...|++++|.+.|+.. ...| +...|..+..++...|++++|...|+++++++
T Consensus        14 ~~~~~al~---~~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~   88 (144)
T PRK15359         14 DILKQLLS---VDPET--VYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD   88 (144)
T ss_pred             HHHHHHHH---cCHHH--HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            45555554   44553  555677888899999999998886 3334 56688888889999999999999999999999


Q ss_pred             CCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHH
Q 040576          551 PRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMK  628 (641)
Q Consensus       551 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~  628 (641)
                      |+++..+..++.++...|++++|+..+++.                        .+..|++..  .+...+.....++
T Consensus        89 p~~~~a~~~lg~~l~~~g~~~eAi~~~~~A------------------------l~~~p~~~~--~~~~~~~~~~~l~  140 (144)
T PRK15359         89 ASHPEPVYQTGVCLKMMGEPGLAREAFQTA------------------------IKMSYADAS--WSEIRQNAQIMVD  140 (144)
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHH------------------------HHhCCCChH--HHHHHHHHHHHHH
Confidence            999999999999999999999999999998                        677888888  8888777665554

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.95  E-value=2.8e-06  Score=85.83  Aligned_cols=294  Identities=10%  Similarity=-0.030  Sum_probs=174.7

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhc---CCCCcch---HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH-HHHHHH
Q 040576          286 VSWNCMIDGYAKIGNVTSARNCFDRM---CMRNVVS---WNILLALYVRCKDYCECLRLFDRMIRGDAKPNEA-SLMSVL  358 (641)
Q Consensus       286 ~~~~~li~~~~~~~~~~~A~~~~~~~---~~~~~~~---~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll  358 (641)
                      ..|..+...+...|+.+.+.+.+...   ...+...   .......+...|++++|.+.+++..+.  .|+.. .+.. .
T Consensus         7 ~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~--~P~~~~a~~~-~   83 (355)
T cd05804           7 LGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDD--YPRDLLALKL-H   83 (355)
T ss_pred             HHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHH-h
Confidence            34455555555666666655555554   1222222   222334567788999999999888774  34433 3332 2


Q ss_pred             HHHH----ccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcC
Q 040576          359 TACA----NMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHG  431 (641)
Q Consensus       359 ~~~~----~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~  431 (641)
                      ..+.    ..+..+.+.+.+.. .....+........+...+...|++++|...+++..+   .+...+..+...|...|
T Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g  162 (355)
T cd05804          84 LGAFGLGDFSGMRDHVARVLPL-WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQG  162 (355)
T ss_pred             HHHHHhcccccCchhHHHHHhc-cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcC
Confidence            2222    23445555554443 1111122334455666788889999999999988774   34567788888899999


Q ss_pred             ChHHHHHHHHHHHHCCC-CCCH--HHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHH-H--HHHHHHhhcCCHH
Q 040576          432 QGEKALEMFMEMEKRGP-TPND--ATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHY-G--CMVDLLGRAGLMR  505 (641)
Q Consensus       432 ~~~~A~~~~~~m~~~g~-~p~~--~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~-~--~li~~~~~~g~~~  505 (641)
                      ++++|..++++...... .|+.  ..|..+...+...|++++|..+++.+.......+..... +  .++.-+...|...
T Consensus       163 ~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~  242 (355)
T cd05804         163 RFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVD  242 (355)
T ss_pred             CHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCC
Confidence            99999999998877532 1232  245567778888999999999999886411111221111 1  2233333444222


Q ss_pred             HH------HHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC---------CCchHHHHHHHHHhcCC
Q 040576          506 DS------EELVSKL-PMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPR---------DPGPYVLLSNIYASEGK  569 (641)
Q Consensus       506 ~A------~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~---------~~~~~~~l~~~~~~~g~  569 (641)
                      .+      ....... +.............++...|+.+.|...++.+....-.         ........+.++...|+
T Consensus       243 ~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~  322 (355)
T cd05804         243 VGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGN  322 (355)
T ss_pred             hHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCC
Confidence            22      2221111 11111122234555678889999999999887653211         23455667778889999


Q ss_pred             hHHHHHHHHHhhhC
Q 040576          570 WDEVENLRRIMKEK  583 (641)
Q Consensus       570 ~~~A~~~~~~m~~~  583 (641)
                      +++|.+.+......
T Consensus       323 ~~~A~~~L~~al~~  336 (355)
T cd05804         323 YATALELLGPVRDD  336 (355)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999988654

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=98.89  E-value=6.2e-06  Score=81.26  Aligned_cols=410  Identities=11%  Similarity=-0.002  Sum_probs=246.0

Q ss_pred             HHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCCh-hHHHHHHHHHHhcC
Q 040576          128 MKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDL-FVRNSLIHMYSVCG  206 (641)
Q Consensus       128 i~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~-~~~~~li~~~~~~g  206 (641)
                      ..+.+..|+++.|+..|.+ -..- -++|..-|+.=..+++..|++++|.+=-..-++.  .|+- ..|+.+..++.-.|
T Consensus         9 gnaa~s~~d~~~ai~~~t~-ai~l-~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg   84 (539)
T KOG0548|consen    9 GNAAFSSGDFETAIRLFTE-AIML-SPTNHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLG   84 (539)
T ss_pred             HHhhcccccHHHHHHHHHH-HHcc-CCCccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhcc
Confidence            3566778999999999984 3332 2447777888889999999999888766665554  4553 47888888888899


Q ss_pred             CHHHHHHHHhcCCCC---CeeHHHHHHHHHHhCCChHHH-HHHHhhC-----CCCC--------chhHHHHHHHHhcCCC
Q 040576          207 EVLDARKVFEDGPVW---DLVTWNSMIDGYVKNREVGFA-RELFDFM-----PERD--------IFTWNSMISGYVDVGD  269 (641)
Q Consensus       207 ~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A-~~~~~~m-----~~~~--------~~~~~~ll~~~~~~g~  269 (641)
                      ++++|...|.++...   +...++.+..++    ..+.+ .+.|..-     ...+        ...|..++...-+...
T Consensus        85 ~~~eA~~ay~~GL~~d~~n~~L~~gl~~a~----~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~  160 (539)
T KOG0548|consen   85 DYEEAILAYSEGLEKDPSNKQLKTGLAQAY----LEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPT  160 (539)
T ss_pred             cHHHHHHHHHHHhhcCCchHHHHHhHHHhh----hHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcH
Confidence            999999999987654   344566666666    11111 1111111     0011        1122223222211100


Q ss_pred             hHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHH-HHHHHh-----cCCC----------------------CcchHHH
Q 040576          270 MEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSA-RNCFDR-----MCMR----------------------NVVSWNI  321 (641)
Q Consensus       270 ~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A-~~~~~~-----~~~~----------------------~~~~~~~  321 (641)
                         .+..       ... ...++.+.......+.- ...-..     +..|                      -..-...
T Consensus       161 ---~l~~-------~l~-d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~  229 (539)
T KOG0548|consen  161 ---SLKL-------YLN-DPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKE  229 (539)
T ss_pred             ---hhhc-------ccc-cHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHH
Confidence               0000       000 00111111110000000 000000     0000                      0112445


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC--c----hhHHHHHHHH
Q 040576          322 LLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKP--D----VLLSTSLLTM  395 (641)
Q Consensus       322 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~--~----~~~~~~li~~  395 (641)
                      +.++..+..+++.|++-+....+..  -+..-++....++...|.+......-....+.|...  +    ......+..+
T Consensus       230 lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~a  307 (539)
T KOG0548|consen  230 LGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGNA  307 (539)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhhh
Confidence            6677777788888888888877743  333444555666777777777766666555544221  1    1122234457


Q ss_pred             HHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhhccHHHHHHH
Q 040576          396 YAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDA-TFICVLSACTHAGMVLEGWWY  474 (641)
Q Consensus       396 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~a~~~  474 (641)
                      |.+.++++.|...|.+...+...     -....+....++++.......-.  .|... -...-...+.+.|++..|+..
T Consensus       308 ~~k~~~~~~ai~~~~kaLte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~~--~pe~A~e~r~kGne~Fk~gdy~~Av~~  380 (539)
T KOG0548|consen  308 YTKREDYEGAIKYYQKALTEHRT-----PDLLSKLKEAEKALKEAERKAYI--NPEKAEEEREKGNEAFKKGDYPEAVKH  380 (539)
T ss_pred             hhhHHhHHHHHHHHHHHhhhhcC-----HHHHHHHHHHHHHHHHHHHHHhh--ChhHHHHHHHHHHHHHhccCHHHHHHH
Confidence            77888999999999886532111     11223344556666655554443  33322 222336677889999999999


Q ss_pred             HHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 040576          475 FDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPR  552 (641)
Q Consensus       475 ~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  552 (641)
                      |.++++  .-+-|...|....-+|.+.|.+.+|+.-.+.. ...|+ ...|..-..++....+++.|.+.|+++++.+|.
T Consensus       381 YteAIk--r~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~dp~  458 (539)
T KOG0548|consen  381 YTEAIK--RDPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALELDPS  458 (539)
T ss_pred             HHHHHh--cCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCch
Confidence            999988  23445788999999999999999998876665 33455 446666677777888999999999999999999


Q ss_pred             CCchHHHHHHHHHhc
Q 040576          553 DPGPYVLLSNIYASE  567 (641)
Q Consensus       553 ~~~~~~~l~~~~~~~  567 (641)
                      +......+..++...
T Consensus       459 ~~e~~~~~~rc~~a~  473 (539)
T KOG0548|consen  459 NAEAIDGYRRCVEAQ  473 (539)
T ss_pred             hHHHHHHHHHHHHHh
Confidence            988877777777653

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.89  E-value=5.8e-06  Score=84.97  Aligned_cols=409  Identities=11%  Similarity=0.086  Sum_probs=225.3

Q ss_pred             CCCCCcccHHHHH--HHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHh-C-----
Q 040576          116 IQEPDAFMCNTIM--KSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKC-G-----  187 (641)
Q Consensus       116 ~~~~~~~~~~~li--~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-g-----  187 (641)
                      +..-|..|-.+|+  +.|...|+.+.|++-.+ .++      +...|..+.+.|.+.++++-|.-.+..|... |     
T Consensus       721 le~Cd~~TRkaml~FSfyvtiG~MD~AfksI~-~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR  793 (1416)
T KOG3617|consen  721 LENCDESTRKAMLDFSFYVTIGSMDAAFKSIQ-FIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALR  793 (1416)
T ss_pred             ccccCHHHHHhhhceeEEEEeccHHHHHHHHH-HHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHH
Confidence            3455666777776  45677899999988877 444      3467899999999888888888777666532 1     


Q ss_pred             ---CCCChhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCeeHHHHHHHHHHhCCChHHHHHHHhhCCCC-CchhHHHHHHH
Q 040576          188 ---FELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPER-DIFTWNSMISG  263 (641)
Q Consensus       188 ---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~~~~~ll~~  263 (641)
                         -.++ .+-....-.....|.+++|..+|.+...-     ..|=..|-..|++++|+++-+.-..- =..||..-...
T Consensus       794 ~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR~-----DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~  867 (1416)
T KOG3617|consen  794 RAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKRY-----DLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKY  867 (1416)
T ss_pred             HHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHHH-----HHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHH
Confidence               1121 22222222234567788888887765542     23334566678888888877654211 12466666666


Q ss_pred             HhcCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHHHHHH
Q 040576          264 YVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMI  343 (641)
Q Consensus       264 ~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  343 (641)
                      +-..+|.+.|++.|++...+--.++..|.+      ++.......+++..+  ..|.-...-.-..|+.+.|+.+|....
T Consensus       868 Lear~Di~~AleyyEK~~~hafev~rmL~e------~p~~~e~Yv~~~~d~--~L~~WWgqYlES~GemdaAl~~Y~~A~  939 (1416)
T KOG3617|consen  868 LEARRDIEAALEYYEKAGVHAFEVFRMLKE------YPKQIEQYVRRKRDE--SLYSWWGQYLESVGEMDAALSFYSSAK  939 (1416)
T ss_pred             HHhhccHHHHHHHHHhcCChHHHHHHHHHh------ChHHHHHHHHhccch--HHHHHHHHHHhcccchHHHHHHHHHhh
Confidence            667778888888887765443333333321      223333333443333  344445555566788888888877765


Q ss_pred             HCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHH
Q 040576          344 RGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSM  423 (641)
Q Consensus       344 ~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l  423 (641)
                      +         |-+++...|-.|+.++|-++-++-   |   |......|...|-..|++.+|..+|.+..     +|..-
T Consensus       940 D---------~fs~VrI~C~qGk~~kAa~iA~es---g---d~AAcYhlaR~YEn~g~v~~Av~FfTrAq-----afsnA  999 (1416)
T KOG3617|consen  940 D---------YFSMVRIKCIQGKTDKAARIAEES---G---DKAACYHLARMYENDGDVVKAVKFFTRAQ-----AFSNA  999 (1416)
T ss_pred             h---------hhhheeeEeeccCchHHHHHHHhc---c---cHHHHHHHHHHhhhhHHHHHHHHHHHHHH-----HHHHH
Confidence            4         455666677778877777665432   2   44555567777888888888888877653     23333


Q ss_pred             HHHHHHcCC---------------hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHH---------HHHhH
Q 040576          424 IMGYGMHGQ---------------GEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWY---------FDLMQ  479 (641)
Q Consensus       424 i~~~~~~~~---------------~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~---------~~~~~  479 (641)
                      |..|-.++-               .-.|-.+|++.   |..     +...+..|-+.|.+.+|+++         ++.+.
T Consensus      1000 IRlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~---g~~-----~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa 1071 (1416)
T KOG3617|consen 1000 IRLCKENDMKDRLANLALMSGGSDLVSAARYYEEL---GGY-----AHKAVMLYHKAGMIGKALELAFRTQQFSALDLIA 1071 (1416)
T ss_pred             HHHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHc---chh-----hhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHH
Confidence            333222221               11122222221   111     11223344555555555442         23333


Q ss_pred             HhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-c--CCCC---
Q 040576          480 RIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLME-L--EPRD---  553 (641)
Q Consensus       480 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~--~p~~---  553 (641)
                      ++..-..|+...+.-.+.++...++++|..++-...      .+..-+..|.. .++..-+++.+++-- .  +|+.   
T Consensus      1072 ~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar------~~~~AlqlC~~-~nv~vtee~aE~mTp~Kd~~~~e~~R 1144 (1416)
T KOG3617|consen 1072 KDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLAR------EFSGALQLCKN-RNVRVTEEFAELMTPTKDDMPNEQER 1144 (1416)
T ss_pred             HhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHH------HHHHHHHHHhc-CCCchhHHHHHhcCcCcCCCccHHHH
Confidence            322223345555555666666666666666654431      12222333322 223333333333321 1  1111   


Q ss_pred             CchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          554 PGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       554 ~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      ...+..++..|.++|.|..|.+-|.++
T Consensus      1145 ~~vLeqvae~c~qQG~Yh~AtKKfTQA 1171 (1416)
T KOG3617|consen 1145 KQVLEQVAELCLQQGAYHAATKKFTQA 1171 (1416)
T ss_pred             HHHHHHHHHHHHhccchHHHHHHHhhh
Confidence            136777888888999888877766554

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.88  E-value=3.1e-07  Score=82.96  Aligned_cols=160  Identities=8%  Similarity=0.083  Sum_probs=121.5

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCC
Q 040576          424 IMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGL  503 (641)
Q Consensus       424 i~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  503 (641)
                      +..|...|+++.+....+++..    |. .       .+...++.+++...++...+  .-+.+...|..+...|...|+
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~----~~-~-------~~~~~~~~~~~i~~l~~~L~--~~P~~~~~w~~Lg~~~~~~g~   88 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD----PL-H-------QFASQQTPEAQLQALQDKIR--ANPQNSEQWALLGEYYLWRND   88 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC----cc-c-------cccCchhHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCC
Confidence            4467788888776544433221    11 0       12235677788888887776  234558889999999999999


Q ss_pred             HHHHHHHHHhC-CCCC-CHHHHHHHHHH-HHhcCC--HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHH
Q 040576          504 MRDSEELVSKL-PMEA-GPALWGALLSA-CSTHSN--SELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRR  578 (641)
Q Consensus       504 ~~~A~~~~~~~-~~~~-~~~~~~~l~~~-~~~~g~--~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  578 (641)
                      +++|...|++. ...| +...+..+..+ +...|+  .++|..+++++++.+|+++.++..++..+.+.|++++|+..++
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            99999999987 3445 46677777776 467777  5999999999999999999999999999999999999999999


Q ss_pred             HhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHH
Q 040576          579 IMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEI  623 (641)
Q Consensus       579 ~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l  623 (641)
                      ++                        .++.|.+.+  .+.+++.+
T Consensus       169 ~a------------------------L~l~~~~~~--r~~~i~~i  187 (198)
T PRK10370        169 KV------------------------LDLNSPRVN--RTQLVESI  187 (198)
T ss_pred             HH------------------------HhhCCCCcc--HHHHHHHH
Confidence            99                        566666666  67666553

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.87  E-value=1.4e-05  Score=91.58  Aligned_cols=356  Identities=8%  Similarity=-0.021  Sum_probs=224.7

Q ss_pred             HHHHHHhCCChHHHHHHHhhCCCCCch--hHHHHHHHHhcCCChHHHHHHHhhcCC----CCchHHHHHHHHHHhcCChH
Q 040576          229 MIDGYVKNREVGFARELFDFMPERDIF--TWNSMISGYVDVGDMEAANGLFDLMPF----RDVVSWNCMIDGYAKIGNVT  302 (641)
Q Consensus       229 li~~~~~~g~~~~A~~~~~~m~~~~~~--~~~~ll~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~  302 (641)
                      ....+...|++.+|...+......+..  ............|+++.+...++.+..    .+..........+...|+++
T Consensus       347 aa~~~~~~g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~  426 (903)
T PRK04841        347 AAEAWLAQGFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYS  426 (903)
T ss_pred             HHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHH
Confidence            344566677777777666655332211  111122334556788887777776631    22333344555667788999


Q ss_pred             HHHHHHHhcC----CCC---c-----chHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHccCC
Q 040576          303 SARNCFDRMC----MRN---V-----VSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNE----ASLMSVLTACANMGV  366 (641)
Q Consensus       303 ~A~~~~~~~~----~~~---~-----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~g~  366 (641)
                      +|...+....    ..+   .     .....+...+...|++++|...+++..+.-...+.    .....+...+...|+
T Consensus       427 ~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~  506 (903)
T PRK04841        427 EVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGE  506 (903)
T ss_pred             HHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCC
Confidence            9888887651    111   1     11122334567889999999999988763111121    234455566778999


Q ss_pred             HHHHHHHHHHHHHcCC---CC--chhHHHHHHHHHHhcCCHHHHHHHHhhcCC-------C----ChhHHHHHHHHHHHc
Q 040576          367 IDIGQWIHSYIQKCRI---KP--DVLLSTSLLTMYAKCGVMDLARNVFDNMTE-------K----NVVSWNSMIMGYGMH  430 (641)
Q Consensus       367 ~~~a~~~~~~~~~~~~---~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~  430 (641)
                      ++.|...+.......-   .+  .......+...+...|++++|...+++...       +    ....+..+...+...
T Consensus       507 ~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~  586 (903)
T PRK04841        507 LARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEW  586 (903)
T ss_pred             HHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHh
Confidence            9999999887764311   11  123455667778889999999998876542       1    122344566677788


Q ss_pred             CChHHHHHHHHHHHHC--CCCCC--HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHH-----HHHHHHHhhc
Q 040576          431 GQGEKALEMFMEMEKR--GPTPN--DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHY-----GCMVDLLGRA  501 (641)
Q Consensus       431 ~~~~~A~~~~~~m~~~--g~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~-----~~li~~~~~~  501 (641)
                      |++++|...+.+....  ...+.  ...+..+.......|++++|.+.++.+............+     ...+..+...
T Consensus       587 G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  666 (903)
T PRK04841        587 ARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMT  666 (903)
T ss_pred             cCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHC
Confidence            9999999999887653  11122  2344445667778899999999998886521111111111     1122445568


Q ss_pred             CCHHHHHHHHHhCCCC--CCHH----HHHHHHHHHHhcCCHHHHHHHHHHHHhcCC------CCCchHHHHHHHHHhcCC
Q 040576          502 GLMRDSEELVSKLPME--AGPA----LWGALLSACSTHSNSELGKIVAQHLMELEP------RDPGPYVLLSNIYASEGK  569 (641)
Q Consensus       502 g~~~~A~~~~~~~~~~--~~~~----~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p------~~~~~~~~l~~~~~~~g~  569 (641)
                      |+.+.|.+++......  ....    .+..+..++...|+.++|...++++.....      .....+..++.+|.+.|+
T Consensus       667 g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~  746 (903)
T PRK04841        667 GDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGR  746 (903)
T ss_pred             CCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCC
Confidence            9999999998776311  1111    134556668889999999999999877531      223467778899999999


Q ss_pred             hHHHHHHHHHhhhCC
Q 040576          570 WDEVENLRRIMKEKE  584 (641)
Q Consensus       570 ~~~A~~~~~~m~~~~  584 (641)
                      .++|...+.+..+..
T Consensus       747 ~~~A~~~L~~Al~la  761 (903)
T PRK04841        747 KSEAQRVLLEALKLA  761 (903)
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999999987654

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.85  E-value=4.6e-06  Score=77.27  Aligned_cols=210  Identities=10%  Similarity=0.019  Sum_probs=143.8

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCeeHHHHHH---HHHHhCCChHHHHHHHhhC--CCCCchhHH-HHHHHH
Q 040576          191 DLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMI---DGYVKNREVGFARELFDFM--PERDIFTWN-SMISGY  264 (641)
Q Consensus       191 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li---~~~~~~g~~~~A~~~~~~m--~~~~~~~~~-~ll~~~  264 (641)
                      ++.-.--|...+...|.+.+|+.-|....+-|+..|.++.   ..|...|+..-|+.=+.+.  .+||-..-. .-...+
T Consensus        37 dvekhlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~vl  116 (504)
T KOG0624|consen   37 DVEKHLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVVL  116 (504)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchhh
Confidence            4455566888888899999999999988888888887775   4788889998888888887  455543221 223467


Q ss_pred             hcCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHH
Q 040576          265 VDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIR  344 (641)
Q Consensus       265 ~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  344 (641)
                      .+.|.++.|..-|+.+.+.++.- +....++.+.-..++-..            ....+..+...|+...|+.....+++
T Consensus       117 lK~Gele~A~~DF~~vl~~~~s~-~~~~eaqskl~~~~e~~~------------l~~ql~s~~~~GD~~~ai~~i~~llE  183 (504)
T KOG0624|consen  117 LKQGELEQAEADFDQVLQHEPSN-GLVLEAQSKLALIQEHWV------------LVQQLKSASGSGDCQNAIEMITHLLE  183 (504)
T ss_pred             hhcccHHHHHHHHHHHHhcCCCc-chhHHHHHHHHhHHHHHH------------HHHHHHHHhcCCchhhHHHHHHHHHh
Confidence            89999999999999988654310 011111111111111111            12345556677888888888888887


Q ss_pred             CCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC
Q 040576          345 GDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEK  415 (641)
Q Consensus       345 ~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  415 (641)
                      - .+.|...+..-..+|...|.+..|+.=+....+.. ..++...--+-..+...|+.+.++...++..+-
T Consensus       184 i-~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl  252 (504)
T KOG0624|consen  184 I-QPWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKL  252 (504)
T ss_pred             c-CcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc
Confidence            4 34566677777778888888888887777776654 234455555667788888888888888887753

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.84  E-value=1.4e-05  Score=84.05  Aligned_cols=223  Identities=12%  Similarity=0.016  Sum_probs=125.8

Q ss_pred             cchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 040576          316 VVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTM  395 (641)
Q Consensus       316 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  395 (641)
                      +..|..+..+-.+.|...+|++-|-+.      -|+..|..++..+.+.|.+++-.+++...++..-.|.+.  +.|+-+
T Consensus      1104 p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~A 1175 (1666)
T KOG0985|consen 1104 PAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFA 1175 (1666)
T ss_pred             hHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHH
Confidence            456888888888888888887776543      355678888888888888888888888887776555543  457788


Q ss_pred             HHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHH
Q 040576          396 YAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYF  475 (641)
Q Consensus       396 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~  475 (641)
                      |++.+++.+.+++..   -||.........-|...|.++.|.-+|..         ...|..|...+...|++..|...-
T Consensus      1176 yAkt~rl~elE~fi~---gpN~A~i~~vGdrcf~~~~y~aAkl~y~~---------vSN~a~La~TLV~LgeyQ~AVD~a 1243 (1666)
T KOG0985|consen 1176 YAKTNRLTELEEFIA---GPNVANIQQVGDRCFEEKMYEAAKLLYSN---------VSNFAKLASTLVYLGEYQGAVDAA 1243 (1666)
T ss_pred             HHHhchHHHHHHHhc---CCCchhHHHHhHHHhhhhhhHHHHHHHHH---------hhhHHHHHHHHHHHHHHHHHHHHh
Confidence            888888877666543   34555555555555555555555554442         223444444555555555544333


Q ss_pred             HHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 040576          476 DLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPG  555 (641)
Q Consensus       476 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  555 (641)
                      +++       -+..+|..+-.+|...+.+.-|.-.=  +.+--...-...|+..|...|-+++-+.+++..+.++.-+.+
T Consensus      1244 RKA-------ns~ktWK~VcfaCvd~~EFrlAQiCG--L~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHMg 1314 (1666)
T KOG0985|consen 1244 RKA-------NSTKTWKEVCFACVDKEEFRLAQICG--LNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLERAHMG 1314 (1666)
T ss_pred             hhc-------cchhHHHHHHHHHhchhhhhHHHhcC--ceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHHH
Confidence            222       12334444444444433333221110  000112223334555555555555555555555555555555


Q ss_pred             hHHHHHHHHHhc
Q 040576          556 PYVLLSNIYASE  567 (641)
Q Consensus       556 ~~~~l~~~~~~~  567 (641)
                      .|..|+-.|.+-
T Consensus      1315 mfTELaiLYsky 1326 (1666)
T KOG0985|consen 1315 MFTELAILYSKY 1326 (1666)
T ss_pred             HHHHHHHHHHhc
Confidence            555555555443

>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=98.82  E-value=1.5e-07  Score=90.02  Aligned_cols=246  Identities=10%  Similarity=0.076  Sum_probs=158.9

Q ss_pred             hcCChHHHHHHHHhcCCC----CcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 040576          297 KIGNVTSARNCFDRMCMR----NVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQW  372 (641)
Q Consensus       297 ~~~~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~  372 (641)
                      -.|++..++.-.+ ....    +......+.++|...|+++.++.   +..... .|.......+...+...++-+.+..
T Consensus        13 y~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl~---ei~~~~-~~~l~av~~la~y~~~~~~~e~~l~   87 (290)
T PF04733_consen   13 YLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVLS---EIKKSS-SPELQAVRLLAEYLSSPSDKESALE   87 (290)
T ss_dssp             CTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHHH---HS-TTS-SCCCHHHHHHHHHHCTSTTHHCHHH
T ss_pred             HhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHHH---HhccCC-ChhHHHHHHHHHHHhCccchHHHHH
Confidence            3466666654443 2111    22334456778888888776543   333322 5666655555554444344444444


Q ss_pred             HHHHHHHcCCC-CchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC
Q 040576          373 IHSYIQKCRIK-PDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPN  451 (641)
Q Consensus       373 ~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~  451 (641)
                      -++........ .+..+......+|...|++++|++++...  .+.......+..|.+.++++.|.+.++.|.+.  ..|
T Consensus        88 ~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD  163 (290)
T PF04733_consen   88 ELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DED  163 (290)
T ss_dssp             HHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCC
T ss_pred             HHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCc
Confidence            44333322322 23333444445677789999999998876  56677778889999999999999999999874  333


Q ss_pred             HHHHHHHHHHHHh----hccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHH
Q 040576          452 DATFICVLSACTH----AGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG-PALWGA  525 (641)
Q Consensus       452 ~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~  525 (641)
                       .+...+..++..    .+.+.+|.-+|+++..  ...+++.+.+.+.-++...|++++|.+++.+. ...|+ +.++..
T Consensus       164 -~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~--~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaN  240 (290)
T PF04733_consen  164 -SILTQLAEAWVNLATGGEKYQDAFYIFEELSD--KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLAN  240 (290)
T ss_dssp             -HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHC--CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHH
T ss_pred             -HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHh--ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHH
Confidence             444455554432    3368999999999876  45678888999999999999999999999886 33344 557777


Q ss_pred             HHHHHHhcCCH-HHHHHHHHHHHhcCCCCC
Q 040576          526 LLSACSTHSNS-ELGKIVAQHLMELEPRDP  554 (641)
Q Consensus       526 l~~~~~~~g~~-~~a~~~~~~~~~~~p~~~  554 (641)
                      ++.+....|+. +.+.+.+.++....|+++
T Consensus       241 liv~~~~~gk~~~~~~~~l~qL~~~~p~h~  270 (290)
T PF04733_consen  241 LIVCSLHLGKPTEAAERYLSQLKQSNPNHP  270 (290)
T ss_dssp             HHHHHHHTT-TCHHHHHHHHHCHHHTTTSH
T ss_pred             HHHHHHHhCCChhHHHHHHHHHHHhCCCCh
Confidence            88777888887 778889999888889876

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=98.78  E-value=3.4e-06  Score=88.58  Aligned_cols=423  Identities=13%  Similarity=0.030  Sum_probs=239.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhc---CCCCCeeHHHHHHHHHHhCCChHHHHHHHhhCCCCC-----chhHHHHHHHHh
Q 040576          194 VRNSLIHMYSVCGEVLDARKVFED---GPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERD-----IFTWNSMISGYV  265 (641)
Q Consensus       194 ~~~~li~~~~~~g~~~~A~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-----~~~~~~ll~~~~  265 (641)
                      .|..|...|+..-+...|.+.|+.   +...|..++....+.|++...++.|..+.-..-+.+     ...|..+.-.+.
T Consensus       494 af~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyL  573 (1238)
T KOG1127|consen  494 AFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYL  573 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhcccccc
Confidence            678888888887788888888886   445567778888899999999999988844442211     123444555677


Q ss_pred             cCCChHHHHHHHhhcCCC---CchHHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHH---HHHHHHHcCChHHHHHHH
Q 040576          266 DVGDMEAANGLFDLMPFR---DVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNI---LLALYVRCKDYCECLRLF  339 (641)
Q Consensus       266 ~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~---li~~~~~~g~~~~A~~~~  339 (641)
                      +.++...++.-|+...+.   |...|..++.+|..+|++..|.++|.+...-++..+..   ..-.-+..|++.+|+..+
T Consensus       574 ea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~GkYkeald~l  653 (1238)
T KOG1127|consen  574 EAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDNGKYKEALDAL  653 (1238)
T ss_pred             CccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            888888888888888764   36778888999999999999999998875544433221   223456788899988888


Q ss_pred             HHHHHC------CCCCCHHHHHHHHHHHHccCCHHHHHHHHHH-------HHHcCCCCchhHHHHHHHHHHhcCCHHHHH
Q 040576          340 DRMIRG------DAKPNEASLMSVLTACANMGVIDIGQWIHSY-------IQKCRIKPDVLLSTSLLTMYAKCGVMDLAR  406 (641)
Q Consensus       340 ~~m~~~------g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~-------~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  406 (641)
                      ......      +..--..++..+...+...|-...+..+++.       ...+....+...|-.+.          +|.
T Consensus       654 ~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~as----------dac  723 (1238)
T KOG1127|consen  654 GLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVAS----------DAC  723 (1238)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHh----------HHH
Confidence            776542      1111122233333333333333333333332       22222222222222222          223


Q ss_pred             HHHhhcCCCChhH---HHHHHHHHHHcCCh---H---HHHHHHHHHHHCCCCCCHHHHHHHHHHHHh--------hccHH
Q 040576          407 NVFDNMTEKNVVS---WNSMIMGYGMHGQG---E---KALEMFMEMEKRGPTPNDATFICVLSACTH--------AGMVL  469 (641)
Q Consensus       407 ~~~~~~~~~~~~~---~~~li~~~~~~~~~---~---~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~--------~g~~~  469 (641)
                      .+|-... |+.+.   ...+..-+-..+..   |   -+.+.+-.-..  ...+..++..++..|.+        ..+..
T Consensus       724 ~~f~q~e-~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hls--l~~~~~~WyNLGinylr~f~~l~et~~~~~  800 (1238)
T KOG1127|consen  724 YIFSQEE-PSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLS--LAIHMYPWYNLGINYLRYFLLLGETMKDAC  800 (1238)
T ss_pred             HHHHHhc-ccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHH--HhhccchHHHHhHHHHHHHHHcCCcchhHH
Confidence            3333333 32111   11111101111111   1   01111111111  11123334444433322        12233


Q ss_pred             HHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 040576          470 EGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL--PMEAGPALWGALLSACSTHSNSELGKIVAQHL  546 (641)
Q Consensus       470 ~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  546 (641)
                      .|+..+.+.++   ...+ ...|+.|. .+...|.+.-|...|-+-  ..+....+|..+...|....|++-|...+.++
T Consensus       801 ~Ai~c~KkaV~---L~ann~~~WnaLG-Vlsg~gnva~aQHCfIks~~sep~~~~~W~NlgvL~l~n~d~E~A~~af~~~  876 (1238)
T KOG1127|consen  801 TAIRCCKKAVS---LCANNEGLWNALG-VLSGIGNVACAQHCFIKSRFSEPTCHCQWLNLGVLVLENQDFEHAEPAFSSV  876 (1238)
T ss_pred             HHHHHHHHHHH---HhhccHHHHHHHH-HhhccchhhhhhhhhhhhhhccccchhheeccceeEEecccHHHhhHHHHhh
Confidence            56666666655   3333 34444443 446667777777766554  23344557877777788888888888888888


Q ss_pred             HhcCCCCCchHHHHHHHHHhcCChHHHHHHHHH--hhhCCCcccCceE-EE----------Eeeeee------------c
Q 040576          547 MELEPRDPGPYVLLSNIYASEGKWDEVENLRRI--MKEKELEKAVGSS-LV----------HPGEFA------------S  601 (641)
Q Consensus       547 ~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~--m~~~~~~~~~~~~-~~----------~~~~~~------------~  601 (641)
                      ..++|.+...|.-.+.+....|+.-++..++..  ....+-.+.++.. |.          ...+++            .
T Consensus       877 qSLdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al  956 (1238)
T KOG1127|consen  877 QSLDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLAL  956 (1238)
T ss_pred             hhcCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHH
Confidence            888888887777777777777877777777766  2222222222222 11          011111            1


Q ss_pred             ccccccCCCCchhhHHHHHHHHHHHHHhhhcccc
Q 040576          602 ESIVENCPPHRKCIVYSMLGEIGAQMKMCRRDVA  635 (641)
Q Consensus       602 ~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~~~~  635 (641)
                      .....-+|+..-  .|...+.+...+++...+.+
T Consensus       957 ~~yf~~~p~~~f--Ay~~~gstlEhL~ey~~a~e  988 (1238)
T KOG1127|consen  957 SYYFLGHPQLCF--AYAANGSTLEHLEEYRAALE  988 (1238)
T ss_pred             HHHHhcCcchhH--HHHHHHhHHHHHHHHHHHHH
Confidence            122356889888  99999998888887766554

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.73  E-value=1.2e-06  Score=82.50  Aligned_cols=181  Identities=11%  Similarity=0.011  Sum_probs=122.9

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcCC--CC-h---hHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH--HHHH
Q 040576          385 DVLLSTSLLTMYAKCGVMDLARNVFDNMTE--KN-V---VSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPND--ATFI  456 (641)
Q Consensus       385 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~-~---~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~--~~~~  456 (641)
                      ....+..++..+...|++++|...|+++.+  |+ .   .++..+..++...|++++|...++++.+.......  .++.
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~  111 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYY  111 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHH
Confidence            455666777778888888888888887764  32 1   35677788888888888888888888875322111  1344


Q ss_pred             HHHHHHHhh--------ccHHHHHHHHHHhHHhhCCCCch-HHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHH
Q 040576          457 CVLSACTHA--------GMVLEGWWYFDLMQRIYKIEPKV-EHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALL  527 (641)
Q Consensus       457 ~ll~~~~~~--------g~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~  527 (641)
                      .+..++...        |++++|.+.|+.+..   ..|+. ..+..+...    +......           ......+.
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~---~~p~~~~~~~a~~~~----~~~~~~~-----------~~~~~~~a  173 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIR---RYPNSEYAPDAKKRM----DYLRNRL-----------AGKELYVA  173 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHH---HCCCChhHHHHHHHH----HHHHHHH-----------HHHHHHHH
Confidence            455555544        678888888888876   23432 222221111    0011100           00112455


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCC---chHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 040576          528 SACSTHSNSELGKIVAQHLMELEPRDP---GPYVLLSNIYASEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       528 ~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  583 (641)
                      ..+...|++++|...++++++..|+++   ..+..++.+|...|++++|...++.+..+
T Consensus       174 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       174 RFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            668899999999999999999987654   68899999999999999999999988654

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).

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.71  E-value=1.8e-05  Score=71.96  Aligned_cols=285  Identities=13%  Similarity=0.059  Sum_probs=191.7

Q ss_pred             cHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHH-HHHH
Q 040576          123 MCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNS-LIHM  201 (641)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~-li~~  201 (641)
                      -+++++..+.+..++.+|++++. .-.+. -+.+....+.+..++-...++..|-..++++-...  |...-|.- -...
T Consensus        12 eftaviy~lI~d~ry~DaI~~l~-s~~Er-~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~--P~~~qYrlY~AQS   87 (459)
T KOG4340|consen   12 EFTAVVYRLIRDARYADAIQLLG-SELER-SPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PELEQYRLYQAQS   87 (459)
T ss_pred             chHHHHHHHHHHhhHHHHHHHHH-HHHhc-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hHHHHHHHHHHHH
Confidence            46788888889999999999988 44443 23366678888888889999999999999987753  44444332 2244


Q ss_pred             HHhcCCHHHHHHHHhcCCCC-CeeHHHHHHHH--HHhCCChHHHHHHHhhCC-CCCchhHHHHHHHHhcCCChHHHHHHH
Q 040576          202 YSVCGEVLDARKVFEDGPVW-DLVTWNSMIDG--YVKNREVGFARELFDFMP-ERDIFTWNSMISGYVDVGDMEAANGLF  277 (641)
Q Consensus       202 ~~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~--~~~~g~~~~A~~~~~~m~-~~~~~~~~~ll~~~~~~g~~~~a~~~~  277 (641)
                      +.+.+.+.+|+++...+... +...-..-+.+  ....+++..+..++++.. +.+..+.+.......+.|+++.|++-|
T Consensus        88 LY~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkF  167 (459)
T KOG4340|consen   88 LYKACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKF  167 (459)
T ss_pred             HHHhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHH
Confidence            55788999999998877653 22222222222  345788889999999985 566777777777778999999999999


Q ss_pred             hhcCCCC----chHHHHHHHHHHhcCChHHHHHHHHhcCCC-----------------Cc---------------chHHH
Q 040576          278 DLMPFRD----VVSWNCMIDGYAKIGNVTSARNCFDRMCMR-----------------NV---------------VSWNI  321 (641)
Q Consensus       278 ~~~~~~~----~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-----------------~~---------------~~~~~  321 (641)
                      +...+-+    ...|+.-+ +..+.|+.+.|++...+++++                 |+               ..+|.
T Consensus       168 qaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNL  246 (459)
T KOG4340|consen  168 QAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNL  246 (459)
T ss_pred             HHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhh
Confidence            9988643    44555444 455678999999998887332                 11               11333


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC
Q 040576          322 LLALYVRCKDYCECLRLFDRMIRG-DAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCG  400 (641)
Q Consensus       322 li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  400 (641)
                      -...+.+.|+++.|.+.+-.|.-. .-..|++|...+.-. -..+++-.+..-+..+.+.+ +....+|..++-.||+..
T Consensus       247 KaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~n-PfP~ETFANlLllyCKNe  324 (459)
T KOG4340|consen  247 KAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQN-PFPPETFANLLLLYCKNE  324 (459)
T ss_pred             hhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcC-CCChHHHHHHHHHHhhhH
Confidence            334466778888888888777432 234566666554422 22334444445555555543 344567777777888888


Q ss_pred             CHHHHHHHHhhcCC
Q 040576          401 VMDLARNVFDNMTE  414 (641)
Q Consensus       401 ~~~~A~~~~~~~~~  414 (641)
                      -++.|-.++.+-..
T Consensus       325 yf~lAADvLAEn~~  338 (459)
T KOG4340|consen  325 YFDLAADVLAENAH  338 (459)
T ss_pred             HHhHHHHHHhhCcc
Confidence            78877777765443

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.70  E-value=2.7e-05  Score=78.67  Aligned_cols=251  Identities=11%  Similarity=0.041  Sum_probs=135.0

Q ss_pred             HHhcCChHHHHHHHHhcCC---CCcchHHHHHHHHHH----cCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHccCC
Q 040576          295 YAKIGNVTSARNCFDRMCM---RNVVSWNILLALYVR----CKDYCECLRLFDRMIRGDAKPNE-ASLMSVLTACANMGV  366 (641)
Q Consensus       295 ~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~  366 (641)
                      +...|++++|.+.+++...   .+...+.. ...+..    .+..+.+.+.+..  .....|+. .....+...+...|+
T Consensus        53 ~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G~  129 (355)
T cd05804          53 AWIAGDLPKALALLEQLLDDYPRDLLALKL-HLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAGQ  129 (355)
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCCcHHHHHH-hHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcCC
Confidence            4445666666666655422   22223321 212222    2333444444433  11222332 233344556677778


Q ss_pred             HHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--C---Ch--hHHHHHHHHHHHcCChHHHHHH
Q 040576          367 IDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE--K---NV--VSWNSMIMGYGMHGQGEKALEM  439 (641)
Q Consensus       367 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~---~~--~~~~~li~~~~~~~~~~~A~~~  439 (641)
                      +++|...++...+.. +.+...+..+..+|...|++++|...+++..+  +   +.  ..|..+...+...|++++|..+
T Consensus       130 ~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~  208 (355)
T cd05804         130 YDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAI  208 (355)
T ss_pred             HHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHH
Confidence            888888887777764 44456677777788888888888888877664  1   11  2355677788888888888888


Q ss_pred             HHHHHHCCC-CCCHHHH-H--HHHHHHHhhccHHHHHHHHHHhHHh--hCCCCc--hHHHHHHHHHHhhcCCHHHHHHHH
Q 040576          440 FMEMEKRGP-TPNDATF-I--CVLSACTHAGMVLEGWWYFDLMQRI--YKIEPK--VEHYGCMVDLLGRAGLMRDSEELV  511 (641)
Q Consensus       440 ~~~m~~~g~-~p~~~~~-~--~ll~~~~~~g~~~~a~~~~~~~~~~--~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~  511 (641)
                      +++...... .+..... .  .++.-+...|....+.++ +.+...  ......  .......+.++...|+.++|..++
T Consensus       209 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L  287 (355)
T cd05804         209 YDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRW-EDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLL  287 (355)
T ss_pred             HHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHH-HHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHH
Confidence            888754322 1111111 1  223333334433333322 111110  011111  111124566778888999999888


Q ss_pred             HhCC--CCC---CH----HHHHHHHH--HHHhcCCHHHHHHHHHHHHhcC
Q 040576          512 SKLP--MEA---GP----ALWGALLS--ACSTHSNSELGKIVAQHLMELE  550 (641)
Q Consensus       512 ~~~~--~~~---~~----~~~~~l~~--~~~~~g~~~~a~~~~~~~~~~~  550 (641)
                      +.+.  ...   ..    .+...++.  ++...|+.++|...+..++.+.
T Consensus       288 ~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         288 AALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            8762  111   11    11222333  3678899999999998877643

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.

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.67  E-value=2.4e-06  Score=76.74  Aligned_cols=122  Identities=14%  Similarity=0.060  Sum_probs=68.1

Q ss_pred             HHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcC
Q 040576          457 CVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL--PMEAGPALWGALLSACSTHS  534 (641)
Q Consensus       457 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~g  534 (641)
                      .+-..+...|+-+....+......  ..+.+......++....+.|++.+|+..+++.  ...+|...|+.+..+|.+.|
T Consensus        71 ~~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~G  148 (257)
T COG5010          71 KLATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQLG  148 (257)
T ss_pred             HHHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHcc
Confidence            334444445555555555544432  12223334444555666666666666666655  23345556666666666666


Q ss_pred             CHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          535 NSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       535 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      +++.|...|.+++++.|+++..++.|+..|.-.|+++.|..++...
T Consensus       149 r~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a  194 (257)
T COG5010         149 RFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPA  194 (257)
T ss_pred             ChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHH
Confidence            6666666666666666666666666666666666666666666555

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.62  E-value=2e-06  Score=73.38  Aligned_cols=122  Identities=8%  Similarity=-0.021  Sum_probs=99.4

Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhC-
Q 040576          437 LEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKL-  514 (641)
Q Consensus       437 ~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-  514 (641)
                      ..+|++..+.  .|+.  +..+...+...|++++|...|+.+..   ..| +...|..+..++.+.|++++|+..|++. 
T Consensus        13 ~~~~~~al~~--~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al   85 (144)
T PRK15359         13 EDILKQLLSV--DPET--VYASGYASWQEGDYSRAVIDFSWLVM---AQPWSWRAHIALAGTWMMLKEYTTAINFYGHAL   85 (144)
T ss_pred             HHHHHHHHHc--CHHH--HHHHHHHHHHcCCHHHHHHHHHHHHH---cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            4556666653  4443  55567788899999999999999887   444 5778888999999999999999999987 


Q ss_pred             CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 040576          515 PME-AGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYA  565 (641)
Q Consensus       515 ~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  565 (641)
                      ... .++..+..+..++...|+.++|+..|++++++.|+++..+...+.+..
T Consensus        86 ~l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~  137 (144)
T PRK15359         86 MLDASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQI  137 (144)
T ss_pred             hcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Confidence            333 456788889999999999999999999999999999999988877754

>PLN02789 farnesyltranstransferase

Probab=98.62  E-value=9.2e-06  Score=78.90  Aligned_cols=211  Identities=8%  Similarity=-0.025  Sum_probs=122.7

Q ss_pred             CHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC-CHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCCh--HHHHHH
Q 040576          366 VIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCG-VMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQG--EKALEM  439 (641)
Q Consensus       366 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~--~~A~~~  439 (641)
                      ..++|......+++.. +-+..+|+....++...| ++++++..++++.+   .+..+|+...-.+.+.|+.  ++++.+
T Consensus        52 ~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~  130 (320)
T PLN02789         52 RSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEF  130 (320)
T ss_pred             CCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHH
Confidence            3334444444444332 112233333333344444 35566666655543   3334555444444444542  566777


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhc---CC----HHHHHHHHH
Q 040576          440 FMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRA---GL----MRDSEELVS  512 (641)
Q Consensus       440 ~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~---g~----~~~A~~~~~  512 (641)
                      ++++.+...+ |..+|.....++...|+++++++.++++++ .. .-+...|+....++.+.   |.    .++++++..
T Consensus       131 ~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~-~d-~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~  207 (320)
T PLN02789        131 TRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLE-ED-VRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTI  207 (320)
T ss_pred             HHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHH-HC-CCchhHHHHHHHHHHhccccccccccHHHHHHHHH
Confidence            7777765433 556676666677777777777777777776 11 22345555544444333   22    245566654


Q ss_pred             hC-CCCCC-HHHHHHHHHHHHhc----CCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC------------------
Q 040576          513 KL-PMEAG-PALWGALLSACSTH----SNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEG------------------  568 (641)
Q Consensus       513 ~~-~~~~~-~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g------------------  568 (641)
                      ++ ...|+ ...|+-+...+...    +...+|...+..+...+|+++.++..|+++|....                  
T Consensus       208 ~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~~  287 (320)
T PLN02789        208 DAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEELS  287 (320)
T ss_pred             HHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhccccccc
Confidence            43 33344 55777777777663    34566888888888888999889999999998643                  


Q ss_pred             ChHHHHHHHHHh
Q 040576          569 KWDEVENLRRIM  580 (641)
Q Consensus       569 ~~~~A~~~~~~m  580 (641)
                      ..++|.++++.+
T Consensus       288 ~~~~a~~~~~~l  299 (320)
T PLN02789        288 DSTLAQAVCSEL  299 (320)
T ss_pred             cHHHHHHHHHHH
Confidence            346788888877

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.61  E-value=1.2e-06  Score=74.37  Aligned_cols=104  Identities=15%  Similarity=0.228  Sum_probs=84.0

Q ss_pred             HHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 040576          474 YFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELE  550 (641)
Q Consensus       474 ~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  550 (641)
                      .++.+..   ..|+ ......++..+...|++++|.+.++.+ ...| +...|..+...+...|++++|...++++++.+
T Consensus         5 ~~~~~l~---~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~   81 (135)
T TIGR02552         5 TLKDLLG---LDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD   81 (135)
T ss_pred             hHHHHHc---CChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            3444443   4453 455666778888889999999988886 3234 56678888888889999999999999999999


Q ss_pred             CCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          551 PRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       551 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      |+++..+..++.+|...|++++|...+++.
T Consensus        82 p~~~~~~~~la~~~~~~g~~~~A~~~~~~a  111 (135)
T TIGR02552        82 PDDPRPYFHAAECLLALGEPESALKALDLA  111 (135)
T ss_pred             CCChHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999999999999999999999999999988

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.60  E-value=5.9e-06  Score=89.82  Aligned_cols=200  Identities=13%  Similarity=0.126  Sum_probs=158.4

Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--------CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHH
Q 040576          383 KPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE--------KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDAT  454 (641)
Q Consensus       383 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~  454 (641)
                      +.+...|-..|......++.++|++++++...        .-...|.+++..-...|.-+...++|+++.+.  --....
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHH
Confidence            44566777788888888999999999888764        12346777777777778888888999998874  223446


Q ss_pred             HHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC---HHHHHHHHHHH
Q 040576          455 FICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG---PALWGALLSAC  530 (641)
Q Consensus       455 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~---~~~~~~l~~~~  530 (641)
                      |..|...|.+.+.+++|.++++.|.++++  -....|..+++.+.++++-+.|.+++.++ ..-|.   .....-.+..-
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            78888889999999999999999988665  55678888999999999989999988876 22233   33444455556


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCc
Q 040576          531 STHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELE  586 (641)
Q Consensus       531 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  586 (641)
                      .++|+.+++..+|+..+.-.|.....|+.+++.-.+.|+.+.++.+|++....++.
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            78899999999999999999998889999999999999999999999999877654

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.60  E-value=9.8e-05  Score=84.72  Aligned_cols=323  Identities=10%  Similarity=-0.040  Sum_probs=203.4

Q ss_pred             HHHHhcCCChHHHHHHHhhcCCCCc--hHHHHHHHHHHhcCChHHHHHHHHhcCC----CCcchHHHHHHHHHHcCChHH
Q 040576          261 ISGYVDVGDMEAANGLFDLMPFRDV--VSWNCMIDGYAKIGNVTSARNCFDRMCM----RNVVSWNILLALYVRCKDYCE  334 (641)
Q Consensus       261 l~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~li~~~~~~~~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~  334 (641)
                      ...+...|++..|..........+.  .............|+++.+...++.+..    .+..........+...|++++
T Consensus       348 a~~~~~~g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~  427 (903)
T PRK04841        348 AEAWLAQGFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSE  427 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHH
Confidence            3445556666666655544433221  1122223345567888888888877622    233333445556678899999


Q ss_pred             HHHHHHHHHHCC--C----CCCHH--HHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCc----hhHHHHHHHHHHhcCCH
Q 040576          335 CLRLFDRMIRGD--A----KPNEA--SLMSVLTACANMGVIDIGQWIHSYIQKCRIKPD----VLLSTSLLTMYAKCGVM  402 (641)
Q Consensus       335 A~~~~~~m~~~g--~----~p~~~--~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~  402 (641)
                      |..++....+.-  .    .+...  ....+...+...|+++.+...++...+.--..+    ....+.+...+...|++
T Consensus       428 a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~  507 (903)
T PRK04841        428 VNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGEL  507 (903)
T ss_pred             HHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCH
Confidence            999998875531  1    11111  122233445688999999999998876321112    23445666778889999


Q ss_pred             HHHHHHHhhcCC-------CC--hhHHHHHHHHHHHcCChHHHHHHHHHHHHC----CCC--C-CHHHHHHHHHHHHhhc
Q 040576          403 DLARNVFDNMTE-------KN--VVSWNSMIMGYGMHGQGEKALEMFMEMEKR----GPT--P-NDATFICVLSACTHAG  466 (641)
Q Consensus       403 ~~A~~~~~~~~~-------~~--~~~~~~li~~~~~~~~~~~A~~~~~~m~~~----g~~--p-~~~~~~~ll~~~~~~g  466 (641)
                      ++|...+++...       +.  ..++..+...+...|++++|...+++....    |..  + ....+..+...+...|
T Consensus       508 ~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G  587 (903)
T PRK04841        508 ARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWA  587 (903)
T ss_pred             HHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhc
Confidence            999999987752       11  234556677788999999999998886652    221  1 1223444555677789


Q ss_pred             cHHHHHHHHHHhHHhhC-CCCc--hHHHHHHHHHHhhcCCHHHHHHHHHhC----CCCCCHHHHH-----HHHHHHHhcC
Q 040576          467 MVLEGWWYFDLMQRIYK-IEPK--VEHYGCMVDLLGRAGLMRDSEELVSKL----PMEAGPALWG-----ALLSACSTHS  534 (641)
Q Consensus       467 ~~~~a~~~~~~~~~~~~-~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~~~~~~~~-----~l~~~~~~~g  534 (641)
                      ++++|...+.+...... ..+.  ...+..+...+...|++++|.+.+++.    ........+.     ..+..+...|
T Consensus       588 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g  667 (903)
T PRK04841        588 RLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTG  667 (903)
T ss_pred             CHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCC
Confidence            99999999988765211 1122  344555677888999999999888776    1111111111     1123345688


Q ss_pred             CHHHHHHHHHHHHhcCCCCCch----HHHHHHHHHhcCChHHHHHHHHHhhhC
Q 040576          535 NSELGKIVAQHLMELEPRDPGP----YVLLSNIYASEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       535 ~~~~a~~~~~~~~~~~p~~~~~----~~~l~~~~~~~g~~~~A~~~~~~m~~~  583 (641)
                      +.+.|...+.......+.....    +..++.++...|++++|...+++..+.
T Consensus       668 ~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~  720 (903)
T PRK04841        668 DKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNEN  720 (903)
T ss_pred             CHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999987765533222211    456888899999999999999998653

>PLN02789 farnesyltranstransferase

Probab=98.60  E-value=1.5e-05  Score=77.50  Aligned_cols=188  Identities=12%  Similarity=0.086  Sum_probs=138.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCCC---ChhHHHHHHHHHHHcC-ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhc
Q 040576          391 SLLTMYAKCGVMDLARNVFDNMTEK---NVVSWNSMIMGYGMHG-QGEKALEMFMEMEKRGPTPNDATFICVLSACTHAG  466 (641)
Q Consensus       391 ~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~-~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g  466 (641)
                      .+-..+...++.++|+..++.+.+.   +..+|+.-..++...| ++++++..++++.+...+ +..+|..-...+.+.|
T Consensus        42 ~~ra~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~  120 (320)
T PLN02789         42 YFRAVYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLG  120 (320)
T ss_pred             HHHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcC
Confidence            3334455667888999999888753   4456776667777777 579999999999987544 4456665555555666


Q ss_pred             cH--HHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhc---CC----
Q 040576          467 MV--LEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTH---SN----  535 (641)
Q Consensus       467 ~~--~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~---g~----  535 (641)
                      ..  +++..+++++.+  .-+-+..+|+...-++.+.|++++|++.++++ . ...+...|+.....+...   |.    
T Consensus       121 ~~~~~~el~~~~kal~--~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~~  198 (320)
T PLN02789        121 PDAANKELEFTRKILS--LDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEAM  198 (320)
T ss_pred             chhhHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhcccccccccc
Confidence            53  677888888877  22335778888888888999999999999998 2 234566788777666554   22    


Q ss_pred             HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc----CChHHHHHHHHHhh
Q 040576          536 SELGKIVAQHLMELEPRDPGPYVLLSNIYASE----GKWDEVENLRRIMK  581 (641)
Q Consensus       536 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~----g~~~~A~~~~~~m~  581 (641)
                      .+++.....++++.+|+|..+|..+..++...    ++..+|.+.+.+..
T Consensus       199 ~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~  248 (320)
T PLN02789        199 RDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVL  248 (320)
T ss_pred             HHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhh
Confidence            35677888899999999999999999999883    45567888887763

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.58  E-value=3e-06  Score=86.35  Aligned_cols=188  Identities=14%  Similarity=0.183  Sum_probs=108.4

Q ss_pred             CCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 040576          382 IKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSA  461 (641)
Q Consensus       382 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  461 (641)
                      .+|--.....+...+...|-...|..+|++.     ..|.-.|.+|+..|+..+|..+..+-.++  +|++.-|..+.+.
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            3444445556666677777777777777664     35556666777777777777766665552  5666666666666


Q ss_pred             HHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHH
Q 040576          462 CTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELG  539 (641)
Q Consensus       462 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a  539 (641)
                      .....-+++|.++++.....        .-..+.....+.++++++.+.++.- ...| ...+|-.+..+..+.++++.|
T Consensus       467 ~~d~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~a  538 (777)
T KOG1128|consen  467 LHDPSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAA  538 (777)
T ss_pred             ccChHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHH
Confidence            66666666666666554331        1111122223355566666655542 2222 234555555555566666666


Q ss_pred             HHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 040576          540 KIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKE  584 (641)
Q Consensus       540 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  584 (641)
                      ...|.....++|++...|+.+..+|.+.|+..+|...+++..+-+
T Consensus       539 v~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn  583 (777)
T KOG1128|consen  539 VKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN  583 (777)
T ss_pred             HHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC
Confidence            666666666666666666666666666666666666666555444

>PF12854 PPR_1: PPR repeat

Probab=98.57  E-value=9.6e-08  Score=57.91  Aligned_cols=32  Identities=34%  Similarity=0.511  Sum_probs=23.4

Q ss_pred             CCCCChhHHHHHHHHHHhcCCHHHHHHHHhcC
Q 040576          187 GFELDLFVRNSLIHMYSVCGEVLDARKVFEDG  218 (641)
Q Consensus       187 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  218 (641)
                      |+.||..+|+.||++|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            66777777777777777777777777777765

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.57  E-value=5.2e-06  Score=82.54  Aligned_cols=139  Identities=9%  Similarity=0.070  Sum_probs=106.6

Q ss_pred             HHHHHHHHHHH-HCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHH
Q 040576          434 EKALEMFMEME-KRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELV  511 (641)
Q Consensus       434 ~~A~~~~~~m~-~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~  511 (641)
                      ....++|-++. ..+..+|+.....|.-.|.-.|++++|+..|+.+..   ++|+ ...||.|.-.++...+.++|+..|
T Consensus       411 ~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~---v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY  487 (579)
T KOG1125|consen  411 AHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQ---VKPNDYLLWNRLGATLANGNRSEEAISAY  487 (579)
T ss_pred             HHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHh---cCCchHHHHHHhhHHhcCCcccHHHHHHH
Confidence            34445555544 445456777777888888889999999999999987   6676 678999999999999999999999


Q ss_pred             HhC-CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-----C-----chHHHHHHHHHhcCChHHHHH
Q 040576          512 SKL-PMEAGP-ALWGALLSACSTHSNSELGKIVAQHLMELEPRD-----P-----GPYVLLSNIYASEGKWDEVEN  575 (641)
Q Consensus       512 ~~~-~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~-----~-----~~~~~l~~~~~~~g~~~~A~~  575 (641)
                      +++ ..+|+- ..+..|.-+|...|.+++|...|-.++.+.+.+     .     .+|..|=.++.-.++.|-+.+
T Consensus       488 ~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~  563 (579)
T KOG1125|consen  488 NRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQE  563 (579)
T ss_pred             HHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHH
Confidence            987 677874 477889999999999999999999988776541     1     356666666666666654443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.54  E-value=1.7e-06  Score=72.36  Aligned_cols=96  Identities=9%  Similarity=0.003  Sum_probs=84.3

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 040576          488 VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYA  565 (641)
Q Consensus       488 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  565 (641)
                      ......+...+...|++++|..+|+-. ...| +..-|..|..+|...|++++|+..|.++..++|++|.++..++.+|.
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L  114 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Confidence            445556677788999999999999987 3334 46678899999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHhhhC
Q 040576          566 SEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       566 ~~g~~~~A~~~~~~m~~~  583 (641)
                      ..|+.+.|.+-|+.....
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            999999999999998654

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.54  E-value=1.6e-05  Score=81.16  Aligned_cols=210  Identities=10%  Similarity=0.098  Sum_probs=165.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC
Q 040576          287 SWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGV  366 (641)
Q Consensus       287 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~  366 (641)
                      .-..+...+...|-...|..+|++.     ..|..+|.+|...|+..+|..+..+-.+  -+||+..|..+....-...-
T Consensus       400 ~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~s~  472 (777)
T KOG1128|consen  400 LQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDPSL  472 (777)
T ss_pred             HHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccChHH
Confidence            4456778889999999999999975     4588889999999999999998888777  46888888888877777777


Q ss_pred             HHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHH
Q 040576          367 IDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEM  443 (641)
Q Consensus       367 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m  443 (641)
                      +++|.++.+.....       .-..+.....+.++++++.+.|+.-.+   --..+|-.+..+..+.++++.|.+.|..-
T Consensus       473 yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rc  545 (777)
T KOG1128|consen  473 YEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRC  545 (777)
T ss_pred             HHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHH
Confidence            77777777665432       112222333447899999999987664   24468888888999999999999999988


Q ss_pred             HHCCCCCCH-HHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC
Q 040576          444 EKRGPTPND-ATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL  514 (641)
Q Consensus       444 ~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  514 (641)
                      ...  .||. ..|+.+-.+|.+.|+..+|...+.+..+ .. .-+...|...+-.....|.+++|++.+.++
T Consensus       546 vtL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlK-cn-~~~w~iWENymlvsvdvge~eda~~A~~rl  613 (777)
T KOG1128|consen  546 VTL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALK-CN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRL  613 (777)
T ss_pred             hhc--CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhh-cC-CCCCeeeechhhhhhhcccHHHHHHHHHHH
Confidence            774  6664 5899999999999999999999999988 55 344566777778888999999999998876

>PF12854 PPR_1: PPR repeat

Probab=98.50  E-value=2.2e-07  Score=56.28  Aligned_cols=33  Identities=36%  Similarity=0.583  Sum_probs=24.8

Q ss_pred             CCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcC
Q 040576          381 RIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMT  413 (641)
Q Consensus       381 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  413 (641)
                      |+.||..+|++||++||+.|++++|.++|++|+
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            667777777777777777777777777777763

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.47  E-value=0.0021  Score=64.01  Aligned_cols=145  Identities=14%  Similarity=0.090  Sum_probs=87.1

Q ss_pred             HHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CChhHHHHHHHHHHHcCChHHHHHHHH
Q 040576          367 IDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE-----KNVVSWNSMIMGYGMHGQGEKALEMFM  441 (641)
Q Consensus       367 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~A~~~~~  441 (641)
                      .+....+++.+...-...-.-+|..+++.--+..-+..|+.+|.+..+     .++..+++++.-||. ++..-|..+|+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHH
Confidence            444555555555433222334555666666666677777777777664     255566667766654 55677777777


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc--hHHHHHHHHHHhhcCCHHHHHHHHHhC
Q 040576          442 EMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK--VEHYGCMVDLLGRAGLMRDSEELVSKL  514 (641)
Q Consensus       442 ~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~  514 (641)
                      --.+. ..-++.-....+.-+.+.++-..+..+|++... .++.|+  ...|..+++-=..-|++..+.++-+++
T Consensus       426 LGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~-s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~  498 (656)
T KOG1914|consen  426 LGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLT-SVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRR  498 (656)
T ss_pred             HHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHh-ccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            65443 111223333455566666777777777777776 355554  466777777767777777777665554

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.47  E-value=2.5e-05  Score=70.38  Aligned_cols=156  Identities=10%  Similarity=0.070  Sum_probs=113.8

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhh
Q 040576          421 NSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGR  500 (641)
Q Consensus       421 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~  500 (641)
                      ..+-..+...|+.+....+........ .-|.......+....+.|++.+|...+.+...  .-++|...|+.+.-+|.+
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq  146 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQ  146 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHH
Confidence            455566777777777777766654431 22334444567777788888888888888876  455667888888888888


Q ss_pred             cCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHH
Q 040576          501 AGLMRDSEELVSKL-PME-AGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRR  578 (641)
Q Consensus       501 ~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  578 (641)
                      .|++++|..-|.+. ... .++...+.+...+.-.|+.+.|+.++..+....+.++.+-..|+.+....|++++|..+..
T Consensus       147 ~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         147 LGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             ccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            88888888877766 222 3456677788888888888888888888888888788888888888888888888877665


Q ss_pred             H
Q 040576          579 I  579 (641)
Q Consensus       579 ~  579 (641)
                      +
T Consensus       227 ~  227 (257)
T COG5010         227 Q  227 (257)
T ss_pred             c
Confidence            4

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.46  E-value=4.6e-05  Score=81.77  Aligned_cols=131  Identities=12%  Similarity=0.020  Sum_probs=84.2

Q ss_pred             CCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHH
Q 040576          449 TPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG-PALWGA  525 (641)
Q Consensus       449 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~  525 (641)
                      ..+...+..|.....+.|.+++|..+++.+.+   +.|+ ......++..+.+.+++++|+..+++. ...|+ ......
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~---~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~  159 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQ---RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILL  159 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHh---hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHH
Confidence            33455666666666666777777777776665   4555 344555666666777777777766665 33444 334455


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          526 LLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       526 l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      +..++.+.|++++|..+|+++...+|+++.++..++.++...|+.++|...|++..+
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            555666777777777777777776666666777777777777777777777776643

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.46  E-value=2.4e-05  Score=70.76  Aligned_cols=155  Identities=12%  Similarity=0.133  Sum_probs=114.6

Q ss_pred             HHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHH
Q 040576          393 LTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGW  472 (641)
Q Consensus       393 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~  472 (641)
                      +.+|...|+++.+....+.+..+.        ..|...++.+++...+++..+.. ..|...|..+...|...|++++|.
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~   93 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNAL   93 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            456778888877655554433221        01123566788888888877764 336778888889999999999999


Q ss_pred             HHHHHhHHhhCCCC-chHHHHHHHHHH-hhcCC--HHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 040576          473 WYFDLMQRIYKIEP-KVEHYGCMVDLL-GRAGL--MRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHL  546 (641)
Q Consensus       473 ~~~~~~~~~~~~~p-~~~~~~~li~~~-~~~g~--~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~  546 (641)
                      ..|++..+   +.| +...+..+..++ .+.|+  .++|.+++++. ...| +...+..+...+...|++++|+..++++
T Consensus        94 ~a~~~Al~---l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~a  170 (198)
T PRK10370         94 LAYRQALQ---LRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKV  170 (198)
T ss_pred             HHHHHHHH---hCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999987   445 467777788764 67777  59999999987 3344 4567888888899999999999999999


Q ss_pred             HhcCCCCCchHHH
Q 040576          547 MELEPRDPGPYVL  559 (641)
Q Consensus       547 ~~~~p~~~~~~~~  559 (641)
                      +++.|++..-+..
T Consensus       171 L~l~~~~~~r~~~  183 (198)
T PRK10370        171 LDLNSPRVNRTQL  183 (198)
T ss_pred             HhhCCCCccHHHH
Confidence            9999887655443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.45  E-value=6.6e-06  Score=88.11  Aligned_cols=127  Identities=8%  Similarity=0.007  Sum_probs=113.3

Q ss_pred             CCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHH
Q 040576          484 IEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPA-LWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLS  561 (641)
Q Consensus       484 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  561 (641)
                      ...++..+-.|.....+.|.+++|+.+++.. ...|+.. .+..+..++.+.+.+++|...+++++..+|+++..+..++
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~a  161 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLEA  161 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHHH
Confidence            4556888999999999999999999999987 5667755 6778888999999999999999999999999999999999


Q ss_pred             HHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhhccccc
Q 040576          562 NIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRRDVAS  636 (641)
Q Consensus       562 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~~~~~  636 (641)
                      .++.+.|++++|..+|+++                        ...+|++.+  ++..++.+..++|+..++.+.
T Consensus       162 ~~l~~~g~~~~A~~~y~~~------------------------~~~~p~~~~--~~~~~a~~l~~~G~~~~A~~~  210 (694)
T PRK15179        162 KSWDEIGQSEQADACFERL------------------------SRQHPEFEN--GYVGWAQSLTRRGALWRARDV  210 (694)
T ss_pred             HHHHHhcchHHHHHHHHHH------------------------HhcCCCcHH--HHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999999999999                        557888888  999999998888887776543

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.45  E-value=1.9e-05  Score=74.34  Aligned_cols=181  Identities=13%  Similarity=0.029  Sum_probs=127.0

Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCc---hhHHHHHHHHHHhcCCHHHHHHHHhhcCC--CC-hh---H
Q 040576          349 PNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPD---VLLSTSLLTMYAKCGVMDLARNVFDNMTE--KN-VV---S  419 (641)
Q Consensus       349 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~-~~---~  419 (641)
                      .....+......+...|+++.|...++.+.... +.+   ...+..+..+|...|++++|...++++.+  |+ ..   +
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a  109 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYA  109 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHH
Confidence            445677788888999999999999999998764 222   24667788999999999999999999874  32 22   4


Q ss_pred             HHHHHHHHHHc--------CChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHH
Q 040576          420 WNSMIMGYGMH--------GQGEKALEMFMEMEKRGPTPNDA-TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEH  490 (641)
Q Consensus       420 ~~~li~~~~~~--------~~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~  490 (641)
                      +..+..++...        |++++|...|+++...  .|+.. ....+...    +....      ...         ..
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~----~~~~~------~~~---------~~  168 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRM----DYLRN------RLA---------GK  168 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHH----HHHHH------HHH---------HH
Confidence            66666667655        7889999999999886  44433 22211111    00000      000         11


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 040576          491 YGCMVDLLGRAGLMRDSEELVSKL----PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEP  551 (641)
Q Consensus       491 ~~~li~~~~~~g~~~~A~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  551 (641)
                      ...+...|.+.|++++|+..+++.    +..| ....+..+..++...|++++|...++.+....|
T Consensus       169 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       169 ELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            224567788999999999988876    2223 245788888899999999999998887766554

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).

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.44  E-value=1.4e-06  Score=79.84  Aligned_cols=110  Identities=14%  Similarity=0.137  Sum_probs=90.3

Q ss_pred             HHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHH
Q 040576          496 DLLGRAGLMRDSEELVSKL-PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEV  573 (641)
Q Consensus       496 ~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  573 (641)
                      +-+.+.+++++|+..|.+. ...|. ++.|..-..+|.+.|.++.|++..+.++.++|....+|..|+.+|...|++++|
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHH
Confidence            3456778888888888876 44444 455666777788899999999999999999999888999999999999999999


Q ss_pred             HHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhh
Q 040576          574 ENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCR  631 (641)
Q Consensus       574 ~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~  631 (641)
                      ++.|++.                        .+++|+++.  ....|+....++++..
T Consensus       169 ~~aykKa------------------------LeldP~Ne~--~K~nL~~Ae~~l~e~~  200 (304)
T KOG0553|consen  169 IEAYKKA------------------------LELDPDNES--YKSNLKIAEQKLNEPK  200 (304)
T ss_pred             HHHHHhh------------------------hccCCCcHH--HHHHHHHHHHHhcCCC
Confidence            9988887                        788899988  8888888888887766

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.43  E-value=0.0002  Score=70.26  Aligned_cols=116  Identities=19%  Similarity=0.135  Sum_probs=69.8

Q ss_pred             HhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHH
Q 040576          463 THAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG-PALWGALLSACSTHSNSELGK  540 (641)
Q Consensus       463 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~  540 (641)
                      ...|.+++|+..++.+.+  ..+-|+..+....+.+.+.|+.++|.+.++++ ...|+ ...+..+..++.+.|+.++|+
T Consensus       317 ~~~~~~d~A~~~l~~L~~--~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai  394 (484)
T COG4783         317 YLAGQYDEALKLLQPLIA--AQPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAI  394 (484)
T ss_pred             HHhcccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHH
Confidence            345666666666666655  22233444445566666666666666666665 33444 445556666666666666666


Q ss_pred             HHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          541 IVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       541 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      ..++....-+|+++..|..|+.+|...|+..+|....-++
T Consensus       395 ~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~  434 (484)
T COG4783         395 RILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEG  434 (484)
T ss_pred             HHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHH
Confidence            6666666666666666666666666666555555544443

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.42  E-value=8.1e-05  Score=81.39  Aligned_cols=230  Identities=13%  Similarity=0.138  Sum_probs=139.9

Q ss_pred             CcchHHHHHHHHHHcCChHHHHHHHHHHHHC-CCCCCH---HHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHH
Q 040576          315 NVVSWNILLALYVRCKDYCECLRLFDRMIRG-DAKPNE---ASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLST  390 (641)
Q Consensus       315 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~---~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  390 (641)
                      ....|-..|....+.++.++|.+++++.+.. +++-..   -.|.+++..-..-|.-+...++|+++.+..  ....+|.
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~~ 1534 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTVHL 1534 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHHH
Confidence            3456777777777888888888888877653 111111   235555555555566666777777776642  2345566


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhhc
Q 040576          391 SLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDA-TFICVLSACTHAG  466 (641)
Q Consensus       391 ~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g  466 (641)
                      .|...|.+.+++++|.++|+.|.+   .....|...+..+.++++.+.|..++.+..+.=.+-.+. ...-.+..-.+.|
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KKF~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~G 1614 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKKFGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYG 1614 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHHhcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcC
Confidence            777777777777777777777764   345667777777777777777777777776642221222 2222333445667


Q ss_pred             cHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC---CCCCC--HHHHHHHHHHHHhcCCHHHHHH
Q 040576          467 MVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL---PMEAG--PALWGALLSACSTHSNSELGKI  541 (641)
Q Consensus       467 ~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~~~--~~~~~~l~~~~~~~g~~~~a~~  541 (641)
                      +.+.+..+|+....  ..+-....|+.++++=.++|+.+.+..+|++.   ...|.  -..|.-.+..-..+|+-+.++.
T Consensus      1615 DaeRGRtlfEgll~--ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~ 1692 (1710)
T KOG1070|consen 1615 DAERGRTLFEGLLS--AYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEY 1692 (1710)
T ss_pred             CchhhHHHHHHHHh--hCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHH
Confidence            77777777777765  23334566777777777777777777777765   11111  2344555555555666555555


Q ss_pred             HHHHHHh
Q 040576          542 VAQHLME  548 (641)
Q Consensus       542 ~~~~~~~  548 (641)
                      +-.++.+
T Consensus      1693 VKarA~E 1699 (1710)
T KOG1070|consen 1693 VKARAKE 1699 (1710)
T ss_pred             HHHHHHH
Confidence            5554443

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.39  E-value=6.1e-05  Score=67.78  Aligned_cols=242  Identities=13%  Similarity=0.067  Sum_probs=158.4

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCH
Q 040576          323 LALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVM  402 (641)
Q Consensus       323 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  402 (641)
                      ++-+.-.|.+..++..-.......  -+...-..+-.+|...|......   ..+.... .+.......+......-++.
T Consensus        15 iRn~fY~Gnyq~~ine~~~~~~~~--~~~e~d~y~~raylAlg~~~~~~---~eI~~~~-~~~lqAvr~~a~~~~~e~~~   88 (299)
T KOG3081|consen   15 IRNYFYLGNYQQCINEAEKFSSSK--TDVELDVYMYRAYLALGQYQIVI---SEIKEGK-ATPLQAVRLLAEYLELESNK   88 (299)
T ss_pred             HHHHHHhhHHHHHHHHHHhhcccc--chhHHHHHHHHHHHHcccccccc---ccccccc-CChHHHHHHHHHHhhCcchh
Confidence            556777788888877666554432  33444444556676666654332   2222222 33333333333333334443


Q ss_pred             HHHH-HHHhhcCCC---ChhHHHH-HHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHH
Q 040576          403 DLAR-NVFDNMTEK---NVVSWNS-MIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDL  477 (641)
Q Consensus       403 ~~A~-~~~~~~~~~---~~~~~~~-li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~  477 (641)
                      ++-. ++.+.+..+   +..++.. -...|+..|++++|++......      +......=+..+.+..+.+-|.+.++.
T Consensus        89 ~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~  162 (299)
T KOG3081|consen   89 KSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKK  162 (299)
T ss_pred             HHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333 334444432   2223333 3456888999999999887622      333333334556788899999999999


Q ss_pred             hHHhhCCCCchHHHHHHHHHH----hhcCCHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 040576          478 MQRIYKIEPKVEHYGCMVDLL----GRAGLMRDSEELVSKLP--MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEP  551 (641)
Q Consensus       478 ~~~~~~~~p~~~~~~~li~~~----~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  551 (641)
                      |.+   + .+..+.+.|..++    ...+...+|.-+|++|.  ..|++.+.+....++...|++++|+.+++.++..++
T Consensus       163 mq~---i-ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~  238 (299)
T KOG3081|consen  163 MQQ---I-DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDA  238 (299)
T ss_pred             HHc---c-chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccC
Confidence            987   2 2344555555554    45668999999999993  568899999999999999999999999999999999


Q ss_pred             CCCchHHHHHHHHHhcCChHHH-HHHHHHh
Q 040576          552 RDPGPYVLLSNIYASEGKWDEV-ENLRRIM  580 (641)
Q Consensus       552 ~~~~~~~~l~~~~~~~g~~~~A-~~~~~~m  580 (641)
                      ++|.++..++.+-...|+-.++ .+.+.+.
T Consensus       239 ~dpetL~Nliv~a~~~Gkd~~~~~r~l~QL  268 (299)
T KOG3081|consen  239 KDPETLANLIVLALHLGKDAEVTERNLSQL  268 (299)
T ss_pred             CCHHHHHHHHHHHHHhCCChHHHHHHHHHH
Confidence            9999999998887778876554 4456666

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.39  E-value=9.6e-05  Score=80.12  Aligned_cols=147  Identities=11%  Similarity=0.078  Sum_probs=78.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 040576          388 LSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTH  464 (641)
Q Consensus       388 ~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~  464 (641)
                      .+..+..+|-+.|+.++|..+|+++.+   .|+.+.|.+.-.|... +.++|.+++.+....               +..
T Consensus       118 Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~---------------~i~  181 (906)
T PRK14720        118 ALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR---------------FIK  181 (906)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH---------------HHh
Confidence            444555555555666666665555553   3444555555555555 555555555554432               333


Q ss_pred             hccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 040576          465 AGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVA  543 (641)
Q Consensus       465 ~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  543 (641)
                      .+++..+.++|.++..   ..|+ ...+..+.+.....            .....-..++..+...|...++++++..++
T Consensus       182 ~kq~~~~~e~W~k~~~---~~~~d~d~f~~i~~ki~~~------------~~~~~~~~~~~~l~~~y~~~~~~~~~i~iL  246 (906)
T PRK14720        182 KKQYVGIEEIWSKLVH---YNSDDFDFFLRIERKVLGH------------REFTRLVGLLEDLYEPYKALEDWDEVIYIL  246 (906)
T ss_pred             hhcchHHHHHHHHHHh---cCcccchHHHHHHHHHHhh------------hccchhHHHHHHHHHHHhhhhhhhHHHHHH
Confidence            3455555555555554   1222 22222222111111            111122334445556677777777777778


Q ss_pred             HHHHhcCCCCCchHHHHHHHHH
Q 040576          544 QHLMELEPRDPGPYVLLSNIYA  565 (641)
Q Consensus       544 ~~~~~~~p~~~~~~~~l~~~~~  565 (641)
                      +.+++.+|.|..+..-++..|.
T Consensus       247 K~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        247 KKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHhcCCcchhhHHHHHHHHH
Confidence            8777777777777777777665

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.36  E-value=0.00034  Score=63.16  Aligned_cols=246  Identities=12%  Similarity=0.065  Sum_probs=159.7

Q ss_pred             cCChHHHHHHHHhc-CC-CCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHH-HHHHH
Q 040576          298 IGNVTSARNCFDRM-CM-RNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDI-GQWIH  374 (641)
Q Consensus       298 ~~~~~~A~~~~~~~-~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~-a~~~~  374 (641)
                      .|.+..++..-... .. .++..-.-+-++|...|.+...+.-.   .. |-.|....+..+.......++.+. ..++.
T Consensus        21 ~Gnyq~~ine~~~~~~~~~~~e~d~y~~raylAlg~~~~~~~eI---~~-~~~~~lqAvr~~a~~~~~e~~~~~~~~~l~   96 (299)
T KOG3081|consen   21 LGNYQQCINEAEKFSSSKTDVELDVYMYRAYLALGQYQIVISEI---KE-GKATPLQAVRLLAEYLELESNKKSILASLY   96 (299)
T ss_pred             hhHHHHHHHHHHhhccccchhHHHHHHHHHHHHccccccccccc---cc-ccCChHHHHHHHHHHhhCcchhHHHHHHHH
Confidence            34455444443333 22 23333444567777777765543322   22 223444444444444444454433 33455


Q ss_pred             HHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHH
Q 040576          375 SYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDAT  454 (641)
Q Consensus       375 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~  454 (641)
                      +.+.......+......-...|+..|++++|++......  +..+.-.=+..+.+..+.+-|.+.+++|.+-  . +..|
T Consensus        97 E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~--~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i--d-ed~t  171 (299)
T KOG3081|consen   97 ELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE--NLEAAALNVQILLKMHRFDLAEKELKKMQQI--D-EDAT  171 (299)
T ss_pred             HHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc--c-hHHH
Confidence            556555555554445555667889999999999998833  3333333455667788899999999999873  2 6677


Q ss_pred             HHHHHHHHHh----hccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHH
Q 040576          455 FICVLSACTH----AGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL--PMEAGPALWGALLS  528 (641)
Q Consensus       455 ~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~  528 (641)
                      .+.|..++.+    .+.+..|.-+|+++..  ...|+..+.+....++...|++++|..++++.  ....++.+...++-
T Consensus       172 LtQLA~awv~la~ggek~qdAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv  249 (299)
T KOG3081|consen  172 LTQLAQAWVKLATGGEKIQDAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIV  249 (299)
T ss_pred             HHHHHHHHHHHhccchhhhhHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHH
Confidence            8777777654    4578899999999976  47788889999999999999999999999987  33455666666666


Q ss_pred             HHHhcCC-HHHHHHHHHHHHhcCCCCC
Q 040576          529 ACSTHSN-SELGKIVAQHLMELEPRDP  554 (641)
Q Consensus       529 ~~~~~g~-~~~a~~~~~~~~~~~p~~~  554 (641)
                      .-...|. .+.-.+.+.++....|.++
T Consensus       250 ~a~~~Gkd~~~~~r~l~QLk~~~p~h~  276 (299)
T KOG3081|consen  250 LALHLGKDAEVTERNLSQLKLSHPEHP  276 (299)
T ss_pred             HHHHhCCChHHHHHHHHHHHhcCCcch
Confidence            5555554 4555667777777777765

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.33  E-value=0.00011  Score=65.70  Aligned_cols=179  Identities=9%  Similarity=0.119  Sum_probs=131.4

Q ss_pred             hcCCHHHHHHHHhhcCC--------CCh-hHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHH-HHHHHhhcc
Q 040576          398 KCGVMDLARNVFDNMTE--------KNV-VSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICV-LSACTHAGM  467 (641)
Q Consensus       398 ~~g~~~~A~~~~~~~~~--------~~~-~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~l-l~~~~~~g~  467 (641)
                      ...+.++..+++.++..        ++. ..|..++-+....|+.+.|...++++.++-  |...-...+ ..-+...|.
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~  101 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGN  101 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhc
Confidence            45678888888887763        222 234555556677888999999999988763  443322222 223445789


Q ss_pred             HHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 040576          468 VLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL--PMEAGPALWGALLSACSTHSNSELGKIVAQH  545 (641)
Q Consensus       468 ~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  545 (641)
                      +++|+++++.+..  .-+.|..++-.-+-..-..|+.-+|++-+.+.  .+..|...|.-+...|...|++++|.-++++
T Consensus       102 ~~~A~e~y~~lL~--ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE  179 (289)
T KOG3060|consen  102 YKEAIEYYESLLE--DDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEE  179 (289)
T ss_pred             hhhHHHHHHHHhc--cCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHH
Confidence            9999999999987  22445666666666677778877888776665  3457888999999999999999999999999


Q ss_pred             HHhcCCCCCchHHHHHHHHHhcC---ChHHHHHHHHHh
Q 040576          546 LMELEPRDPGPYVLLSNIYASEG---KWDEVENLRRIM  580 (641)
Q Consensus       546 ~~~~~p~~~~~~~~l~~~~~~~g---~~~~A~~~~~~m  580 (641)
                      ++=..|-++..+..+++++.-.|   +++-|.+++.+.
T Consensus       180 ~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~a  217 (289)
T KOG3060|consen  180 LLLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERA  217 (289)
T ss_pred             HHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            99999999989999999877655   556677888877

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.31  E-value=0.0079  Score=63.70  Aligned_cols=67  Identities=13%  Similarity=0.181  Sum_probs=52.1

Q ss_pred             HHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCccc
Q 040576          522 LWGALLSACSTHSN---SELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKA  588 (641)
Q Consensus       522 ~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~  588 (641)
                      +.+.|+..|.+.++   +-+|+.+++......|.|..+-..++.+|.-.|-+..|.++++.+--++|+.+
T Consensus       438 av~~Lid~~rktnd~~~l~eaI~LLE~glt~s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~D  507 (932)
T KOG2053|consen  438 AVNHLIDLWRKTNDLTDLFEAITLLENGLTKSPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTD  507 (932)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcCCccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhc
Confidence            34566677777766   45677777888888888888888888999989999999999998877776653

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.31  E-value=9.5e-06  Score=80.82  Aligned_cols=110  Identities=10%  Similarity=0.058  Sum_probs=91.6

Q ss_pred             HHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHH
Q 040576          495 VDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDE  572 (641)
Q Consensus       495 i~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  572 (641)
                      ...+...|++++|++.|+++ ...| +...|..+..+|...|++++|+..++++++++|+++..|..++.+|...|++++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~e   88 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQT   88 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHHH
Confidence            45566788888888888876 3334 455777788888999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhh
Q 040576          573 VENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMC  630 (641)
Q Consensus       573 A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~  630 (641)
                      |+..+++.                        .+++|++..  +...++.+...+.+.
T Consensus        89 A~~~~~~a------------------------l~l~P~~~~--~~~~l~~~~~kl~~~  120 (356)
T PLN03088         89 AKAALEKG------------------------ASLAPGDSR--FTKLIKECDEKIAEE  120 (356)
T ss_pred             HHHHHHHH------------------------HHhCCCCHH--HHHHHHHHHHHHHhh
Confidence            99999988                        778889888  888888888877553

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.30  E-value=0.00015  Score=71.16  Aligned_cols=142  Identities=13%  Similarity=0.129  Sum_probs=111.3

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHH-HHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHH
Q 040576          420 WNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATF-ICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDL  497 (641)
Q Consensus       420 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~-~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~  497 (641)
                      +.-....+...|++++|+..++.+...  .|+...| ......+.+.++.++|.+.++++..   ..|+ ....-.+..+
T Consensus       309 ~YG~A~~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~---l~P~~~~l~~~~a~a  383 (484)
T COG4783         309 QYGRALQTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALA---LDPNSPLLQLNLAQA  383 (484)
T ss_pred             HHHHHHHHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCCccHHHHHHHHH
Confidence            333344455678999999999998876  5555544 4456678899999999999999987   5666 5556678899


Q ss_pred             HhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHH
Q 040576          498 LGRAGLMRDSEELVSKL--PMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVEN  575 (641)
Q Consensus       498 ~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  575 (641)
                      |.+.|++.+|+.+++..  ..+.++..|..|..+|...|+..++...                 .+..|.-.|+|++|+.
T Consensus       384 ll~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A-----------------~AE~~~~~G~~~~A~~  446 (484)
T COG4783         384 LLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLA-----------------RAEGYALAGRLEQAII  446 (484)
T ss_pred             HHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHH-----------------HHHHHHhCCCHHHHHH
Confidence            99999999999999886  3445677899999999999988766544                 5677888999999999


Q ss_pred             HHHHhhhC
Q 040576          576 LRRIMKEK  583 (641)
Q Consensus       576 ~~~~m~~~  583 (641)
                      .+....++
T Consensus       447 ~l~~A~~~  454 (484)
T COG4783         447 FLMRASQQ  454 (484)
T ss_pred             HHHHHHHh
Confidence            99888655

>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=98.24  E-value=2.7e-05  Score=77.20  Aligned_cols=121  Identities=12%  Similarity=0.075  Sum_probs=96.5

Q ss_pred             HHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc
Q 040576          456 ICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTH  533 (641)
Q Consensus       456 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~  533 (641)
                      ..|+..+...++++.|.++|+++.+   ..|+  ....++..+...++-.+|++++++. ...| +...+......|...
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~---~~pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRE---RDPE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHh---cCCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhc
Confidence            4456666677888888888888877   2354  3445777777788888888888776 2233 455566666668899


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          534 SNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       534 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      ++++.|..+.+++.++.|++..+|..|+.+|.+.|++++|+-.+..+.
T Consensus       248 ~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  248 KKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            999999999999999999999999999999999999999999998875

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.23  E-value=9.3e-05  Score=66.12  Aligned_cols=196  Identities=13%  Similarity=0.119  Sum_probs=145.1

Q ss_pred             HccCCHHHHHHHHHHHHH---cC-CCCchh-HHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHH---HHHHHHcCCh
Q 040576          362 ANMGVIDIGQWIHSYIQK---CR-IKPDVL-LSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSM---IMGYGMHGQG  433 (641)
Q Consensus       362 ~~~g~~~~a~~~~~~~~~---~~-~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l---i~~~~~~~~~  433 (641)
                      ....+.++..+++..+..   .| ..++.. +|..++-+...+|+.+.|...++++...-+.++...   ..-+-..|++
T Consensus        23 ~~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   23 ETVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             ccccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhch
Confidence            345678888888888764   34 555554 455667777889999999999998875322222221   2234567999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHh
Q 040576          434 EKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSK  513 (641)
Q Consensus       434 ~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  513 (641)
                      ++|+++|+...+.+ +-|..++..=+...-..|+--+|++-+....+  .+.-|.+.|..+.+.|...|++++|.-.+++
T Consensus       103 ~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE  179 (289)
T KOG3060|consen  103 KEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAFCLEE  179 (289)
T ss_pred             hhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHH
Confidence            99999999999876 33566777777777777888899888888877  4778899999999999999999999999999


Q ss_pred             C-CCCCC-HHHHHHHHHHHH---hcCCHHHHHHHHHHHHhcCCCCCchHHHH
Q 040576          514 L-PMEAG-PALWGALLSACS---THSNSELGKIVAQHLMELEPRDPGPYVLL  560 (641)
Q Consensus       514 ~-~~~~~-~~~~~~l~~~~~---~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  560 (641)
                      + -.+|- +..+..+...+.   ...+.+.|...|.+++++.|.+...+.-+
T Consensus       180 ~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~~ral~GI  231 (289)
T KOG3060|consen  180 LLLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKNLRALFGI  231 (289)
T ss_pred             HHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHhHHHHHHH
Confidence            8 34454 445566666533   34478889999999999999665444333

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.23  E-value=1.7e-05  Score=65.60  Aligned_cols=91  Identities=13%  Similarity=0.052  Sum_probs=60.5

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC---CchHHHHH
Q 040576          490 HYGCMVDLLGRAGLMRDSEELVSKL-PMEAG----PALWGALLSACSTHSNSELGKIVAQHLMELEPRD---PGPYVLLS  561 (641)
Q Consensus       490 ~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~  561 (641)
                      ++..++..+.+.|++++|.+.|+++ ...|+    ...+..+..++...|+++.|...++.+....|++   +..+..++
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            4455566666677777777777665 11222    2345556666777777777777777777776664   34567777


Q ss_pred             HHHHhcCChHHHHHHHHHh
Q 040576          562 NIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       562 ~~~~~~g~~~~A~~~~~~m  580 (641)
                      .++.+.|++++|.+.++++
T Consensus        84 ~~~~~~~~~~~A~~~~~~~  102 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQV  102 (119)
T ss_pred             HHHHHhCChHHHHHHHHHH
Confidence            7777777777777777777

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.

>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=98.20  E-value=6.7e-05  Score=74.43  Aligned_cols=128  Identities=12%  Similarity=0.062  Sum_probs=107.2

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhh
Q 040576          386 VLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHA  465 (641)
Q Consensus       386 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  465 (641)
                      ......|+..+...++++.|..+|+++.+.++.....++..+...++-.+|++++++..+.. +-+...+..-...|.+.
T Consensus       169 NyLv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  169 NYLVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSK  247 (395)
T ss_pred             hHHHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence            34455667777788999999999999998887788889999999999999999999998763 22555666666778899


Q ss_pred             ccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhCCCC
Q 040576          466 GMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKLPME  517 (641)
Q Consensus       466 g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  517 (641)
                      ++++.|.++.+++..   ..|+ ..+|..|+.+|...|++++|+..++.+|.-
T Consensus       248 ~~~~lAL~iAk~av~---lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~  297 (395)
T PF09295_consen  248 KKYELALEIAKKAVE---LSPSEFETWYQLAECYIQLGDFENALLALNSCPML  297 (395)
T ss_pred             CCHHHHHHHHHHHHH---hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcCC
Confidence            999999999999988   5666 679999999999999999999999998733

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>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=98.19  E-value=3.1e-06  Score=61.77  Aligned_cols=67  Identities=19%  Similarity=0.405  Sum_probs=57.9

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCC
Q 040576          531 STHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPP  610 (641)
Q Consensus       531 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~  610 (641)
                      ...|++++|+..++++++.+|+++..+..++.+|.+.|++++|.++++++                        ...+|+
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~------------------------~~~~~~   57 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERL------------------------LKQDPD   57 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCC------------------------HGGGTT
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH------------------------HHHCcC
Confidence            46799999999999999999999999999999999999999999999998                        566777


Q ss_pred             CchhhHHHHHHHH
Q 040576          611 HRKCIVYSMLGEI  623 (641)
Q Consensus       611 ~~~~~~~~~l~~l  623 (641)
                      +..  .+.++..|
T Consensus        58 ~~~--~~~l~a~i   68 (68)
T PF14559_consen   58 NPE--YQQLLAQI   68 (68)
T ss_dssp             HHH--HHHHHHHH
T ss_pred             HHH--HHHHHhcC
Confidence            766  66666543

...

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.16  E-value=0.00067  Score=73.81  Aligned_cols=219  Identities=12%  Similarity=0.108  Sum_probs=117.2

Q ss_pred             CCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHH
Q 040576          314 RNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLM-SVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSL  392 (641)
Q Consensus       314 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~-~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  392 (641)
                      .+...|..|+..|...+++++|.++.+...+  ..|+...+. .+...+.+.++.+.+..+                 .+
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~--~~P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------~~   89 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLK--EHKKSISALYISGILSLSRRPLNDSNLL-----------------NL   89 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHH--hCCcceehHHHHHHHHHhhcchhhhhhh-----------------hh
Confidence            3445677777777777888888877776555  345443322 222234444443333222                 22


Q ss_pred             HHHHHhcCCHHHHHHHHhhcCC--CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHH
Q 040576          393 LTMYAKCGVMDLARNVFDNMTE--KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLE  470 (641)
Q Consensus       393 i~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~  470 (641)
                      ++......++.-+..+...|.+  .+..++..+..+|-+.|+.++|..+|+++.+..+ -|....+.+...|+.. +.++
T Consensus        90 l~~~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~-~n~~aLNn~AY~~ae~-dL~K  167 (906)
T PRK14720         90 IDSFSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKADR-DNPEIVKKLATSYEEE-DKEK  167 (906)
T ss_pred             hhhcccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHh-hHHH
Confidence            2222233333222222223322  2233555666677777777777777777776542 2455666666666666 6777


Q ss_pred             HHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040576          471 GWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPA-LWGALLSACSTHSNSELGKIVAQHLME  548 (641)
Q Consensus       471 a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~  548 (641)
                      |.+++.++..                .|...+++.++.+++.++ ...|+.. .+..+......+-..            
T Consensus       168 A~~m~~KAV~----------------~~i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~------------  219 (906)
T PRK14720        168 AITYLKKAIY----------------RFIKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREF------------  219 (906)
T ss_pred             HHHHHHHHHH----------------HHHhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhcc------------
Confidence            7666666655                144455666666666665 2222221 112122111111001            


Q ss_pred             cCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 040576          549 LEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       549 ~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  583 (641)
                        ..-...+.-+-..|-..++|+++.++++.+.+.
T Consensus       220 --~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~  252 (906)
T PRK14720        220 --TRLVGLLEDLYEPYKALEDWDEVIYILKKILEH  252 (906)
T ss_pred             --chhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhc
Confidence              112234555667788889999999999999543

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.13  E-value=9.7e-05  Score=62.62  Aligned_cols=113  Identities=8%  Similarity=0.023  Sum_probs=82.7

Q ss_pred             HHHHHHHCCCCCC-HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CC
Q 040576          439 MFMEMEKRGPTPN-DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PM  516 (641)
Q Consensus       439 ~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~  516 (641)
                      .+++....  .|+ ......+...+...|++++|.+.|+.+.. . .+.+...+..+...+.+.|++++|...+++. ..
T Consensus         5 ~~~~~l~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~-~-~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLGL--DSEQLEQIYALAYNLYQQGRYDEALKLFQLLAA-Y-DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHcC--ChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHH-h-CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            44555553  343 33455666677788888888888888876 2 2335677778888888888888888888876 23


Q ss_pred             CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 040576          517 EA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPG  555 (641)
Q Consensus       517 ~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  555 (641)
                      .| +...+..+...+...|+.++|...++++++++|++..
T Consensus        81 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  120 (135)
T TIGR02552        81 DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPE  120 (135)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccch
Confidence            33 4567777788888899999999999999999888765

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.08  E-value=0.00014  Score=62.40  Aligned_cols=115  Identities=15%  Similarity=0.083  Sum_probs=59.2

Q ss_pred             hccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCHH----HHHHHHHHHHhcCCHHH
Q 040576          465 AGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKLP-MEAGPA----LWGALLSACSTHSNSEL  538 (641)
Q Consensus       465 ~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~~~~~----~~~~l~~~~~~~g~~~~  538 (641)
                      .++...+...++.+.+.++-.+ .....-.+...+...|++++|.+.|+... ..|++.    ....|...+...|++++
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            4555555555555555222111 12223334455556666666666666552 112321    23334455566666666


Q ss_pred             HHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          539 GKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       539 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      |+..++.. .-.+-.+..+..++++|.+.|++++|...|++.
T Consensus       104 Al~~L~~~-~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  104 ALATLQQI-PDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHhc-cCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            66666442 222233445666677777777777777766653

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.05  E-value=8.7e-06  Score=58.74  Aligned_cols=58  Identities=19%  Similarity=0.296  Sum_probs=50.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 040576          526 LLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       526 l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  583 (641)
                      +...+...|++++|+..|+.+++..|+++..+..++.++...|++++|..+++++.+.
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            4566888999999999999999999999999999999999999999999999998543

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.05  E-value=9.2e-06  Score=50.04  Aligned_cols=34  Identities=26%  Similarity=0.483  Sum_probs=30.9

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC
Q 040576          317 VSWNILLALYVRCKDYCECLRLFDRMIRGDAKPN  350 (641)
Q Consensus       317 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  350 (641)
                      .+||.+|.+|++.|++++|.++|++|.+.|+.||
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            3789999999999999999999999999999887

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.

>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=98.02  E-value=1.3e-05  Score=58.70  Aligned_cols=64  Identities=17%  Similarity=0.199  Sum_probs=59.3

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC-ChHHHHHHHHHhhh
Q 040576          519 GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEG-KWDEVENLRRIMKE  582 (641)
Q Consensus       519 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~A~~~~~~m~~  582 (641)
                      ++..|..+...+...|++++|+..|+++++++|+++..|..++.+|...| ++++|++.+++..+
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            46678889999999999999999999999999999999999999999999 79999999999854

...

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.02  E-value=0.00049  Score=65.98  Aligned_cols=159  Identities=9%  Similarity=0.011  Sum_probs=115.0

Q ss_pred             hHHHHH-HHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH--HHHhhccHHHHHHHHHHhHHhhCCCCchHH----
Q 040576          418 VSWNSM-IMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLS--ACTHAGMVLEGWWYFDLMQRIYKIEPKVEH----  490 (641)
Q Consensus       418 ~~~~~l-i~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~--~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~----  490 (641)
                      ..|..+ ..++...|++++|...--...+..  ++ ..+...++  ++.-.++.+.|...|++...   +.|+-..    
T Consensus       169 ~~a~~lka~cl~~~~~~~~a~~ea~~ilkld--~~-n~~al~vrg~~~yy~~~~~ka~~hf~qal~---ldpdh~~sk~~  242 (486)
T KOG0550|consen  169 FKAKLLKAECLAFLGDYDEAQSEAIDILKLD--AT-NAEALYVRGLCLYYNDNADKAINHFQQALR---LDPDHQKSKSA  242 (486)
T ss_pred             hHHHHhhhhhhhhcccchhHHHHHHHHHhcc--cc-hhHHHHhcccccccccchHHHHHHHhhhhc---cChhhhhHHhH
Confidence            344444 345677889998888777666542  11 12223333  34456888888888888766   4454221    


Q ss_pred             ---------HHHHHHHHhhcCCHHHHHHHHHhC-C-----CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 040576          491 ---------YGCMVDLLGRAGLMRDSEELVSKL-P-----MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPG  555 (641)
Q Consensus       491 ---------~~~li~~~~~~g~~~~A~~~~~~~-~-----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  555 (641)
                               +..=.+-..+.|++.+|.+.|.+. .     .+|+...|........+.|+.++|+...+++.+++|.-..
T Consensus       243 ~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syik  322 (486)
T KOG0550|consen  243 SMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIK  322 (486)
T ss_pred             hhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHH
Confidence                     111123456889999999999987 3     3344556666666788999999999999999999999999


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          556 PYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       556 ~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      .|..-++++...++|++|.+-+++..+
T Consensus       323 all~ra~c~l~le~~e~AV~d~~~a~q  349 (486)
T KOG0550|consen  323 ALLRRANCHLALEKWEEAVEDYEKAMQ  349 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999854

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.02  E-value=1.1e-05  Score=49.73  Aligned_cols=34  Identities=44%  Similarity=0.718  Sum_probs=30.4

Q ss_pred             hHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC
Q 040576          418 VSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPN  451 (641)
Q Consensus       418 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~  451 (641)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            3689999999999999999999999999998887

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.

>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=98.01  E-value=6.5e-05  Score=58.81  Aligned_cols=93  Identities=18%  Similarity=0.161  Sum_probs=74.1

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC
Q 040576          491 YGCMVDLLGRAGLMRDSEELVSKL-PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEG  568 (641)
Q Consensus       491 ~~~li~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  568 (641)
                      +..++..+...|++++|+..+++. ...|+ ...+..+...+...|++++|...++.+....|.+...+..++.++...|
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            455667777888888888888876 22333 3566777777888899999999999999988888888889999999999


Q ss_pred             ChHHHHHHHHHhhhC
Q 040576          569 KWDEVENLRRIMKEK  583 (641)
Q Consensus       569 ~~~~A~~~~~~m~~~  583 (641)
                      ++++|...+++..+.
T Consensus        83 ~~~~a~~~~~~~~~~   97 (100)
T cd00189          83 KYEEALEAYEKALEL   97 (100)
T ss_pred             hHHHHHHHHHHHHcc
Confidence            999999988887543

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.99  E-value=0.01  Score=57.70  Aligned_cols=106  Identities=11%  Similarity=0.084  Sum_probs=70.7

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHH
Q 040576          392 LLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEG  471 (641)
Q Consensus       392 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a  471 (641)
                      .+.-+...|+...|.++-.+..-|+-.-|...+.+|+..++|++-..+...      +-++..|..++.+|.+.|...+|
T Consensus       183 Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~eA  256 (319)
T PF04840_consen  183 TIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKKEA  256 (319)
T ss_pred             HHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHHHH
Confidence            344555667777777777777777777788888888888887766654321      11346677777777777777777


Q ss_pred             HHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC
Q 040576          472 WWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL  514 (641)
Q Consensus       472 ~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  514 (641)
                      ..+..++.           +..-+..|.++|++.+|.+.--+.
T Consensus       257 ~~yI~k~~-----------~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  257 SKYIPKIP-----------DEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HHHHHhCC-----------hHHHHHHHHHCCCHHHHHHHHHHc
Confidence            77765521           133466777777777776664443

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

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.98  E-value=1.4e-05  Score=48.87  Aligned_cols=33  Identities=33%  Similarity=0.482  Sum_probs=28.6

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC
Q 040576          317 VSWNILLALYVRCKDYCECLRLFDRMIRGDAKP  349 (641)
Q Consensus       317 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  349 (641)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            578888888888888888888888888888877

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.95  E-value=1e-05  Score=61.94  Aligned_cols=78  Identities=19%  Similarity=0.241  Sum_probs=44.3

Q ss_pred             cCCHHHHHHHHHhC-CCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHH
Q 040576          501 AGLMRDSEELVSKL-PMEA---GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENL  576 (641)
Q Consensus       501 ~g~~~~A~~~~~~~-~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  576 (641)
                      .|++++|+.+++++ ...|   +...|..+..++.+.|++++|..++++ .+.+|.++.....++.+|.+.|++++|++.
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            35555555555555 1112   333444456666666666666666666 555555555566667777777777777776


Q ss_pred             HHH
Q 040576          577 RRI  579 (641)
Q Consensus       577 ~~~  579 (641)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            654

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.95  E-value=3.8e-05  Score=56.92  Aligned_cols=55  Identities=16%  Similarity=0.185  Sum_probs=51.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          527 LSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       527 ~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      ...|...+++++|..+++++++++|+++..+...+.+|.+.|++++|.+.+++..
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l   56 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERAL   56 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHH
Confidence            3567889999999999999999999999999999999999999999999999993

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.94  E-value=0.00067  Score=58.15  Aligned_cols=126  Identities=12%  Similarity=0.054  Sum_probs=80.8

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc--hHHHHHH
Q 040576          419 SWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPN--DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK--VEHYGCM  494 (641)
Q Consensus       419 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~l  494 (641)
                      .|..++..+ ..++...+...++.+......-.  ......+...+...|++++|...|+.+.. ....|+  ......|
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~-~~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALA-NAPDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh-hCCCHHHHHHHHHHH
Confidence            344445554 36777878777888777532211  12333345667778888888888888877 332222  2234456


Q ss_pred             HHHHhhcCCHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 040576          495 VDLLGRAGLMRDSEELVSKLPME-AGPALWGALLSACSTHSNSELGKIVAQHL  546 (641)
Q Consensus       495 i~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  546 (641)
                      ...+...|++++|+..++..+.. ..+..+......+...|+.++|...|+++
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            77788888888888888776422 23345556666788888888888888765

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.92  E-value=0.00011  Score=67.63  Aligned_cols=94  Identities=15%  Similarity=0.146  Sum_probs=49.3

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHH
Q 040576          427 YGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMR  505 (641)
Q Consensus       427 ~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~  505 (641)
                      +.+.++|.+|+..|.+.++.... |.+-|..-..+|.+.|.++.|++-.+..+.   +.|. ...|..|..+|...|+++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~P~-nAVyycNRAAAy~~Lg~~~~AVkDce~Al~---iDp~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELDPT-NAVYYCNRAAAYSKLGEYEDAVKDCESALS---IDPHYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcCCC-cchHHHHHHHHHHHhcchHHHHHHHHHHHh---cChHHHHHHHHHHHHHHccCcHH
Confidence            44555566666666655553211 344444555555555655555555555544   3343 445555555555555555


Q ss_pred             HHHHHHHhC-CCCCCHHHHH
Q 040576          506 DSEELVSKL-PMEAGPALWG  524 (641)
Q Consensus       506 ~A~~~~~~~-~~~~~~~~~~  524 (641)
                      +|++.|++. .+.|+..+|.
T Consensus       167 ~A~~aykKaLeldP~Ne~~K  186 (304)
T KOG0553|consen  167 EAIEAYKKALELDPDNESYK  186 (304)
T ss_pred             HHHHHHHhhhccCCCcHHHH
Confidence            555555554 3445544443

>PRK15331 chaperone protein SicA; Provisional

Probab=97.92  E-value=0.00036  Score=58.90  Aligned_cols=89  Identities=11%  Similarity=0.022  Sum_probs=77.5

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCh
Q 040576          493 CMVDLLGRAGLMRDSEELVSKL--PMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKW  570 (641)
Q Consensus       493 ~li~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  570 (641)
                      ...--+-..|++++|..+|+-+  -..-+..-|..|..+|...+++++|...|..+..++++||..+...+.+|...|+.
T Consensus        42 ~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~  121 (165)
T PRK15331         42 AHAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCH
Confidence            3444556899999999999876  22345667888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhh
Q 040576          571 DEVENLRRIMK  581 (641)
Q Consensus       571 ~~A~~~~~~m~  581 (641)
                      ++|+..|+...
T Consensus       122 ~~A~~~f~~a~  132 (165)
T PRK15331        122 AKARQCFELVN  132 (165)
T ss_pred             HHHHHHHHHHH
Confidence            99999999874

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.91  E-value=2.2e-05  Score=47.94  Aligned_cols=33  Identities=27%  Similarity=0.587  Sum_probs=27.2

Q ss_pred             hHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC
Q 040576          418 VSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTP  450 (641)
Q Consensus       418 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p  450 (641)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            578888888888888888888888888888776

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.85  E-value=0.00037  Score=57.39  Aligned_cols=105  Identities=11%  Similarity=0.050  Sum_probs=67.3

Q ss_pred             HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HHHHHHHH
Q 040576          454 TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG----PALWGALL  527 (641)
Q Consensus       454 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~----~~~~~~l~  527 (641)
                      ++..+...+...|++++|.+.|..+.....-.+ ....+..+..++.+.|++++|...++++ ...|+    ...+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            444555666667777777777777765221111 1334555677777777777777777765 22222    34566677


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCchHH
Q 040576          528 SACSTHSNSELGKIVAQHLMELEPRDPGPYV  558 (641)
Q Consensus       528 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  558 (641)
                      .++...|+.++|...++.+++..|+++....
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~  114 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPGSSAAKL  114 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcCChhHHH
Confidence            7777888888888888888888887765443

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.

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.83  E-value=0.00027  Score=62.65  Aligned_cols=92  Identities=13%  Similarity=0.135  Sum_probs=65.6

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHH
Q 040576          489 EHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG----PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNI  563 (641)
Q Consensus       489 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  563 (641)
                      ..+..+...+.+.|++++|...|++. ...|+    ...+..+...+...|++++|...++++++..|+++..+..++.+
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~  115 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVI  115 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            34555666666777777777777665 11121    34677777788888888888888888888888888888888888


Q ss_pred             HHhcCC--------------hHHHHHHHHHh
Q 040576          564 YASEGK--------------WDEVENLRRIM  580 (641)
Q Consensus       564 ~~~~g~--------------~~~A~~~~~~m  580 (641)
                      |...|+              +++|.+.+++.
T Consensus       116 ~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a  146 (172)
T PRK02603        116 YHKRGEKAEEAGDQDEAEALFDKAAEYWKQA  146 (172)
T ss_pred             HHHcCChHhHhhCHHHHHHHHHHHHHHHHHH
Confidence            887776              45566666655

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.83  E-value=0.0002  Score=68.42  Aligned_cols=129  Identities=9%  Similarity=-0.046  Sum_probs=94.8

Q ss_pred             HHHHHHHHHHhhccHHHHHHHHHHhH---HhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-------C-CCCCHH
Q 040576          454 TFICVLSACTHAGMVLEGWWYFDLMQ---RIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-------P-MEAGPA  521 (641)
Q Consensus       454 ~~~~ll~~~~~~g~~~~a~~~~~~~~---~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-------~-~~~~~~  521 (641)
                      .|..|.+.|.-.|+++.|+...+.-.   +.+|-... ...+..+.+++.-.|+++.|.+.|+..       . ......
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            56677777777899999987765422   22443332 466788899999999999999998864       1 112344


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh----cC--CCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          522 LWGALLSACSTHSNSELGKIVAQHLME----LE--PRDPGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       522 ~~~~l~~~~~~~g~~~~a~~~~~~~~~----~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      ...+|.++|.-..+++.|+.++.+=+.    ++  ......+..|+++|...|..+.|+.+.+.-.+
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            566788888888899999988876443    33  23456899999999999999999998887654

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.82  E-value=0.01  Score=57.28  Aligned_cols=142  Identities=13%  Similarity=0.126  Sum_probs=73.3

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhh-ccHHHHHHHHHHhHHhhCCCCc----hHHHHHHHHHH
Q 040576          424 IMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHA-GMVLEGWWYFDLMQRIYKIEPK----VEHYGCMVDLL  498 (641)
Q Consensus       424 i~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~-g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~  498 (641)
                      +..|...|++..|-..+.++               ...|... |++++|++.|+++...+.....    ...+..++..+
T Consensus       101 ~~~y~~~G~~~~aA~~~~~l---------------A~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~  165 (282)
T PF14938_consen  101 IEIYREAGRFSQAAKCLKEL---------------AEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLY  165 (282)
T ss_dssp             HHHHHHCT-HHHHHHHHHHH---------------HHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCcHHHHHHHHHHH---------------HHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHH
Confidence            44555555555554444433               3344444 6667777766666553211111    33455666777


Q ss_pred             hhcCCHHHHHHHHHhCC---C-----CCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc-----hHHHHHHHH
Q 040576          499 GRAGLMRDSEELVSKLP---M-----EAGPA-LWGALLSACSTHSNSELGKIVAQHLMELEPRDPG-----PYVLLSNIY  564 (641)
Q Consensus       499 ~~~g~~~~A~~~~~~~~---~-----~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~-----~~~~l~~~~  564 (641)
                      .+.|++++|+++|++..   .     +.+.. .+...+-++...||...|...+++....+|.-..     ....|+.++
T Consensus       166 ~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~  245 (282)
T PF14938_consen  166 ARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAY  245 (282)
T ss_dssp             HHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHH
Confidence            78888888888877651   1     11111 2223333566678888888888888888775432     333444444


Q ss_pred             Hhc--CChHHHHHHHHHh
Q 040576          565 ASE--GKWDEVENLRRIM  580 (641)
Q Consensus       565 ~~~--g~~~~A~~~~~~m  580 (641)
                      -..  ..+++|+.-++.+
T Consensus       246 ~~~D~e~f~~av~~~d~~  263 (282)
T PF14938_consen  246 EEGDVEAFTEAVAEYDSI  263 (282)
T ss_dssp             HTT-CCCHHHHCHHHTTS
T ss_pred             HhCCHHHHHHHHHHHccc
Confidence            322  2444444444444

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.78  E-value=0.0011  Score=68.98  Aligned_cols=63  Identities=16%  Similarity=0.181  Sum_probs=41.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          519 GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       519 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      ++..+..+.......|++++|...++++++++| +...|..++.+|...|+.++|.+.+++...
T Consensus       419 ~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~  481 (517)
T PRK10153        419 LPRIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTAFN  481 (517)
T ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            344555555555556777777777777777776 356677777777777777777777777633

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.76  E-value=0.0014  Score=61.00  Aligned_cols=102  Identities=12%  Similarity=0.108  Sum_probs=85.2

Q ss_pred             CCchHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHhcCCCCCchHHH
Q 040576          485 EPKVEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTH---SNSELGKIVAQHLMELEPRDPGPYVL  559 (641)
Q Consensus       485 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~~p~~~~~~~~  559 (641)
                      +-|...|..|...|.+.|++..|...|.+. . ..+++..+..+..++...   ....++..+++++++++|.|+.....
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            345889999999999999999999999987 2 235566777777764432   35788999999999999999999999


Q ss_pred             HHHHHHhcCChHHHHHHHHHhhhCCCc
Q 040576          560 LSNIYASEGKWDEVENLRRIMKEKELE  586 (641)
Q Consensus       560 l~~~~~~~g~~~~A~~~~~~m~~~~~~  586 (641)
                      |+..+...|++.+|...|+.|.+..+.
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~lp~  259 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLLPA  259 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCCC
Confidence            999999999999999999999654433

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.72  E-value=0.0045  Score=59.81  Aligned_cols=97  Identities=9%  Similarity=0.066  Sum_probs=48.6

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCC-----CCHH-HHHHHHHHHHhhccHHHHHHHHHHhHHh-hCCCCc--hH
Q 040576          419 SWNSMIMGYGMHGQGEKALEMFMEMEKRGPT-----PNDA-TFICVLSACTHAGMVLEGWWYFDLMQRI-YKIEPK--VE  489 (641)
Q Consensus       419 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~-----p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~~~p~--~~  489 (641)
                      .+..++..+.+.|++++|.++|++....-..     .+.. .|...+-++...|+...|.+.++..... .++..+  ..
T Consensus       157 ~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~  236 (282)
T PF14938_consen  157 CLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYK  236 (282)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHH
Confidence            3445556666777777777777766553211     1111 2223333445566777777777666431 122222  33


Q ss_pred             HHHHHHHHHhh--cCCHHHHHHHHHhCC
Q 040576          490 HYGCMVDLLGR--AGLMRDSEELVSKLP  515 (641)
Q Consensus       490 ~~~~li~~~~~--~g~~~~A~~~~~~~~  515 (641)
                      ....|+.++-.  ...+++|+.-|+.+.
T Consensus       237 ~~~~l~~A~~~~D~e~f~~av~~~d~~~  264 (282)
T PF14938_consen  237 FLEDLLEAYEEGDVEAFTEAVAEYDSIS  264 (282)
T ss_dssp             HHHHHHHHHHTT-CCCHHHHCHHHTTSS
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHcccC
Confidence            44455555543  235666666666664

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.70  E-value=0.063  Score=52.76  Aligned_cols=59  Identities=17%  Similarity=0.235  Sum_probs=39.1

Q ss_pred             HHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHH
Q 040576          462 CTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGA  525 (641)
Q Consensus       462 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  525 (641)
                      +...|++.++.-+-.-+.+   +.|++.+|..+.-++....++++|.+++.++|  |+..++++
T Consensus       472 Lysqgey~kc~~ys~WL~~---iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP--~n~~~~ds  530 (549)
T PF07079_consen  472 LYSQGEYHKCYLYSSWLTK---IAPSPQAYRLLGLCLMENKRYQEAWEYLQKLP--PNERMRDS  530 (549)
T ss_pred             HHhcccHHHHHHHHHHHHH---hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCC--CchhhHHH
Confidence            3456777777665555544   66777777777777777777777777777776  55555543

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.69  E-value=0.0028  Score=66.13  Aligned_cols=139  Identities=11%  Similarity=-0.009  Sum_probs=91.7

Q ss_pred             CChhHHHHHHHHHHH--c---CChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhh--------ccHHHHHHHHHHhHH
Q 040576          415 KNVVSWNSMIMGYGM--H---GQGEKALEMFMEMEKRGPTPND-ATFICVLSACTHA--------GMVLEGWWYFDLMQR  480 (641)
Q Consensus       415 ~~~~~~~~li~~~~~--~---~~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~--------g~~~~a~~~~~~~~~  480 (641)
                      .|..+|...+.+...  .   +..+.|..+|++..+.  .|+. ..+..+..++...        +++..+.+...+...
T Consensus       335 ~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~a  412 (517)
T PRK10153        335 HQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVA  412 (517)
T ss_pred             CCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhh
Confidence            344555555554322  2   2256777788887775  4543 3444333332221        223344444444333


Q ss_pred             hhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 040576          481 IYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPG  555 (641)
Q Consensus       481 ~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  555 (641)
                      ......+...|..+.-.+...|++++|...++++ ...|+...|..+...+...|+.++|...+++++.++|.++.
T Consensus       413 l~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt  488 (517)
T PRK10153        413 LPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENT  488 (517)
T ss_pred             cccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCch
Confidence            1123334567777777777789999999999987 56688888999999999999999999999999999999884

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.68  E-value=0.00082  Score=67.09  Aligned_cols=104  Identities=12%  Similarity=0.053  Sum_probs=72.2

Q ss_pred             HHHHhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCH
Q 040576          460 SACTHAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNS  536 (641)
Q Consensus       460 ~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~  536 (641)
                      ..+...|++++|++.|+++.+   ..| +...|..+..+|.+.|++++|+..++++ ...| +...|..+..+|...|++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~---~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAID---LDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCH
Confidence            344566777777777777766   233 3556666777777777777777777766 2334 355677777778888888


Q ss_pred             HHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 040576          537 ELGKIVAQHLMELEPRDPGPYVLLSNIYAS  566 (641)
Q Consensus       537 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  566 (641)
                      ++|+..|+++++++|+++.....+..+..+
T Consensus        87 ~eA~~~~~~al~l~P~~~~~~~~l~~~~~k  116 (356)
T PLN03088         87 QTAKAALEKGASLAPGDSRFTKLIKECDEK  116 (356)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            888888888888888887776666655333

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.67  E-value=6.2e-05  Score=44.70  Aligned_cols=31  Identities=29%  Similarity=0.528  Sum_probs=24.9

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHHCCC
Q 040576          317 VSWNILLALYVRCKDYCECLRLFDRMIRGDA  347 (641)
Q Consensus       317 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  347 (641)
                      ++||.++++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4688888888888888888888888887764

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.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.66  E-value=0.0003  Score=67.74  Aligned_cols=86  Identities=10%  Similarity=0.098  Sum_probs=77.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeee
Q 040576          521 ALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFA  600 (641)
Q Consensus       521 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~  600 (641)
                      .++..+..+|.+.+++..|+....++++++|+|..+++.-+.+|...|+++.|+..|+++                    
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka--------------------  317 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKA--------------------  317 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHH--------------------
Confidence            456678888999999999999999999999999999999999999999999999999999                    


Q ss_pred             cccccccCCCCchhhHHHHHHHHHHHHHhhhc
Q 040576          601 SESIVENCPPHRKCIVYSMLGEIGAQMKMCRR  632 (641)
Q Consensus       601 ~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~  632 (641)
                          ++++|+|-+  +...|..+..+.++...
T Consensus       318 ----~k~~P~Nka--~~~el~~l~~k~~~~~~  343 (397)
T KOG0543|consen  318 ----LKLEPSNKA--ARAELIKLKQKIREYEE  343 (397)
T ss_pred             ----HHhCCCcHH--HHHHHHHHHHHHHHHHH
Confidence                889999999  99999998888766543

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.65  E-value=0.00051  Score=60.68  Aligned_cols=93  Identities=10%  Similarity=-0.050  Sum_probs=72.8

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHH
Q 040576          488 VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG----PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSN  562 (641)
Q Consensus       488 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  562 (641)
                      ...|..++..+...|++++|+..|++. ...|+    ..+|..+...+...|++++|+..+++++++.|.....+..++.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~  114 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHH
Confidence            455666777777788888888888776 22222    3467888888999999999999999999999998888888888


Q ss_pred             HHH-------hcCChHHHHHHHHHh
Q 040576          563 IYA-------SEGKWDEVENLRRIM  580 (641)
Q Consensus       563 ~~~-------~~g~~~~A~~~~~~m  580 (641)
                      +|.       +.|++++|...+++.
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHHH
Confidence            888       888888776666654

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.64  E-value=0.0014  Score=58.07  Aligned_cols=129  Identities=15%  Similarity=0.150  Sum_probs=87.1

Q ss_pred             ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHH
Q 040576          416 NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPN--DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYG  492 (641)
Q Consensus       416 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~  492 (641)
                      ....+..+...+...|++++|...|++....+..+.  ...+..+...+.+.|++++|...++++..   ..|+ ...+.
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            344567777778888888888888888876543332  34677777788888888888888888877   3343 55566


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC
Q 040576          493 CMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEG  568 (641)
Q Consensus       493 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  568 (641)
                      .+..+|...|+...+..-++..                  ...+++|..+++++++.+|++   |..++..+...|
T Consensus       111 ~lg~~~~~~g~~~~a~~~~~~A------------------~~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~  165 (172)
T PRK02603        111 NIAVIYHKRGEKAEEAGDQDEA------------------EALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTG  165 (172)
T ss_pred             HHHHHHHHcCChHhHhhCHHHH------------------HHHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcC
Confidence            6677777777766655433321                  123677888889999888887   444444444444

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.63  E-value=0.14  Score=54.83  Aligned_cols=159  Identities=8%  Similarity=-0.026  Sum_probs=77.5

Q ss_pred             HHHHHHHHHHcCChH---HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHH
Q 040576          420 WNSMIMGYGMHGQGE---KALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVD  496 (641)
Q Consensus       420 ~~~li~~~~~~~~~~---~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  496 (641)
                      -+.|+..+.+.++..   +|+-+++.-.... +-|..+-..+|..|+-.|-+..|.+.|+.+.- ..+..|..-|. +..
T Consensus       439 v~~Lid~~rktnd~~~l~eaI~LLE~glt~s-~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdI-K~IQ~DTlgh~-~~~  515 (932)
T KOG2053|consen  439 VNHLIDLWRKTNDLTDLFEAITLLENGLTKS-PHNFQTKLLLIRIYSYLGAFPDAYELYKTLDI-KNIQTDTLGHL-IFR  515 (932)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHHhhcC-CccHHHHHHHHHHHHHhcCChhHHHHHHhcch-HHhhhccchHH-HHH
Confidence            455666666666644   3333444433332 22344555566677777777777777776644 34444432221 223


Q ss_pred             HHhhcCCHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC----CchHHHHHHHHHhcCCh
Q 040576          497 LLGRAGLMRDSEELVSKLP--MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRD----PGPYVLLSNIYASEGKW  570 (641)
Q Consensus       497 ~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~----~~~~~~l~~~~~~~g~~  570 (641)
                      .+.-.|++..+...++...  ..-+..---.++....+.|.+.+..+...-=.++....    ..+=......+...++.
T Consensus       516 ~~~t~g~~~~~s~~~~~~lkfy~~~~kE~~eyI~~AYr~g~ySkI~em~~fr~rL~~S~q~~a~~VE~~~l~ll~~~~~~  595 (932)
T KOG2053|consen  516 RAETSGRSSFASNTFNEHLKFYDSSLKETPEYIALAYRRGAYSKIPEMLAFRDRLMHSLQKWACRVENLQLSLLCNADRG  595 (932)
T ss_pred             HHHhcccchhHHHHHHHHHHHHhhhhhhhHHHHHHHHHcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcH
Confidence            3444556666655555431  00011111112222234555555544433222222111    11223445567778888


Q ss_pred             HHHHHHHHHhh
Q 040576          571 DEVENLRRIMK  581 (641)
Q Consensus       571 ~~A~~~~~~m~  581 (641)
                      ++-...+..|.
T Consensus       596 ~q~~~~~~~~~  606 (932)
T KOG2053|consen  596 TQLLKLLESMK  606 (932)
T ss_pred             HHHHHHHhccc
Confidence            88888888875

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.60  E-value=0.00027  Score=53.93  Aligned_cols=81  Identities=16%  Similarity=0.185  Sum_probs=41.7

Q ss_pred             cCChHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHH
Q 040576          430 HGQGEKALEMFMEMEKRGPT-PNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSE  508 (641)
Q Consensus       430 ~~~~~~A~~~~~~m~~~g~~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  508 (641)
                      .|+++.|+.+++++.+.... |+...+..+..++.+.|++++|..+++. .+ .+. .+......+..++.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~-~~~-~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LK-LDP-SNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HT-HHH-CHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hC-CCC-CCHHHHHHHHHHHHHhCCHHHHH
Confidence            45666666666666664321 1233344456666666666666666665 22 111 12233334456666666666666


Q ss_pred             HHHHh
Q 040576          509 ELVSK  513 (641)
Q Consensus       509 ~~~~~  513 (641)
                      +++++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            66654

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.59  E-value=0.00086  Score=56.43  Aligned_cols=90  Identities=7%  Similarity=-0.150  Sum_probs=76.1

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEee
Q 040576          518 AGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPG  597 (641)
Q Consensus       518 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~  597 (641)
                      .+....-.+..-+...|++++|+.+|+-+..++|.++..|..|+.++-..|++++|+..+.+.                 
T Consensus        33 ~~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A-----------------   95 (157)
T PRK15363         33 QPLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRA-----------------   95 (157)
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHH-----------------
Confidence            344556667777899999999999999999999999999999999999999999999999999                 


Q ss_pred             eeecccccccCCCCchhhHHHHHHHHHHHHHhhhcc
Q 040576          598 EFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRRD  633 (641)
Q Consensus       598 ~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~~  633 (641)
                             ..++|++..  .+-.++.-.-.+++...+
T Consensus        96 -------~~L~~ddp~--~~~~ag~c~L~lG~~~~A  122 (157)
T PRK15363         96 -------AQIKIDAPQ--APWAAAECYLACDNVCYA  122 (157)
T ss_pred             -------HhcCCCCch--HHHHHHHHHHHcCCHHHH
Confidence                   677788887  777777766666655444

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.59  E-value=8.7e-05  Score=44.06  Aligned_cols=31  Identities=55%  Similarity=0.783  Sum_probs=23.6

Q ss_pred             hHHHHHHHHHHHcCChHHHHHHHHHHHHCCC
Q 040576          418 VSWNSMIMGYGMHGQGEKALEMFMEMEKRGP  448 (641)
Q Consensus       418 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~  448 (641)
                      ++|+.|+++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3677788888888888888888888877663

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.

>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=97.58  E-value=0.0011  Score=51.60  Aligned_cols=91  Identities=15%  Similarity=0.086  Sum_probs=44.4

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHh
Q 040576          420 WNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLG  499 (641)
Q Consensus       420 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~  499 (641)
                      |..+...+...|++++|...++++.+... .+...+..+...+...|++++|.+.++.... . .+.+...+..+...+.
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-~-~~~~~~~~~~~~~~~~   79 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDP-DNADAYYNLAAAYYKLGKYEEALEDYEKALE-L-DPDNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-C-CCcchhHHHHHHHHHH
Confidence            44455555556666666666665555321 1223444455555555555555555555544 1 1112234444444444


Q ss_pred             hcCCHHHHHHHHHh
Q 040576          500 RAGLMRDSEELVSK  513 (641)
Q Consensus       500 ~~g~~~~A~~~~~~  513 (641)
                      ..|++++|...+++
T Consensus        80 ~~~~~~~a~~~~~~   93 (100)
T cd00189          80 KLGKYEEALEAYEK   93 (100)
T ss_pred             HHHhHHHHHHHHHH
Confidence            55555555444443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.56  E-value=0.0028  Score=60.93  Aligned_cols=134  Identities=13%  Similarity=0.099  Sum_probs=101.4

Q ss_pred             hHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHH
Q 040576          418 VSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSA-CTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVD  496 (641)
Q Consensus       418 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~-~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  496 (641)
                      .+|..++....+.+..+.|..+|.+..+.+ ..+...|...... +...++.+.|.++|+...+.  +..+...|...++
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            468888888888888999999999998543 2344555544444 33357777799999999884  4456778888999


Q ss_pred             HHhhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 040576          497 LLGRAGLMRDSEELVSKL-PMEAG----PALWGALLSACSTHSNSELGKIVAQHLMELEPRDP  554 (641)
Q Consensus       497 ~~~~~g~~~~A~~~~~~~-~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  554 (641)
                      .+.+.|+.+.|..+|++. ..-|.    ...|...+.--.+.|+.+....+.+++.+..|.+.
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~  141 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDN  141 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS-
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhh
Confidence            999999999999999987 22233    34899999999999999999999999999888754

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.

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.52  E-value=0.13  Score=51.80  Aligned_cols=430  Identities=10%  Similarity=0.084  Sum_probs=235.5

Q ss_pred             CCCcccHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHH
Q 040576          118 EPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNS  197 (641)
Q Consensus       118 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~  197 (641)
                      +-|+.+|+.||+-+... .++++.+.|+ .|... .+-....|..-++.-.+..+++..+++|.+....-  .+...|..
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YE-q~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkv--LnlDLW~l   91 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYE-QLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKV--LNLDLWKL   91 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHH-HHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH--hhHhHHHH
Confidence            45889999999988766 8999999999 45432 34456678889999999999999999999988764  35666666


Q ss_pred             HHHHHHh-cCCHHHH----HHHHh----c--CCCCCeeHHHHHHHH---------HHhCCChHHHHHHHhhCCCCCchhH
Q 040576          198 LIHMYSV-CGEVLDA----RKVFE----D--GPVWDLVTWNSMIDG---------YVKNREVGFARELFDFMPERDIFTW  257 (641)
Q Consensus       198 li~~~~~-~g~~~~A----~~~~~----~--~~~~~~~~~~~li~~---------~~~~g~~~~A~~~~~~m~~~~~~~~  257 (641)
                      .++---+ .|+...+    .+.|+    +  |...+-..|+..+.-         |..+.+++...++|+++........
T Consensus        92 Yl~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nl  171 (656)
T KOG1914|consen   92 YLSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNL  171 (656)
T ss_pred             HHHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccH
Confidence            6653332 3333332    22222    1  334445557666543         4445566777778887733222211


Q ss_pred             HHHHHHH---hc--------------CCChHHHHHHHhhcCCCCchHHHHHHHHHHhc-------CChHHHHHHHHhcCC
Q 040576          258 NSMISGY---VD--------------VGDMEAANGLFDLMPFRDVVSWNCMIDGYAKI-------GNVTSARNCFDRMCM  313 (641)
Q Consensus       258 ~~ll~~~---~~--------------~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~-------~~~~~A~~~~~~~~~  313 (641)
                      .-+=+-|   -+              ...+-.|.+++++..        .+..++.+.       |--++..++      
T Consensus       172 EkLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~--------~lt~GL~r~~~~vp~~~T~~e~~qv------  237 (656)
T KOG1914|consen  172 EKLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQ--------NLTRGLNRNAPAVPPKGTKDEIQQV------  237 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHH--------HHHhhhcccCCCCCCCCChHHHHHH------
Confidence            1111111   00              111222222222211        111111111       000110000      


Q ss_pred             CCcchHHHHHHHHHHcCC--------hHHHHHHHHHHH-HCCCCCCHHH-HHHH----HHHHHccCC-------HHHHHH
Q 040576          314 RNVVSWNILLALYVRCKD--------YCECLRLFDRMI-RGDAKPNEAS-LMSV----LTACANMGV-------IDIGQW  372 (641)
Q Consensus       314 ~~~~~~~~li~~~~~~g~--------~~~A~~~~~~m~-~~g~~p~~~~-~~~l----l~~~~~~g~-------~~~a~~  372 (641)
                         ..|-.+|.-=-.++-        -....-.+++.. --+..|+.-- +...    -..+...|+       .+++..
T Consensus       238 ---~~W~n~I~wEksNpL~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~  314 (656)
T KOG1914|consen  238 ---ELWKNWIKWEKSNPLRTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAAS  314 (656)
T ss_pred             ---HHHHHHHHHHhcCCcccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHH
Confidence               012112211000000        000111111111 1122222110 0000    011222222       345555


Q ss_pred             HHHHHHHcCCCCchhHHHHHHHHHHhcC---CHHHHHHHHhhcCC----CChhHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 040576          373 IHSYIQKCRIKPDVLLSTSLLTMYAKCG---VMDLARNVFDNMTE----KNVVSWNSMIMGYGMHGQGEKALEMFMEMEK  445 (641)
Q Consensus       373 ~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~  445 (641)
                      +++..+..-..-+..+|..+.+---..-   ..+.....+++...    .-..+|...+..-.+..-...|..+|.+..+
T Consensus       315 ~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~  394 (656)
T KOG1914|consen  315 IYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKARE  394 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhh
Confidence            6655554333334444444433221111   24455555555542    2335677788888888888999999999999


Q ss_pred             CCCCC-CHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCC---CCCC--
Q 040576          446 RGPTP-NDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLP---MEAG--  519 (641)
Q Consensus       446 ~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~--  519 (641)
                      .+..+ +...+++++.-++. ++..-|.++|+.-.+++|-.  ...-...++-+...|+-..|..+|++..   ..|+  
T Consensus       395 ~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkkf~d~--p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks  471 (656)
T KOG1914|consen  395 DKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKKFGDS--PEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKS  471 (656)
T ss_pred             ccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHhcCCC--hHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhh
Confidence            88777 44566777777664 88899999999888745433  3444567888889999999999999872   2333  


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC----chHHHHHHHHHhcCChHH
Q 040576          520 PALWGALLSACSTHSNSELGKIVAQHLMELEPRDP----GPYVLLSNIYASEGKWDE  572 (641)
Q Consensus       520 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~----~~~~~l~~~~~~~g~~~~  572 (641)
                      ..+|..++.--..-|+...+..+-++.....|.+.    ..-..+.+-|.-.+.+..
T Consensus       472 ~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~c  528 (656)
T KOG1914|consen  472 KEIWDRMLEYESNVGDLNSILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYPC  528 (656)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhcccccc
Confidence            46899999999999999999998888776555221    123334445554554443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.52  E-value=0.17  Score=53.06  Aligned_cols=322  Identities=12%  Similarity=0.074  Sum_probs=180.1

Q ss_pred             HHHHHHHhCCChHHHHHHHhhCCCCC---chhHHHHHHHHhcC---CChHHHHHHHhhcCC--CCchHHHHHHHHHHhcC
Q 040576          228 SMIDGYVKNREVGFARELFDFMPERD---IFTWNSMISGYVDV---GDMEAANGLFDLMPF--RDVVSWNCMIDGYAKIG  299 (641)
Q Consensus       228 ~li~~~~~~g~~~~A~~~~~~m~~~~---~~~~~~ll~~~~~~---g~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~~  299 (641)
                      .+|+-++..+.+..|+++-+.+..|-   ...|.....-+.+.   .+-+.+..+-+++..  .....|..+..-...+|
T Consensus       442 ~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~~~~iSy~~iA~~Ay~~G  521 (829)
T KOG2280|consen  442 VVIDRLVDRHLYSVAIQVAKLLNLPESQGDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKLTPGISYAAIARRAYQEG  521 (829)
T ss_pred             hhhHHHHhcchhHHHHHHHHHhCCccccccHHHHHHHHHHHhccCccchHHHHHHHHHhcccCCCceeHHHHHHHHHhcC
Confidence            45666777788888888888875554   44455555555444   223334444444443  34566777777777788


Q ss_pred             ChHHHHHHHHhcCCC--------CcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHH
Q 040576          300 NVTSARNCFDRMCMR--------NVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQ  371 (641)
Q Consensus       300 ~~~~A~~~~~~~~~~--------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~  371 (641)
                      +.+-|..+++.=+..        +..-+...+.-....|+.+-...++-.+.+.   .+...|...      ..+...|.
T Consensus       522 R~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~---~~~s~l~~~------l~~~p~a~  592 (829)
T KOG2280|consen  522 RFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNK---LNRSSLFMT------LRNQPLAL  592 (829)
T ss_pred             cHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHH---HHHHHHHHH------HHhchhhh
Confidence            888888877754221        1122334444555556666555555554432   111111111      11223334


Q ss_pred             HHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhh-c------CCCChhHHHHHHHHHHHcCC----------hH
Q 040576          372 WIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDN-M------TEKNVVSWNSMIMGYGMHGQ----------GE  434 (641)
Q Consensus       372 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~-~------~~~~~~~~~~li~~~~~~~~----------~~  434 (641)
                      .+|.+..+..-.-      .+-+.|- .++...+...|.. -      .+.-.........++.+...          ..
T Consensus       593 ~lY~~~~r~~~~~------~l~d~y~-q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~a~sk~~s~e~ka~ed~~  665 (829)
T KOG2280|consen  593 SLYRQFMRHQDRA------TLYDFYN-QDDNHQALASFHLQASYAAETIEGRIPALKTAANAFAKSKEKSFEAKALEDQM  665 (829)
T ss_pred             HHHHHHHHhhchh------hhhhhhh-cccchhhhhhhhhhhhhhhhhhcccchhHHHHHHHHhhhhhhhhHHHHHHHHH
Confidence            4444333311000      0111121 1222122211110 0      01111122223333333322          11


Q ss_pred             HHHHHHHHHHH-CCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHh
Q 040576          435 KALEMFMEMEK-RGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSK  513 (641)
Q Consensus       435 ~A~~~~~~m~~-~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  513 (641)
                      +-+.+.+.+.. .|......+.+-.+.-+...|+-.+|.++-++.+-     ||-..|..-+.+++..+++++-+++-+.
T Consensus       666 kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fki-----pdKr~~wLk~~aLa~~~kweeLekfAks  740 (829)
T KOG2280|consen  666 KLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFKI-----PDKRLWWLKLTALADIKKWEELEKFAKS  740 (829)
T ss_pred             HHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcCC-----cchhhHHHHHHHHHhhhhHHHHHHHHhc
Confidence            22223333333 23344445666677777888999999888766643     8888888889999999999998888777


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          514 LPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       514 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      ..   .+..|.-...+|.+.|+.++|..++-+.-.        +.....+|.+.|++.+|.++--+-+
T Consensus       741 kk---sPIGy~PFVe~c~~~~n~~EA~KYiprv~~--------l~ekv~ay~~~~~~~eAad~A~~~r  797 (829)
T KOG2280|consen  741 KK---SPIGYLPFVEACLKQGNKDEAKKYIPRVGG--------LQEKVKAYLRVGDVKEAADLAAEHR  797 (829)
T ss_pred             cC---CCCCchhHHHHHHhcccHHHHhhhhhccCC--------hHHHHHHHHHhccHHHHHHHHHHhc
Confidence            64   255677788999999999999888755322        2368889999999999988765543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.51  E-value=0.0011  Score=62.46  Aligned_cols=91  Identities=10%  Similarity=0.094  Sum_probs=63.1

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC---chHHHHH
Q 040576          490 HYGCMVDLLGRAGLMRDSEELVSKL-PMEAG----PALWGALLSACSTHSNSELGKIVAQHLMELEPRDP---GPYVLLS  561 (641)
Q Consensus       490 ~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~  561 (641)
                      .|...+..+.+.|++++|+..|+.+ ...|+    +..+.-+..+|...|++++|...|+.+++..|+++   ..+..++
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            3444444445567777777777766 22233    23555677777888888888888888887777654   4555667


Q ss_pred             HHHHhcCChHHHHHHHHHh
Q 040576          562 NIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       562 ~~~~~~g~~~~A~~~~~~m  580 (641)
                      .+|...|++++|..++++.
T Consensus       225 ~~~~~~g~~~~A~~~~~~v  243 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQV  243 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHH
Confidence            7788888888888888887

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.50  E-value=0.00042  Score=49.79  Aligned_cols=61  Identities=15%  Similarity=0.236  Sum_probs=47.5

Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 040576          494 MVDLLGRAGLMRDSEELVSKL-PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDP  554 (641)
Q Consensus       494 li~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  554 (641)
                      +...+.+.|++++|++.|+++ ...|+ ...|..+..++...|++++|...++++++..|++|
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            456778888888998888887 34454 55778888888899999999999999999988874

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.49  E-value=0.019  Score=49.22  Aligned_cols=131  Identities=8%  Similarity=0.008  Sum_probs=98.5

Q ss_pred             CCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-C---CCCCHHHH
Q 040576          448 PTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-P---MEAGPALW  523 (641)
Q Consensus       448 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~---~~~~~~~~  523 (641)
                      ..|+...-..|..++.+.|+..+|...|++... .-+.-|......+.++....+++.+|...++++ .   ...++...
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qals-G~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~  163 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALS-GIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGH  163 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhc-cccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCch
Confidence            466777777788889999999999999998887 345566777888888888899999999888876 2   11122334


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          524 GALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       524 ~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      ..+...+...|.++.|+..|+.++..-|+ +..-...+..+.++|+.++|..-+..+
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~ypg-~~ar~~Y~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYYPG-PQARIYYAEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhCCC-HHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            45667788899999999999999988776 345555677788899888776655444

>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=0.12  Score=50.47  Aligned_cols=111  Identities=13%  Similarity=0.122  Sum_probs=87.2

Q ss_pred             HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 040576          454 TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTH  533 (641)
Q Consensus       454 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~  533 (641)
                      +.+..+.-|...|....|.++-.+    +.+ |+...|...+.+|+..|+|++-..+-..   +..+..|..++.+|...
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~----Fkv-~dkrfw~lki~aLa~~~~w~eL~~fa~s---kKsPIGyepFv~~~~~~  250 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKE----FKV-PDKRFWWLKIKALAENKDWDELEKFAKS---KKSPIGYEPFVEACLKY  250 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHH----cCC-cHHHHHHHHHHHHHhcCCHHHHHHHHhC---CCCCCChHHHHHHHHHC
Confidence            455566777788888777666544    344 8889999999999999999988876554   34567788999999999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          534 SNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       534 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      |+..+|..+..+         ..+..-+..|.+.|+|.+|.+.--+..
T Consensus       251 ~~~~eA~~yI~k---------~~~~~rv~~y~~~~~~~~A~~~A~~~k  289 (319)
T PF04840_consen  251 GNKKEASKYIPK---------IPDEERVEMYLKCGDYKEAAQEAFKEK  289 (319)
T ss_pred             CCHHHHHHHHHh---------CChHHHHHHHHHCCCHHHHHHHHHHcC
Confidence            999999988876         123668889999999999988766553

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

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.48  E-value=0.13  Score=50.74  Aligned_cols=428  Identities=10%  Similarity=0.023  Sum_probs=207.8

Q ss_pred             HcCCCchhHHHHHHHHHHhcCCCCCcch------HHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHH--H
Q 040576          132 LMLNDPFGALSFYYEKMMAKFVEHNHYT------FPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMY--S  203 (641)
Q Consensus       132 ~~~g~~~~A~~~~~~~m~~~~~~~~~~~------~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~--~  203 (641)
                      -+.+++.+|..+|. +.... ...+.+.      -+.+++++. .++.+.....+....+.-  | ...|-.|..++  -
T Consensus        17 qkq~~~~esEkifs-kI~~e-~~~~~f~lkeEvl~grilnAff-l~nld~Me~~l~~l~~~~--~-~s~~l~LF~~L~~Y   90 (549)
T PF07079_consen   17 QKQKKFQESEKIFS-KIYDE-KESSPFLLKEEVLGGRILNAFF-LNNLDLMEKQLMELRQQF--G-KSAYLPLFKALVAY   90 (549)
T ss_pred             HHHhhhhHHHHHHH-HHHHH-hhcchHHHHHHHHhhHHHHHHH-HhhHHHHHHHHHHHHHhc--C-CchHHHHHHHHHHH
Confidence            35678888888888 55443 2222222      334556655 345666666666665532  2 33444555443  3


Q ss_pred             hcCCHHHHHHHHhc----CC---CC-----------CeeHHHHHHHHHHhCCChHHHHHHHhhCC--------CCCchhH
Q 040576          204 VCGEVLDARKVFED----GP---VW-----------DLVTWNSMIDGYVKNREVGFARELFDFMP--------ERDIFTW  257 (641)
Q Consensus       204 ~~g~~~~A~~~~~~----~~---~~-----------~~~~~~~li~~~~~~g~~~~A~~~~~~m~--------~~~~~~~  257 (641)
                      +.+++.+|.+.+..    ..   .+           |-..=+..+.++...|++.++..++++|+        .-+..+|
T Consensus        91 ~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~y  170 (549)
T PF07079_consen   91 KQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMY  170 (549)
T ss_pred             HhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHH
Confidence            67888888877742    11   10           11122445677788888888888888872        2467777


Q ss_pred             HHHHHHHhcCCChHHHHHHHhhcCCCC-chHHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHc--CChHH
Q 040576          258 NSMISGYVDVGDMEAANGLFDLMPFRD-VVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRC--KDYCE  334 (641)
Q Consensus       258 ~~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~--g~~~~  334 (641)
                      +.++-.+++.=-++.-    +. ...| ..-|--++-.|.+.=+.-++. -+++.. |.......++....-.  .+..-
T Consensus       171 d~~vlmlsrSYfLEl~----e~-~s~dl~pdyYemilfY~kki~~~d~~-~Y~k~~-peeeL~s~imqhlfi~p~e~l~~  243 (549)
T PF07079_consen  171 DRAVLMLSRSYFLELK----ES-MSSDLYPDYYEMILFYLKKIHAFDQR-PYEKFI-PEEELFSTIMQHLFIVPKERLPP  243 (549)
T ss_pred             HHHHHHHhHHHHHHHH----Hh-cccccChHHHHHHHHHHHHHHHHhhc-hHHhhC-cHHHHHHHHHHHHHhCCHhhccH
Confidence            7755554432111110    00 0111 112222222332211100000 000000 0011111111111111  11111


Q ss_pred             HHHHHHHHHHCCCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC----chhHHHHHHHHHHhcCCHHHHHHHH
Q 040576          335 CLRLFDRMIRGDAKPNEA-SLMSVLTACANMGVIDIGQWIHSYIQKCRIKP----DVLLSTSLLTMYAKCGVMDLARNVF  409 (641)
Q Consensus       335 A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~  409 (641)
                      -+++++.-...-+.|+.. ....+...+..  +.+++..+-+.+....+.+    -+.++..++....+.++...|...+
T Consensus       244 ~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l  321 (549)
T PF07079_consen  244 LMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYL  321 (549)
T ss_pred             HHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            222233333333444433 22223333322  3444444443333322111    1334455555555666666666665


Q ss_pred             hhcC--CCChhH-------HHHHHHHHH----HcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHH---HHHhhcc-HHHH
Q 040576          410 DNMT--EKNVVS-------WNSMIMGYG----MHGQGEKALEMFMEMEKRGPTPNDA-TFICVLS---ACTHAGM-VLEG  471 (641)
Q Consensus       410 ~~~~--~~~~~~-------~~~li~~~~----~~~~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~---~~~~~g~-~~~a  471 (641)
                      .-+.  +|+...       -..+-+..+    ..-+...-+.+|+.....++  |.. -...++.   -+.+.|. -+.|
T Consensus       322 ~lL~~ldp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~Di--DrqQLvh~L~~~Ak~lW~~g~~deka  399 (549)
T PF07079_consen  322 ALLKILDPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDI--DRQQLVHYLVFGAKHLWEIGQCDEKA  399 (549)
T ss_pred             HHHHhcCCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcc--cHHHHHHHHHHHHHHHHhcCCccHHH
Confidence            5443  222211       011111122    11123334566666665533  322 2222332   3455565 7788


Q ss_pred             HHHHHHhHHhhCCCCc-hHHHHHHH----HHHhhc---CCHH---HHHHHHHhCCCCC----CHHHHHHHHHH--HHhcC
Q 040576          472 WWYFDLMQRIYKIEPK-VEHYGCMV----DLLGRA---GLMR---DSEELVSKLPMEA----GPALWGALLSA--CSTHS  534 (641)
Q Consensus       472 ~~~~~~~~~~~~~~p~-~~~~~~li----~~~~~~---g~~~---~A~~~~~~~~~~~----~~~~~~~l~~~--~~~~g  534 (641)
                      +++++.+.+   +.+. ...-+.+.    ..|..+   ..+.   +-...+++.+..|    +...-+.|..|  +..+|
T Consensus       400 lnLLk~il~---ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqg  476 (549)
T PF07079_consen  400 LNLLKLILQ---FTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQG  476 (549)
T ss_pred             HHHHHHHHH---hccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcc
Confidence            888888877   3333 32222211    222211   1122   2233344443322    34456667666  57899


Q ss_pred             CHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          535 NSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       535 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      ++.++...-.-+.+..| ++.+|..+|-++....+++||.+++..+
T Consensus       477 ey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  477 EYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             cHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            99999999888999999 7899999999999999999999999887

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.47  E-value=7.9e-05  Score=45.07  Aligned_cols=34  Identities=26%  Similarity=0.566  Sum_probs=31.4

Q ss_pred             HHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHH
Q 040576          542 VAQHLMELEPRDPGPYVLLSNIYASEGKWDEVEN  575 (641)
Q Consensus       542 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  575 (641)
                      +|+++++++|+++.+|..|+.+|...|++++|++
T Consensus         1 ~y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    1 CYKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             ChHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            3789999999999999999999999999999863

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.46  E-value=0.19  Score=52.12  Aligned_cols=127  Identities=13%  Similarity=0.136  Sum_probs=62.2

Q ss_pred             CCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCCCCC-----eeHHHHHHHHHHhCCChHHHHH
Q 040576          170 IRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWD-----LVTWNSMIDGYVKNREVGFARE  244 (641)
Q Consensus       170 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~A~~  244 (641)
                      -|.+++|++++-+|-+..         .-|.++.+.|||-...+++..+...+     ..+|+.+...++....+++|.+
T Consensus       747 ~g~feeaek~yld~drrD---------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~  817 (1189)
T KOG2041|consen  747 YGEFEEAEKLYLDADRRD---------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAK  817 (1189)
T ss_pred             hcchhHhhhhhhccchhh---------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            366777777665554432         34566667777777777776543221     2346666666666666666666


Q ss_pred             HHhhCCCCCchhHHHHHHHHhcCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhc
Q 040576          245 LFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRM  311 (641)
Q Consensus       245 ~~~~m~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~  311 (641)
                      .|..-.     --...+.++.+..++++-+.+-..+.+ +....-.+.+++...|.-++|.+.|-+.
T Consensus       818 yY~~~~-----~~e~~~ecly~le~f~~LE~la~~Lpe-~s~llp~~a~mf~svGMC~qAV~a~Lr~  878 (1189)
T KOG2041|consen  818 YYSYCG-----DTENQIECLYRLELFGELEVLARTLPE-DSELLPVMADMFTSVGMCDQAVEAYLRR  878 (1189)
T ss_pred             HHHhcc-----chHhHHHHHHHHHhhhhHHHHHHhcCc-ccchHHHHHHHHHhhchHHHHHHHHHhc
Confidence            555431     011122333333333333222222221 2233344445555555555555554443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.35  E-value=0.0058  Score=53.89  Aligned_cols=63  Identities=14%  Similarity=0.077  Sum_probs=33.6

Q ss_pred             hHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhhccHHHHHHHHHHhHH
Q 040576          418 VSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPN--DATFICVLSACTHAGMVLEGWWYFDLMQR  480 (641)
Q Consensus       418 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  480 (641)
                      ..|..++..+...|++++|+..|++.......|.  ..++..+...+...|++++|+..++....
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3445555555556666666666666554322221  12455555555566666666666655554

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.31  E-value=0.042  Score=49.85  Aligned_cols=230  Identities=13%  Similarity=0.063  Sum_probs=142.3

Q ss_pred             eHHHHHHHHHHhCCChHHHHHHHhhC---CCCCchhHHHHHHHH-hcCC-ChHHHHHH-HhhcCCCCchHHHHHHHHHHh
Q 040576          224 VTWNSMIDGYVKNREVGFARELFDFM---PERDIFTWNSMISGY-VDVG-DMEAANGL-FDLMPFRDVVSWNCMIDGYAK  297 (641)
Q Consensus       224 ~~~~~li~~~~~~g~~~~A~~~~~~m---~~~~~~~~~~ll~~~-~~~g-~~~~a~~~-~~~~~~~~~~~~~~li~~~~~  297 (641)
                      ..|+.-+..+++.+..++|..-+...   ..||.. |...=..| .+.| .+.-+.++ +.++.+.-...++.|...+.-
T Consensus        70 q~wT~r~~~l~kLR~~~~a~~EL~~f~~lD~pdl~-Yey~p~iyp~rrGSmVPFsmR~lhAe~~~~lgnpqesLdRl~~L  148 (366)
T KOG2796|consen   70 QLWTVRLALLVKLRLFQNAEMELEPFGNLDQPDLY-YEYYPHVYPGRRGSMVPFSMRILHAELQQYLGNPQESLDRLHKL  148 (366)
T ss_pred             HHHHHHHHHHHHHhhhHHHHhhhhhhccCCCccee-eeeccccCCCCcCccccHHHHHHHHHHHHhcCCcHHHHHHHHHH
Confidence            34777778888888888887655544   333211 00000000 0111 11112221 222222223344555555554


Q ss_pred             cCChHHHHHHHHhcCC----------CCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH
Q 040576          298 IGNVTSARNCFDRMCM----------RNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVI  367 (641)
Q Consensus       298 ~~~~~~A~~~~~~~~~----------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~  367 (641)
                      ...+++-+..++.-..          +-....+.++..+.-.|.+.-.+.++++.++...+.++.....++..-.+.|+.
T Consensus       149 ~~~V~~ii~~~e~~~~~ESsv~lW~KRl~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~  228 (366)
T KOG2796|consen  149 KTVVSKILANLEQGLAEESSIRLWRKRLGRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDI  228 (366)
T ss_pred             HHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccH
Confidence            4445554554444322          122345667788888899999999999999977677888888899999999999


Q ss_pred             HHHHHHHHHHHHcCCCCchhHHH-----HHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHH
Q 040576          368 DIGQWIHSYIQKCRIKPDVLLST-----SLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEM  439 (641)
Q Consensus       368 ~~a~~~~~~~~~~~~~~~~~~~~-----~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~  439 (641)
                      +.|..+|+...+..-..+....+     .....|.-.+++..|...|.++..   .|+..-|.-.-+..-.|+..+|++.
T Consensus       229 k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~  308 (366)
T KOG2796|consen  229 KTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQ  308 (366)
T ss_pred             HHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHH
Confidence            99999999887654333333333     334456667889999999988875   4555566655556667899999999


Q ss_pred             HHHHHHCCCCCCHHHHH
Q 040576          440 FMEMEKRGPTPNDATFI  456 (641)
Q Consensus       440 ~~~m~~~g~~p~~~~~~  456 (641)
                      ++.|.+.  .|.+.+-+
T Consensus       309 ~e~~~~~--~P~~~l~e  323 (366)
T KOG2796|consen  309 LEAMVQQ--DPRHYLHE  323 (366)
T ss_pred             HHHHhcc--CCccchhh
Confidence            9999986  44444333

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.29  E-value=0.0026  Score=61.01  Aligned_cols=130  Identities=7%  Similarity=-0.024  Sum_probs=76.0

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHH----HHHCCCCC-CHHHHHHHHHHHHhhccHHHHHHHHHHhHHh---hC-CCCchH
Q 040576          419 SWNSMIMGYGMHGQGEKALEMFME----MEKRGPTP-NDATFICVLSACTHAGMVLEGWWYFDLMQRI---YK-IEPKVE  489 (641)
Q Consensus       419 ~~~~li~~~~~~~~~~~A~~~~~~----m~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~---~~-~~p~~~  489 (641)
                      +|..|...|.-.|+++.|+..-+.    .++-|-+. ....+..+.+++.-.|+++.|.+.|+.....   .| -.....
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            455555556666777777654332    12223111 1235666777777777777777777654320   11 122244


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhC-------C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040576          490 HYGCMVDLLGRAGLMRDSEELVSKL-------P-MEAGPALWGALLSACSTHSNSELGKIVAQHLME  548 (641)
Q Consensus       490 ~~~~li~~~~~~g~~~~A~~~~~~~-------~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  548 (641)
                      ...+|.+.|.-..++++|++++.+-       . .-.....+.+|..++...|..++|..+.+..++
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            4556777777777777777776543       1 123345666777777777887777777666544

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.27  E-value=0.0052  Score=47.98  Aligned_cols=79  Identities=16%  Similarity=0.078  Sum_probs=66.3

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHccC--------CHHHHHHHHHHHHHcCCCCchhHHH
Q 040576          320 NILLALYVRCKDYCECLRLFDRMIRGDA-KPNEASLMSVLTACANMG--------VIDIGQWIHSYIQKCRIKPDVLLST  390 (641)
Q Consensus       320 ~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~~~ll~~~~~~g--------~~~~a~~~~~~~~~~~~~~~~~~~~  390 (641)
                      ...|..+...+++.....+|+.+.+.|+ .|+..+|+.++.+.++..        ++-....+|+.|...+++|+..+|+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            3456667777999999999999999999 999999999999877654        2345677889999999999999999


Q ss_pred             HHHHHHHh
Q 040576          391 SLLTMYAK  398 (641)
Q Consensus       391 ~li~~~~~  398 (641)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            99887765

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 [, , ].

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.27  E-value=0.0056  Score=47.81  Aligned_cols=80  Identities=13%  Similarity=0.108  Sum_probs=65.9

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhhc--------cHHHHHHHHHHhHHhhCCCCchHH
Q 040576          420 WNSMIMGYGMHGQGEKALEMFMEMEKRGP-TPNDATFICVLSACTHAG--------MVLEGWWYFDLMQRIYKIEPKVEH  490 (641)
Q Consensus       420 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~-~p~~~~~~~ll~~~~~~g--------~~~~a~~~~~~~~~~~~~~p~~~~  490 (641)
                      -...|..+...+++.....+|+.+...|+ .|+..+|+.++.+..+..        ++.+.+.+|+.|.. .+++|+..+
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~-~~lKP~~et  106 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILS-NKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHH-hccCCcHHH
Confidence            34456666777999999999999999999 899999999999876542        45677888999988 789999999


Q ss_pred             HHHHHHHHhh
Q 040576          491 YGCMVDLLGR  500 (641)
Q Consensus       491 ~~~li~~~~~  500 (641)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9998887654

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 [, , ].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.24  E-value=0.11  Score=48.60  Aligned_cols=57  Identities=14%  Similarity=0.064  Sum_probs=34.6

Q ss_pred             HHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHh
Q 040576          457 CVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSK  513 (641)
Q Consensus       457 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~  513 (641)
                      .+..-|.+.|.+..|..-++.+.+.+.-.|. .+....++.+|...|..++|.++...
T Consensus       180 ~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~  237 (243)
T PRK10866        180 SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKI  237 (243)
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            3445566667777777777777664433332 44555666777777777777665544

>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=97.22  E-value=0.00043  Score=50.28  Aligned_cols=60  Identities=13%  Similarity=0.091  Sum_probs=34.7

Q ss_pred             hhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHHHHH
Q 040576          464 HAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPALWGA  525 (641)
Q Consensus       464 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~  525 (641)
                      ..|++++|+++|+.+...  .+-+...+..++.+|.+.|++++|.++++++ ...|+...|..
T Consensus         3 ~~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~   63 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQR--NPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEYQQ   63 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHH--TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHHHH
Confidence            456677777777776651  2224555556666677777777777776666 33455444433

...

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.19  E-value=0.0042  Score=50.46  Aligned_cols=86  Identities=13%  Similarity=0.006  Sum_probs=51.5

Q ss_pred             HHHHhhcCCHHHHHHHHHhC---CCC-CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC---CCchHHHHHHHHHh
Q 040576          495 VDLLGRAGLMRDSEELVSKL---PME-AG-PALWGALLSACSTHSNSELGKIVAQHLMELEPR---DPGPYVLLSNIYAS  566 (641)
Q Consensus       495 i~~~~~~g~~~~A~~~~~~~---~~~-~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~  566 (641)
                      ..++-..|+.++|+.+|++.   ... ++ ...+..+..++...|++++|..++++.....|+   +......++.++..
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            44555566666666666654   111 11 224445666677777777777777777766666   44555556666777


Q ss_pred             cCChHHHHHHHHHh
Q 040576          567 EGKWDEVENLRRIM  580 (641)
Q Consensus       567 ~g~~~~A~~~~~~m  580 (641)
                      .|+.++|++.+-..
T Consensus        88 ~gr~~eAl~~~l~~  101 (120)
T PF12688_consen   88 LGRPKEALEWLLEA  101 (120)
T ss_pred             CCCHHHHHHHHHHH
Confidence            77777777766543

>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=97.19  E-value=0.0011  Score=48.35  Aligned_cols=64  Identities=14%  Similarity=0.119  Sum_probs=45.1

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcC-CHHHHHHHHHHHHhcCC
Q 040576          488 VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG-PALWGALLSACSTHS-NSELGKIVAQHLMELEP  551 (641)
Q Consensus       488 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~p  551 (641)
                      ...|..+...+...|++++|+..|++. ...|+ ...|..+..++...| ++++|+..++++++++|
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            455666777777777777777777765 23343 456777777777777 68888888888887776

...

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.19  E-value=0.0017  Score=64.29  Aligned_cols=65  Identities=11%  Similarity=-0.049  Sum_probs=50.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch---HHHHHHHHHhcCChHHHHHHHHHhhhC
Q 040576          519 GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGP---YVLLSNIYASEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       519 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~---~~~l~~~~~~~g~~~~A~~~~~~m~~~  583 (641)
                      +...|+.+..+|...|++++|+..|+++++++|++...   |+.++.+|...|+.++|+..++++.+.
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            35577777778888888888888888888888887744   788888888888888888888887664

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.15  E-value=0.14  Score=48.02  Aligned_cols=54  Identities=11%  Similarity=0.095  Sum_probs=36.8

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 040576          493 CMVDLLGRAGLMRDSEELVSKL----PMEAG-PALWGALLSACSTHSNSELGKIVAQHL  546 (641)
Q Consensus       493 ~li~~~~~~g~~~~A~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~  546 (641)
                      .+.+.|.+.|.+..|+.-++.+    |..|. ......+..+|...|..++|......+
T Consensus       180 ~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l  238 (243)
T PRK10866        180 SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKII  238 (243)
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            4566778888887777666665    33333 345666777888888888888776554

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.14  E-value=0.13  Score=50.04  Aligned_cols=262  Identities=10%  Similarity=-0.085  Sum_probs=136.3

Q ss_pred             HHHHHHhcCCHHHHHHHHhc---CCCCCeeHHHHHHHHHHhCCChHHHHHHHhhC---CCCCchhHHHHHHHHhcCCChH
Q 040576          198 LIHMYSVCGEVLDARKVFED---GPVWDLVTWNSMIDGYVKNREVGFARELFDFM---PERDIFTWNSMISGYVDVGDME  271 (641)
Q Consensus       198 li~~~~~~g~~~~A~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~~~~~~~~ll~~~~~~g~~~  271 (641)
                      .-..+.+..++..|++.+..   +.+.+..-|..-...+...|++++|+--.+.-   ...........-+++...++..
T Consensus        55 ~gn~~yk~k~Y~nal~~yt~Ai~~~pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd~~~k~~~r~~~c~~a~~~~i  134 (486)
T KOG0550|consen   55 EGNAFYKQKTYGNALKNYTFAIDMCPDNASYYSNRAATLMMLGRFEEALGDARQSVRLKDGFSKGQLREGQCHLALSDLI  134 (486)
T ss_pred             hcchHHHHhhHHHHHHHHHHHHHhCccchhhhchhHHHHHHHHhHhhcccchhhheecCCCccccccchhhhhhhhHHHH
Confidence            34555666777777777754   45556666666666677777777776655444   2222334445555666666666


Q ss_pred             HHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhcCC-----CCcchHHHH-HHHHHHcCChHHHHHHHHHHHHC
Q 040576          272 AANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCM-----RNVVSWNIL-LALYVRCKDYCECLRLFDRMIRG  345 (641)
Q Consensus       272 ~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~l-i~~~~~~g~~~~A~~~~~~m~~~  345 (641)
                      +|.+.++     +...+           ....|...++....     |.-..|-.+ ..++.-.|++++|...--...+.
T Consensus       135 ~A~~~~~-----~~~~~-----------~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkl  198 (486)
T KOG0550|consen  135 EAEEKLK-----SKQAY-----------KAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKL  198 (486)
T ss_pred             HHHHHhh-----hhhhh-----------HHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhc
Confidence            6666555     11111           11222333333322     111223222 24566778888887776666553


Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhH-------------HHHHHHHHHhcCCHHHHHHHHhhc
Q 040576          346 DAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLL-------------STSLLTMYAKCGVMDLARNVFDNM  412 (641)
Q Consensus       346 g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-------------~~~li~~~~~~g~~~~A~~~~~~~  412 (641)
                      . ..+......--.++...++.+.+...|++.+..+  |+-..             +..-.+-..+.|++..|.+.|.+.
T Consensus       199 d-~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Ytea  275 (486)
T KOG0550|consen  199 D-ATNAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEA  275 (486)
T ss_pred             c-cchhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHh
Confidence            2 1111112111223445667788888887777654  32111             111123344566667777766665


Q ss_pred             CC-------CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhhccHHHHHHHHHHhHH
Q 040576          413 TE-------KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPND-ATFICVLSACTHAGMVLEGWWYFDLMQR  480 (641)
Q Consensus       413 ~~-------~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~  480 (641)
                      ..       ++...|........+.|+.++|+.--++....  .|.- ..|..-..++...++|++|.+-|+...+
T Consensus       276 l~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i--D~syikall~ra~c~l~le~~e~AV~d~~~a~q  349 (486)
T KOG0550|consen  276 LNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI--DSSYIKALLRRANCHLALEKWEEAVEDYEKAMQ  349 (486)
T ss_pred             hcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            53       23345555555666666777666666655542  2111 1222223344555666666666666655

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.11  E-value=0.007  Score=58.23  Aligned_cols=130  Identities=8%  Similarity=0.071  Sum_probs=99.3

Q ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhh-cCCHHHHHHHHHhC--CCCCCHHHHHHHHHH
Q 040576          453 ATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGR-AGLMRDSEELVSKL--PMEAGPALWGALLSA  529 (641)
Q Consensus       453 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~  529 (641)
                      .+|..++..+.+.+..+.|..+|.++.+...  .+..+|...+..-.+ .++.+.|..+|+..  ....+...|...+.-
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 LVWIQYMRFMRRTEGIEAARKVFKRARKDKR--CTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC--S-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCC--CCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            4677888899999999999999999986222  234555555555334 56677799999987  244667789999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCC---chHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 040576          530 CSTHSNSELGKIVAQHLMELEPRDP---GPYVLLSNIYASEGKWDEVENLRRIMKEKE  584 (641)
Q Consensus       530 ~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  584 (641)
                      +...++.+.|..+|++++..-|.+.   ..|...+..=.+.|+++.+.++.+++.+.-
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~  137 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELF  137 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHT
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            9999999999999999998766544   478888888889999999999999987653

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.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.07  E-value=0.32  Score=47.00  Aligned_cols=273  Identities=17%  Similarity=0.171  Sum_probs=173.9

Q ss_pred             cCChHHHHHHHHhc---CCCCcchHHHHHH--HHHHcCChHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHHccCCHHHH
Q 040576          298 IGNVTSARNCFDRM---CMRNVVSWNILLA--LYVRCKDYCECLRLFDRMIRGDAKPNEA--SLMSVLTACANMGVIDIG  370 (641)
Q Consensus       298 ~~~~~~A~~~~~~~---~~~~~~~~~~li~--~~~~~g~~~~A~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~g~~~~a  370 (641)
                      .|+-..|.+.-.+.   ...|....-.++.  +-.-.|++++|.+-|+.|...   |...  .+..|.-..-+.|+.+.|
T Consensus        97 AGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaA  173 (531)
T COG3898          97 AGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAA  173 (531)
T ss_pred             cCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHH
Confidence            34555555554443   2234333333333  234468888888888888762   3322  233444445677888888


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcC-----CCChh--HHHHHHHHHH---HcCChHHHHHHH
Q 040576          371 QWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMT-----EKNVV--SWNSMIMGYG---MHGQGEKALEMF  440 (641)
Q Consensus       371 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~~~~--~~~~li~~~~---~~~~~~~A~~~~  440 (641)
                      ..+-+..-..- +.-.....+.+...|..|+|+.|+++.+.-.     ++++.  .--.|+.+-.   -.-+...|...-
T Consensus       174 r~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A  252 (531)
T COG3898         174 RHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDA  252 (531)
T ss_pred             HHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHH
Confidence            88877766543 2335677788888899999999999988654     24432  1112222211   123455566555


Q ss_pred             HHHHHCCCCCCHH-HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHH--H--HHHHhCC
Q 040576          441 MEMEKRGPTPNDA-TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDS--E--ELVSKLP  515 (641)
Q Consensus       441 ~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A--~--~~~~~~~  515 (641)
                      .+..+  +.||.. .-..-..++.+.|+..++-.+++.+-+   ..|.+..+..++  +.+.|+....  .  +-++.|.
T Consensus       253 ~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK---~ePHP~ia~lY~--~ar~gdta~dRlkRa~~L~slk  325 (531)
T COG3898         253 LEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWK---AEPHPDIALLYV--RARSGDTALDRLKRAKKLESLK  325 (531)
T ss_pred             HHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHh---cCCChHHHHHHH--HhcCCCcHHHHHHHHHHHHhcC
Confidence            55444  466654 233445678899999999999999976   556665554333  4566653221  1  1233443


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc-CChHHHHHHHHHhhhC
Q 040576          516 MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASE-GKWDEVENLRRIMKEK  583 (641)
Q Consensus       516 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~A~~~~~~m~~~  583 (641)
                       ..+......+..+-...|++..|..-.+.+....|.. ..|..|+++-... |+-.++.+++-+....
T Consensus       326 -~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~pre-s~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         326 -PNNAESSLAVAEAALDAGEFSAARAKAEAAAREAPRE-SAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             -ccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCchh-hHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence             2345567778888889999999999999999999885 4888888886655 9999999999888654

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.06  E-value=0.018  Score=46.77  Aligned_cols=91  Identities=12%  Similarity=0.087  Sum_probs=62.0

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHh
Q 040576          423 MIMGYGMHGQGEKALEMFMEMEKRGPTPN--DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLG  499 (641)
Q Consensus       423 li~~~~~~~~~~~A~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~  499 (641)
                      +..++-..|+.++|+.+|++....|....  ...+..+.+.+...|++++|..+++.....+.-.+ +......+..++.
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            45567778888888888888888876654  23566677788888888888888888876321101 1222233445677


Q ss_pred             hcCCHHHHHHHHHh
Q 040576          500 RAGLMRDSEELVSK  513 (641)
Q Consensus       500 ~~g~~~~A~~~~~~  513 (641)
                      ..|+.++|++.+-.
T Consensus        87 ~~gr~~eAl~~~l~  100 (120)
T PF12688_consen   87 NLGRPKEALEWLLE  100 (120)
T ss_pred             HCCCHHHHHHHHHH
Confidence            88888888877654

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.02  E-value=0.41  Score=47.23  Aligned_cols=430  Identities=12%  Similarity=0.072  Sum_probs=229.6

Q ss_pred             CCCCChhHHHHHHHHHhhcCCChHHHHHhhhcCCCCCc---ccHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchH
Q 040576           84 GLSQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQEPDA---FMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTF  160 (641)
Q Consensus        84 g~~~~~~~~~~ll~~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~  160 (641)
                      .-+.|...+-.|+. .+...|..++.++++++|..|-+   ..|.--|++=....++.....+|. ......+  +...|
T Consensus        37 dNPtnI~S~fqLiq-~~~tq~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~-rCL~k~l--~ldLW  112 (660)
T COG5107          37 DNPTNILSYFQLIQ-YLETQESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFG-RCLKKSL--NLDLW  112 (660)
T ss_pred             cCchhHHHHHHHHH-HHhhhhhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHH-HHHhhhc--cHhHH
Confidence            34678889999999 78999999999999999976654   478888887777888888888888 5555433  45566


Q ss_pred             HHHHHHHhcCCCchh------HHHHHHHHHH-hCCCCChh-HHHHHHHHHH---hcCCHH------HHHHHHhcCCC-C-
Q 040576          161 PLLGKVCAGIRSLRE------GKKVHARIVK-CGFELDLF-VRNSLIHMYS---VCGEVL------DARKVFEDGPV-W-  221 (641)
Q Consensus       161 ~~ll~~~~~~~~~~~------a~~~~~~~~~-~g~~~~~~-~~~~li~~~~---~~g~~~------~A~~~~~~~~~-~-  221 (641)
                      ..-+.-..+.+..-.      -.+.++.... .|++|-.. .|+..+..+-   ..|.|+      ...+.+.++.. | 
T Consensus       113 ~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~ral~tP~  192 (660)
T COG5107         113 MLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYMRALQTPM  192 (660)
T ss_pred             HHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHcCcc
Confidence            666665555443222      2234444443 45555433 4555444332   234444      44444544321 1 


Q ss_pred             -Ce-eHHH------HHHHH-----HHhC--CChHHHHHHHhhC-------CC---CCchhHHH-----------HHHHHh
Q 040576          222 -DL-VTWN------SMIDG-----YVKN--REVGFARELFDFM-------PE---RDIFTWNS-----------MISGYV  265 (641)
Q Consensus       222 -~~-~~~~------~li~~-----~~~~--g~~~~A~~~~~~m-------~~---~~~~~~~~-----------ll~~~~  265 (641)
                       +. ..|+      .=++-     ++-.  --+-.|.+.+++.       ..   .+..+++-           .|..-.
T Consensus       193 ~nleklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~S~WlNwIkwE~  272 (660)
T COG5107         193 GNLEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSDSNWLNWIKWEM  272 (660)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccccccchhhhHhhHhh
Confidence             11 1121      11111     1000  0122344444443       00   11122221           221111


Q ss_pred             cCC-----C-h-HHHHHHHhhcCC---CCchHHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHH
Q 040576          266 DVG-----D-M-EAANGLFDLMPF---RDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCEC  335 (641)
Q Consensus       266 ~~g-----~-~-~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  335 (641)
                      ..|     + . ...--+|++...   -...+|----..+...++-+.|....++-.+-.+..--.+...|.-..+-++.
T Consensus       273 en~l~L~~~~~~qRi~y~~~q~~~y~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~spsL~~~lse~yel~nd~e~v  352 (660)
T COG5107         273 ENGLKLGGRPHEQRIHYIHNQILDYFYYAEEVWFDYSEYLIGISDKQKALKTVERGIEMSPSLTMFLSEYYELVNDEEAV  352 (660)
T ss_pred             cCCcccCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccCCCchheeHHHHHhhcccHHHH
Confidence            110     0 0 001111222111   01233333344556678888888887776443222222234445555555555


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHH---ccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhc
Q 040576          336 LRLFDRMIRGDAKPNEASLMSVLTACA---NMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNM  412 (641)
Q Consensus       336 ~~~~~~m~~~g~~p~~~~~~~ll~~~~---~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  412 (641)
                      ...|++..+.=    ..-| ..+.+=+   ..|+++.-.+++-.-+    ..-..+|..+++.-.+..-++.|..+|-++
T Consensus       353 ~~~fdk~~q~L----~r~y-s~~~s~~~s~~D~N~e~~~Ell~kr~----~k~t~v~C~~~N~v~r~~Gl~aaR~~F~k~  423 (660)
T COG5107         353 YGCFDKCTQDL----KRKY-SMGESESASKVDNNFEYSKELLLKRI----NKLTFVFCVHLNYVLRKRGLEAARKLFIKL  423 (660)
T ss_pred             hhhHHHHHHHH----HHHH-hhhhhhhhccccCCccccHHHHHHHH----hhhhhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            55555543210    0000 0011101   1233322222211111    123556777888878888888899999887


Q ss_pred             CC-----CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHH-HHHHHHHHhhccHHHHHHHHHHhHHhhCCCC
Q 040576          413 TE-----KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATF-ICVLSACTHAGMVLEGWWYFDLMQRIYKIEP  486 (641)
Q Consensus       413 ~~-----~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~-~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p  486 (641)
                      .+     +++..+++++.-++ .|+...|..+|+--...  -||...| .-.+.-+...++-+.|..+|+....  .+..
T Consensus       424 rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~~~y~~kyl~fLi~inde~naraLFetsv~--r~~~  498 (660)
T COG5107         424 RKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKYLLFLIRINDEENARALFETSVE--RLEK  498 (660)
T ss_pred             hccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCcHHHHHHHHHHhHH--HHHH
Confidence            64     57778888888776 47778888888865543  3444433 3455666778888899999986654  2333


Q ss_pred             c--hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHH
Q 040576          487 K--VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPALWGALLSACS  531 (641)
Q Consensus       487 ~--~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~  531 (641)
                      +  ...|..+|+-=..-|++..+..+=+.+ ..-|...+.....+.|.
T Consensus       499 ~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQen~~evF~Sry~  546 (660)
T COG5107         499 TQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQENLIEVFTSRYA  546 (660)
T ss_pred             hhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcHhHHHHHHHHHh
Confidence            3  567888888888888888887766655 22345444444444443

>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=97.01  E-value=0.01  Score=52.57  Aligned_cols=96  Identities=8%  Similarity=0.092  Sum_probs=70.5

Q ss_pred             HHHHHhc--CCCCcchHHHHHHHHHHc-----CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc-------------
Q 040576          305 RNCFDRM--CMRNVVSWNILLALYVRC-----KDYCECLRLFDRMIRGDAKPNEASLMSVLTACANM-------------  364 (641)
Q Consensus       305 ~~~~~~~--~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~-------------  364 (641)
                      ...|+..  ...+-.+|..++..|.+.     |..+=....++.|.+-|+.-|..+|+.|+..+=+.             
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            3444444  445666777777776543     66777777888888889999999999988876542             


Q ss_pred             ---CCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC
Q 040576          365 ---GVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCG  400 (641)
Q Consensus       365 ---g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  400 (641)
                         .+-+-|..++++|...|+-||..++..+++.+++.+
T Consensus       114 hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             cCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhcccc
Confidence               244677888888888888888888888888885544

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.00  E-value=0.11  Score=51.22  Aligned_cols=160  Identities=17%  Similarity=0.116  Sum_probs=95.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCCC-------ChhHHHHHHHHHHH---cCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 040576          391 SLLTMYAKCGVMDLARNVFDNMTEK-------NVVSWNSMIMGYGM---HGQGEKALEMFMEMEKRGPTPNDATFICVLS  460 (641)
Q Consensus       391 ~li~~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~---~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~  460 (641)
                      .++-.|-...+++...++.+.+...       ....-....-++.+   .|+.++|++++..+....-.+++.+|..+..
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GR  225 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGR  225 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHH
Confidence            3444566777777777777777642       11111223344555   7788888888888665555667777777666


Q ss_pred             HHHh---------hccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCC-H---HHHHHHH---HhC-------CCC
Q 040576          461 ACTH---------AGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGL-M---RDSEELV---SKL-------PME  517 (641)
Q Consensus       461 ~~~~---------~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~-~---~~A~~~~---~~~-------~~~  517 (641)
                      .|-.         ....++|+..|.+.-+   +.|+...--.++-.+...|. .   .+..++-   ...       ...
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kgFe---~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~  302 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKGFE---IEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKM  302 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHHHc---CCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccc
Confidence            5532         2246777777776643   55553322223333333332 1   1222222   111       122


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 040576          518 AGPALWGALLSACSTHSNSELGKIVAQHLMELEPRD  553 (641)
Q Consensus       518 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  553 (641)
                      .+.-.+.+++.++.-.|++++|.+.++++.++.|+.
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~  338 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPA  338 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcc
Confidence            445556789999999999999999999999987664

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.98  E-value=0.017  Score=57.88  Aligned_cols=96  Identities=16%  Similarity=0.116  Sum_probs=49.5

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 040576          318 SWNILLALYVRCKDYCECLRLFDRMIRG--DAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTM  395 (641)
Q Consensus       318 ~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  395 (641)
                      ....+++.+....+.+++..++-+.+..  ....-..|..+++..|...|..+.+..++..=...|+-||..+++.|++.
T Consensus        68 dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~  147 (429)
T PF10037_consen   68 DLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDH  147 (429)
T ss_pred             HHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHH
Confidence            3444444444445555555555555443  12122233345555555555555555555555555555555555555555


Q ss_pred             HHhcCCHHHHHHHHhhcC
Q 040576          396 YAKCGVMDLARNVFDNMT  413 (641)
Q Consensus       396 ~~~~g~~~~A~~~~~~~~  413 (641)
                      +.+.|++..|.++...|.
T Consensus       148 fl~~~~~~~A~~V~~~~~  165 (429)
T PF10037_consen  148 FLKKGNYKSAAKVATEMM  165 (429)
T ss_pred             HhhcccHHHHHHHHHHHH
Confidence            555555555555555443

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 [].

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.98  E-value=0.16  Score=43.67  Aligned_cols=120  Identities=12%  Similarity=0.115  Sum_probs=56.7

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhhcCC----CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCC---CCCCHHHHH
Q 040576          384 PDVLLSTSLLTMYAKCGVMDLARNVFDNMTE----KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRG---PTPNDATFI  456 (641)
Q Consensus       384 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g---~~p~~~~~~  456 (641)
                      |++..--.|...+...|+..+|...|++...    .|......+..+....+++..|...++++.+..   -.||  +..
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~~L  164 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--GHL  164 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--chH
Confidence            4444444445555555555555555554442    344444444555555555555555555554431   1222  222


Q ss_pred             HHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHH
Q 040576          457 CVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSE  508 (641)
Q Consensus       457 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  508 (641)
                      .+...+...|.+.+|...|+....   .-|+...-......+.++|+.++|.
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~---~ypg~~ar~~Y~e~La~qgr~~ea~  213 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAIS---YYPGPQARIYYAEMLAKQGRLREAN  213 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHH---hCCCHHHHHHHHHHHHHhcchhHHH
Confidence            344455555555555555555554   2233333333344445555444443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.98  E-value=0.65  Score=48.94  Aligned_cols=96  Identities=13%  Similarity=0.015  Sum_probs=51.2

Q ss_pred             hCCCCChhHHH-----HHHHHHHhcCCHHHHHHHHhcCCCCC---eeHHHHHHHHHHhCCC---hHHHHHHHhhCCC--C
Q 040576          186 CGFELDLFVRN-----SLIHMYSVCGEVLDARKVFEDGPVWD---LVTWNSMIDGYVKNRE---VGFARELFDFMPE--R  252 (641)
Q Consensus       186 ~g~~~~~~~~~-----~li~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~---~~~A~~~~~~m~~--~  252 (641)
                      -|++.+..-|.     .+|+-+...+.+..|.++-.-+..|.   ...|.....-+.+..+   -+.+..+-+++..  .
T Consensus       426 ~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~~  505 (829)
T KOG2280|consen  426 IGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQGDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKLT  505 (829)
T ss_pred             cCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccccHHHHHHHHHHHhccCccchHHHHHHHHHhcccCC
Confidence            45555555443     34555566667777776665544333   3445555555555422   1222223333322  4


Q ss_pred             CchhHHHHHHHHhcCCChHHHHHHHhhcC
Q 040576          253 DIFTWNSMISGYVDVGDMEAANGLFDLMP  281 (641)
Q Consensus       253 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  281 (641)
                      +..+|..+..-....|+.+.|..+++.-.
T Consensus       506 ~~iSy~~iA~~Ay~~GR~~LA~kLle~E~  534 (829)
T KOG2280|consen  506 PGISYAAIARRAYQEGRFELARKLLELEP  534 (829)
T ss_pred             CceeHHHHHHHHHhcCcHHHHHHHHhcCC
Confidence            45667777766667777777777766544

>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=96.97  E-value=0.01  Score=52.62  Aligned_cols=97  Identities=12%  Similarity=0.201  Sum_probs=76.4

Q ss_pred             HHHHhhc--CCCChhHHHHHHHHHHHc-----CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhh-------------
Q 040576          406 RNVFDNM--TEKNVVSWNSMIMGYGMH-----GQGEKALEMFMEMEKRGPTPNDATFICVLSACTHA-------------  465 (641)
Q Consensus       406 ~~~~~~~--~~~~~~~~~~li~~~~~~-----~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~-------------  465 (641)
                      ...|+..  ..++-.+|..++..|.+.     |..+=....++.|.+-|+.-|..+|+.|++.+=+.             
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            3445554  356777788888877654     66777778888999999999999999999987652             


Q ss_pred             ---ccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCC
Q 040576          466 ---GMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGL  503 (641)
Q Consensus       466 ---g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  503 (641)
                         .+-+-|++++++|.. +|+.||.+++..+++.+++.+.
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               134678899999998 8999999999999999887775

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.97  E-value=0.011  Score=59.18  Aligned_cols=118  Identities=14%  Similarity=0.063  Sum_probs=61.3

Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcC--CCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC----CChhH
Q 040576          346 DAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCR--IKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE----KNVVS  419 (641)
Q Consensus       346 g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~~~~~  419 (641)
                      +.+.+...+..++..+....+++.+..++-......  ...-..+..+++..|.+.|..+.++.++..=..    ||..+
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            344555566666666666666666666655555431  111122333555555555555555555544332    55555


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 040576          420 WNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACT  463 (641)
Q Consensus       420 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~  463 (641)
                      +|.|+..+.+.|++..|.++...|..++.-.+..|+...+.+|.
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~  184 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCY  184 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHH
Confidence            55555555555555555555555555444444444444444443

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 [].

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.97  E-value=0.0013  Score=42.71  Aligned_cols=42  Identities=24%  Similarity=0.423  Sum_probs=37.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHH
Q 040576          521 ALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSN  562 (641)
Q Consensus       521 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  562 (641)
                      ..|..+...|...|++++|+.+++++++.+|+|+..+..|+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            457788899999999999999999999999999988888764

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.93  E-value=0.0015  Score=42.44  Aligned_cols=43  Identities=26%  Similarity=0.415  Sum_probs=38.2

Q ss_pred             CchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHH
Q 040576          554 PGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGE  622 (641)
Q Consensus       554 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~  622 (641)
                      |..+..++.+|.+.|++++|.++++++                        .+.+|++.+  +...|++
T Consensus         1 p~~~~~la~~~~~~G~~~~A~~~~~~~------------------------l~~~P~~~~--a~~~La~   43 (44)
T PF13428_consen    1 PAAWLALARAYRRLGQPDEAERLLRRA------------------------LALDPDDPE--AWRALAQ   43 (44)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHH------------------------HHHCcCCHH--HHHHhhh
Confidence            357889999999999999999999999                        788899999  8877765

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.88  E-value=0.19  Score=45.79  Aligned_cols=177  Identities=12%  Similarity=0.083  Sum_probs=78.6

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhc
Q 040576          322 LLALYVRCKDYCECLRLFDRMIRGDA--KPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKC  399 (641)
Q Consensus       322 li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  399 (641)
                      ....+...|++++|.+.|+++...-.  +--....-.+..++.+.|+++.|...++..++........-+...+.+.+..
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~   90 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYY   90 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHH
Confidence            34455667777777777777765311  1112334455666677777777777777666543111111122122222111


Q ss_pred             CCHHHHHHHHhhcCCCCh-------hHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHH
Q 040576          400 GVMDLARNVFDNMTEKNV-------VSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGW  472 (641)
Q Consensus       400 g~~~~A~~~~~~~~~~~~-------~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~  472 (641)
                      .......     ....|.       ..+..++.-|-......+|...+..+.+.   .- ..-..+..-|.+.|.+..|.
T Consensus        91 ~~~~~~~-----~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~---la-~~e~~ia~~Y~~~~~y~aA~  161 (203)
T PF13525_consen   91 KQIPGIL-----RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR---LA-EHELYIARFYYKRGKYKAAI  161 (203)
T ss_dssp             HHHHHHH------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH---HH-HHHHHHHHHHHCTT-HHHHH
T ss_pred             HhCccch-----hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH---HH-HHHHHHHHHHHHcccHHHHH
Confidence            1111110     011111       12334444444444555554444444321   00 01112455566677777777


Q ss_pred             HHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHH
Q 040576          473 WYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDS  507 (641)
Q Consensus       473 ~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A  507 (641)
                      .-++.+.+.+.-.+. ......++.+|.+.|..+.|
T Consensus       162 ~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  162 IRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             HHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             HHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            777777664322222 23445566666666666533

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.86  E-value=0.026  Score=53.36  Aligned_cols=101  Identities=10%  Similarity=0.050  Sum_probs=69.1

Q ss_pred             HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhC----CCCCC-HHHHHHHH
Q 040576          454 TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKL----PMEAG-PALWGALL  527 (641)
Q Consensus       454 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~~~-~~~~~~l~  527 (641)
                      .|...+....+.|++++|...|+.+.+.+.-.+ ....+..+..+|...|++++|...|+.+    |..|. +..+..+.
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            455555444556888888888888877321111 0245666778888888888888888776    22222 34555566


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 040576          528 SACSTHSNSELGKIVAQHLMELEPRDP  554 (641)
Q Consensus       528 ~~~~~~g~~~~a~~~~~~~~~~~p~~~  554 (641)
                      ..+...|+.++|...|+.+++..|++.
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence            677788999999999999999888875

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.85  E-value=0.066  Score=48.66  Aligned_cols=136  Identities=10%  Similarity=0.005  Sum_probs=66.4

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhh
Q 040576          421 NSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGR  500 (641)
Q Consensus       421 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~  500 (641)
                      +.++..+...|.+.-.+.++++.++....-++.....|.+.-.+.|+.+.|..+|+...+..+ ..+..           
T Consensus       181 y~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~-kL~~~-----------  248 (366)
T KOG2796|consen  181 YSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQ-KLDGL-----------  248 (366)
T ss_pred             HHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHh-hhhcc-----------
Confidence            344444444555555555555555544333444444455555555555555555554443111 11111           


Q ss_pred             cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          501 AGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       501 ~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                                      +............+.-.+++..|...+.++.+.+|.++..-+.-+-++.-.|+..+|++.++.|
T Consensus       249 ----------------q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~  312 (366)
T KOG2796|consen  249 ----------------QGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAM  312 (366)
T ss_pred             ----------------chhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHH
Confidence                            1111112222223444555555666666666666666655555555555556666666666666


Q ss_pred             hhCC
Q 040576          581 KEKE  584 (641)
Q Consensus       581 ~~~~  584 (641)
                      .+..
T Consensus       313 ~~~~  316 (366)
T KOG2796|consen  313 VQQD  316 (366)
T ss_pred             hccC
Confidence            5443

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.83  E-value=0.15  Score=46.42  Aligned_cols=142  Identities=13%  Similarity=0.105  Sum_probs=74.2

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCch-HHHHHHHH
Q 040576          420 WNSMIMGYGMHGQGEKALEMFMEMEKRGPTP--NDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKV-EHYGCMVD  496 (641)
Q Consensus       420 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~  496 (641)
                      +-.....+...|++++|...|+++...-...  -......++.++.+.|+++.|...++...+.+.-.|.. ..+-.++.
T Consensus         8 lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~   87 (203)
T PF13525_consen    8 LYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGL   87 (203)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHH
Confidence            3344555666777777777777777652221  12344556667777777777777777776644433332 11111111


Q ss_pred             HHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc-----------------hHHH
Q 040576          497 LLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPG-----------------PYVL  559 (641)
Q Consensus       497 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~-----------------~~~~  559 (641)
                      ++...  .....                   ......+...+|...++.+++..|+++.                 .-..
T Consensus        88 ~~~~~--~~~~~-------------------~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~~  146 (203)
T PF13525_consen   88 SYYKQ--IPGIL-------------------RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHELY  146 (203)
T ss_dssp             HHHHH--HHHHH--------------------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHh--Cccch-------------------hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHHH
Confidence            11111  00000                   0011223344555556666666665542                 3345


Q ss_pred             HHHHHHhcCChHHHHHHHHHhhh
Q 040576          560 LSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       560 l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      ++..|.+.|.+..|..-++.+.+
T Consensus       147 ia~~Y~~~~~y~aA~~r~~~v~~  169 (203)
T PF13525_consen  147 IARFYYKRGKYKAAIIRFQYVIE  169 (203)
T ss_dssp             HHHHHHCTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHH
Confidence            78889999999999999999944

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.77  E-value=0.011  Score=47.27  Aligned_cols=117  Identities=19%  Similarity=0.125  Sum_probs=78.4

Q ss_pred             HHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC----chHHHHHHHHHhcCC
Q 040576          496 DLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDP----GPYVLLSNIYASEGK  569 (641)
Q Consensus       496 ~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~----~~~~~l~~~~~~~g~  569 (641)
                      -++...|+++.|++.|.+. . .+..+..|+.-..++.-.|+.++|..-+++++++.-+..    ..|..-+.+|...|+
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            3466778888888887765 2 224566788888888888888888888888887654332    246666777888888


Q ss_pred             hHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHH
Q 040576          570 WDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQ  626 (641)
Q Consensus       570 ~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~  626 (641)
                      -+.|..-|+..-+.|-+            |...+|..++|=..-  -..||.....+
T Consensus       131 dd~AR~DFe~AA~LGS~------------FAr~QLV~lNPYAAl--CN~MLa~~f~q  173 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGSK------------FAREQLVELNPYAAL--CNQMLADAFDQ  173 (175)
T ss_pred             hHHHHHhHHHHHHhCCH------------HHHHHHHhcChHHHH--HHHHHHHHHHh
Confidence            88888888877666543            444455666665555  34455554443

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.77  E-value=0.0053  Score=45.22  Aligned_cols=64  Identities=17%  Similarity=0.254  Sum_probs=48.6

Q ss_pred             HHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHH
Q 040576          496 DLLGRAGLMRDSEELVSKL-PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVL  559 (641)
Q Consensus       496 ~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  559 (641)
                      ..|.+.+++++|+++++.+ ...|+ +..|......+...|++++|...++++++..|+++.....
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~~~   68 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDARAL   68 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHHHH
Confidence            5677888888888888877 33344 5567777778888899999999999999888887654443

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.76  E-value=0.91  Score=47.38  Aligned_cols=186  Identities=13%  Similarity=0.055  Sum_probs=89.0

Q ss_pred             CCChHHHHHHHhhCCCCCchhHHHHHHHHhcCCChHHHHHHHhhcCCCC-----chHHHHHHHHHHhcCChHHHHHHHHh
Q 040576          236 NREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRD-----VVSWNCMIDGYAKIGNVTSARNCFDR  310 (641)
Q Consensus       236 ~g~~~~A~~~~~~m~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-----~~~~~~li~~~~~~~~~~~A~~~~~~  310 (641)
                      .|.+++|.++|-+|...|.     .+....+.|++-...++++.--.-+     ...++.+.+.+.....+++|.+.|..
T Consensus       747 ~g~feeaek~yld~drrDL-----Aielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~  821 (1189)
T KOG2041|consen  747 YGEFEEAEKLYLDADRRDL-----AIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSY  821 (1189)
T ss_pred             hcchhHhhhhhhccchhhh-----hHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3666666666666644442     2344455555555555554422111     34555566666655566666655554


Q ss_pred             cCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHH
Q 040576          311 MCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLST  390 (641)
Q Consensus       311 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  390 (641)
                      ...     -...+.++.+..++++-..+.+.+     +-+....-.+..++.+.|.-++|.+.|-..   +. |     .
T Consensus       822 ~~~-----~e~~~ecly~le~f~~LE~la~~L-----pe~s~llp~~a~mf~svGMC~qAV~a~Lr~---s~-p-----k  882 (1189)
T KOG2041|consen  822 CGD-----TENQIECLYRLELFGELEVLARTL-----PEDSELLPVMADMFTSVGMCDQAVEAYLRR---SL-P-----K  882 (1189)
T ss_pred             ccc-----hHhHHHHHHHHHhhhhHHHHHHhc-----CcccchHHHHHHHHHhhchHHHHHHHHHhc---cC-c-----H
Confidence            321     112344444444444433333322     223334445555566666666555443221   11 1     1


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCCCChhHHHH--------------HHHHHHHcCChHHHHHHHHHHHH
Q 040576          391 SLLTMYAKCGVMDLARNVFDNMTEKNVVSWNS--------------MIMGYGMHGQGEKALEMFMEMEK  445 (641)
Q Consensus       391 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--------------li~~~~~~~~~~~A~~~~~~m~~  445 (641)
                      ..++.+...++|.+|.++-++..-|.+.+.-+              -|..+.+.|+.-+|-+++.+|.+
T Consensus       883 aAv~tCv~LnQW~~avelaq~~~l~qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarll~qmae  951 (1189)
T KOG2041|consen  883 AAVHTCVELNQWGEAVELAQRFQLPQVQTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQMAE  951 (1189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHHHhH
Confidence            23344555566666666665554443332211              13334555555556666666644

>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=96.71  E-value=0.14  Score=41.37  Aligned_cols=141  Identities=17%  Similarity=0.145  Sum_probs=88.1

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHH
Q 040576          427 YGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRD  506 (641)
Q Consensus       427 ~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  506 (641)
                      +.-.|..++..++..+....   .+..-++.+|--....-+-+-..++++.+-+.+.+              ..+|++..
T Consensus        12 ~ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDi--------------s~C~NlKr   74 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDI--------------SKCGNLKR   74 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-G--------------GG-S-THH
T ss_pred             HHHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhcCc--------------hhhcchHH
Confidence            34567788888888887763   24555666666555556666666666666442222              23444444


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCc
Q 040576          507 SEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELE  586 (641)
Q Consensus       507 A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  586 (641)
                      ....+-.+.  .+...+...+......|.-++-..++..+.+-+..+|..+..++.+|.+.|+..++.++++++-++|++
T Consensus        75 Vi~C~~~~n--~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   75 VIECYAKRN--KLSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHHTT-----HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            444444443  234445566777888999999889998888766777889999999999999999999999999999875

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.66  E-value=0.15  Score=52.38  Aligned_cols=175  Identities=15%  Similarity=0.139  Sum_probs=99.3

Q ss_pred             HHHHHHHHHHcCC--hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 040576          319 WNILLALYVRCKD--YCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMY  396 (641)
Q Consensus       319 ~~~li~~~~~~g~--~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  396 (641)
                      ++..-.+|.+..+  +-+.+.-+++|.+.|-.|+....   ...|+-.|.+.+|-++|.+-   |..      +..+.+|
T Consensus       601 f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iLl---A~~~Ay~gKF~EAAklFk~~---G~e------nRAlEmy  668 (1081)
T KOG1538|consen  601 FETARKAYIRVRDLRYLELISELEERKKRGETPNDLLL---ADVFAYQGKFHEAAKLFKRS---GHE------NRALEMY  668 (1081)
T ss_pred             hHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHHH---HHHHHhhhhHHHHHHHHHHc---Cch------hhHHHHH
Confidence            4444455655544  34455567788888888887643   44567778888888877543   322      2234555


Q ss_pred             HhcCCHHHHHHHHhhcCC--------------CChhHHHHHHHHHHHcCChHHHHHHHH------HHHHCCCC---CCHH
Q 040576          397 AKCGVMDLARNVFDNMTE--------------KNVVSWNSMIMGYGMHGQGEKALEMFM------EMEKRGPT---PNDA  453 (641)
Q Consensus       397 ~~~g~~~~A~~~~~~~~~--------------~~~~~~~~li~~~~~~~~~~~A~~~~~------~m~~~g~~---p~~~  453 (641)
                      .....++.|.++...-..              .++.-=.+....+...|+.++|..+.-      -+.+-+-+   .+..
T Consensus       669 TDlRMFD~aQE~~~~g~~~eKKmL~RKRA~WAr~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere  748 (1081)
T KOG1538|consen  669 TDLRMFDYAQEFLGSGDPKEKKMLIRKRADWARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAERE  748 (1081)
T ss_pred             HHHHHHHHHHHHhhcCChHHHHHHHHHHHHHhhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhh
Confidence            555555555555543321              111111223334455666666655431      11121111   2334


Q ss_pred             HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCC
Q 040576          454 TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLP  515 (641)
Q Consensus       454 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  515 (641)
                      +...+...+.+...+..|-++|.+|-.          ...++++....+++.+|..+-++.|
T Consensus       749 ~l~~~a~ylk~l~~~gLAaeIF~k~gD----------~ksiVqlHve~~~W~eAFalAe~hP  800 (1081)
T KOG1538|consen  749 PLLLCATYLKKLDSPGLAAEIFLKMGD----------LKSLVQLHVETQRWDEAFALAEKHP  800 (1081)
T ss_pred             HHHHHHHHHhhccccchHHHHHHHhcc----------HHHHhhheeecccchHhHhhhhhCc
Confidence            555555555566667777777777643          2456778888899999998888875

>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=96.60  E-value=0.0033  Score=47.05  Aligned_cols=61  Identities=10%  Similarity=0.101  Sum_probs=43.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcC----CCC---CchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          521 ALWGALLSACSTHSNSELGKIVAQHLMELE----PRD---PGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       521 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----p~~---~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      .+++.+...|...|++++|+..+++++++.    +++   ..++..++.+|...|++++|++.+++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            356667777777777777777777776531    221   3467888888999999999999888764

...

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.47  E-value=0.21  Score=51.30  Aligned_cols=55  Identities=22%  Similarity=0.238  Sum_probs=31.0

Q ss_pred             HHHHHHHHhcCCCchh--HHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhc
Q 040576          160 FPLLGKVCAGIRSLRE--GKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFED  217 (641)
Q Consensus       160 ~~~ll~~~~~~~~~~~--a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  217 (641)
                      |+..=++|.+.++..-  ...-++++.+.|-.|+...   +...++-.|++.+|.++|.+
T Consensus       601 f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~  657 (1081)
T KOG1538|consen  601 FETARKAYIRVRDLRYLELISELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKR  657 (1081)
T ss_pred             hHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHH
Confidence            3344455555554433  2233456667776666543   33445557788888888764

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.44  E-value=0.079  Score=43.98  Aligned_cols=87  Identities=13%  Similarity=0.092  Sum_probs=62.0

Q ss_pred             HHHHhhcCCHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc---hHHHHHHHHHh
Q 040576          495 VDLLGRAGLMRDSEELVSKL----PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPG---PYVLLSNIYAS  566 (641)
Q Consensus       495 i~~~~~~g~~~~A~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~  566 (641)
                      .....+.|++++|++.|+.+    |..|- ...-..++.++.+.+++++|...+++.+++.|.++.   ++...+.++.+
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~   96 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYE   96 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHH
Confidence            44456778888888888877    32222 335566788899999999999999999999988765   45555655666


Q ss_pred             cCC---------------hHHHHHHHHHhh
Q 040576          567 EGK---------------WDEVENLRRIMK  581 (641)
Q Consensus       567 ~g~---------------~~~A~~~~~~m~  581 (641)
                      +..               ..+|...|++.+
T Consensus        97 ~~~~~~~~~~~~drD~~~~~~A~~~f~~lv  126 (142)
T PF13512_consen   97 QDEGSLQSFFRSDRDPTPARQAFRDFEQLV  126 (142)
T ss_pred             HhhhHHhhhcccccCcHHHHHHHHHHHHHH
Confidence            554               566777777763

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.39  E-value=0.043  Score=53.33  Aligned_cols=95  Identities=13%  Similarity=0.026  Sum_probs=78.3

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 040576          489 EHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYAS  566 (641)
Q Consensus       489 ~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  566 (641)
                      .++..+.-+|.+.+++.+|++..++. . .+++....-.-..+|...|+++.|+..|+++++++|.|-.+-..|+.+--+
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            45677888899999999999988876 2 346677777788899999999999999999999999998888888888776


Q ss_pred             cCChHH-HHHHHHHhhhC
Q 040576          567 EGKWDE-VENLRRIMKEK  583 (641)
Q Consensus       567 ~g~~~~-A~~~~~~m~~~  583 (641)
                      ...+.+ ..++|..|-.+
T Consensus       338 ~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  338 IREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHHHHHHhhc
Confidence            665555 47888888654

>PRK11906 transcriptional regulator; Provisional

Probab=96.30  E-value=0.076  Score=53.04  Aligned_cols=144  Identities=13%  Similarity=0.116  Sum_probs=82.2

Q ss_pred             ChHHHHHHHHHHHH-CCCCCCH-HHHHHHHHHHHhh---------ccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHh
Q 040576          432 QGEKALEMFMEMEK-RGPTPND-ATFICVLSACTHA---------GMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLG  499 (641)
Q Consensus       432 ~~~~A~~~~~~m~~-~g~~p~~-~~~~~ll~~~~~~---------g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~  499 (641)
                      ..+.|+.+|.+... ..+.|+- ..|..+..++...         .+..+|.+.-++..+   +.| |......+..++.
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAve---ld~~Da~a~~~~g~~~~  349 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSD---ITTVDGKILAIMGLITG  349 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHh---cCCCCHHHHHHHHHHHH
Confidence            35667778888772 2245553 3555555444321         233445555555554   223 3455555566666


Q ss_pred             hcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHH--HHHHHHhcCChHHHHH
Q 040576          500 RAGLMRDSEELVSKL-PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVL--LSNIYASEGKWDEVEN  575 (641)
Q Consensus       500 ~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~--l~~~~~~~g~~~~A~~  575 (641)
                      -.|+++.|...|++. ...|+ ...|......+.-.|+.++|.+.++++++++|....+-..  .++.|... ..++|+.
T Consensus       350 ~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~-~~~~~~~  428 (458)
T PRK11906        350 LSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPN-PLKNNIK  428 (458)
T ss_pred             hhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCC-chhhhHH
Confidence            666677777777776 34455 3355555556666777777777777777777765443332  23344443 3666666


Q ss_pred             HHHH
Q 040576          576 LRRI  579 (641)
Q Consensus       576 ~~~~  579 (641)
                      ++-+
T Consensus       429 ~~~~  432 (458)
T PRK11906        429 LYYK  432 (458)
T ss_pred             HHhh
Confidence            6543

>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=96.19  E-value=0.0094  Score=44.56  Aligned_cols=27  Identities=11%  Similarity=-0.054  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040576          522 LWGALLSACSTHSNSELGKIVAQHLME  548 (641)
Q Consensus       522 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  548 (641)
                      ++..+..++...|++++|+..++++++
T Consensus        48 ~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen   48 TLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            344455555555556666555555544

...

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.14  E-value=0.42  Score=44.91  Aligned_cols=102  Identities=13%  Similarity=0.088  Sum_probs=71.3

Q ss_pred             CHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcC---CHHHHHHHHHhC-CCCCC-HHHHHH
Q 040576          451 NDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAG---LMRDSEELVSKL-PMEAG-PALWGA  525 (641)
Q Consensus       451 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~~-~~~~~-~~~~~~  525 (641)
                      |...|..|...|...|+++.|...|....+..|  ++...+..+..++....   +..++.++|+++ ..+|+ .....-
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g--~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~l  232 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLAG--DNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSL  232 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHH
Confidence            566788888888888888888888888876222  33556666666655432   456777888877 33444 445555


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 040576          526 LLSACSTHSNSELGKIVAQHLMELEPRDP  554 (641)
Q Consensus       526 l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  554 (641)
                      |...+...|++.+|...++++++..|.+.
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~lp~~~  261 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLLPADD  261 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCCCCC
Confidence            56668888888888888888888877664

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.13  E-value=1.1  Score=41.33  Aligned_cols=187  Identities=16%  Similarity=0.130  Sum_probs=81.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcC-----CCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH-HHH
Q 040576          390 TSLLTMYAKCGVMDLARNVFDNMT-----EKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLS-ACT  463 (641)
Q Consensus       390 ~~li~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~-~~~  463 (641)
                      ......+...+.+..+...+....     ......+......+...+++..+...+.........+. ........ .+.
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~  141 (291)
T COG0457          63 LLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPD-LAEALLALGALY  141 (291)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcc-hHHHHHHHHHHH
Confidence            333444444444444444444332     12223333444444444445555555554444322211 11111111 344


Q ss_pred             hhccHHHHHHHHHHhHHhhCCCC----chHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC--HHHHHHHHHHHHhcCCH
Q 040576          464 HAGMVLEGWWYFDLMQRIYKIEP----KVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG--PALWGALLSACSTHSNS  536 (641)
Q Consensus       464 ~~g~~~~a~~~~~~~~~~~~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~--~~~~~~l~~~~~~~g~~  536 (641)
                      ..|+++.|...+.....   ..|    ....+......+...++.++|...+.+. ...++  ...+..+...+...++.
T Consensus       142 ~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  218 (291)
T COG0457         142 ELGDYEEALELYEKALE---LDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKY  218 (291)
T ss_pred             HcCCHHHHHHHHHHHHh---cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccH
Confidence            45555555555555422   111    1222222233344455555555555544 11122  33444455555555555


Q ss_pred             HHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          537 ELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       537 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      +.|...+..+....|.....+..++..+...|.++++...+.+.
T Consensus       219 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  262 (291)
T COG0457         219 EEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKA  262 (291)
T ss_pred             HHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHH
Confidence            55555555555555554444444444444445555555555554

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.12  E-value=0.024  Score=49.15  Aligned_cols=89  Identities=13%  Similarity=0.081  Sum_probs=65.0

Q ss_pred             HHhhcCCHHHHHHHHHhC-C-CCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 040576          497 LLGRAGLMRDSEELVSKL-P-MEAG-----PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGK  569 (641)
Q Consensus       497 ~~~~~g~~~~A~~~~~~~-~-~~~~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  569 (641)
                      -+...|++++|..-|.+. . .++.     ...|..-..++.+.+..+.|+....++++++|....++..-+.+|.+..+
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            355677777777766654 1 1111     22344444567788889999999999999999888888888889999999


Q ss_pred             hHHHHHHHHHhhhCCC
Q 040576          570 WDEVENLRRIMKEKEL  585 (641)
Q Consensus       570 ~~~A~~~~~~m~~~~~  585 (641)
                      +++|++-++++.+..+
T Consensus       184 ~eealeDyKki~E~dP  199 (271)
T KOG4234|consen  184 YEEALEDYKKILESDP  199 (271)
T ss_pred             HHHHHHHHHHHHHhCc
Confidence            9999999999855443

>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=96.08  E-value=0.026  Score=48.40  Aligned_cols=61  Identities=21%  Similarity=0.239  Sum_probs=52.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          522 LWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       522 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      ....++..+...|++++|...+++++..+|-+...|..++.+|...|+..+|.+.++++..
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~  124 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRR  124 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            4556777788999999999999999999999999999999999999999999999998843

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.03  E-value=0.96  Score=41.02  Aligned_cols=50  Identities=12%  Similarity=0.166  Sum_probs=23.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhc----CCCCCchHHHHHHHHHhcCChHHHHHH
Q 040576          526 LLSACSTHSNSELGKIVAQHLMEL----EPRDPGPYVLLSNIYASEGKWDEVENL  576 (641)
Q Consensus       526 l~~~~~~~g~~~~a~~~~~~~~~~----~p~~~~~~~~l~~~~~~~g~~~~A~~~  576 (641)
                      .+-.+....|+..|+..++...+.    .|++..+...|+.+|. .|+.+++.++
T Consensus       196 ~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd-~gD~E~~~kv  249 (308)
T KOG1585|consen  196 AILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYD-EGDIEEIKKV  249 (308)
T ss_pred             HHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhc-cCCHHHHHHH
Confidence            333344444555555555554332    2444445555554443 4455554443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.02  E-value=1.7  Score=42.38  Aligned_cols=209  Identities=16%  Similarity=0.132  Sum_probs=116.8

Q ss_pred             hcCChHHHHHHHHhcCC--C-CcchHHHHHHHHHHcCChHHHHHHHHHHHHCC-CCCCHHH--HHHHHHHHHc---cCCH
Q 040576          297 KIGNVTSARNCFDRMCM--R-NVVSWNILLALYVRCKDYCECLRLFDRMIRGD-AKPNEAS--LMSVLTACAN---MGVI  367 (641)
Q Consensus       297 ~~~~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~--~~~ll~~~~~---~g~~  367 (641)
                      +.|..+.|...-++.-.  | -.-.+...+...+..|+|+.|+++++.-.... +.++..-  -..|+.+-..   ..+.
T Consensus       166 r~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp  245 (531)
T COG3898         166 RLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADP  245 (531)
T ss_pred             hcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCCh
Confidence            44555555555555421  2 23456677888888888888888887765532 3343321  2223332211   1234


Q ss_pred             HHHHHHHHHHHHcCCCCchhH-HHHHHHHHHhcCCHHHHHHHHhhcCC--CChhHHHHHHHHHHHcCChHHHHHHHHHHH
Q 040576          368 DIGQWIHSYIQKCRIKPDVLL-STSLLTMYAKCGVMDLARNVFDNMTE--KNVVSWNSMIMGYGMHGQGEKALEMFMEME  444 (641)
Q Consensus       368 ~~a~~~~~~~~~~~~~~~~~~-~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~A~~~~~~m~  444 (641)
                      ..|...-.+..+  +.||..- -..-..+|.+.|+..++-.+++.+-+  |.+..+    ..|....-.|.+..-+++..
T Consensus       246 ~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia----~lY~~ar~gdta~dRlkRa~  319 (531)
T COG3898         246 ASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIA----LLYVRARSGDTALDRLKRAK  319 (531)
T ss_pred             HHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHH----HHHHHhcCCCcHHHHHHHHH
Confidence            444444444433  2344221 22234567778888888888887765  333322    23333333344444444443


Q ss_pred             HC-CCCCCH-HHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhh-cCCHHHHHHHHHhC
Q 040576          445 KR-GPTPND-ATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGR-AGLMRDSEELVSKL  514 (641)
Q Consensus       445 ~~-g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~~  514 (641)
                      +. .++||. .....+..+-...|++..|..--+....   ..|....|..|.+.-.. .|+-.++...+.+.
T Consensus       320 ~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r---~~pres~~lLlAdIeeAetGDqg~vR~wlAqa  389 (531)
T COG3898         320 KLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR---EAPRESAYLLLADIEEAETGDQGKVRQWLAQA  389 (531)
T ss_pred             HHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh---hCchhhHHHHHHHHHhhccCchHHHHHHHHHH
Confidence            31 245553 4555666777777888777776666654   66777777777766543 47777777777765

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.94  E-value=2.9  Score=44.55  Aligned_cols=72  Identities=13%  Similarity=0.179  Sum_probs=41.3

Q ss_pred             HHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 040576          457 CVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNS  536 (641)
Q Consensus       457 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  536 (641)
                      ..+..|.+.|-+++-.-++.+|-.         ++.+|.-.--+.++.++|+++.++   +.|...|..|+..+...-.+
T Consensus       639 kA~eiC~q~~~~~E~VYlLgrmGn---------~k~AL~lII~el~die~AIefvKe---q~D~eLWe~LI~~~ldkPe~  706 (846)
T KOG2066|consen  639 KALEICSQKNFYEELVYLLGRMGN---------AKEALKLIINELRDIEKAIEFVKE---QDDSELWEDLINYSLDKPEF  706 (846)
T ss_pred             HHHHHHHhhCcHHHHHHHHHhhcc---------hHHHHHHHHHHhhCHHHHHHHHHh---cCCHHHHHHHHHHhhcCcHH
Confidence            344455555555555555544421         223333333455666666666665   46888999999887776655


Q ss_pred             HHHH
Q 040576          537 ELGK  540 (641)
Q Consensus       537 ~~a~  540 (641)
                      -.+.
T Consensus       707 ~~~l  710 (846)
T KOG2066|consen  707 IKAL  710 (846)
T ss_pred             HHHH
Confidence            4444

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.83  E-value=1.5  Score=40.41  Aligned_cols=221  Identities=12%  Similarity=0.067  Sum_probs=142.1

Q ss_pred             CChHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHc-CCCCchhHHHHHHHHHHhcCCHHHHHH
Q 040576          330 KDYCECLRLFDRMIRGDAK-PNEASLMSVLTACANMGVIDIGQWIHSYIQKC-RIKPDVLLSTSLLTMYAKCGVMDLARN  407 (641)
Q Consensus       330 g~~~~A~~~~~~m~~~g~~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~  407 (641)
                      +....+...+......... .....+......+...+.+..+...+...... ........+..+...+...+++..+.+
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE  116 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHH
Confidence            3444444545444443221 12345555556666666666666666655542 223344555566666667777777777


Q ss_pred             HHhhcCC--CCh-hHHHHHHH-HHHHcCChHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHh
Q 040576          408 VFDNMTE--KNV-VSWNSMIM-GYGMHGQGEKALEMFMEMEKRGP--TPNDATFICVLSACTHAGMVLEGWWYFDLMQRI  481 (641)
Q Consensus       408 ~~~~~~~--~~~-~~~~~li~-~~~~~~~~~~A~~~~~~m~~~g~--~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  481 (641)
                      .+.....  ++. ........ .+...|+++.|...+.+......  ......+......+...++.+.+...+..... 
T Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-  195 (291)
T COG0457         117 LLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALK-  195 (291)
T ss_pred             HHHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHh-
Confidence            7777664  221 22333333 68888999999999998855221  11233444444556778899999999999877 


Q ss_pred             hCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 040576          482 YKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPR  552 (641)
Q Consensus       482 ~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  552 (641)
                       .... ....+..+...+...+++++|...+... ...|+ ...+..+...+...+..+.+...+.+..+..|.
T Consensus       196 -~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         196 -LNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             -hCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence             2223 3567778888888999999999998877 33344 445555555555777899999999999998887

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.79  E-value=0.12  Score=49.29  Aligned_cols=46  Identities=13%  Similarity=0.075  Sum_probs=22.3

Q ss_pred             HHcCChHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHccCCHHHHHH
Q 040576          327 VRCKDYCECLRLFDRMIRGD--AKPNEASLMSVLTACANMGVIDIGQW  372 (641)
Q Consensus       327 ~~~g~~~~A~~~~~~m~~~g--~~p~~~~~~~ll~~~~~~g~~~~a~~  372 (641)
                      .+..+.++|+..+.+-...-  ..---.++..+..+.+..|.++++..
T Consensus        17 y~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~   64 (518)
T KOG1941|consen   17 YQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLK   64 (518)
T ss_pred             hcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHH
Confidence            34566666666666655420  01111244445555555555555443

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=95.68  E-value=0.029  Score=52.76  Aligned_cols=83  Identities=11%  Similarity=-0.013  Sum_probs=38.6

Q ss_pred             HhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHH
Q 040576          498 LGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVEN  575 (641)
Q Consensus       498 ~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  575 (641)
                      |.++|.+++|++.|.+. ...| ++.++..-..+|.+...+..|+.-...++.++..-..+|..-+.+-...|+..||.+
T Consensus       107 yFKQgKy~EAIDCYs~~ia~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~~~EAKk  186 (536)
T KOG4648|consen  107 YFKQGKYEEAIDCYSTAIAVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGNNMEAKK  186 (536)
T ss_pred             hhhccchhHHHHHhhhhhccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            44455555555555432 2233 444444444445555555555555555544444433444444444444444444444


Q ss_pred             HHHHh
Q 040576          576 LRRIM  580 (641)
Q Consensus       576 ~~~~m  580 (641)
                      -.+..
T Consensus       187 D~E~v  191 (536)
T KOG4648|consen  187 DCETV  191 (536)
T ss_pred             hHHHH
Confidence            44444

>PRK15331 chaperone protein SicA; Provisional

Probab=95.52  E-value=0.4  Score=40.95  Aligned_cols=84  Identities=6%  Similarity=-0.097  Sum_probs=36.5

Q ss_pred             HHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHH
Q 040576          428 GMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDS  507 (641)
Q Consensus       428 ~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  507 (641)
                      ...|++++|..+|+-+.-.+.. +..-+..|..+|-..+++++|+..|..... .. .-|+..+-....+|...|+.+.|
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  124 (165)
T PRK15331         48 YNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFT-LL-KNDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-cc-cCCCCccchHHHHHHHhCCHHHH
Confidence            3445555555555544443211 223333344444444555555555554433 11 11122222334455555555555


Q ss_pred             HHHHHhC
Q 040576          508 EELVSKL  514 (641)
Q Consensus       508 ~~~~~~~  514 (641)
                      ...|+..
T Consensus       125 ~~~f~~a  131 (165)
T PRK15331        125 RQCFELV  131 (165)
T ss_pred             HHHHHHH
Confidence            5555444

>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=95.48  E-value=0.22  Score=40.90  Aligned_cols=49  Identities=16%  Similarity=0.303  Sum_probs=32.1

Q ss_pred             CCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHH
Q 040576          448 PTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVD  496 (641)
Q Consensus       448 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  496 (641)
                      ..|+..+..+++.+|+..|++..|.++.+...+.++++.+..+|..|++
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            4566666666667666667777777777766666666656666665554

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.48  E-value=1.3  Score=41.62  Aligned_cols=166  Identities=13%  Similarity=0.052  Sum_probs=85.1

Q ss_pred             HHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhC
Q 040576          404 LARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYK  483 (641)
Q Consensus       404 ~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  483 (641)
                      ...+.+++...+....--.-.......|++.+|..+|+...+.... +...-..+..+|...|+++.|..++..+-.. -
T Consensus       121 qlr~~ld~~~~~~~e~~~~~~~~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~-~  198 (304)
T COG3118         121 QLRQFLDKVLPAEEEEALAEAKELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQ-A  198 (304)
T ss_pred             HHHHHHHHhcChHHHHHHHHhhhhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCccc-c
Confidence            3444444444332222222233445667777777777776665322 2344455666777777777777777665331 0


Q ss_pred             CCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CCCCchHHHH
Q 040576          484 IEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELE--PRDPGPYVLL  560 (641)
Q Consensus       484 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--p~~~~~~~~l  560 (641)
                      -.........-+..+.+.....+..++-.+....| |...-..+...+...|+.+.|...+-.+++.+  -.+...-..|
T Consensus       199 ~~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~l  278 (304)
T COG3118         199 QDKAAHGLQAQIELLEQAAATPEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTL  278 (304)
T ss_pred             hhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHH
Confidence            01111112223444445444444444444443334 34445556666667777777766666655543  3344555666


Q ss_pred             HHHHHhcCChH
Q 040576          561 SNIYASEGKWD  571 (641)
Q Consensus       561 ~~~~~~~g~~~  571 (641)
                      ..++.-.|.-+
T Consensus       279 le~f~~~g~~D  289 (304)
T COG3118         279 LELFEAFGPAD  289 (304)
T ss_pred             HHHHHhcCCCC
Confidence            66666555333

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=95.45  E-value=2.1  Score=42.33  Aligned_cols=164  Identities=9%  Similarity=-0.024  Sum_probs=102.5

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHHh---hccHHHHHHHHHHhHHhhCCCCchHHHH
Q 040576          419 SWNSMIMGYGMHGQGEKALEMFMEMEKRG---PTPNDATFICVLSACTH---AGMVLEGWWYFDLMQRIYKIEPKVEHYG  492 (641)
Q Consensus       419 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g---~~p~~~~~~~ll~~~~~---~g~~~~a~~~~~~~~~~~~~~p~~~~~~  492 (641)
                      ....++-+|....+++..+++.+.|...-   +.-....-....-++.+   .|+.++|.+++..+.. ..-.++.++|.
T Consensus       143 iv~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~-~~~~~~~d~~g  221 (374)
T PF13281_consen  143 IVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLE-SDENPDPDTLG  221 (374)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHh-ccCCCChHHHH
Confidence            34456667999999999999999998741   11122222234445666   8999999999999655 35667788888


Q ss_pred             HHHHHHh----h-----cCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCC-H---HHHHHHH---HHHH-hcC---C
Q 040576          493 CMVDLLG----R-----AGLMRDSEELVSKL-PMEAGPALWGALLSACSTHSN-S---ELGKIVA---QHLM-ELE---P  551 (641)
Q Consensus       493 ~li~~~~----~-----~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~g~-~---~~a~~~~---~~~~-~~~---p  551 (641)
                      .++..|-    .     ...+++|++.|.+. ..+|+...--.++..+...|. .   .+...+-   .... +.+   +
T Consensus       222 L~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~  301 (374)
T PF13281_consen  222 LLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEK  301 (374)
T ss_pred             HHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccc
Confidence            8777663    2     22478899999886 445654322222222223332 1   1222222   1111 111   1


Q ss_pred             -CCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 040576          552 -RDPGPYVLLSNIYASEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       552 -~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  583 (641)
                       .+-..+..++.++.-.|++++|.+..++|...
T Consensus       302 ~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  302 MQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence             23345667888899999999999999999543

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.44  E-value=0.47  Score=44.41  Aligned_cols=121  Identities=12%  Similarity=0.038  Sum_probs=87.6

Q ss_pred             HHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHH---HHHHHHhcCCH
Q 040576          460 SACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGA---LLSACSTHSNS  536 (641)
Q Consensus       460 ~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---l~~~~~~~g~~  536 (641)
                      ......|++.+|...|+.....  .+-+...-..|+.+|...|+.+.|..++..+|.+-...-+..   -+..+.+..+.
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~--~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQA--APENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHh--CcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcC
Confidence            3456789999999999999871  223356667789999999999999999999975544444443   22223333332


Q ss_pred             HHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 040576          537 ELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       537 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  583 (641)
                      .+. ..++.-...+|+|...-..++..|...|+.++|.+.+=.+..+
T Consensus       220 ~~~-~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~  265 (304)
T COG3118         220 PEI-QDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRR  265 (304)
T ss_pred             CCH-HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            222 2234455678999999999999999999999999987777554

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.40  E-value=0.62  Score=46.76  Aligned_cols=61  Identities=15%  Similarity=0.080  Sum_probs=32.2

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcCC--CCh----hHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 040576          385 DVLLSTSLLTMYAKCGVMDLARNVFDNMTE--KNV----VSWNSMIMGYGMHGQGEKALEMFMEMEK  445 (641)
Q Consensus       385 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~----~~~~~li~~~~~~~~~~~A~~~~~~m~~  445 (641)
                      +...++.+..+|.+.|++++|+..|++..+  |+.    .+|..+..+|...|+.++|++.+++..+
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344555555555555555555555555442  322    2355555555555555555555555554

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.34  E-value=5.1  Score=43.21  Aligned_cols=53  Identities=13%  Similarity=0.140  Sum_probs=38.7

Q ss_pred             HHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 040576          494 MVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLM  547 (641)
Q Consensus       494 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  547 (641)
                      ++..+....+.+++..+.+..+. -++..|..++..+.+.+.++.-.+...+++
T Consensus       711 l~~~~~q~~d~E~~it~~~~~g~-~~p~l~~~~L~yF~~~~~i~~~~~~v~~vl  763 (933)
T KOG2114|consen  711 LMLYFQQISDPETVITLCERLGK-EDPSLWLHALKYFVSEESIEDCYEIVYKVL  763 (933)
T ss_pred             HHHHHHHhhChHHHHHHHHHhCc-cChHHHHHHHHHHhhhcchhhHHHHHHHHH
Confidence            45567777888888888888763 378888888988888887666655555544

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.25  E-value=0.14  Score=47.30  Aligned_cols=56  Identities=14%  Similarity=0.116  Sum_probs=32.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCC---CchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          526 LLSACSTHSNSELGKIVAQHLMELEPRD---PGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       526 l~~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      |..++...|+++.|...|..+.+-.|++   |..+.-|+.+..+.|+.++|..++++..
T Consensus       184 LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~  242 (262)
T COG1729         184 LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVI  242 (262)
T ss_pred             HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            4555555566666666665555544433   3455556666666666666666666653

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.23  E-value=1.1  Score=46.73  Aligned_cols=161  Identities=14%  Similarity=0.047  Sum_probs=101.5

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHC-CCCCCH-----HHHHHHHHHHH----hhccHHHHHHHHHHhHHhhCCCCch
Q 040576          419 SWNSMIMGYGMHGQGEKALEMFMEMEKR-GPTPND-----ATFICVLSACT----HAGMVLEGWWYFDLMQRIYKIEPKV  488 (641)
Q Consensus       419 ~~~~li~~~~~~~~~~~A~~~~~~m~~~-g~~p~~-----~~~~~ll~~~~----~~g~~~~a~~~~~~~~~~~~~~p~~  488 (641)
                      .+..++....-.|+-+.+++.+.+..+. |+.-..     -.|..++..+.    ...+.+.|.++++.+.+   .-|+.
T Consensus       190 ~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~---~yP~s  266 (468)
T PF10300_consen  190 KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLK---RYPNS  266 (468)
T ss_pred             HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHH---hCCCc
Confidence            3444555555567777777777665543 222111     12333333222    24567788888888877   33665


Q ss_pred             HHHHH-HHHHHhhcCCHHHHHHHHHhCC------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHH-
Q 040576          489 EHYGC-MVDLLGRAGLMRDSEELVSKLP------MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLL-  560 (641)
Q Consensus       489 ~~~~~-li~~~~~~g~~~~A~~~~~~~~------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l-  560 (641)
                      ..|.. -.+.+...|++++|++.|++.-      .+.....+.-+..++....++++|...+.++.+...-+...|..+ 
T Consensus       267 ~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~  346 (468)
T PF10300_consen  267 ALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLA  346 (468)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHH
Confidence            44443 4566778889999999988652      112233455667778888899999999999888776655554444 


Q ss_pred             HHHHHhcCCh-------HHHHHHHHHhhh
Q 040576          561 SNIYASEGKW-------DEVENLRRIMKE  582 (641)
Q Consensus       561 ~~~~~~~g~~-------~~A~~~~~~m~~  582 (641)
                      +.+|...|+.       ++|.+++++...
T Consensus       347 a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  347 AACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            4556677888       888888888754

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.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.21  E-value=7  Score=44.01  Aligned_cols=159  Identities=13%  Similarity=0.029  Sum_probs=94.7

Q ss_pred             CChHHHHHHHhhCCCCCchhHHHHHHHHhcCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhcCCCCc
Q 040576          237 REVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNV  316 (641)
Q Consensus       237 g~~~~A~~~~~~m~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~  316 (641)
                      ++++.|+.-+..+.   ...|.-.++.--+.|-++.|+.++..-.+.-..+|.+..+.+.....+++|.-.|+...+   
T Consensus       894 ~ry~~AL~hLs~~~---~~~~~e~~n~I~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---  967 (1265)
T KOG1920|consen  894 KRYEDALSHLSECG---ETYFPECKNYIKKHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---  967 (1265)
T ss_pred             HHHHHHHHHHHHcC---ccccHHHHHHHHhcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---
Confidence            44555555555442   223334444444555555555555433333355666666777777888888777777643   


Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 040576          317 VSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEA--SLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLT  394 (641)
Q Consensus       317 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  394 (641)
                        ....+.+|..+|+|.+|+.+..+|..   .-+..  +-..|..-+...++.-+|-++..+....        ..-.+.
T Consensus       968 --lekAl~a~~~~~dWr~~l~~a~ql~~---~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd--------~~~av~ 1034 (1265)
T KOG1920|consen  968 --LEKALKAYKECGDWREALSLAAQLSE---GKDELVILAEELVSRLVEQRKHYEAAKILLEYLSD--------PEEAVA 1034 (1265)
T ss_pred             --HHHHHHHHHHhccHHHHHHHHHhhcC---CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC--------HHHHHH
Confidence              23456778888888888888887743   12222  1245666667777777776666555432        123456


Q ss_pred             HHHhcCCHHHHHHHHhhcCC
Q 040576          395 MYAKCGVMDLARNVFDNMTE  414 (641)
Q Consensus       395 ~~~~~g~~~~A~~~~~~~~~  414 (641)
                      .||+...|++|.++-.....
T Consensus      1035 ll~ka~~~~eAlrva~~~~~ 1054 (1265)
T KOG1920|consen 1035 LLCKAKEWEEALRVASKAKR 1054 (1265)
T ss_pred             HHhhHhHHHHHHHHHHhccc
Confidence            67777888888877766553

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.17  E-value=2.6  Score=38.89  Aligned_cols=141  Identities=16%  Similarity=0.209  Sum_probs=79.8

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHH
Q 040576          419 SWNSMIMGYGMHGQGEKALEMFMEMEKRGP--TPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVD  496 (641)
Q Consensus       419 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~--~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  496 (641)
                      .|-.=+..-.+.|++++|...|+.+..+.+  +-...+...++-++.+.+++++|+...++..+.++-.||+. |...+.
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            333444445567888888888888776521  11244566666777778888888888888777566666643 333333


Q ss_pred             HHhhcCCHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-----------------chHH
Q 040576          497 LLGRAGLMRDSEELVSKLP-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDP-----------------GPYV  558 (641)
Q Consensus       497 ~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~-----------------~~~~  558 (641)
                      +++          .|..++ ...|.             .-...|...++.++..-|++.                 ..=.
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            333          111111 00111             112223333333444444432                 2234


Q ss_pred             HHHHHHHhcCChHHHHHHHHHhhhC
Q 040576          559 LLSNIYASEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       559 ~l~~~~~~~g~~~~A~~~~~~m~~~  583 (641)
                      .+++-|.+.|.|..|..-++.|.+.
T Consensus       172 ~IaryY~kr~~~~AA~nR~~~v~e~  196 (254)
T COG4105         172 AIARYYLKRGAYVAAINRFEEVLEN  196 (254)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHhc
Confidence            5677899999999999999998655

>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=95.17  E-value=0.94  Score=46.49  Aligned_cols=127  Identities=16%  Similarity=0.156  Sum_probs=62.1

Q ss_pred             HHHHHHHHHhCCChHHHHHHHhhCCCCCchhHHHHHHHHhcCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHH
Q 040576          226 WNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSAR  305 (641)
Q Consensus       226 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~  305 (641)
                      .+.++.-+-+.|..+.|+++...     .   ..-.....+.|+++.|.++..+..  +...|..|.+...+.|+++-|+
T Consensus       298 ~~~i~~fL~~~G~~e~AL~~~~D-----~---~~rFeLAl~lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe  367 (443)
T PF04053_consen  298 GQSIARFLEKKGYPELALQFVTD-----P---DHRFELALQLGNLDIALEIAKELD--DPEKWKQLGDEALRQGNIELAE  367 (443)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHSS------H---HHHHHHHHHCT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHhhcCC-----h---HHHhHHHHhcCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHH
Confidence            44445555555555555554332     1   122233445556665555554443  3345666666666666666666


Q ss_pred             HHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Q 040576          306 NCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWI  373 (641)
Q Consensus       306 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~  373 (641)
                      +.|.+...     |..|+-.|.-.|+.+.-.++.+.....|-      ++....++.-.|+.++..++
T Consensus       368 ~c~~k~~d-----~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~~~cv~l  424 (443)
T PF04053_consen  368 ECYQKAKD-----FSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAALLLGDVEECVDL  424 (443)
T ss_dssp             HHHHHCT------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHH
T ss_pred             HHHHhhcC-----ccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHHHHcCCHHHHHHH
Confidence            66665433     55566666666666666555555555441      33334444444555544333

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.

>PRK11906 transcriptional regulator; Provisional

Probab=95.16  E-value=1.4  Score=44.35  Aligned_cols=141  Identities=9%  Similarity=0.007  Sum_probs=94.7

Q ss_pred             CHHHHHHHHhhcC---CCC---hhHHHHHHHHHHHc---------CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhh
Q 040576          401 VMDLARNVFDNMT---EKN---VVSWNSMIMGYGMH---------GQGEKALEMFMEMEKRGPTPNDATFICVLSACTHA  465 (641)
Q Consensus       401 ~~~~A~~~~~~~~---~~~---~~~~~~li~~~~~~---------~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  465 (641)
                      ..+.|..+|.+..   +-|   ...|..+..++...         ....+|.++-++..+.+. -|+.....+..+....
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~-~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITT-VDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHhh
Confidence            4577888899887   433   34555554444322         234567777777887653 3777777777777888


Q ss_pred             ccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHh-CCCCCCH---HHHHHHHHHHHhcCCHHHHH
Q 040576          466 GMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSK-LPMEAGP---ALWGALLSACSTHSNSELGK  540 (641)
Q Consensus       466 g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~-~~~~~~~---~~~~~l~~~~~~~g~~~~a~  540 (641)
                      |+++.|...|++...   +.|| ...|......+.-.|+.++|.+.+++ +...|..   ......+..|..+ ..+.|+
T Consensus       352 ~~~~~a~~~f~rA~~---L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~-~~~~~~  427 (458)
T PRK11906        352 GQAKVSHILFEQAKI---HSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPN-PLKNNI  427 (458)
T ss_pred             cchhhHHHHHHHHhh---cCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCC-chhhhH
Confidence            889999999999977   6777 45566666667779999999999998 4444543   3333344455555 456677


Q ss_pred             HHHHHH
Q 040576          541 IVAQHL  546 (641)
Q Consensus       541 ~~~~~~  546 (641)
                      .+|-+-
T Consensus       428 ~~~~~~  433 (458)
T PRK11906        428 KLYYKE  433 (458)
T ss_pred             HHHhhc
Confidence            766543

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=95.14  E-value=0.061  Score=46.26  Aligned_cols=69  Identities=19%  Similarity=0.136  Sum_probs=45.2

Q ss_pred             HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC----hHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCC
Q 040576          536 SELGKIVAQHLMELEPRDPGPYVLLSNIYASEGK----WDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPH  611 (641)
Q Consensus       536 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~----~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~  611 (641)
                      +++|+.-|+.++.++|+...++..++++|...+.    ..+|.++|++..+-               |.  +....+|++
T Consensus        51 iedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~---------------Fq--kAv~~~P~n  113 (186)
T PF06552_consen   51 IEDAISKFEEALKINPNKHDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEY---------------FQ--KAVDEDPNN  113 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHH---------------HH--HHHHH-TT-
T ss_pred             HHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHH---------------HH--HHHhcCCCc
Confidence            5667788888899999999999999999886653    34455555554321               11  116788999


Q ss_pred             chhhHHHHHHHH
Q 040576          612 RKCIVYSMLGEI  623 (641)
Q Consensus       612 ~~~~~~~~l~~l  623 (641)
                      +.  ....|+.-
T Consensus       114 e~--Y~ksLe~~  123 (186)
T PF06552_consen  114 EL--YRKSLEMA  123 (186)
T ss_dssp             HH--HHHHHHHH
T ss_pred             HH--HHHHHHHH
Confidence            88  77777664

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.11  E-value=2.9  Score=42.32  Aligned_cols=143  Identities=13%  Similarity=0.066  Sum_probs=67.0

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCH
Q 040576          323 LALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVM  402 (641)
Q Consensus       323 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  402 (641)
                      |.-.-+..+.+.-+++-++..+  +.||-.+.-.++ +--......++++++++..+.|-.    .       |.+....
T Consensus       175 Mq~AWRERnp~aRIkaA~eALe--i~pdCAdAYILL-AEEeA~Ti~Eae~l~rqAvkAgE~----~-------lg~s~~~  240 (539)
T PF04184_consen  175 MQKAWRERNPQARIKAAKEALE--INPDCADAYILL-AEEEASTIVEAEELLRQAVKAGEA----S-------LGKSQFL  240 (539)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHH--hhhhhhHHHhhc-ccccccCHHHHHHHHHHHHHHHHH----h-------hchhhhh
Confidence            3333445555665666666655  345543332222 223344567777777776664410    0       0000000


Q ss_pred             HHHHHHHhhcCCCC----hhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhhccHHHHHHHHHH
Q 040576          403 DLARNVFDNMTEKN----VVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTP-NDATFICVLSACTHAGMVLEGWWYFDL  477 (641)
Q Consensus       403 ~~A~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~  477 (641)
                      ...-..++....++    ...-..+..+..+.|+.++|++.|++|.+....- +......|+.++...+.+.++..++.+
T Consensus       241 ~~~g~~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~k  320 (539)
T PF04184_consen  241 QHHGHFWEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAK  320 (539)
T ss_pred             hcccchhhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            00000111111111    1222335555566677777777777766532111 222455566666666777666666665


Q ss_pred             hH
Q 040576          478 MQ  479 (641)
Q Consensus       478 ~~  479 (641)
                      -.
T Consensus       321 Yd  322 (539)
T PF04184_consen  321 YD  322 (539)
T ss_pred             hc
Confidence            43

The molecular function of this protein is uncertain.

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.10  E-value=0.067  Score=32.06  Aligned_cols=32  Identities=25%  Similarity=0.256  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 040576          522 LWGALLSACSTHSNSELGKIVAQHLMELEPRD  553 (641)
Q Consensus       522 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  553 (641)
                      .|..+...+...|++++|+..++++++++|+|
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            45566667777777777777777777777764

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 ....

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.09  E-value=0.84  Score=38.03  Aligned_cols=116  Identities=15%  Similarity=0.086  Sum_probs=64.6

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhh
Q 040576          423 MIMGYGMHGQGEKALEMFMEMEKRGP--TPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGR  500 (641)
Q Consensus       423 li~~~~~~~~~~~A~~~~~~m~~~g~--~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~  500 (641)
                      -.....+.|++++|.+.|+.+..+-.  .-....-..++.++.+.|++++|...+++.++.+.-.|++ -|.....+++.
T Consensus        16 ~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~v-dYa~Y~~gL~~   94 (142)
T PF13512_consen   16 EAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNV-DYAYYMRGLSY   94 (142)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCc-cHHHHHHHHHH
Confidence            34445566777777777777776521  1123455567777777777777777777777733333332 23333334333


Q ss_pred             cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 040576          501 AGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDP  554 (641)
Q Consensus       501 ~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  554 (641)
                      ....+..+.-+-  ..+             ...+....|...|+.+++.-|++.
T Consensus        95 ~~~~~~~~~~~~--~~d-------------rD~~~~~~A~~~f~~lv~~yP~S~  133 (142)
T PF13512_consen   95 YEQDEGSLQSFF--RSD-------------RDPTPARQAFRDFEQLVRRYPNSE  133 (142)
T ss_pred             HHHhhhHHhhhc--ccc-------------cCcHHHHHHHHHHHHHHHHCcCCh
Confidence            222221111111  111             122335678888899999999875

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.09  E-value=0.049  Score=32.76  Aligned_cols=32  Identities=22%  Similarity=0.134  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 040576          521 ALWGALLSACSTHSNSELGKIVAQHLMELEPR  552 (641)
Q Consensus       521 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  552 (641)
                      ..|..+..++...|++++|+..++++++++|+
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            45667777777788888888888888877775

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 ....

>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=95.03  E-value=0.31  Score=41.62  Aligned_cols=71  Identities=17%  Similarity=0.205  Sum_probs=44.0

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHH----hhCCCCchHH
Q 040576          419 SWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQR----IYKIEPKVEH  490 (641)
Q Consensus       419 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~----~~~~~p~~~~  490 (641)
                      ....++..+...|++++|..+.+++.... +-+...|..++.++...|+..+|.++|+.+.+    ..|+.|+..+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            34556666777788888888888777753 22556777788888888888888877776643    3577777554

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=95.03  E-value=1.3  Score=39.40  Aligned_cols=179  Identities=16%  Similarity=0.116  Sum_probs=97.5

Q ss_pred             CCHHHHHHHHhhcC--CC-ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHH
Q 040576          400 GVMDLARNVFDNMT--EK-NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFD  476 (641)
Q Consensus       400 g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  476 (641)
                      |-++-|+--|.+..  .| -+..||-+.--+...|+++.|.+.|+...+....-+-...+.-| ++.-.|+++-|.+-|.
T Consensus        79 GL~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi-~~YY~gR~~LAq~d~~  157 (297)
T COG4785          79 GLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGI-ALYYGGRYKLAQDDLL  157 (297)
T ss_pred             hHHHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccce-eeeecCchHhhHHHHH
Confidence            44444444444333  23 24567777777888888888888888887753332222222222 2334577777776665


Q ss_pred             HhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHH-hcCCHHHHHHHHHHHHhcCCCC--
Q 040576          477 LMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACS-THSNSELGKIVAQHLMELEPRD--  553 (641)
Q Consensus       477 ~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~a~~~~~~~~~~~p~~--  553 (641)
                      ..-+...-.|-...|-.++   .+.-++.+|..-+.+--.+-+..-|...+-.+. .+=..   +.+++++.+...++  
T Consensus       158 ~fYQ~D~~DPfR~LWLYl~---E~k~dP~~A~tnL~qR~~~~d~e~WG~~iV~~yLgkiS~---e~l~~~~~a~a~~n~~  231 (297)
T COG4785         158 AFYQDDPNDPFRSLWLYLN---EQKLDPKQAKTNLKQRAEKSDKEQWGWNIVEFYLGKISE---ETLMERLKADATDNTS  231 (297)
T ss_pred             HHHhcCCCChHHHHHHHHH---HhhCCHHHHHHHHHHHHHhccHhhhhHHHHHHHHhhccH---HHHHHHHHhhccchHH
Confidence            5533112222223333222   234456666654433212345555554444332 22111   23334443333332  


Q ss_pred             -----CchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 040576          554 -----PGPYVLLSNIYASEGKWDEVENLRRIMKEKEL  585 (641)
Q Consensus       554 -----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  585 (641)
                           .++|.-|+.-|...|+.++|..+++-....++
T Consensus       232 ~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiannV  268 (297)
T COG4785         232 LAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANNV  268 (297)
T ss_pred             HHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhH
Confidence                 35889999999999999999999998866543

>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=94.98  E-value=0.31  Score=40.05  Aligned_cols=48  Identities=21%  Similarity=0.322  Sum_probs=33.8

Q ss_pred             CCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC----CCCCCHHHHHHHHHHH
Q 040576          483 KIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL----PMEAGPALWGALLSAC  530 (641)
Q Consensus       483 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~~~~~~~~~l~~~~  530 (641)
                      ...|+..+..+++.+|+..|++..|+++++..    +++-+...|..|+.-+
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            45577777788888888888888888777655    4445566777777643

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.98  E-value=1.7  Score=36.78  Aligned_cols=85  Identities=12%  Similarity=0.003  Sum_probs=43.8

Q ss_pred             HHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCeeHHHHHHHHHHhCCChH
Q 040576          161 PLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVG  240 (641)
Q Consensus       161 ~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~  240 (641)
                      ..++..+...+.+.....+++.+.+.+ ..+...++.++..|++.+ ..+..+.++.  ..+......+++.|.+.+.++
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            345555555556666666666666555 245556666666666543 2333344431  122333344555555555555


Q ss_pred             HHHHHHhhC
Q 040576          241 FARELFDFM  249 (641)
Q Consensus       241 ~A~~~~~~m  249 (641)
                      ++.-++.++
T Consensus        87 ~~~~l~~k~   95 (140)
T smart00299       87 EAVELYKKD   95 (140)
T ss_pred             HHHHHHHhh
Confidence            555555443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.96  E-value=1.4  Score=37.32  Aligned_cols=39  Identities=15%  Similarity=0.114  Sum_probs=15.5

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 040576          358 LTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYA  397 (641)
Q Consensus       358 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  397 (641)
                      +..+...+.......+++.+...+ ..+....+.++..|+
T Consensus        14 v~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~   52 (140)
T smart00299       14 VELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYA   52 (140)
T ss_pred             HHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHH
Confidence            333333344444444444444333 133333344444443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.79  E-value=0.33  Score=44.96  Aligned_cols=95  Identities=17%  Similarity=0.204  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHH
Q 040576          419 SWNSMIMGYGMHGQGEKALEMFMEMEKRGPTP--NDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMV  495 (641)
Q Consensus       419 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li  495 (641)
                      .|+.-+..| +.|++.+|...|....+....-  ....+..|..++...|+++.|..+|..+.+.++-.|. ++.+--|.
T Consensus       144 ~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            355544444 4566777777777776653211  1234556677777777777777777777664444444 35555666


Q ss_pred             HHHhhcCCHHHHHHHHHhC
Q 040576          496 DLLGRAGLMRDSEELVSKL  514 (641)
Q Consensus       496 ~~~~~~g~~~~A~~~~~~~  514 (641)
                      ....+.|+.++|...|++.
T Consensus       223 ~~~~~l~~~d~A~atl~qv  241 (262)
T COG1729         223 VSLGRLGNTDEACATLQQV  241 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHH
Confidence            6666666666666666655

>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=94.79  E-value=1.1  Score=45.88  Aligned_cols=157  Identities=9%  Similarity=-0.033  Sum_probs=103.1

Q ss_pred             HHHHhCCChHHHHHHHh--hCC-CCCchhHHHHHHHHhcCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHH
Q 040576          231 DGYVKNREVGFARELFD--FMP-ERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNC  307 (641)
Q Consensus       231 ~~~~~~g~~~~A~~~~~--~m~-~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~  307 (641)
                      ....-.|+++++.++..  ++. .-+..-.+.++.-+-+.|..+.|+++-..-        ..--+...++|+++.|.++
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~--------~~rFeLAl~lg~L~~A~~~  340 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPNIPKDQGQSIARFLEKKGYPELALQFVTDP--------DHRFELALQLGNLDIALEI  340 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG--HHHHHHHHHHHHHTT-HHHHHHHSS-H--------HHHHHHHHHCT-HHHHHHH
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccCChhHHHHHHHHHHHCCCHHHHHhhcCCh--------HHHhHHHHhcCCHHHHHHH
Confidence            34455777887666554  221 112445778888888999999998886532        2445667788999999888


Q ss_pred             HHhcCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchh
Q 040576          308 FDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVL  387 (641)
Q Consensus       308 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  387 (641)
                      -++..  +...|..|.......|+++-|.+.|.+..+         |..++-.|.-.|+.+...++.+.....|-     
T Consensus       341 a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~~-----  404 (443)
T PF04053_consen  341 AKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERGD-----  404 (443)
T ss_dssp             CCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT------
T ss_pred             HHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHccC-----
Confidence            77655  556899999999999999999999988754         66777778888888888888877777652     


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhc
Q 040576          388 LSTSLLTMYAKCGVMDLARNVFDNM  412 (641)
Q Consensus       388 ~~~~li~~~~~~g~~~~A~~~~~~~  412 (641)
                       ++....++...|+.++..+++.+.
T Consensus       405 -~n~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  405 -INIAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             -HHHHHHHHHHHT-HHHHHHHHHHT
T ss_pred             -HHHHHHHHHHcCCHHHHHHHHHHc
Confidence             344445555667777766666543

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.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.74  E-value=0.18  Score=46.49  Aligned_cols=73  Identities=14%  Similarity=-0.036  Sum_probs=54.7

Q ss_pred             CCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCC----------------CchhHHHHHHHHHHhCCCCChhHHHHH
Q 040576          135 NDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIR----------------SLREGKKVHARIVKCGFELDLFVRNSL  198 (641)
Q Consensus       135 g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~----------------~~~~a~~~~~~~~~~g~~~~~~~~~~l  198 (641)
                      +.++-....++ .|++.|+.-|..+|+.||..+-+-.                .-+-+..++++|...|+.||..+-..|
T Consensus        86 ~HveFIy~ALk-~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~l  164 (406)
T KOG3941|consen   86 THVEFIYTALK-YMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDIL  164 (406)
T ss_pred             chHHHHHHHHH-HHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHH
Confidence            33444444556 7888888888888888887765432                224577899999999999999999999


Q ss_pred             HHHHHhcCCH
Q 040576          199 IHMYSVCGEV  208 (641)
Q Consensus       199 i~~~~~~g~~  208 (641)
                      ++++.+.|..
T Consensus       165 vn~FGr~~~p  174 (406)
T KOG3941|consen  165 VNAFGRWNFP  174 (406)
T ss_pred             HHHhcccccc
Confidence            9999887753

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.73  E-value=1.2  Score=46.35  Aligned_cols=115  Identities=17%  Similarity=0.128  Sum_probs=72.5

Q ss_pred             cCCHHHHHHHHhhcCC--CChhHHHHH-HHHHHHcCChHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHHhhccHHHHH
Q 040576          399 CGVMDLARNVFDNMTE--KNVVSWNSM-IMGYGMHGQGEKALEMFMEMEKRG---PTPNDATFICVLSACTHAGMVLEGW  472 (641)
Q Consensus       399 ~g~~~~A~~~~~~~~~--~~~~~~~~l-i~~~~~~~~~~~A~~~~~~m~~~g---~~p~~~~~~~ll~~~~~~g~~~~a~  472 (641)
                      ....+.|.++++.+.+  |+...|... .+.+...|+.++|++.|++.....   .+.....+--+...+.-.++|++|.
T Consensus       246 ~~~~~~a~~lL~~~~~~yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~  325 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKRYPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAA  325 (468)
T ss_pred             CCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHH
Confidence            4566778888887776  666666544 345566788888888888655321   1122334555666777788888888


Q ss_pred             HHHHHhHHhhCCCCchHHHHHH-HHHHhhcCCH-------HHHHHHHHhCC
Q 040576          473 WYFDLMQRIYKIEPKVEHYGCM-VDLLGRAGLM-------RDSEELVSKLP  515 (641)
Q Consensus       473 ~~~~~~~~~~~~~p~~~~~~~l-i~~~~~~g~~-------~~A~~~~~~~~  515 (641)
                      +.|..+.+...-  +...|..+ .-++...|+.       ++|.++|.+.+
T Consensus       326 ~~f~~L~~~s~W--Ska~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  326 EYFLRLLKESKW--SKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHHhcccc--HHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            888888773222  23333332 3345566666       78888887763

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.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=94.72  E-value=6.2  Score=40.98  Aligned_cols=408  Identities=12%  Similarity=0.069  Sum_probs=217.6

Q ss_pred             CcccHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcc-hHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHH
Q 040576          120 DAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHY-TFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSL  198 (641)
Q Consensus       120 ~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  198 (641)
                      +-..|+.+|.---...+...+...|. .+...  .|..+ -|......=.+.|..+.+.++|++-+. |++.+...|...
T Consensus        44 ~f~~wt~li~~~~~~~~~~~~r~~y~-~fL~k--yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~-aip~SvdlW~~Y  119 (577)
T KOG1258|consen   44 DFDAWTTLIQENDSIEDVDALREVYD-IFLSK--YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQ-AIPLSVDLWLSY  119 (577)
T ss_pred             cccchHHHHhccCchhHHHHHHHHHH-HHHhh--CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH-hhhhHHHHHHHH
Confidence            44567777765555555555555665 44432  34433 344444444567778888888887775 456677777666


Q ss_pred             HHHHH-hcCCHHHHHHHHhcCC------CCCeeHHHHHHHHHHhCCChHHHHHHHhhCCCCCchhHHHHHHHHhc---C-
Q 040576          199 IHMYS-VCGEVLDARKVFEDGP------VWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVD---V-  267 (641)
Q Consensus       199 i~~~~-~~g~~~~A~~~~~~~~------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~ll~~~~~---~-  267 (641)
                      +..+. ..|+.+...+.|+...      -.....|-..|.--...+++.....+|++..+-...-|+..-.-|.+   . 
T Consensus       120 ~~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRileiP~~~~~~~f~~f~~~l~~~  199 (577)
T KOG1258|consen  120 LAFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEIPLHQLNRHFDRFKQLLNQN  199 (577)
T ss_pred             HHHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhcC
Confidence            65554 3566666777776522      12445577777766777777777777777755444444433332221   1 


Q ss_pred             -----CChHHHHHHHhhcCCCCchHHHHHHHHHHhcC-ChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHHHH
Q 040576          268 -----GDMEAANGLFDLMPFRDVVSWNCMIDGYAKIG-NVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDR  341 (641)
Q Consensus       268 -----g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~-~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  341 (641)
                           ...+++.++-......         ......+ ..+.-....+....+              .+..+++.....+
T Consensus       200 ~~~~l~~~d~~~~l~~~~~~~---------~~~~~~~~~~e~~~~~v~~~~~~--------------s~~l~~~~~~l~~  256 (577)
T KOG1258|consen  200 EEKILLSIDELIQLRSDVAER---------SKITHSQEPLEELEIGVKDSTDP--------------SKSLTEEKTILKR  256 (577)
T ss_pred             ChhhhcCHHHHHHHhhhHHhh---------hhcccccChhHHHHHHHhhccCc--------------cchhhHHHHHHHH
Confidence                 1111111110000000         0000000 000000000000000              0011111111111


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHc---CC----CCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC
Q 040576          342 MIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKC---RI----KPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE  414 (641)
Q Consensus       342 m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~---~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  414 (641)
                      ...           .--.++-..-........++.-++.   .+    +++...|...++--.+.|+.+.+.-.|++..-
T Consensus       257 ~~~-----------~~~~~~~~s~~~~~kr~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli  325 (577)
T KOG1258|consen  257 IVS-----------IHEKVYQKSEEEEEKRWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLI  325 (577)
T ss_pred             HHH-----------HHHHHHHhhHhHHHHHHhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHh
Confidence            000           0000111111122222223333222   11    22456777777888888999999999988875


Q ss_pred             C---ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHH
Q 040576          415 K---NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEH  490 (641)
Q Consensus       415 ~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~  490 (641)
                      |   =...|-..+.-....|+.+-|..++....+--++-.+.+-..-..-+...|++..|..+++.+...  . |+ +..
T Consensus       326 ~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e--~-pg~v~~  402 (577)
T KOG1258|consen  326 PCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARFEESNGNFDDAKVILQRIESE--Y-PGLVEV  402 (577)
T ss_pred             HHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHHHHhhccHHHHHHHHHHHHhh--C-Cchhhh
Confidence            3   234566666656666898888888877666433323332222222345578999999999999873  3 65 333


Q ss_pred             HHHHHHHHhhcCCHHHHH---HHHHhC-CCCCCHHHHHHHHH-----HHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHH
Q 040576          491 YGCMVDLLGRAGLMRDSE---ELVSKL-PMEAGPALWGALLS-----ACSTHSNSELGKIVAQHLMELEPRDPGPYVLLS  561 (641)
Q Consensus       491 ~~~li~~~~~~g~~~~A~---~~~~~~-~~~~~~~~~~~l~~-----~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  561 (641)
                      -..-+....+.|..+.+.   +++... +.+-+..+...+.-     .+.-.++.+.|..++.++.+..|++-..|..++
T Consensus       403 ~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~  482 (577)
T KOG1258|consen  403 VLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYKIREDADLARIILLEANDILPDCKVLYLELI  482 (577)
T ss_pred             HHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhhcCCccHHHHHHHH
Confidence            334466677888888888   555544 22233333322222     245678999999999999999999998899888


Q ss_pred             HHHHhcC
Q 040576          562 NIYASEG  568 (641)
Q Consensus       562 ~~~~~~g  568 (641)
                      ......+
T Consensus       483 ~~~~~~~  489 (577)
T KOG1258|consen  483 RFELIQP  489 (577)
T ss_pred             HHHHhCC
Confidence            8877665

>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=94.66  E-value=0.13  Score=34.52  Aligned_cols=49  Identities=14%  Similarity=0.124  Sum_probs=40.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhh
Q 040576          556 PYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMC  630 (641)
Q Consensus       556 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~  630 (641)
                      .++.++-++.+.|++++|.+..+.+                        .+.+|++..  ...+...+..++.+-
T Consensus         3 ~lY~lAig~ykl~~Y~~A~~~~~~l------------------------L~~eP~N~Q--a~~L~~~i~~~i~kd   51 (53)
T PF14853_consen    3 CLYYLAIGHYKLGEYEKARRYCDAL------------------------LEIEPDNRQ--AQSLKELIEDKIQKD   51 (53)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHH------------------------HHHTTS-HH--HHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHhhhHHHHHHHHHHH------------------------HhhCCCcHH--HHHHHHHHHHHHhcc
Confidence            4567888999999999999999999                        889999999  888888877777654

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.63  E-value=0.33  Score=44.79  Aligned_cols=100  Identities=12%  Similarity=0.116  Sum_probs=79.6

Q ss_pred             HHHHHHhhcC--CCChhHHHHHHHHHHHc-----CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhc----------
Q 040576          404 LARNVFDNMT--EKNVVSWNSMIMGYGMH-----GQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAG----------  466 (641)
Q Consensus       404 ~A~~~~~~~~--~~~~~~~~~li~~~~~~-----~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g----------  466 (641)
                      ..++.|..+.  ++|-.+|-+++..+...     +..+=....++.|.+-|+.-|..+|..|++.+-+..          
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            3455666666  57888888888887654     556667777899999999999999999999876532          


Q ss_pred             ------cHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCH
Q 040576          467 ------MVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLM  504 (641)
Q Consensus       467 ------~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  504 (641)
                            .-+-++.++++|.. +|+.||-++-..|++++++.|..
T Consensus       132 F~HYP~QQ~C~I~vLeqME~-hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  132 FLHYPQQQNCAIKVLEQMEW-HGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HhhCchhhhHHHHHHHHHHH-cCCCCchHHHHHHHHHhcccccc
Confidence                  22457889999988 99999999999999999998864

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=94.57  E-value=5.5  Score=39.71  Aligned_cols=128  Identities=12%  Similarity=0.072  Sum_probs=76.8

Q ss_pred             HHHHHHHHHHhhccHHHHHHHHHHhHHhhC-CCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHHH-HHHHHHH
Q 040576          454 TFICVLSACTHAGMVLEGWWYFDLMQRIYK-IEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPALW-GALLSAC  530 (641)
Q Consensus       454 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~~~-~~l~~~~  530 (641)
                      .|...+++..+...++.|..+|-++.+ .+ +.+++..+++++.-++ .|+..-|..+|+-- ..-||...| .-.+.-+
T Consensus       399 v~C~~~N~v~r~~Gl~aaR~~F~k~rk-~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fL  476 (660)
T COG5107         399 VFCVHLNYVLRKRGLEAARKLFIKLRK-EGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKFPDSTLYKEKYLLFL  476 (660)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhc-cCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            455566666666777777777777776 44 5566677777776543 55666777777642 223444333 4455555


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCC--CchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 040576          531 STHSNSELGKIVAQHLMELEPRD--PGPYVLLSNIYASEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       531 ~~~g~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  583 (641)
                      ...++-+.|..+|+..++.-.++  ...|..++.--..-|+...|..+=++|.+.
T Consensus       477 i~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~  531 (660)
T COG5107         477 IRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL  531 (660)
T ss_pred             HHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH
Confidence            66677777777777655422222  345666666666667766666665555443

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.52  E-value=0.044  Score=32.88  Aligned_cols=28  Identities=18%  Similarity=0.261  Sum_probs=24.1

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          555 GPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       555 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      ..+..++.+|...|++++|++.+++..+
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            4688999999999999999999999843

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 ....

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=94.19  E-value=4.6  Score=37.31  Aligned_cols=179  Identities=15%  Similarity=0.122  Sum_probs=105.5

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC------ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 040576          384 PDVLLSTSLLTMYAKCGVMDLARNVFDNMTEK------NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFIC  457 (641)
Q Consensus       384 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~  457 (641)
                      |-...|+.-+ .-.+.|++++|.+.|+.+...      ...+--.++-++.+.+++++|+...++....-..-...-|..
T Consensus        33 p~~~LY~~g~-~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~  111 (254)
T COG4105          33 PASELYNEGL-TELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAY  111 (254)
T ss_pred             CHHHHHHHHH-HHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHH
Confidence            3344555443 445779999999999999852      223556677888999999999999999887533322334444


Q ss_pred             HHHHHHh-------hccHHH---HHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHH--HHHH
Q 040576          458 VLSACTH-------AGMVLE---GWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPA--LWGA  525 (641)
Q Consensus       458 ll~~~~~-------~g~~~~---a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~  525 (641)
                      -|.+++.       ..+...   |..-|+.++.   --||..             -..+|..-+..+.   +..  .=..
T Consensus       112 YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~---ryPnS~-------------Ya~dA~~~i~~~~---d~LA~~Em~  172 (254)
T COG4105         112 YLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQ---RYPNSR-------------YAPDAKARIVKLN---DALAGHEMA  172 (254)
T ss_pred             HHHHHHHhccCCccccCHHHHHHHHHHHHHHHH---HCCCCc-------------chhhHHHHHHHHH---HHHHHHHHH
Confidence            4444442       123333   3333444433   123321             1111111111110   000  0113


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCC---chHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          526 LLSACSTHSNSELGKIVAQHLMELEPRDP---GPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       526 l~~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      +..-|.+.|.+..|..-++.+++--|+.+   ..+..+..+|...|-.++|.+.-+-+..
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            44557788888888888888887665544   3556667778888888888887766633

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=94.14  E-value=0.12  Score=44.90  Aligned_cols=86  Identities=14%  Similarity=0.067  Sum_probs=63.4

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCC-----chHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecc
Q 040576          528 SACSTHSNSELGKIVAQHLMELEPRDP-----GPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASE  602 (641)
Q Consensus       528 ~~~~~~g~~~~a~~~~~~~~~~~p~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~  602 (641)
                      +-+...|++++|..-|..++++.|.-+     ..|..-+.++.+.+.|+.|++-..+.                      
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKa----------------------  160 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKA----------------------  160 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhh----------------------
Confidence            346788999999999999999998754     36677788899999999999999988                      


Q ss_pred             cccccCCCCchhhHHHHHHHHHHHHHhhhcccccccc
Q 040576          603 SIVENCPPHRKCIVYSMLGEIGAQMKMCRRDVASQIS  639 (641)
Q Consensus       603 ~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~  639 (641)
                        +++.|....  ....=..++.++.+...++.+..+
T Consensus       161 --iel~pty~k--Al~RRAeayek~ek~eealeDyKk  193 (271)
T KOG4234|consen  161 --IELNPTYEK--ALERRAEAYEKMEKYEEALEDYKK  193 (271)
T ss_pred             --HhcCchhHH--HHHHHHHHHHhhhhHHHHHHHHHH
Confidence              555665555  444444455555555555554443

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=94.00  E-value=7.4  Score=38.95  Aligned_cols=150  Identities=10%  Similarity=-0.022  Sum_probs=83.5

Q ss_pred             CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc--hH
Q 040576          415 KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTP---NDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK--VE  489 (641)
Q Consensus       415 ~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p---~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~--~~  489 (641)
                      ....+|..++..+.+.|+++.|...+.++...+...   .+.....-...+...|+..+|+..++.... ..+..+  ..
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~-~~~~~~~~~~  222 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK-CRLSKNIDSI  222 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH-HHhhhccccc
Confidence            445678888888999999999999888887753221   233444445566677888888888877766 112111  11


Q ss_pred             HHHHHHHHHhhcCCHHHHHHH-HHhCCCCCCHHHHHHHHHHHHhc------CCHHHHHHHHHHHHhcCCCCCchHHHHHH
Q 040576          490 HYGCMVDLLGRAGLMRDSEEL-VSKLPMEAGPALWGALLSACSTH------SNSELGKIVAQHLMELEPRDPGPYVLLSN  562 (641)
Q Consensus       490 ~~~~li~~~~~~g~~~~A~~~-~~~~~~~~~~~~~~~l~~~~~~~------g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  562 (641)
                      ....+...+..  ..+..... ........-...+..+..-+...      ++.+++...|+.+.++.|.....|..++.
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 00000000011222223333333      78899999999999999988888888887


Q ss_pred             HHHhc
Q 040576          563 IYASE  567 (641)
Q Consensus       563 ~~~~~  567 (641)
                      .+.+.
T Consensus       301 ~~~~~  305 (352)
T PF02259_consen  301 FNDKL  305 (352)
T ss_pred             HHHHH
Confidence            76543

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.68  E-value=0.7  Score=43.83  Aligned_cols=160  Identities=11%  Similarity=-0.005  Sum_probs=115.4

Q ss_pred             HHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHH----HHHHHHhhcCC
Q 040576          428 GMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYG----CMVDLLGRAGL  503 (641)
Q Consensus       428 ~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~----~li~~~~~~g~  503 (641)
                      ...|+..+|...|+++.+. .+-|...+...=.+|...|+...-...++++.-  .-.++...|.    .+.-++..+|-
T Consensus       114 ~~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip--~wn~dlp~~sYv~GmyaFgL~E~g~  190 (491)
T KOG2610|consen  114 WGRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIP--KWNADLPCYSYVHGMYAFGLEECGI  190 (491)
T ss_pred             hccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhcc--ccCCCCcHHHHHHHHHHhhHHHhcc
Confidence            4578888999999999886 344677787788899999999998888888876  2345544443    34455668999


Q ss_pred             HHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC----CCchHHHHHHHHHhcCChHHHHHHH
Q 040576          504 MRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPR----DPGPYVLLSNIYASEGKWDEVENLR  577 (641)
Q Consensus       504 ~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~A~~~~  577 (641)
                      +++|++.-++. .+.+ |.-...++...+...|+++++.++..+-...-..    -...|-..+-.+...+.++.|++++
T Consensus       191 y~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  191 YDDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             chhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHH
Confidence            99999998887 3333 3335566677788889999999887764332111    1235667777888999999999999


Q ss_pred             HHhhhCCCcccCc
Q 040576          578 RIMKEKELEKAVG  590 (641)
Q Consensus       578 ~~m~~~~~~~~~~  590 (641)
                      ++=.-+..+++.+
T Consensus       271 D~ei~k~l~k~Da  283 (491)
T KOG2610|consen  271 DREIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHHhhccch
Confidence            9866555555554

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.55  E-value=0.066  Score=32.15  Aligned_cols=28  Identities=25%  Similarity=0.326  Sum_probs=24.4

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          555 GPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       555 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      ..|..++.+|...|++++|+..+++..+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            4688999999999999999999999944

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 ....

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.42  E-value=1.8  Score=43.84  Aligned_cols=71  Identities=11%  Similarity=0.032  Sum_probs=45.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEE
Q 040576          524 GALLSACSTHSNSELGKIVAQHLMELEPR--DPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLV  594 (641)
Q Consensus       524 ~~l~~~~~~~g~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~  594 (641)
                      ..+..++.+.|+.++|++.++.+++..|.  +......|+.+|...+.+.++..++.+--+....+....+|-
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YT  335 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYT  335 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHH
Confidence            44566666777777777777777766554  344666777777777777777777777644444444444444

The molecular function of this protein is uncertain.

>PRK11619 lytic murein transglycosylase; Provisional

Probab=93.42  E-value=14  Score=40.25  Aligned_cols=128  Identities=13%  Similarity=0.038  Sum_probs=75.6

Q ss_pred             HcCChHHHHHHHHHHHHCC-CCCCHH--HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHH
Q 040576          429 MHGQGEKALEMFMEMEKRG-PTPNDA--TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMR  505 (641)
Q Consensus       429 ~~~~~~~A~~~~~~m~~~g-~~p~~~--~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  505 (641)
                      ...+.+.|..++.+..... ..+...  ....+.......+...++...++....   ...+......-+....+.++++
T Consensus       253 ar~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~---~~~~~~~~e~r~r~Al~~~dw~  329 (644)
T PRK11619        253 ARQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIM---RSQSTSLLERRVRMALGTGDRR  329 (644)
T ss_pred             HHhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhccc---ccCCcHHHHHHHHHHHHccCHH
Confidence            3456688999998875543 333322  233333333333225667777776543   1234444555566666899999


Q ss_pred             HHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHH
Q 040576          506 DSEELVSKLPM--EAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNI  563 (641)
Q Consensus       506 ~A~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  563 (641)
                      .+...+..|+.  +-...-.-=+..++...|+.++|...|+.+..  +.  ..|..|+..
T Consensus       330 ~~~~~i~~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a~--~~--~fYG~LAa~  385 (644)
T PRK11619        330 GLNTWLARLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQLMQ--QR--GFYPMVAAQ  385 (644)
T ss_pred             HHHHHHHhcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHHhc--CC--CcHHHHHHH
Confidence            99999999852  11222223355566678999999999998743  22  355555533

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.38  E-value=5.5  Score=43.01  Aligned_cols=177  Identities=11%  Similarity=0.031  Sum_probs=100.2

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCc--hhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcC
Q 040576          354 LMSVLTACANMGVIDIGQWIHSYIQKCRIKPD--VLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHG  431 (641)
Q Consensus       354 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~  431 (641)
                      ...-+....+...++.|..+-   ...+..++  ........+-+.+.|++++|...|-+...--..  ..+|.-|....
T Consensus       337 le~kL~iL~kK~ly~~Ai~LA---k~~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~le~--s~Vi~kfLdaq  411 (933)
T KOG2114|consen  337 LETKLDILFKKNLYKVAINLA---KSQHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFLEP--SEVIKKFLDAQ  411 (933)
T ss_pred             HHHHHHHHHHhhhHHHHHHHH---HhcCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccCCh--HHHHHHhcCHH
Confidence            334455556666666665543   33333333  223333444555678888888777655431111  22455566666


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHH
Q 040576          432 QGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELV  511 (641)
Q Consensus       432 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  511 (641)
                      +..+-..+++.+.+.|+. +..--..|+.+|.+.++.+.-.++.+...+ ....-|   ....+..+.+.+-.++|..+-
T Consensus       412 ~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~~-g~~~fd---~e~al~Ilr~snyl~~a~~LA  486 (933)
T KOG2114|consen  412 RIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCDK-GEWFFD---VETALEILRKSNYLDEAELLA  486 (933)
T ss_pred             HHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCCC-cceeee---HHHHHHHHHHhChHHHHHHHH
Confidence            677777777888887766 333344677888888888777766655432 111112   233456666777777777766


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 040576          512 SKLPMEAGPALWGALLSACSTHSNSELGKIVAQH  545 (641)
Q Consensus       512 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  545 (641)
                      .+...  .......+   +...+++++|.+.++.
T Consensus       487 ~k~~~--he~vl~il---le~~~ny~eAl~yi~s  515 (933)
T KOG2114|consen  487 TKFKK--HEWVLDIL---LEDLHNYEEALRYISS  515 (933)
T ss_pred             HHhcc--CHHHHHHH---HHHhcCHHHHHHHHhc
Confidence            66542  22222222   3456778888777653

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.34  E-value=0.15  Score=31.20  Aligned_cols=26  Identities=15%  Similarity=0.261  Sum_probs=21.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          556 PYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       556 ~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      +|..|+.+|.+.|+|++|++++++..
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            46789999999999999999999853

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=93.33  E-value=2.7  Score=40.56  Aligned_cols=219  Identities=10%  Similarity=0.029  Sum_probs=117.6

Q ss_pred             HhcCChHHHHHHHHhcCCC------CcchHHHHHHHHHHcCChHHHHHHHHHHHHC--CCCCCH---HHHHHHHHHHHcc
Q 040576          296 AKIGNVTSARNCFDRMCMR------NVVSWNILLALYVRCKDYCECLRLFDRMIRG--DAKPNE---ASLMSVLTACANM  364 (641)
Q Consensus       296 ~~~~~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~~---~~~~~ll~~~~~~  364 (641)
                      ....+.++|+..+.+....      ...+|..+..+..+.|.+++++..--.-.+.  ...-..   ..|..+..++.+.
T Consensus        17 y~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l   96 (518)
T KOG1941|consen   17 YQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKL   96 (518)
T ss_pred             hcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4456777777777765221      2346777788888888888876543222111  011111   1233344444444


Q ss_pred             CCHHHHHHHHHHHHHc-CCCC---chhHHHHHHHHHHhcCCHHHHHHHHhhcCC-------C--ChhHHHHHHHHHHHcC
Q 040576          365 GVIDIGQWIHSYIQKC-RIKP---DVLLSTSLLTMYAKCGVMDLARNVFDNMTE-------K--NVVSWNSMIMGYGMHG  431 (641)
Q Consensus       365 g~~~~a~~~~~~~~~~-~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------~--~~~~~~~li~~~~~~~  431 (641)
                      -++.+++.+-..-... |..+   .-...-++..++...+.++++++.|+...+       +  ....+-.|...|.+..
T Consensus        97 ~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~  176 (518)
T KOG1941|consen   97 CEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLK  176 (518)
T ss_pred             HHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHH
Confidence            4444444444333321 2222   122333456666667777777777776542       1  2246777777888888


Q ss_pred             ChHHHHHHHHHHHHC----CCCCCHHHHH-----HHHHHHHhhccHHHHHHHHHHhHHh---hCCCCc-hHHHHHHHHHH
Q 040576          432 QGEKALEMFMEMEKR----GPTPNDATFI-----CVLSACTHAGMVLEGWWYFDLMQRI---YKIEPK-VEHYGCMVDLL  498 (641)
Q Consensus       432 ~~~~A~~~~~~m~~~----g~~p~~~~~~-----~ll~~~~~~g~~~~a~~~~~~~~~~---~~~~p~-~~~~~~li~~~  498 (641)
                      ++++|.-+..+..+.    ++.--..-|.     .+.-++...|....|.+.-++..+.   .|-.+. .....++.+.|
T Consensus       177 D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIy  256 (518)
T KOG1941|consen  177 DYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIY  256 (518)
T ss_pred             hhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHH
Confidence            888887776665442    2221112222     2333455666666666666655441   222221 23344566777


Q ss_pred             hhcCCHHHHHHHHHhC
Q 040576          499 GRAGLMRDSEELVSKL  514 (641)
Q Consensus       499 ~~~g~~~~A~~~~~~~  514 (641)
                      -..|+.+.|+.-|+..
T Consensus       257 R~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  257 RSRGDLERAFRRYEQA  272 (518)
T ss_pred             HhcccHhHHHHHHHHH
Confidence            7777777777766654

>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=93.32  E-value=3.8  Score=33.44  Aligned_cols=64  Identities=11%  Similarity=0.052  Sum_probs=42.1

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCC
Q 040576          419 SWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKI  484 (641)
Q Consensus       419 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~  484 (641)
                      ....-+..+...|+-|+-.+++..+.+. -.+++.....+..+|.+.|+..++.+++.++-+ .|+
T Consensus        88 ~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACe-kG~  151 (161)
T PF09205_consen   88 YVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACE-KGL  151 (161)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH-TT-
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH-hch
Confidence            3445566777788888888888877653 366777777888888888888888888888877 554

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=93.31  E-value=0.71  Score=37.32  Aligned_cols=91  Identities=11%  Similarity=-0.004  Sum_probs=59.8

Q ss_pred             HHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC---CCCCCHH---HHHHHHHHHHhcC
Q 040576          461 ACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL---PMEAGPA---LWGALLSACSTHS  534 (641)
Q Consensus       461 ~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~~~~~---~~~~l~~~~~~~g  534 (641)
                      ++...|+.+.|++.|.+...  -.+-....||.-..++--+|+.++|++-+++.   .......   .|..-...|...|
T Consensus        52 alaE~g~Ld~AlE~F~qal~--l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALC--LAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHhccchHHHHHHHHHHHH--hcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            45667888888888877765  12234667777778888888888888777765   1111222   2333334477888


Q ss_pred             CHHHHHHHHHHHHhcCCCC
Q 040576          535 NSELGKIVAQHLMELEPRD  553 (641)
Q Consensus       535 ~~~~a~~~~~~~~~~~p~~  553 (641)
                      +.+.|..-|+.+-+++...
T Consensus       130 ~dd~AR~DFe~AA~LGS~F  148 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLGSKF  148 (175)
T ss_pred             chHHHHHhHHHHHHhCCHH
Confidence            8888888888887776543

>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=93.26  E-value=2.2  Score=37.62  Aligned_cols=95  Identities=13%  Similarity=0.098  Sum_probs=59.3

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCch------HH
Q 040576          419 SWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDA--TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKV------EH  490 (641)
Q Consensus       419 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~------~~  490 (641)
                      .+..+...|++.|+.+.|++.|.++.+....+...  .+..++..+...|++..+.....++........+.      ..
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            56667777778888888888888877765444433  45566777777788887777777766521111111      12


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhCC
Q 040576          491 YGCMVDLLGRAGLMRDSEELVSKLP  515 (641)
Q Consensus       491 ~~~li~~~~~~g~~~~A~~~~~~~~  515 (641)
                      |..+  .+...+++.+|.+.|-+..
T Consensus       118 ~~gL--~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  118 YEGL--ANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHH--HHHHhchHHHHHHHHHccC
Confidence            2222  2345678888888777663

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.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.18  E-value=6.7  Score=35.86  Aligned_cols=20  Identities=20%  Similarity=0.345  Sum_probs=9.4

Q ss_pred             HHHHHHHcCChHHHHHHHHH
Q 040576          322 LLALYVRCKDYCECLRLFDR  341 (641)
Q Consensus       322 li~~~~~~g~~~~A~~~~~~  341 (641)
                      -...|..+|.++-|-..+++
T Consensus        97 As~lY~E~GspdtAAmaleK  116 (308)
T KOG1585|consen   97 ASELYVECGSPDTAAMALEK  116 (308)
T ss_pred             HHHHHHHhCCcchHHHHHHH
Confidence            34445555555544444443

>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=92.89  E-value=30  Score=42.54  Aligned_cols=306  Identities=8%  Similarity=0.038  Sum_probs=157.7

Q ss_pred             HHHhcCCChHHHHHHHhhcC----CCC--chHHHHHHHHHHhcCChHHHHHHHHh-cCCCCcchHHHHHHHHHHcCChHH
Q 040576          262 SGYVDVGDMEAANGLFDLMP----FRD--VVSWNCMIDGYAKIGNVTSARNCFDR-MCMRNVVSWNILLALYVRCKDYCE  334 (641)
Q Consensus       262 ~~~~~~g~~~~a~~~~~~~~----~~~--~~~~~~li~~~~~~~~~~~A~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~  334 (641)
                      .+-.+.+.+..|...++.-.    +.+  ...|..+...|+..+++|....+... ...++   ...-|......|+|..
T Consensus      1391 ~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~~s---l~~qil~~e~~g~~~d 1467 (2382)
T KOG0890|consen 1391 RASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFADPS---LYQQILEHEASGNWAD 1467 (2382)
T ss_pred             HHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcCcc---HHHHHHHHHhhccHHH
Confidence            34445556666666666521    111  33444555567777777766665552 22222   2234445566788888


Q ss_pred             HHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCch-hHHHHHHHHHHhcCCHHHHHHHHhhc
Q 040576          335 CLRLFDRMIRGDAKPN-EASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDV-LLSTSLLTMYAKCGVMDLARNVFDNM  412 (641)
Q Consensus       335 A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~  412 (641)
                      |...|+.+.+.+  |+ ..+++.++......|.++......+...... .+.. ..++.=+.+--+.++++.......  
T Consensus      1468 a~~Cye~~~q~~--p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~-se~~~~~~s~~~eaaW~l~qwD~~e~~l~-- 1542 (2382)
T KOG0890|consen 1468 AAACYERLIQKD--PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINR-SEEVDELNSLGVEAAWRLSQWDLLESYLS-- 1542 (2382)
T ss_pred             HHHHHHHhhcCC--CccccchhhHHHhhhcccchhHHHhhhcchhhcc-CHHHHHHHHHHHHHHhhhcchhhhhhhhh--
Confidence            888888887643  43 5566666666666666666665444443322 2222 222223344456667776666555  


Q ss_pred             CCCChhHHHHH--HHHHHHcCChHH--HHHHHHHHHHCCCCCC---------HHHHHHHHHHHHhhccHHHHHHHHHHhH
Q 040576          413 TEKNVVSWNSM--IMGYGMHGQGEK--ALEMFMEMEKRGPTPN---------DATFICVLSACTHAGMVLEGWWYFDLMQ  479 (641)
Q Consensus       413 ~~~~~~~~~~l--i~~~~~~~~~~~--A~~~~~~m~~~g~~p~---------~~~~~~ll~~~~~~g~~~~a~~~~~~~~  479 (641)
                       +.+..+|...  +..+.+..+-|.  -.+..+.+++.-+.|-         ...|..++....    .   .+.-....
T Consensus      1543 -~~n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~----l---~el~~~~~ 1614 (2382)
T KOG0890|consen 1543 -DRNIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHL----L---LELENSIE 1614 (2382)
T ss_pred             -cccccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHH----H---HHHHHHHH
Confidence             4555555554  333333222221  1123333333211110         012222222111    1   11111111


Q ss_pred             HhhCCCCch------HHHHHHHHHHhhcCCHHHHHHHHHhC------C---CCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 040576          480 RIYKIEPKV------EHYGCMVDLLGRAGLMRDSEELVSKL------P---MEAGPALWGALLSACSTHSNSELGKIVAQ  544 (641)
Q Consensus       480 ~~~~~~p~~------~~~~~li~~~~~~g~~~~A~~~~~~~------~---~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  544 (641)
                      ...+..++.      ..|..-+..-....+..+-+-.+++.      .   ...-..+|......++..|.++.|...+-
T Consensus      1615 ~l~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~nall 1694 (2382)
T KOG0890|consen 1615 ELKKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQNALL 1694 (2382)
T ss_pred             HhhccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHHHHHH
Confidence            112233331      12222111111111122222222221      1   11224578888888999999999999998


Q ss_pred             HHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 040576          545 HLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKEL  585 (641)
Q Consensus       545 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  585 (641)
                      .+.+..+  +..+...+..+...|+...|+.++++..+.+.
T Consensus      1695 ~A~e~r~--~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~~ 1733 (2382)
T KOG0890|consen 1695 NAKESRL--PEIVLERAKLLWQTGDELNALSVLQEILSKNF 1733 (2382)
T ss_pred             hhhhccc--chHHHHHHHHHHhhccHHHHHHHHHHHHHhhc
Confidence            8888774  45799999999999999999999999876554

>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=92.87  E-value=1.4  Score=37.56  Aligned_cols=70  Identities=19%  Similarity=0.060  Sum_probs=32.4

Q ss_pred             hcCCHHHHHHHHHhC-CCCCCHHHHHH-HHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 040576          500 RAGLMRDSEELVSKL-PMEAGPALWGA-LLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGK  569 (641)
Q Consensus       500 ~~g~~~~A~~~~~~~-~~~~~~~~~~~-l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  569 (641)
                      +.++.+++..++..+ ...|....... -...+...|++.+|..+++.+.+-.|..+..-..++.++...|+
T Consensus        22 ~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D   93 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGD   93 (160)
T ss_pred             ccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCC
Confidence            445555555555554 12333322221 11224455555555555555555555554444444444444443

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=92.80  E-value=21  Score=40.53  Aligned_cols=154  Identities=11%  Similarity=0.085  Sum_probs=89.3

Q ss_pred             CCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHH----HHHHhhccHHHHHHHH
Q 040576          400 GVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVL----SACTHAGMVLEGWWYF  475 (641)
Q Consensus       400 g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll----~~~~~~g~~~~a~~~~  475 (641)
                      |++++|+.-+.++.   ...|.-.+..--++|-+++|+.++        +|+...+..+.    .-|...+.+++|--.|
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            45555555555543   122333333334455555555554        45555444443    3444566677776666


Q ss_pred             HHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHH--HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 040576          476 DLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPAL--WGALLSACSTHSNSELGKIVAQHLMELEPRD  553 (641)
Q Consensus       476 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  553 (641)
                      +..-+          ...-+.+|..+|+|.+|+.+-.++....+...  -..|..-+...+++-+|-.+......     
T Consensus       963 e~~Gk----------lekAl~a~~~~~dWr~~l~~a~ql~~~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~s----- 1027 (1265)
T KOG1920|consen  963 ERCGK----------LEKALKAYKECGDWREALSLAAQLSEGKDELVILAEELVSRLVEQRKHYEAAKILLEYLS----- 1027 (1265)
T ss_pred             HHhcc----------HHHHHHHHHHhccHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhc-----
Confidence            65533          12235677788888888888887753333332  25677778888877777666654432     


Q ss_pred             CchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          554 PGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       554 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                        -...-...|+++..|++|+++.....
T Consensus      1028 --d~~~av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1028 --DPEEAVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             --CHHHHHHHHhhHhHHHHHHHHHHhcc
Confidence              12334556777888999988877664

>PRK09687 putative lyase; Provisional

Probab=92.72  E-value=9.8  Score=36.57  Aligned_cols=25  Identities=12%  Similarity=-0.003  Sum_probs=10.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCC
Q 040576          526 LLSACSTHSNSELGKIVAQHLMELEP  551 (641)
Q Consensus       526 l~~~~~~~g~~~~a~~~~~~~~~~~p  551 (641)
                      .+.++...|+. +|...+..+.+.+|
T Consensus       241 a~~ALg~ig~~-~a~p~L~~l~~~~~  265 (280)
T PRK09687        241 IIEAAGELGDK-TLLPVLDTLLYKFD  265 (280)
T ss_pred             HHHHHHhcCCH-hHHHHHHHHHhhCC
Confidence            33344444442 34444444444333

>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=92.32  E-value=0.29  Score=29.20  Aligned_cols=31  Identities=16%  Similarity=0.097  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 040576          522 LWGALLSACSTHSNSELGKIVAQHLMELEPR  552 (641)
Q Consensus       522 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  552 (641)
                      +|..+...+...|++++|...|+++++++|+
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            4555666677777777777777777777664

...

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=92.25  E-value=3.3  Score=40.04  Aligned_cols=63  Identities=11%  Similarity=0.164  Sum_probs=40.1

Q ss_pred             hHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHHhhcc--HHHHHHHHHHhHHhhCCCCchHHHHHHHH
Q 040576          433 GEKALEMFMEMEKRGPTPNDA--TFICVLSACTHAGM--VLEGWWYFDLMQRIYKIEPKVEHYGCMVD  496 (641)
Q Consensus       433 ~~~A~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~g~--~~~a~~~~~~~~~~~~~~p~~~~~~~li~  496 (641)
                      .+.++.+|+.+.+.|+..+..  ....++..+.....  ...+.++++.+.+ .|+++...+|..+.-
T Consensus       159 ~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~-~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  159 AERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKK-NGVKIKYMHYPTLGL  225 (297)
T ss_pred             HHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHH-cCCccccccccHHHH
Confidence            356677888888878766543  33334433322222  4577888888888 788888777765543

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.22  E-value=8.8  Score=34.87  Aligned_cols=93  Identities=4%  Similarity=-0.069  Sum_probs=50.4

Q ss_pred             HHHHHHhhc-CCHHHHHHHHHhCC-----CCCCHHHHHHHHHH---HHhcCCHHHHHHHHHHHHhcCCCCCc-------h
Q 040576          493 CMVDLLGRA-GLMRDSEELVSKLP-----MEAGPALWGALLSA---CSTHSNSELGKIVAQHLMELEPRDPG-------P  556 (641)
Q Consensus       493 ~li~~~~~~-g~~~~A~~~~~~~~-----~~~~~~~~~~l~~~---~~~~g~~~~a~~~~~~~~~~~p~~~~-------~  556 (641)
                      .+...|... .+++.|+..|+...     .+.+...-.+++.+   -...+++.+|+.+|+++..-.-+|+-       .
T Consensus       118 ~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~LLKys~Kdy  197 (288)
T KOG1586|consen  118 EIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDY  197 (288)
T ss_pred             hHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHH
Confidence            344444433 55666666666551     22223333344443   35678899999999988765544432       2


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 040576          557 YVLLSNIYASEGKWDEVENLRRIMKEKEL  585 (641)
Q Consensus       557 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  585 (641)
                      +..-+.++.-.++.-.+...+++..+..+
T Consensus       198 flkAgLChl~~~D~v~a~~ALeky~~~dP  226 (288)
T KOG1586|consen  198 FLKAGLCHLCKADEVNAQRALEKYQELDP  226 (288)
T ss_pred             HHHHHHHhHhcccHHHHHHHHHHHHhcCC
Confidence            22233333444566666666776654433

>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=92.18  E-value=0.32  Score=41.36  Aligned_cols=85  Identities=11%  Similarity=-0.037  Sum_probs=58.4

Q ss_pred             HHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCeeHHHHHHHHHHhCCChHH
Q 040576          162 LLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGF  241 (641)
Q Consensus       162 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  241 (641)
                      .++..+.+.+.+.....+++.+.+.+...+....+.++..|++.++.+...++++....   .-...++..|-+.|.+++
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            34566666777888888888888776666778888888888888877888887774332   333456666677777777


Q ss_pred             HHHHHhhC
Q 040576          242 ARELFDFM  249 (641)
Q Consensus       242 A~~~~~~m  249 (641)
                      |.-++.++
T Consensus        89 a~~Ly~~~   96 (143)
T PF00637_consen   89 AVYLYSKL   96 (143)
T ss_dssp             HHHHHHCC
T ss_pred             HHHHHHHc
Confidence            77666665

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.

>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=92.14  E-value=4.7  Score=34.92  Aligned_cols=117  Identities=8%  Similarity=-0.020  Sum_probs=56.5

Q ss_pred             HHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcC--CHHHHHHHHhcCCCCCee
Q 040576          147 KMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCG--EVLDARKVFEDGPVWDLV  224 (641)
Q Consensus       147 ~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~~~~~~~~  224 (641)
                      .+.+.+++|+...+..++..+.+.|.+..-.    .+...++-+|.......+-.+....  -..-|.+++.++.    .
T Consensus        19 Sl~~~~i~~~~~L~~lli~lLi~~~~~~~L~----qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~----~   90 (167)
T PF07035_consen   19 SLNQHNIPVQHELYELLIDLLIRNGQFSQLH----QLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG----T   90 (167)
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH----HHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh----h
Confidence            4555666666667777777777666654333    2334444444443332222121110  0222233333322    2


Q ss_pred             HHHHHHHHHHhCCChHHHHHHHhhCCCCCchhHHHHHHHHhcCCChH
Q 040576          225 TWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDME  271 (641)
Q Consensus       225 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~ll~~~~~~g~~~  271 (641)
                      .+..++..+...|++-+|+++.+....-+......++.+..+.+|..
T Consensus        91 ~~~~iievLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~~~D~~  137 (167)
T PF07035_consen   91 AYEEIIEVLLSKGQVLEALRYARQYHKVDSVPARKFLEAAANSNDDQ  137 (167)
T ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHHcCCHH
Confidence            34455566666666666666666553333444444555555554443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.04  E-value=3.3  Score=35.53  Aligned_cols=19  Identities=16%  Similarity=0.260  Sum_probs=9.3

Q ss_pred             HHHcCChHHHHHHHHHHHH
Q 040576          326 YVRCKDYCECLRLFDRMIR  344 (641)
Q Consensus       326 ~~~~g~~~~A~~~~~~m~~  344 (641)
                      ..+.|+...|...|++.-.
T Consensus       104 ~a~kgdta~AV~aFdeia~  122 (221)
T COG4649         104 LAQKGDTAAAVAAFDEIAA  122 (221)
T ss_pred             HhhcccHHHHHHHHHHHhc
Confidence            3444555555555555444

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.92  E-value=9.6  Score=34.65  Aligned_cols=58  Identities=10%  Similarity=0.202  Sum_probs=34.6

Q ss_pred             HhhcCCHHHHHHHHHhC---CCCCCHHHHH---HHHHH--HHhc-CCHHHHHHHHHHHHhcCCCCCc
Q 040576          498 LGRAGLMRDSEELVSKL---PMEAGPALWG---ALLSA--CSTH-SNSELGKIVAQHLMELEPRDPG  555 (641)
Q Consensus       498 ~~~~g~~~~A~~~~~~~---~~~~~~~~~~---~l~~~--~~~~-g~~~~a~~~~~~~~~~~p~~~~  555 (641)
                      -+..|++.+|+++|++.   ....+..-|.   -++.+  |.-. .|.-.+...+++..+++|.-..
T Consensus       164 aa~leqY~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~~~D~v~a~~ALeky~~~dP~F~d  230 (288)
T KOG1586|consen  164 AAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLCKADEVNAQRALEKYQELDPAFTD  230 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHhcccHHHHHHHHHHHHhcCCcccc
Confidence            44667788888888776   1222222222   12221  3333 6777788888888888887543

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=91.92  E-value=1.9  Score=35.25  Aligned_cols=87  Identities=11%  Similarity=0.085  Sum_probs=55.6

Q ss_pred             CCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHh-cCCC-CCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceE
Q 040576          518 AGPALWGALLSACSTHS---NSELGKIVAQHLME-LEPR-DPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSS  592 (641)
Q Consensus       518 ~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~-~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  592 (641)
                      ++..+--.+.+++.+..   ++++++.+++.+.+ -.|. .....+.|+-.+.+.|+|+.++++.+..            
T Consensus        30 ~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~l------------   97 (149)
T KOG3364|consen   30 VSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDAL------------   97 (149)
T ss_pred             chHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHH------------
Confidence            44444444555555443   46677777777776 2232 2345566777788888888888888877            


Q ss_pred             EEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhh
Q 040576          593 LVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMC  630 (641)
Q Consensus       593 ~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~  630 (641)
                                  .+.+|++.+  ...+=..+.+++++.
T Consensus        98 ------------l~~e~~n~Q--a~~Lk~~ied~itke  121 (149)
T KOG3364|consen   98 ------------LETEPNNRQ--ALELKETIEDKITKE  121 (149)
T ss_pred             ------------HhhCCCcHH--HHHHHHHHHHHHhhc
Confidence                        566777777  666666666666543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=91.74  E-value=0.86  Score=43.02  Aligned_cols=61  Identities=21%  Similarity=0.254  Sum_probs=45.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          522 LWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       522 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      ++..++..+...|+.+.+...++++++.+|-+...|..+..+|.+.|+...|+..++++..
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            3445666667777777777778888888887777788888888888888888777777654

>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=91.72  E-value=8.2  Score=33.45  Aligned_cols=48  Identities=8%  Similarity=0.050  Sum_probs=36.7

Q ss_pred             HHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCeeH
Q 040576          178 KVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVT  225 (641)
Q Consensus       178 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~  225 (641)
                      +....+.+.|+.|+...+..+|+.+.+.|++..-..++.-..-+|...
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq~~Vi~DSk~   62 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQYHVIPDSKP   62 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHhhcccCCcHH
Confidence            455556677888999999999999999999888888887655444443

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=91.71  E-value=23  Score=38.96  Aligned_cols=193  Identities=11%  Similarity=0.075  Sum_probs=89.7

Q ss_pred             hcCCHHHHHHHHhhcCC----CCh-------hHHHHHHH-HHHHcCChHHHHHHHHHHHHC----CCCCCHHHHHHHHHH
Q 040576          398 KCGVMDLARNVFDNMTE----KNV-------VSWNSMIM-GYGMHGQGEKALEMFMEMEKR----GPTPNDATFICVLSA  461 (641)
Q Consensus       398 ~~g~~~~A~~~~~~~~~----~~~-------~~~~~li~-~~~~~~~~~~A~~~~~~m~~~----g~~p~~~~~~~ll~~  461 (641)
                      ...++++|..+..+...    ++.       ..|+++-. .....|++++|+++-+.....    -..+....+..+..+
T Consensus       427 s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~a  506 (894)
T COG2909         427 SQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGEA  506 (894)
T ss_pred             HccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhHH
Confidence            34566666666655431    211       13444422 223456777777776665543    122233344555555


Q ss_pred             HHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHH-----HHHhhcCCHHHH--HHHHHhC-----CCCCC----HHHHHH
Q 040576          462 CTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMV-----DLLGRAGLMRDS--EELVSKL-----PMEAG----PALWGA  525 (641)
Q Consensus       462 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li-----~~~~~~g~~~~A--~~~~~~~-----~~~~~----~~~~~~  525 (641)
                      ..-.|++++|..+.....+ ..-.-+...+..+.     ..+...|+...|  +..|...     +.+|-    ..+...
T Consensus       507 ~~~~G~~~~Al~~~~~a~~-~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~~  585 (894)
T COG2909         507 AHIRGELTQALALMQQAEQ-MARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRAQ  585 (894)
T ss_pred             HHHhchHHHHHHHHHHHHH-HHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHH
Confidence            5566777777777666554 21222333322221     224455532222  2222221     11121    123333


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcC----CCCC---chHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEE
Q 040576          526 LLSACSTHSNSELGKIVAQHLMELE----PRDP---GPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLV  594 (641)
Q Consensus       526 l~~~~~~~g~~~~a~~~~~~~~~~~----p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~  594 (641)
                      ++.++.+   .+.+..-....++..    |...   ..+..|+.++...|+.++|...+.++........+...|.
T Consensus       586 ll~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~  658 (894)
T COG2909         586 LLRAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYL  658 (894)
T ss_pred             HHHHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHH
Confidence            3333333   344444333333322    2211   1223567777778888888877777765544443333333

>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=91.71  E-value=7.2  Score=33.34  Aligned_cols=108  Identities=16%  Similarity=0.099  Sum_probs=57.3

Q ss_pred             HHhhccHHHHHHHHHHhHHhhCCCCchHH-HHHHHHHHhhcCCHHHHHHHHHhCC-CCCCHHHHHHHHHHHHh-cCCHHH
Q 040576          462 CTHAGMVLEGWWYFDLMQRIYKIEPKVEH-YGCMVDLLGRAGLMRDSEELVSKLP-MEAGPALWGALLSACST-HSNSEL  538 (641)
Q Consensus       462 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~-~~~li~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~-~g~~~~  538 (641)
                      -.+.++.+++..++..+..   +.|.... -..-...+.+.|++.+|+.+|+++. ..|....-..|+..|.. .||.+ 
T Consensus        20 al~~~~~~D~e~lL~ALrv---LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D~~-   95 (160)
T PF09613_consen   20 ALRLGDPDDAEALLDALRV---LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGDPS-   95 (160)
T ss_pred             HHccCChHHHHHHHHHHHH---hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCChH-
Confidence            3456788888888888866   5555222 2223445678888888888888873 23444444555555543 34432 


Q ss_pred             HHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHH
Q 040576          539 GKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVEN  575 (641)
Q Consensus       539 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  575 (641)
                      =....+.+++.+++ +. -..|+..+....+...|..
T Consensus        96 Wr~~A~evle~~~d-~~-a~~Lv~~Ll~~~~~~~a~~  130 (160)
T PF09613_consen   96 WRRYADEVLESGAD-PD-ARALVRALLARADLEPAHE  130 (160)
T ss_pred             HHHHHHHHHhcCCC-hH-HHHHHHHHHHhccccchhh
Confidence            22333444444432 22 2334444444444444433

>PRK10941 hypothetical protein; Provisional

Probab=91.54  E-value=2  Score=40.77  Aligned_cols=59  Identities=19%  Similarity=0.112  Sum_probs=53.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          523 WGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       523 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      .+.+-.+|.+.++++.|..+.+.++.+.|+++.-+.--+-+|.+.|.+..|..-++...
T Consensus       184 l~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl  242 (269)
T PRK10941        184 LDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFV  242 (269)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHH
Confidence            34555678999999999999999999999999888889999999999999999999883

>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=91.52  E-value=14  Score=35.62  Aligned_cols=18  Identities=6%  Similarity=-0.176  Sum_probs=11.5

Q ss_pred             HHhcCCHHHHHHHHHHHH
Q 040576          530 CSTHSNSELGKIVAQHLM  547 (641)
Q Consensus       530 ~~~~g~~~~a~~~~~~~~  547 (641)
                      +.+.++++.|...|+-+.
T Consensus       256 ~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  256 HYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHhhcCHHHHHHHHHHHH
Confidence            456677777777766443

It is also involved in sporulation [].

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=91.51  E-value=18  Score=36.97  Aligned_cols=176  Identities=13%  Similarity=0.101  Sum_probs=114.8

Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 040576          383 KPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE--KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLS  460 (641)
Q Consensus       383 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~  460 (641)
                      ..|.....++++.+....++.-...+..+|..  .+-..|..++.+|... ..++-..+|+++.+..+  |...+..-+.
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e~kmal~el~q~y~en-~n~~l~~lWer~ve~df--nDvv~~ReLa  139 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF--NDVVIGRELA  139 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc--hhHHHHHHHH
Confidence            34555566777888887788888888887774  5667888888888887 55778888888888543  4444444444


Q ss_pred             HHHhhccHHHHHHHHHHhHHhhCCCCc------hHHHHHHHHHHhhcCCHHHHHHHHHhCC----CCCCHHHHHHHHHHH
Q 040576          461 ACTHAGMVLEGWWYFDLMQRIYKIEPK------VEHYGCMVDLLGRAGLMRDSEELVSKLP----MEAGPALWGALLSAC  530 (641)
Q Consensus       461 ~~~~~g~~~~a~~~~~~~~~~~~~~p~------~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~~l~~~~  530 (641)
                      .+...++...+..+|.++..  .+.|.      .+.|..++...  ..+.+.-..+..++.    ...-...+..+-.-|
T Consensus       140 ~~yEkik~sk~a~~f~Ka~y--rfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Y  215 (711)
T COG1747         140 DKYEKIKKSKAAEFFGKALY--RFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKY  215 (711)
T ss_pred             HHHHHhchhhHHHHHHHHHH--HhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHh
Confidence            44455888888888888875  33342      23455444322  334555555555542    223344555555667


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 040576          531 STHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYA  565 (641)
Q Consensus       531 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  565 (641)
                      ....++.+|++++..+++.+..|..+-..++.-+.
T Consensus       216 s~~eN~~eai~Ilk~il~~d~k~~~ar~~~i~~lR  250 (711)
T COG1747         216 SENENWTEAIRILKHILEHDEKDVWARKEIIENLR  250 (711)
T ss_pred             ccccCHHHHHHHHHHHhhhcchhhhHHHHHHHHHH
Confidence            88888899999888888877776655555554443

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=91.40  E-value=0.59  Score=44.39  Aligned_cols=29  Identities=21%  Similarity=0.291  Sum_probs=18.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 040576          527 LSACSTHSNSELGKIVAQHLMELEPRDPG  555 (641)
Q Consensus       527 ~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  555 (641)
                      +.+-...|+.++|..-++.+++++|++.+
T Consensus       172 ~~AR~~Lg~~~EAKkD~E~vL~LEP~~~E  200 (536)
T KOG4648|consen  172 MQARESLGNNMEAKKDCETVLALEPKNIE  200 (536)
T ss_pred             HHHHHHHhhHHHHHHhHHHHHhhCcccHH
Confidence            33344456677777777777777777543

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=91.20  E-value=1.5  Score=36.58  Aligned_cols=51  Identities=14%  Similarity=0.162  Sum_probs=28.5

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 040576          533 HSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       533 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  583 (641)
                      .++.+.++.+++.+.-+.|+.+..-..-++++...|+|++|++++++..+.
T Consensus        23 ~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        23 SADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhcc
Confidence            455555555555555555555555555555555555555555555555443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=90.58  E-value=0.51  Score=28.75  Aligned_cols=27  Identities=7%  Similarity=-0.042  Sum_probs=18.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040576          522 LWGALLSACSTHSNSELGKIVAQHLME  548 (641)
Q Consensus       522 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  548 (641)
                      +|..|...|...|++++|+.+|++++.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~   27 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALA   27 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            356677777888888888888887554

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=90.46  E-value=0.32  Score=28.73  Aligned_cols=28  Identities=18%  Similarity=0.269  Sum_probs=24.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 040576          556 PYVLLSNIYASEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       556 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~  583 (641)
                      ++..++.+|.+.|++++|.+.++++.++
T Consensus         2 a~~~~a~~~~~~g~~~~A~~~~~~~~~~   29 (33)
T PF13174_consen    2 ALYRLARCYYKLGDYDEAIEYFQRLIKR   29 (33)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            4678899999999999999999999554

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=90.27  E-value=31  Score=37.55  Aligned_cols=86  Identities=17%  Similarity=0.224  Sum_probs=43.5

Q ss_pred             HHHHHhhcCCHHHHHHHHHhCCCCCCH--HHHHHHHHHH-HhcCC-----------HHHHHHHHHHHHh-------cCCC
Q 040576          494 MVDLLGRAGLMRDSEELVSKLPMEAGP--ALWGALLSAC-STHSN-----------SELGKIVAQHLME-------LEPR  552 (641)
Q Consensus       494 li~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~l~~~~-~~~g~-----------~~~a~~~~~~~~~-------~~p~  552 (641)
                      ...-+...|++++|+.+|.-... .+.  ...+.++.-. .....           ...|..+.+....       ..+.
T Consensus       420 ~A~~~e~~g~~~dAi~Ly~La~~-~d~vl~lln~~Ls~~l~~~~~~~~~~s~~~~l~~la~~i~~~y~~~~~~~~~~~~~  498 (613)
T PF04097_consen  420 AAREAEERGRFEDAILLYHLAEE-YDKVLSLLNRLLSQVLSQPSSSSLSDSERERLIELAKEILERYKSNPHISSKVSRK  498 (613)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHTT--HHHHHHHHHHHHHHHHHCSSTSSSSSTTTTSHHHHHHHHHHHHTTSHHHHTTS-HH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHhh-HHHHHHHHHHHHHHHHcCccccccccchhhhHHHHHHHHHHHHHhCcchHhhccHH
Confidence            34456677888888888877751 221  1233333322 22222           3344444443322       1122


Q ss_pred             CCchHHHHHHH-----HHhcCChHHHHHHHHHh
Q 040576          553 DPGPYVLLSNI-----YASEGKWDEVENLRRIM  580 (641)
Q Consensus       553 ~~~~~~~l~~~-----~~~~g~~~~A~~~~~~m  580 (641)
                      +..++..|..+     +...|+|++|++.++++
T Consensus       499 ~~~t~~~Ll~L~~ff~~~~~g~~~~AL~~i~~L  531 (613)
T PF04097_consen  499 NRETFQLLLDLAEFFDLYHAGQYEQALDIIEKL  531 (613)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhC
Confidence            23344444433     66899999999999887

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.

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.25  E-value=15  Score=34.02  Aligned_cols=239  Identities=13%  Similarity=0.163  Sum_probs=135.8

Q ss_pred             CChHHHHHHHHhcCC--CCc-----chHHHHHHHHHHcCChHHHHHHHHHHHH---CCC--CCCHHHHHHHHHHHHccCC
Q 040576          299 GNVTSARNCFDRMCM--RNV-----VSWNILLALYVRCKDYCECLRLFDRMIR---GDA--KPNEASLMSVLTACANMGV  366 (641)
Q Consensus       299 ~~~~~A~~~~~~~~~--~~~-----~~~~~li~~~~~~g~~~~A~~~~~~m~~---~g~--~p~~~~~~~ll~~~~~~g~  366 (641)
                      ..+++|+.-|.++.+  +.-     ...-.+|..+.+.|++++.+..+++|..   ..+  .-+....++++...+...+
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            456666666666522  111     2334577788888888888888877753   112  1234566777777776667


Q ss_pred             HHHHHHHHHHHHHc-----CCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC------------C---ChhHHHHHHHH
Q 040576          367 IDIGQWIHSYIQKC-----RIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE------------K---NVVSWNSMIMG  426 (641)
Q Consensus       367 ~~~a~~~~~~~~~~-----~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~------------~---~~~~~~~li~~  426 (641)
                      .+....+++.-.+.     +-..=..+-+.|...|...|.+.+..+++.++..            +   -...|..-|..
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            66666665543321     1011112334567778888888888887777652            1   12467777888


Q ss_pred             HHHcCChHHHHHHHHHHHHCC-CCCCHHHHHHHHHHH-----HhhccHHHHHHHHHHhHHhhCCC--Cc---hHHHHHHH
Q 040576          427 YGMHGQGEKALEMFMEMEKRG-PTPNDATFICVLSAC-----THAGMVLEGWWYFDLMQRIYKIE--PK---VEHYGCMV  495 (641)
Q Consensus       427 ~~~~~~~~~A~~~~~~m~~~g-~~p~~~~~~~ll~~~-----~~~g~~~~a~~~~~~~~~~~~~~--p~---~~~~~~li  495 (641)
                      |..+++-.+-..+|++...-. --|.+... .+|+-|     .+.|.+++|..-|=++-+.+.-.  |.   ..-|..|.
T Consensus       201 YT~qKnNKkLK~lYeqalhiKSAIPHPlIm-GvIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLA  279 (440)
T KOG1464|consen  201 YTEQKNNKKLKALYEQALHIKSAIPHPLIM-GVIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLA  279 (440)
T ss_pred             hhhhcccHHHHHHHHHHHHhhccCCchHHH-hHHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHH
Confidence            888888888888888776532 23444433 455554     35678887765443333323221  22   23355667


Q ss_pred             HHHhhcCC----HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 040576          496 DLLGRAGL----MRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVA  543 (641)
Q Consensus       496 ~~~~~~g~----~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  543 (641)
                      +++.+.|-    -.+|.    -....|.......|+.+|... ++.+-+.++
T Consensus       280 NMLmkS~iNPFDsQEAK----PyKNdPEIlAMTnlv~aYQ~N-dI~eFE~Il  326 (440)
T KOG1464|consen  280 NMLMKSGINPFDSQEAK----PYKNDPEILAMTNLVAAYQNN-DIIEFERIL  326 (440)
T ss_pred             HHHHHcCCCCCcccccC----CCCCCHHHHHHHHHHHHHhcc-cHHHHHHHH
Confidence            77777661    12211    012335555677888887654 444444443

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=90.17  E-value=21  Score=35.57  Aligned_cols=54  Identities=11%  Similarity=0.014  Sum_probs=33.2

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 040576          322 LLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQK  379 (641)
Q Consensus       322 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  379 (641)
                      ...+.-+.|+|+...+........  .++...+..+...  +.++.+++..+.+....
T Consensus         4 ~~eaaWrl~~Wd~l~~~~~~~~~~--~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~   57 (352)
T PF02259_consen    4 AAEAAWRLGDWDLLEEYLSQSNED--SPEYSFYRALLAL--RQGDYDEAKKYIEKARQ   57 (352)
T ss_pred             HHHHHHhcCChhhHHHHHhhccCC--ChhHHHHHHHHHH--hCccHHHHHHHHHHHHH
Confidence            356677888998855555444322  2344444444432  77888888887776655

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=90.16  E-value=13  Score=35.02  Aligned_cols=57  Identities=12%  Similarity=-0.018  Sum_probs=51.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          525 ALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       525 ~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      -....|..+|.+.+|.++.++++.++|-+...+..|...|+..|+--+|.+-++++.
T Consensus       284 kva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         284 KVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            344568999999999999999999999999999999999999999888888888874

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.01  E-value=30  Score=37.09  Aligned_cols=211  Identities=10%  Similarity=0.027  Sum_probs=101.7

Q ss_pred             CHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHh-cCCHHHHHHHHhhcCC-CChhHHHHHHHHHH----HcCChHHHHHH
Q 040576          366 VIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAK-CGVMDLARNVFDNMTE-KNVVSWNSMIMGYG----MHGQGEKALEM  439 (641)
Q Consensus       366 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~----~~~~~~~A~~~  439 (641)
                      +.+.|..++...-+.|. |+....-..+..... ..+...|.++|..... -.+.++-.+..+|.    ...+...|..+
T Consensus       308 d~~~A~~~~~~aA~~g~-~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A~~~  386 (552)
T KOG1550|consen  308 DYEKALKLYTKAAELGN-PDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELAFAY  386 (552)
T ss_pred             cHHHHHHHHHHHHhcCC-chHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHHHHH
Confidence            34455555555555552 222222111111111 1245566666665543 22233322222222    23456777777


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHH---hh----cCCHHHHHHHHH
Q 040576          440 FMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLL---GR----AGLMRDSEELVS  512 (641)
Q Consensus       440 ~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~---~~----~g~~~~A~~~~~  512 (641)
                      +++..+.| .|...--...+..+.. +.++.+.-.+..+.. .|..-....-..+....   ..    ..+.+.+...+.
T Consensus       387 ~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~-~g~~~~q~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~  463 (552)
T KOG1550|consen  387 YKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAE-LGYEVAQSNAAYLLDQSEEDLFSRGVISTLERAFSLYS  463 (552)
T ss_pred             HHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHH-hhhhHHhhHHHHHHHhccccccccccccchhHHHHHHH
Confidence            77777766 3332222223333333 555555555555544 33322111111111111   11    224566666666


Q ss_pred             hCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc-C--ChHHHHHHHHHhhhC
Q 040576          513 KLPMEAGPALWGALLSACST----HSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASE-G--KWDEVENLRRIMKEK  583 (641)
Q Consensus       513 ~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g--~~~~A~~~~~~m~~~  583 (641)
                      +...+.+......+...|..    ..+++.|...+.++.+..   +.....++..+... |  .+..|.+++++..+.
T Consensus       464 ~a~~~g~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~---~~~~~nlg~~~e~g~g~~~~~~a~~~~~~~~~~  538 (552)
T KOG1550|consen  464 RAAAQGNADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG---AQALFNLGYMHEHGEGIKVLHLAKRYYDQASEE  538 (552)
T ss_pred             HHHhccCHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh---hHHHhhhhhHHhcCcCcchhHHHHHHHHHHHhc
Confidence            66545555555555555432    235777888887777665   55666677666532 1  267788888777543

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=89.92  E-value=4  Score=36.50  Aligned_cols=87  Identities=16%  Similarity=0.098  Sum_probs=48.0

Q ss_pred             hccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHH-HHHHHHHHHHhcCCHHHHHH
Q 040576          465 AGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPA-LWGALLSACSTHSNSELGKI  541 (641)
Q Consensus       465 ~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~-~~~~l~~~~~~~g~~~~a~~  541 (641)
                      .|.+.-|+-=|.....   +.|+ +.+||.|.--+...|+++.|.+.|+.. ...|... +...-.-++.--|+++.|.+
T Consensus        78 lGL~~LAR~DftQaLa---i~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~LAq~  154 (297)
T COG4785          78 LGLRALARNDFSQALA---IRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQD  154 (297)
T ss_pred             hhHHHHHhhhhhhhhh---cCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchHhhHH
Confidence            3444455544555443   4555 456666666666677777777777665 3333321 22222223344566777777


Q ss_pred             HHHHHHhcCCCCC
Q 040576          542 VAQHLMELEPRDP  554 (641)
Q Consensus       542 ~~~~~~~~~p~~~  554 (641)
                      -+.+....+|+||
T Consensus       155 d~~~fYQ~D~~DP  167 (297)
T COG4785         155 DLLAFYQDDPNDP  167 (297)
T ss_pred             HHHHHHhcCCCCh
Confidence            6666666666665

>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=89.86  E-value=7.2  Score=34.45  Aligned_cols=62  Identities=15%  Similarity=0.123  Sum_probs=38.9

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHHccCCHHHHHHHHHHHHH
Q 040576          318 SWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEA--SLMSVLTACANMGVIDIGQWIHSYIQK  379 (641)
Q Consensus       318 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~g~~~~a~~~~~~~~~  379 (641)
                      .+..+...|.+.|+.++|++.|.++.+....+...  .+..++..+...+++..+......+..
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            45666777777777777777777776654444332  345566666666677766666655543

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.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.16  E-value=15  Score=32.44  Aligned_cols=127  Identities=8%  Similarity=-0.040  Sum_probs=75.3

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHH--HHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHH-----H
Q 040576          420 WNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFIC--VLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHY-----G  492 (641)
Q Consensus       420 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~--ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~-----~  492 (641)
                      |..++.+.. .+.. +.....+++......-....+..  +...+...|++++|...++....   . |....+     -
T Consensus        57 Y~~~i~~~~-ak~~-~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~---~-t~De~lk~l~~l  130 (207)
T COG2976          57 YQNAIKAVQ-AKKP-KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALA---Q-TKDENLKALAAL  130 (207)
T ss_pred             HHHHHHHHh-cCCc-hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHc---c-chhHHHHHHHHH
Confidence            444444432 3333 45555566665422211122222  33456778888888888887664   1 222222     3


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhCCCCCCHHH--HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 040576          493 CMVDLLGRAGLMRDSEELVSKLPMEAGPAL--WGALLSACSTHSNSELGKIVAQHLMELEPRD  553 (641)
Q Consensus       493 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  553 (641)
                      .|.......|.+++|+..++... .++-..  ...-...+...|+-++|...|+++++.++.+
T Consensus       131 RLArvq~q~~k~D~AL~~L~t~~-~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~s~  192 (207)
T COG2976         131 RLARVQLQQKKADAALKTLDTIK-EESWAAIVAELRGDILLAKGDKQEARAAYEKALESDASP  192 (207)
T ss_pred             HHHHHHHHhhhHHHHHHHHhccc-cccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHccCCh
Confidence            45567788899999999888874 233222  2333445888889999999999888877443

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.06  E-value=22  Score=34.21  Aligned_cols=113  Identities=12%  Similarity=0.012  Sum_probs=53.8

Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHc---CCCCchhHHHHHHHHHHhcCCHHHH
Q 040576          329 CKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKC---RIKPDVLLSTSLLTMYAKCGVMDLA  405 (641)
Q Consensus       329 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~A  405 (641)
                      .|++.+|-..++++.+. .+.|...+...=.+|...|+.+.-...++.+...   +++...++-..+.-++..+|-+++|
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 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            34455555555555442 3444444444455555555555555555555432   1121222222333344455666666


Q ss_pred             HHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHH
Q 040576          406 RNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFME  442 (641)
Q Consensus       406 ~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~  442 (641)
                      ++.-++..+   .|.-+-.+....+-..|+..++.++..+
T Consensus       195 Ek~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~  234 (491)
T KOG2610|consen  195 EKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYK  234 (491)
T ss_pred             HHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHh
Confidence            666555543   2223334444555555666666555443

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=88.88  E-value=6.5  Score=35.88  Aligned_cols=54  Identities=7%  Similarity=-0.076  Sum_probs=47.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          527 LSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       527 ~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      ..++...|++-++++....++...|.|..+|+.-+.+.+..=+.++|..-+...
T Consensus       237 ~QC~L~~~e~yevleh~seiL~~~~~nvKA~frRakAhaa~Wn~~eA~~D~~~v  290 (329)
T KOG0545|consen  237 CQCLLKKEEYYEVLEHCSEILRHHPGNVKAYFRRAKAHAAVWNEAEAKADLQKV  290 (329)
T ss_pred             HHHHhhHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhcCHHHHHHHHHHH
Confidence            345567788999999999999999999999999999999998999999999888

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=88.88  E-value=0.58  Score=26.02  Aligned_cols=24  Identities=29%  Similarity=0.351  Sum_probs=19.1

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHH
Q 040576          555 GPYVLLSNIYASEGKWDEVENLRR  578 (641)
Q Consensus       555 ~~~~~l~~~~~~~g~~~~A~~~~~  578 (641)
                      .....++.++...|++++|..+++
T Consensus         2 ~a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    2 RARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHh
Confidence            356678888888888888888775

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>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=88.71  E-value=71  Score=39.57  Aligned_cols=308  Identities=12%  Similarity=0.048  Sum_probs=157.3

Q ss_pred             HHHHHHHhCCChHHHHHHHhhC----CCCC--chhHHHHHHHHhcCCChHHHHHHHhh-cCCCCchHHHHHHHHHHhcCC
Q 040576          228 SMIDGYVKNREVGFARELFDFM----PERD--IFTWNSMISGYVDVGDMEAANGLFDL-MPFRDVVSWNCMIDGYAKIGN  300 (641)
Q Consensus       228 ~li~~~~~~g~~~~A~~~~~~m----~~~~--~~~~~~ll~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~li~~~~~~~~  300 (641)
                      .+..+-.+.+.+.+|+..+++-    .+.+  ..-|..+...|+..+++|...-+... ...+  . ....+......|+
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~~--s-l~~qil~~e~~g~ 1464 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFADP--S-LYQQILEHEASGN 1464 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcCc--c-HHHHHHHHHhhcc
Confidence            4445666788899999999883    2222  23444555588888888887766663 2222  2 2334455677899


Q ss_pred             hHHHHHHHHhcCC--C-CcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHH-HHHHHHccCCHHHHHHHHHH
Q 040576          301 VTSARNCFDRMCM--R-NVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMS-VLTACANMGVIDIGQWIHSY  376 (641)
Q Consensus       301 ~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~-ll~~~~~~g~~~~a~~~~~~  376 (641)
                      ++.|...|+.+..  | ...+++-++......|.++.++...+-.... ..+....++. -+.+--+.+++|.....+. 
T Consensus      1465 ~~da~~Cye~~~q~~p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~-~se~~~~~~s~~~eaaW~l~qwD~~e~~l~- 1542 (2382)
T KOG0890|consen 1465 WADAAACYERLIQKDPDKEKHHSGVLKSMLAIQHLSTEILHLDGLIIN-RSEEVDELNSLGVEAAWRLSQWDLLESYLS- 1542 (2382)
T ss_pred             HHHHHHHHHHhhcCCCccccchhhHHHhhhcccchhHHHhhhcchhhc-cCHHHHHHHHHHHHHHhhhcchhhhhhhhh-
Confidence            9999999999954  3 3567888888888888888877755544432 2222223322 2334456777777776655 


Q ss_pred             HHHcCCCCchhHHHHHHHHHHhcCCHH--HHHHHHhhcC----C-------CC--hhHHHHHHHHHHHcCChHHHHHHHH
Q 040576          377 IQKCRIKPDVLLSTSLLTMYAKCGVMD--LARNVFDNMT----E-------KN--VVSWNSMIMGYGMHGQGEKALEMFM  441 (641)
Q Consensus       377 ~~~~~~~~~~~~~~~li~~~~~~g~~~--~A~~~~~~~~----~-------~~--~~~~~~li~~~~~~~~~~~A~~~~~  441 (641)
                       ...+-...+.   .++....+..+-|  .-.+..+.+.    +       ..  ...|..++....-..--....    
T Consensus      1543 -~~n~e~w~~~---~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~el~~~~~---- 1614 (2382)
T KOG0890|consen 1543 -DRNIEYWSVE---SIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLLELENSIE---- 1614 (2382)
T ss_pred             -cccccchhHH---HHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHHHHHHHHH----
Confidence             1111111111   1222222211110  0001111111    0       00  123333333322111101000    


Q ss_pred             HHHHCCCCCCHHH------HHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-----hHHHHHHHHHHhhcCCHHHHHHH
Q 040576          442 EMEKRGPTPNDAT------FICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-----VEHYGCMVDLLGRAGLMRDSEEL  510 (641)
Q Consensus       442 ~m~~~g~~p~~~~------~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~li~~~~~~g~~~~A~~~  510 (641)
                      ..  .+..++..+      |..-+.--....+..+-+-.+++..-.....|+     ...|....+..-+.|+++.|...
T Consensus      1615 ~l--~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~na 1692 (2382)
T KOG0890|consen 1615 EL--KKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQNA 1692 (2382)
T ss_pred             Hh--hccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHHHH
Confidence            00  112222211      111111111111112211122221110111222     46677777777789999999987


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 040576          511 VSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELE  550 (641)
Q Consensus       511 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  550 (641)
                      +-.+....-+..+.-...-.-..|+...|..+++..+++.
T Consensus      1693 ll~A~e~r~~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~ 1732 (2382)
T KOG0890|consen 1693 LLNAKESRLPEIVLERAKLLWQTGDELNALSVLQEILSKN 1732 (2382)
T ss_pred             HHhhhhcccchHHHHHHHHHHhhccHHHHHHHHHHHHHhh
Confidence            7665322344455556666788999999999999998754

>PRK09687 putative lyase; Provisional

Probab=88.62  E-value=24  Score=33.95  Aligned_cols=85  Identities=9%  Similarity=-0.035  Sum_probs=35.7

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC
Q 040576          435 KALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL  514 (641)
Q Consensus       435 ~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  514 (641)
                      .+...+..+..   .++...-...+.++.+.|+. .+...+-...+ .   ++  .....+.+++..|.. +|+..+..+
T Consensus       192 ~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~~-~av~~Li~~L~-~---~~--~~~~a~~ALg~ig~~-~a~p~L~~l  260 (280)
T PRK09687        192 DIREAFVAMLQ---DKNEEIRIEAIIGLALRKDK-RVLSVLIKELK-K---GT--VGDLIIEAAGELGDK-TLLPVLDTL  260 (280)
T ss_pred             HHHHHHHHHhc---CCChHHHHHHHHHHHccCCh-hHHHHHHHHHc-C---Cc--hHHHHHHHHHhcCCH-hHHHHHHHH
Confidence            44444444442   23444444455555555542 33333333332 1   11  122344555555553 455544444


Q ss_pred             C-CCCCHHHHHHHHHHH
Q 040576          515 P-MEAGPALWGALLSAC  530 (641)
Q Consensus       515 ~-~~~~~~~~~~l~~~~  530 (641)
                      - ..||..+-...+.+|
T Consensus       261 ~~~~~d~~v~~~a~~a~  277 (280)
T PRK09687        261 LYKFDDNEIITKAIDKL  277 (280)
T ss_pred             HhhCCChhHHHHHHHHH
Confidence            2 234444444444443

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=88.27  E-value=33  Score=35.19  Aligned_cols=49  Identities=2%  Similarity=-0.222  Sum_probs=24.8

Q ss_pred             ccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC
Q 040576          466 GMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL  514 (641)
Q Consensus       466 g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  514 (641)
                      .+.+....+...+.+..|...-...+.-+-.-|....++.+|++++..+
T Consensus       183 dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~~eN~~eai~Ilk~i  231 (711)
T COG1747         183 DDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSENENWTEAIRILKHI  231 (711)
T ss_pred             ccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhccccCHHHHHHHHHHH
Confidence            3444444444455444444444444444445555555566666555543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=87.78  E-value=6.1  Score=37.44  Aligned_cols=57  Identities=16%  Similarity=0.327  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHH
Q 040576          388 LSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEME  444 (641)
Q Consensus       388 ~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~  444 (641)
                      ++..++..+..+|+.+.+...++++..   -+...|..++.+|.+.|+...|+..|+++.
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~  214 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLK  214 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHH
Confidence            344444455555555555544444442   233345555555555555555555444443

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=87.57  E-value=12  Score=36.31  Aligned_cols=127  Identities=15%  Similarity=0.234  Sum_probs=74.2

Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc--cC----CHHHHHHHHHHHHHcCC---CCchhHHHHHHHHHHhcCCH
Q 040576          332 YCECLRLFDRMIRGDAKPNEASLMSVLTACAN--MG----VIDIGQWIHSYIQKCRI---KPDVLLSTSLLTMYAKCGVM  402 (641)
Q Consensus       332 ~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~--~g----~~~~a~~~~~~~~~~~~---~~~~~~~~~li~~~~~~g~~  402 (641)
                      +++.+.+++.|.+.|+.-+..+|.+.......  ..    ....+..+|+.|++...   .++...+..++..  ..++.
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            34566778888888888888777664433333  22    34567888899988653   2334444444333  33333


Q ss_pred             ----HHHHHHHhhcCC-----CChhHHHHHHHHHHHc-CC--hHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 040576          403 ----DLARNVFDNMTE-----KNVVSWNSMIMGYGMH-GQ--GEKALEMFMEMEKRGPTPNDATFICVLS  460 (641)
Q Consensus       403 ----~~A~~~~~~~~~-----~~~~~~~~li~~~~~~-~~--~~~A~~~~~~m~~~g~~p~~~~~~~ll~  460 (641)
                          +.++.+|+.+.+     .|..-+.+-+-++... ..  ..++.++++.+.+.|+++....|..+.-
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGL  225 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHH
Confidence                345555555543     2333333333333222 12  4578899999999999988777665543

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=86.79  E-value=6.1  Score=30.60  Aligned_cols=60  Identities=10%  Similarity=0.066  Sum_probs=42.6

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHH
Q 040576          435 KALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVD  496 (641)
Q Consensus       435 ~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  496 (641)
                      +..+-++.+....+.|++......+.+|.+.+++..|.++|+.++.+.+..  ...|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~--~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNK--KEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT---TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCh--HHHHHHHHH
Confidence            455556666667889999999999999999999999999999998755533  336766654

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 ....

>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=86.59  E-value=31  Score=33.13  Aligned_cols=160  Identities=11%  Similarity=-0.023  Sum_probs=77.4

Q ss_pred             HHHHHHHHHHHcCChH---HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhC-CCCchHHHHHH
Q 040576          419 SWNSMIMGYGMHGQGE---KALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYK-IEPKVEHYGCM  494 (641)
Q Consensus       419 ~~~~li~~~~~~~~~~---~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~p~~~~~~~l  494 (641)
                      +...++.+|...+..+   +|..+++.+...... .+..+..-+..+.+.++.+++.+.+.+|..... ...+....-..
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~e~~~~~~l~~  164 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDHSESNFDSILHH  164 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHhcccccchHHHHHHH
Confidence            5566777777766644   455566666544222 234454556666667888888888888877322 11222222222


Q ss_pred             HHHHhhcCCHHHHHHHHHhC---CCCCCHH-HHH-HHHH---HHHhcCC------HHHHHHHHHHHHhc--CCCCCch--
Q 040576          495 VDLLGRAGLMRDSEELVSKL---PMEAGPA-LWG-ALLS---ACSTHSN------SELGKIVAQHLMEL--EPRDPGP--  556 (641)
Q Consensus       495 i~~~~~~g~~~~A~~~~~~~---~~~~~~~-~~~-~l~~---~~~~~g~------~~~a~~~~~~~~~~--~p~~~~~--  556 (641)
                      +.-+.... ...|...+..+   ...|... ... .++.   .....++      ++....+++.+.+.  .|-++.+  
T Consensus       165 i~~l~~~~-~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~~~  243 (278)
T PF08631_consen  165 IKQLAEKS-PELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAEAAS  243 (278)
T ss_pred             HHHHHhhC-cHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHHHHH
Confidence            22223322 23444444433   1223322 111 1111   1122222      34444444433321  1222221  


Q ss_pred             -----HHHHHHHHHhcCChHHHHHHHHHh
Q 040576          557 -----YVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       557 -----~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                           .-.-+..+.++++|++|.++++-.
T Consensus       244 a~~~LLW~~~~~~~~~k~y~~A~~w~~~a  272 (278)
T PF08631_consen  244 AIHTLLWNKGKKHYKAKNYDEAIEWYELA  272 (278)
T ss_pred             HHHHHHHHHHHHHHhhcCHHHHHHHHHHH
Confidence                 222355577899999999999854

It is also involved in sporulation [].

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=86.18  E-value=1.3  Score=27.81  Aligned_cols=27  Identities=26%  Similarity=0.389  Sum_probs=22.3

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          556 PYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       556 ~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      ++..|+.+|...|++++|..++++..+
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            577899999999999999999988754

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=86.06  E-value=1.1  Score=26.90  Aligned_cols=21  Identities=19%  Similarity=0.287  Sum_probs=13.0

Q ss_pred             hHHHHHHHHHHhhcCCHHHHH
Q 040576          488 VEHYGCMVDLLGRAGLMRDSE  508 (641)
Q Consensus       488 ~~~~~~li~~~~~~g~~~~A~  508 (641)
                      ...|..+...|...|++++|+
T Consensus        13 ~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   13 AEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHHHHHHHHHHHCcCHHhhc
Confidence            556666666666666666654

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=85.94  E-value=44  Score=34.25  Aligned_cols=87  Identities=11%  Similarity=0.108  Sum_probs=38.0

Q ss_pred             HHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHH---HhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHh
Q 040576          458 VLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDL---LGRAGLMRDSEELVSKL--PMEAGPALWGALLSACST  532 (641)
Q Consensus       458 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~---~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~  532 (641)
                      ++.-+.+.|-+.+|...+..+..  --+|+...|..+|..   ...+| +.-+.++|+.|  ....++..|...+.--..
T Consensus       466 ~l~~~~e~~~~~~ark~y~~l~~--lpp~sl~l~r~miq~e~~~~sc~-l~~~r~~yd~a~~~fg~d~~lw~~y~~~e~~  542 (568)
T KOG2396|consen  466 YLDWAYESGGYKKARKVYKSLQE--LPPFSLDLFRKMIQFEKEQESCN-LANIREYYDRALREFGADSDLWMDYMKEELP  542 (568)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHh--CCCccHHHHHHHHHHHhhHhhcC-chHHHHHHHHHHHHhCCChHHHHHHHHhhcc
Confidence            34444445555555555555544  122334444444432   11222 44444444444  122444455544444445


Q ss_pred             cCCHHHHHHHHHHHH
Q 040576          533 HSNSELGKIVAQHLM  547 (641)
Q Consensus       533 ~g~~~~a~~~~~~~~  547 (641)
                      +|..+.+-.++.++.
T Consensus       543 ~g~~en~~~~~~ra~  557 (568)
T KOG2396|consen  543 LGRPENCGQIYWRAM  557 (568)
T ss_pred             CCCcccccHHHHHHH
Confidence            555544444444443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=85.68  E-value=8.2  Score=29.57  Aligned_cols=63  Identities=11%  Similarity=0.108  Sum_probs=47.3

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHH
Q 040576          432 QGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVD  496 (641)
Q Consensus       432 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  496 (641)
                      +.-++.+-++.+....+.|++....+.+.+|.+.+++..|.++|+.++.+.+.  +...|..+++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHHH
Confidence            34455666677777788999999999999999999999999999988763443  4445665553

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.

>PRK12798 chemotaxis protein; Reviewed

Probab=85.65  E-value=42  Score=33.71  Aligned_cols=205  Identities=14%  Similarity=0.148  Sum_probs=137.0

Q ss_pred             cCCHHHHHHHHhhcCC----CChhHHHHHHHH-HHHcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhhccHH
Q 040576          399 CGVMDLARNVFDNMTE----KNVVSWNSMIMG-YGMHGQGEKALEMFMEMEKRGPTPND----ATFICVLSACTHAGMVL  469 (641)
Q Consensus       399 ~g~~~~A~~~~~~~~~----~~~~~~~~li~~-~~~~~~~~~A~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~g~~~  469 (641)
                      .|+..+|.+.+..+..    +....|-.|+.+ .....+..+|+.+|+...-.  -|..    .....-+....+.|+.+
T Consensus       125 ~Gr~~~a~~~La~i~~~~l~~~lg~~laLv~a~l~~~~dP~~Al~~lD~aRLl--aPGTLvEEAALRRsi~la~~~g~~~  202 (421)
T PRK12798        125 SGRGREARKLLAGVAPEYLPAELGAYLALVQGNLMVATDPATALKLLDQARLL--APGTLVEEAALRRSLFIAAQLGDAD  202 (421)
T ss_pred             cCCHHHHHHHhhcCChhhcCchhhhHHHHHHHHHhcccCHHHHHHHHHHHHHh--CCchHHHHHHHHHhhHHHHhcCcHH
Confidence            5899999999988874    445567777765 44567899999999987753  3432    23344455667889999


Q ss_pred             HHHHHHHHhHHhhCCCCchHHH-HHHHHHHhhcC---CHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 040576          470 EGWWYFDLMQRIYKIEPKVEHY-GCMVDLLGRAG---LMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQH  545 (641)
Q Consensus       470 ~a~~~~~~~~~~~~~~p~~~~~-~~li~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  545 (641)
                      ++..+-..-...+...|=...| ..+..++.+.+   ..+.-.+++..|.-.-....|..+...-...|+.+.|...-++
T Consensus       203 rf~~la~~Y~rRF~~S~YA~~F~~~F~~~~~~~~d~~~~~~l~~~ls~~d~~~q~~lYL~iAR~Ali~Gk~~lA~~As~~  282 (421)
T PRK12798        203 KFEALARNYLRRFRHSPYASQFAQRFVDLVVRLDDEIRDARLVEILSFMDPERQRELYLRIARAALIDGKTELARFASER  282 (421)
T ss_pred             HHHHHHHHHHHHhccCchHHHHHHHHHHHHHhccccccHHHHHHHHHhcCchhHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            8887766665534444433222 23333444333   4556666777775334466888888888999999999999999


Q ss_pred             HHhcCCCCCchHHHHHHHHH-----hcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHH
Q 040576          546 LMELEPRDPGPYVLLSNIYA-----SEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSML  620 (641)
Q Consensus       546 ~~~~~p~~~~~~~~l~~~~~-----~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l  620 (641)
                      +..+...+ ..-...+..|.     -..+.++|.+.++.+-.                      .++.|.|..  +.+.-
T Consensus       283 A~~L~~~~-~~~~~ra~LY~aaa~v~s~~~~~al~~L~~I~~----------------------~~L~~~Dr~--Ll~AA  337 (421)
T PRK12798        283 ALKLADPD-SADAARARLYRGAALVASDDAESALEELSQIDR----------------------DKLSERDRA--LLEAA  337 (421)
T ss_pred             HHHhccCC-CcchHHHHHHHHHHccCcccHHHHHHHHhcCCh----------------------hhCChhhHH--HHHHH
Confidence            99887432 23333333433     45678889988888743                      577888888  66666


Q ss_pred             HHHHHHHHhh
Q 040576          621 GEIGAQMKMC  630 (641)
Q Consensus       621 ~~l~~~~~~~  630 (641)
                      ..+..++.+.
T Consensus       338 ~~va~~V~~~  347 (421)
T PRK12798        338 RSVARQVRRA  347 (421)
T ss_pred             HHHHHHHhcC
Confidence            6666666554

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=85.44  E-value=1.8  Score=25.27  Aligned_cols=30  Identities=13%  Similarity=0.015  Sum_probs=23.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 040576          524 GALLSACSTHSNSELGKIVAQHLMELEPRD  553 (641)
Q Consensus       524 ~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  553 (641)
                      -.+..++...|+.++|...++++++..|++
T Consensus         4 ~~~a~~~~~~g~~~~A~~~~~~~~~~~P~s   33 (33)
T PF13174_consen    4 YRLARCYYKLGDYDEAIEYFQRLIKRYPDS   33 (33)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHCcCC
Confidence            345666778888888888888888888864

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=85.34  E-value=61  Score=35.32  Aligned_cols=48  Identities=17%  Similarity=-0.025  Sum_probs=33.0

Q ss_pred             ccHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCC
Q 040576          122 FMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIR  171 (641)
Q Consensus       122 ~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~  171 (641)
                      ..--++|--|.+.|++++|.++.. .... ........|...++.+....
T Consensus       112 ~p~Wa~Iyy~LR~G~~~~A~~~~~-~~~~-~~~~~~~~f~~~l~~~~~s~  159 (613)
T PF04097_consen  112 DPIWALIYYCLRCGDYDEALEVAN-ENRN-QFQKIERSFPTYLKAYASSP  159 (613)
T ss_dssp             EEHHHHHHHHHTTT-HHHHHHHHH-HTGG-GS-TTTTHHHHHHHHCTTTT
T ss_pred             CccHHHHHHHHhcCCHHHHHHHHH-Hhhh-hhcchhHHHHHHHHHHHhCC
Confidence            334467778889999999999985 3433 35666778888888887653

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.

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=85.02  E-value=1.6  Score=43.86  Aligned_cols=84  Identities=14%  Similarity=0.046  Sum_probs=53.6

Q ss_pred             HHhhcCCHHHHHHHHHhC-CCCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHH
Q 040576          497 LLGRAGLMRDSEELVSKL-PMEAGPALW-GALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVE  574 (641)
Q Consensus       497 ~~~~~g~~~~A~~~~~~~-~~~~~~~~~-~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  574 (641)
                      -+...+.++.|+.++.++ ...|+-..| ..-..++.+.+++..|+.-+.++++++|.....|..-+.++.+.+.+.+|.
T Consensus        13 ~~l~~~~fd~avdlysKaI~ldpnca~~~anRa~a~lK~e~~~~Al~Da~kaie~dP~~~K~Y~rrg~a~m~l~~~~~A~   92 (476)
T KOG0376|consen   13 EALKDKVFDVAVDLYSKAIELDPNCAIYFANRALAHLKVESFGGALHDALKAIELDPTYIKAYVRRGTAVMALGEFKKAL   92 (476)
T ss_pred             hhcccchHHHHHHHHHHHHhcCCcceeeechhhhhheeechhhhHHHHHHhhhhcCchhhheeeeccHHHHhHHHHHHHH
Confidence            344455666666666655 344543333 222255667777777777777777777777777777777777777777777


Q ss_pred             HHHHHh
Q 040576          575 NLRRIM  580 (641)
Q Consensus       575 ~~~~~m  580 (641)
                      ..++..
T Consensus        93 ~~l~~~   98 (476)
T KOG0376|consen   93 LDLEKV   98 (476)
T ss_pred             HHHHHh
Confidence            777665

>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=84.91  E-value=1.7  Score=25.80  Aligned_cols=28  Identities=25%  Similarity=0.349  Sum_probs=25.1

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          555 GPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       555 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      ..|..++.+|...|++++|.+.+++..+
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3688999999999999999999999854

...

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=84.86  E-value=30  Score=31.29  Aligned_cols=126  Identities=16%  Similarity=0.176  Sum_probs=79.1

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc----hHHHHHH
Q 040576          419 SWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK----VEHYGCM  494 (641)
Q Consensus       419 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l  494 (641)
                      +.+..++.+.+.+...+|+...++-.+.... |..+-..++..++-.|+|++|..-++....   +.|+    ...|..+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~l~a~---l~p~~t~~a~lyr~l   78 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLNLAAT---LSPQDTVGASLYRHL   78 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHHHHhh---cCcccchHHHHHHHH
Confidence            3455677788889999999998887776322 445666788899999999999988887765   4444    5566666


Q ss_pred             HHHHhhcCCHHHHH-HHHHhC--C---CCCCHHHHHHHHHHHH--hcCCHHHHHHHHHHHHhcCCCCCc
Q 040576          495 VDLLGRAGLMRDSE-ELVSKL--P---MEAGPALWGALLSACS--THSNSELGKIVAQHLMELEPRDPG  555 (641)
Q Consensus       495 i~~~~~~g~~~~A~-~~~~~~--~---~~~~~~~~~~l~~~~~--~~g~~~~a~~~~~~~~~~~p~~~~  555 (641)
                      |.+-       .+. ++|..-  |   ..|.+.-...++.+..  .-|.-+.+..+-+.+++..|..+.
T Consensus        79 ir~e-------a~R~evfag~~~Pgflg~p~p~wva~L~aala~h~dg~gea~~alreqal~aa~~~iG  140 (273)
T COG4455          79 IRCE-------AARNEVFAGGAVPGFLGGPSPEWVAALLAALALHSDGAGEARTALREQALKAAPVPIG  140 (273)
T ss_pred             HHHH-------HHHHHHhccCCCCCCcCCCCHHHHHHHHHHHhcccCCcchHHHHHHHHHHhhCCCCCc
Confidence            6542       222 234322  2   2244444445555533  333455566666777777666543

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=84.74  E-value=2.4  Score=26.44  Aligned_cols=28  Identities=14%  Similarity=0.118  Sum_probs=17.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040576          521 ALWGALLSACSTHSNSELGKIVAQHLME  548 (641)
Q Consensus       521 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~  548 (641)
                      .+++.|...|...|++++|+.+++++++
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            3456666666667777777777666654

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.56  E-value=52  Score=36.85  Aligned_cols=27  Identities=19%  Similarity=0.327  Sum_probs=20.9

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHH
Q 040576          318 SWNILLALYVRCKDYCECLRLFDRMIR  344 (641)
Q Consensus       318 ~~~~li~~~~~~g~~~~A~~~~~~m~~  344 (641)
                      .|..|+..|...|+.++|++++.+...
T Consensus       506 ~y~~Li~LY~~kg~h~~AL~ll~~l~d  532 (877)
T KOG2063|consen  506 KYRELIELYATKGMHEKALQLLRDLVD  532 (877)
T ss_pred             cHHHHHHHHHhccchHHHHHHHHHHhc
Confidence            377778888888888888888887765

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=84.47  E-value=5.8  Score=30.35  Aligned_cols=43  Identities=12%  Similarity=0.160  Sum_probs=32.9

Q ss_pred             HHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          540 KIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       540 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      ...++..++.+|+|......++..+...|++++|++.+-.+..
T Consensus         8 ~~al~~~~a~~P~D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~   50 (90)
T PF14561_consen    8 IAALEAALAANPDDLDARYALADALLAAGDYEEALDQLLELVR   50 (90)
T ss_dssp             HHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4556677778888888888888888888888888888887744

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.28  E-value=24  Score=36.88  Aligned_cols=150  Identities=17%  Similarity=0.117  Sum_probs=93.3

Q ss_pred             hcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHH
Q 040576          398 KCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDL  477 (641)
Q Consensus       398 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~  477 (641)
                      -.|+++.|..++..++++   .-+.++.-+.++|-.++|+++-       ..|+. -|.    ...+.|+++.|.++..+
T Consensus       598 mrrd~~~a~~vLp~I~k~---~rt~va~Fle~~g~~e~AL~~s-------~D~d~-rFe----lal~lgrl~iA~~la~e  662 (794)
T KOG0276|consen  598 LRRDLEVADGVLPTIPKE---IRTKVAHFLESQGMKEQALELS-------TDPDQ-RFE----LALKLGRLDIAFDLAVE  662 (794)
T ss_pred             hhccccccccccccCchh---hhhhHHhHhhhccchHhhhhcC-------CChhh-hhh----hhhhcCcHHHHHHHHHh
Confidence            456777777766666632   2334455555666666665532       22222 222    23456888888776655


Q ss_pred             hHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchH
Q 040576          478 MQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPY  557 (641)
Q Consensus       478 ~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  557 (641)
                      ..       +..-|..|.++....|++..|.+.|.+..      -|..|+-.+...|+.+.-..+-..+.+.+..|    
T Consensus       663 ~~-------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~------d~~~LlLl~t~~g~~~~l~~la~~~~~~g~~N----  725 (794)
T KOG0276|consen  663 AN-------SEVKWRQLGDAALSAGELPLASECFLRAR------DLGSLLLLYTSSGNAEGLAVLASLAKKQGKNN----  725 (794)
T ss_pred             hc-------chHHHHHHHHHHhhcccchhHHHHHHhhc------chhhhhhhhhhcCChhHHHHHHHHHHhhcccc----
Confidence            42       35568888888888888888888888764      25556666677777665555555555444443    


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHh
Q 040576          558 VLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       558 ~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                       .-..+|...|++++..+++..-
T Consensus       726 -~AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  726 -LAFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             -hHHHHHHHcCCHHHHHHHHHhc
Confidence             3445667788888888887654

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=84.24  E-value=51  Score=35.40  Aligned_cols=15  Identities=7%  Similarity=-0.243  Sum_probs=9.1

Q ss_pred             HHHHHHHHHHHHHcC
Q 040576          367 IDIGQWIHSYIQKCR  381 (641)
Q Consensus       367 ~~~a~~~~~~~~~~~  381 (641)
                      ...+..+++...+.|
T Consensus       228 ~~~a~~~~~~~a~~g  242 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLG  242 (552)
T ss_pred             hhHHHHHHHHHHhhc
Confidence            455666666666655

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=83.97  E-value=70  Score=34.90  Aligned_cols=157  Identities=13%  Similarity=0.105  Sum_probs=81.2

Q ss_pred             HHHHHHHHHhhcCCChHHHHHhhhcC----CCCCcc-----cHHHHHHHHHcCCCchhHHHHHHHHHHhc----CCCCCc
Q 040576           91 AASRVLKKLCTSLSSVSLSVLFFDGI----QEPDAF-----MCNTIMKSFLMLNDPFGALSFYYEKMMAK----FVEHNH  157 (641)
Q Consensus        91 ~~~~ll~~~~~~~~~~~~A~~~~~~~----~~~~~~-----~~~~li~~~~~~g~~~~A~~~~~~~m~~~----~~~~~~  157 (641)
                      +...+..-++....+++.|...+.+.    .+++..     .-..+++.+.+.+... |+...+ ...+.    +..+-.
T Consensus        61 ~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~-a~~~l~-~~I~~~~~~~~~~w~  138 (608)
T PF10345_consen   61 VRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA-ALKNLD-KAIEDSETYGHSAWY  138 (608)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH-HHHHHH-HHHHHHhccCchhHH
Confidence            33334443344678888888888764    222211     1123455666655555 777777 33322    111222


Q ss_pred             chHHHH-HHHHhcCCCchhHHHHHHHHHHhC---CCCChhHHHHHHHHHH--hcCCHHHHHHHHhcC----C--------
Q 040576          158 YTFPLL-GKVCAGIRSLREGKKVHARIVKCG---FELDLFVRNSLIHMYS--VCGEVLDARKVFEDG----P--------  219 (641)
Q Consensus       158 ~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~g---~~~~~~~~~~li~~~~--~~g~~~~A~~~~~~~----~--------  219 (641)
                      ..|..+ +..+...++...|.+.++.+...-   ..|-..++-.++.+..  +.+..+++.+.+++.    .        
T Consensus       139 ~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~  218 (608)
T PF10345_consen  139 YAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSV  218 (608)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCC
Confidence            333443 222323378888888887766532   2444555555555544  345455555555432    1        


Q ss_pred             -CCCeeHHHHHHHH--HHhCCChHHHHHHHhhC
Q 040576          220 -VWDLVTWNSMIDG--YVKNREVGFARELFDFM  249 (641)
Q Consensus       220 -~~~~~~~~~li~~--~~~~g~~~~A~~~~~~m  249 (641)
                       .|-..+|..+++.  +...|+++.+...++++
T Consensus       219 ~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~l  251 (608)
T PF10345_consen  219 HIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQL  251 (608)
T ss_pred             CcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence             1223456666554  45667776766666555

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 [].

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=83.62  E-value=4.9  Score=36.54  Aligned_cols=82  Identities=11%  Similarity=0.032  Sum_probs=58.3

Q ss_pred             cCCHHHHHHHHHhC-CCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHH
Q 040576          501 AGLMRDSEELVSKL-PMEAGPA-LWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRR  578 (641)
Q Consensus       501 ~g~~~~A~~~~~~~-~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  578 (641)
                      ..++..|+..|.+. ...|+.. .|..-+-++.+..+++.+..--.+++++.|+.....+.++..+.....+++|+..+.
T Consensus        23 ~k~y~~ai~~y~raI~~nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~~N~vk~h~flg~~~l~s~~~~eaI~~Lq  102 (284)
T KOG4642|consen   23 PKRYDDAIDCYSRAICINPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLDPNLVKAHYFLGQWLLQSKGYDEAIKVLQ  102 (284)
T ss_pred             hhhhchHHHHHHHHHhcCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcChHHHHHHHHHHHHHHhhccccHHHHHHH
Confidence            34455666655544 4556653 445555566677788888888888888888888888888888888888888888888


Q ss_pred             Hhhh
Q 040576          579 IMKE  582 (641)
Q Consensus       579 ~m~~  582 (641)
                      +...
T Consensus       103 ra~s  106 (284)
T KOG4642|consen  103 RAYS  106 (284)
T ss_pred             HHHH
Confidence            7743

>smart00028 TPR Tetratricopeptide repeats

Probab=83.29  E-value=2.2  Score=24.14  Aligned_cols=27  Identities=19%  Similarity=0.163  Sum_probs=12.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 040576          525 ALLSACSTHSNSELGKIVAQHLMELEP  551 (641)
Q Consensus       525 ~l~~~~~~~g~~~~a~~~~~~~~~~~p  551 (641)
                      .+...+...|+++.|...++.+++..|
T Consensus         6 ~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        6 NLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            334444444444444444444444443

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=82.99  E-value=17  Score=36.70  Aligned_cols=143  Identities=13%  Similarity=0.129  Sum_probs=90.3

Q ss_pred             HHHHHHHcCChHHHHHH-HHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhc
Q 040576          423 MIMGYGMHGQGEKALEM-FMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRA  501 (641)
Q Consensus       423 li~~~~~~~~~~~A~~~-~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~  501 (641)
                      -|.--...|+.-.|-+- +.-++...-.|+..-....  ...+.|+++.+.+.+....+  -+.....+..++++..-+.
T Consensus       295 si~k~~~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~--i~~~lg~ye~~~~~~s~~~~--~~~s~~~~~~~~~r~~~~l  370 (831)
T PRK15180        295 SITKQLADGDIIAASQQLFAALRNQQQDPVLIQLRSV--IFSHLGYYEQAYQDISDVEK--IIGTTDSTLRCRLRSLHGL  370 (831)
T ss_pred             HHHHHhhccCHHHHHHHHHHHHHhCCCCchhhHHHHH--HHHHhhhHHHHHHHhhchhh--hhcCCchHHHHHHHhhhch
Confidence            34445567777776554 4444444345555544333  34677999999888877765  2344566777888888888


Q ss_pred             CCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchH-HHHHHH-HHhcCC
Q 040576          502 GLMRDSEELVSKL-PM-EAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPY-VLLSNI-YASEGK  569 (641)
Q Consensus       502 g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~-~~l~~~-~~~~g~  569 (641)
                      |++++|..+-+.| .. -.++.............|-++++...+++++.+.|+....+ +.|... |...|+
T Consensus       371 ~r~~~a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~~~g~v~~~~~~~~~~~~~  442 (831)
T PRK15180        371 ARWREALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPETQSGWVNFLSSTQYFNDGN  442 (831)
T ss_pred             hhHHHHHHHHHHHhccccCChhheeeecccHHHHhHHHHHHHHHHHHhccCChhcccceeeeccceeccCcc
Confidence            9999998888777 21 13344444344445677888899999999988886644333 333322 444443

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.80  E-value=18  Score=37.71  Aligned_cols=99  Identities=16%  Similarity=0.079  Sum_probs=50.2

Q ss_pred             HhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 040576          296 AKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHS  375 (641)
Q Consensus       296 ~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  375 (641)
                      .+.|+++.|.++..+.  .+..-|..|..+....+++..|.+.|.....         |..|+-.+...|+-+....+-.
T Consensus       648 l~lgrl~iA~~la~e~--~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~  716 (794)
T KOG0276|consen  648 LKLGRLDIAFDLAVEA--NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLAS  716 (794)
T ss_pred             hhcCcHHHHHHHHHhh--cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHH
Confidence            3455555555554432  2344566666666666666666666655543         3445555555555554444444


Q ss_pred             HHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhh
Q 040576          376 YIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDN  411 (641)
Q Consensus       376 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  411 (641)
                      ...+.|. .     |....+|...|+++++.+++.+
T Consensus       717 ~~~~~g~-~-----N~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  717 LAKKQGK-N-----NLAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             HHHhhcc-c-----chHHHHHHHcCCHHHHHHHHHh
Confidence            4444441 1     1122234445555555555443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=82.42  E-value=13  Score=35.40  Aligned_cols=99  Identities=12%  Similarity=0.073  Sum_probs=66.6

Q ss_pred             CCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC-CCh-----hHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHH
Q 040576          381 RIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE-KNV-----VSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDAT  454 (641)
Q Consensus       381 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~-----~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~  454 (641)
                      |.+....+...++..-....+++++...+-++.. ++.     .+-.+.+..+ -.=++++++.++..=.+-|+-||..+
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irll-lky~pq~~i~~l~npIqYGiF~dqf~  137 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQFT  137 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHH-HccChHHHHHHHhCcchhccccchhh
Confidence            4444555555566666666778888877776653 211     1111222222 23466788888888888899999999


Q ss_pred             HHHHHHHHHhhccHHHHHHHHHHhHH
Q 040576          455 FICVLSACTHAGMVLEGWWYFDLMQR  480 (641)
Q Consensus       455 ~~~ll~~~~~~g~~~~a~~~~~~~~~  480 (641)
                      ++.+++.+.+.+++.+|..+...|..
T Consensus       138 ~c~l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  138 FCLLMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            99999999999999888887776655

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.19  E-value=81  Score=34.34  Aligned_cols=147  Identities=10%  Similarity=0.073  Sum_probs=81.4

Q ss_pred             HhcCCCchhHHHHHHHHHHhCCCC---ChhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCeeHHHHHHHHHHhCCChHHHH
Q 040576          167 CAGIRSLREGKKVHARIVKCGFEL---DLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFAR  243 (641)
Q Consensus       167 ~~~~~~~~~a~~~~~~~~~~g~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  243 (641)
                      +.+.+.+++|..+.+...  |..|   -..++..+|..+.-.|++++|-...-.|...+..-|...+..+...++.....
T Consensus       366 ll~~k~yeeAl~~~k~~~--~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~~Ia  443 (846)
T KOG2066|consen  366 LLEKKKYEEALDAAKASI--GNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLTDIA  443 (846)
T ss_pred             HHHhhHHHHHHHHHHhcc--CCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccchhh
Confidence            334455555555443322  2233   23466677777777777887777777777777777777777777766665544


Q ss_pred             HHHhhCC-CCCchhHHHHHHHHhcCCChHHHHHHHhhcC--------------------CCCchHHHHHHHHHHhcCChH
Q 040576          244 ELFDFMP-ERDIFTWNSMISGYVDVGDMEAANGLFDLMP--------------------FRDVVSWNCMIDGYAKIGNVT  302 (641)
Q Consensus       244 ~~~~~m~-~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~--------------------~~~~~~~~~li~~~~~~~~~~  302 (641)
                      .++-.-. .-+...|..++..+.. .+...-.++...-.                    ..+......|+..|...+++.
T Consensus       444 ~~lPt~~~rL~p~vYemvLve~L~-~~~~~F~e~i~~Wp~~Lys~l~iisa~~~q~~q~Se~~~L~e~La~LYl~d~~Y~  522 (846)
T KOG2066|consen  444 PYLPTGPPRLKPLVYEMVLVEFLA-SDVKGFLELIKEWPGHLYSVLTIISATEPQIKQNSESTALLEVLAHLYLYDNKYE  522 (846)
T ss_pred             ccCCCCCcccCchHHHHHHHHHHH-HHHHHHHHHHHhCChhhhhhhHHHhhcchHHHhhccchhHHHHHHHHHHHccChH
Confidence            4433321 1344566666666655 22221111111100                    011233444777788888888


Q ss_pred             HHHHHHHhcCCCCc
Q 040576          303 SARNCFDRMCMRNV  316 (641)
Q Consensus       303 ~A~~~~~~~~~~~~  316 (641)
                      +|...+-....+++
T Consensus       523 ~Al~~ylklk~~~v  536 (846)
T KOG2066|consen  523 KALPIYLKLQDKDV  536 (846)
T ss_pred             HHHHHHHhccChHH
Confidence            88887777655443

>PRK11619 lytic murein transglycosylase; Provisional

Probab=81.57  E-value=88  Score=34.28  Aligned_cols=367  Identities=10%  Similarity=-0.064  Sum_probs=175.5

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHhcC---CCCCeeHHHHHHHHHHhCCChHHHHHHHhhCCCCCchhHHHHHHHHhcC
Q 040576          191 DLFVRNSLIHMYSVCGEVLDARKVFEDG---PVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDV  267 (641)
Q Consensus       191 ~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~ll~~~~~~  267 (641)
                      +...-.....+....|+.++|.+.....   ....+..++.+++.+.+.|.+.... +..            -+......
T Consensus       128 ~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g~~~p~~cd~l~~~~~~~g~lt~~d-~w~------------R~~~al~~  194 (644)
T PRK11619        128 PVEARCNYYYAKWATGQQQEAWQGAKELWLTGKSLPNACDKLFSVWQQSGKQDPLA-YLE------------RIRLAMKA  194 (644)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCCChHHHHHHHHHHHcCCCCHHH-HHH------------HHHHHHHC
Confidence            3444444555555666655444433331   1223455666666666555443322 111            12333455


Q ss_pred             CChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHH--HHHcCChHHHHHHHHHHHHC
Q 040576          268 GDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLAL--YVRCKDYCECLRLFDRMIRG  345 (641)
Q Consensus       268 g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~--~~~~g~~~~A~~~~~~m~~~  345 (641)
                      |+...|..+...+..........++..+.+   ...+..++.... ++...-..++.+  -....+.+.|..++......
T Consensus       195 ~~~~lA~~l~~~l~~~~~~~a~a~~al~~~---p~~~~~~~~~~~-~~~~~~~~~~~~l~Rlar~d~~~A~~~~~~~~~~  270 (644)
T PRK11619        195 GNTGLVTYLAKQLPADYQTIASALIKLQND---PNTVETFARTTG-PTDFTRQMAAVAFASVARQDAENARLMIPSLVRA  270 (644)
T ss_pred             CCHHHHHHHHHhcChhHHHHHHHHHHHHHC---HHHHHHHhhccC-CChhhHHHHHHHHHHHHHhCHHHHHHHHHHHHHh
Confidence            666666666555522112222333333322   233333333221 121111111111  22345668888888876443


Q ss_pred             C-CCCCHH--HHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--CCh-hH
Q 040576          346 D-AKPNEA--SLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE--KNV-VS  419 (641)
Q Consensus       346 g-~~p~~~--~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~-~~  419 (641)
                      . ..+...  ....+.......+..+++...+.......  .+......-+..-.+.++++.+...+..|..  .+. .-
T Consensus       271 ~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~~--~~~~~~e~r~r~Al~~~dw~~~~~~i~~L~~~~~~~~rw  348 (644)
T PRK11619        271 QKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMRS--QSTSLLERRVRMALGTGDRRGLNTWLARLPMEAKEKDEW  348 (644)
T ss_pred             cCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhccccc--CCcHHHHHHHHHHHHccCHHHHHHHHHhcCHhhccCHhh
Confidence            2 322222  22223222223222445555554433222  2344445455555578888888888888763  111 11


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHH-HHHHH-HhHHhhCCCCchHHHHHHHHH
Q 040576          420 WNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEG-WWYFD-LMQRIYKIEPKVEHYGCMVDL  497 (641)
Q Consensus       420 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a-~~~~~-~~~~~~~~~p~~~~~~~li~~  497 (641)
                      ..=+..++...|+.++|...|+++...      .+|..++.+ .+.|..-.- ..... .... ....|    --.-+..
T Consensus       349 ~YW~aRa~~~~g~~~~A~~~~~~~a~~------~~fYG~LAa-~~Lg~~~~~~~~~~~~~~~~-~~~~~----~~~ra~~  416 (644)
T PRK11619        349 RYWQADLLLEQGRKAEAEEILRQLMQQ------RGFYPMVAA-QRLGEEYPLKIDKAPKPDSA-LTQGP----EMARVRE  416 (644)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhcC------CCcHHHHHH-HHcCCCCCCCCCCCCchhhh-hccCh----HHHHHHH
Confidence            222456666678888888888886431      123333322 112211000 00000 0000 00001    1123455


Q ss_pred             HhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC---CCCCchHHHHHHHHHhcCChHHHH
Q 040576          498 LGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELE---PRDPGPYVLLSNIYASEGKWDEVE  574 (641)
Q Consensus       498 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~~A~  574 (641)
                      +...|+..+|...+..+....+......+.......|..+.++.........+   -..|..|...+..+.+.-..+.++
T Consensus       417 L~~~g~~~~a~~ew~~~~~~~~~~~~~~la~~A~~~g~~~~ai~~~~~~~~~~~~~~rfp~~~~~~~~~~a~~~~v~~~l  496 (644)
T PRK11619        417 LMYWNMDNTARSEWANLVASRSKTEQAQLARYAFNQQWWDLSVQATIAGKLWDHLEERFPLAWNDEFRRYTSGKGIPQSY  496 (644)
T ss_pred             HHHCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCHHHHHHHHhhchhHHHHHHhCCcchHHHHHHHHHHcCCCHHH
Confidence            66788999998888776434566666666666778888888887776543211   122445666777777666677766


Q ss_pred             HHHHHhhhCCCccc
Q 040576          575 NLRRIMKEKELEKA  588 (641)
Q Consensus       575 ~~~~~m~~~~~~~~  588 (641)
                      -.---..|.+..+.
T Consensus       497 v~ai~rqES~f~p~  510 (644)
T PRK11619        497 AMAIARQESAWNPK  510 (644)
T ss_pred             HHHHHHHhcCCCCC
Confidence            54333345555543

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=81.13  E-value=16  Score=32.97  Aligned_cols=60  Identities=15%  Similarity=0.065  Sum_probs=33.2

Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 040576          494 MVDLLGRAGLMRDSEELVSKL-PMEAGPA-LWGALLSACSTHSNSELGKIVAQHLMELEPRD  553 (641)
Q Consensus       494 li~~~~~~g~~~~A~~~~~~~-~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  553 (641)
                      -+..+.+.+.+.+|+...+.- +.+|... .-..++..++-.|++++|..-++-+-++.|++
T Consensus         7 t~seLL~~~sL~dai~~a~~qVkakPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~   68 (273)
T COG4455           7 TISELLDDNSLQDAIGLARDQVKAKPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQD   68 (273)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHhcCCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCccc
Confidence            344555566666666654432 3344433 33445555666666666666666666666654

>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=81.08  E-value=1.7  Score=36.90  Aligned_cols=54  Identities=6%  Similarity=0.052  Sum_probs=28.7

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 040576          322 LLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHS  375 (641)
Q Consensus       322 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  375 (641)
                      ++..+.+.+.++....+++.+...+...+....+.++..|++.+..+....+++
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            344445555566666666666655444455555666666666655555554444

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.

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=80.98  E-value=24  Score=27.36  Aligned_cols=86  Identities=13%  Similarity=0.139  Sum_probs=57.5

Q ss_pred             HHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 040576          367 IDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKR  446 (641)
Q Consensus       367 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  446 (641)
                      .++|..|-+.+...+-. ...+--+-+..+...|++++|..+.+....||...|-+|-.  .+.|-.+++..-+.+|...
T Consensus        21 HqEA~tIAdwL~~~~~~-~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~rla~s   97 (115)
T TIGR02508        21 HQEANTIADWLHLKGES-EEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLNRLAAS   97 (115)
T ss_pred             HHHHHHHHHHHhcCCch-HHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHHHHHhC
Confidence            45566666655554421 22222233456678899999999999988899998877654  4567777777778888877


Q ss_pred             CCCCCHHHHH
Q 040576          447 GPTPNDATFI  456 (641)
Q Consensus       447 g~~p~~~~~~  456 (641)
                      | .|....|.
T Consensus        98 g-~p~lq~Fa  106 (115)
T TIGR02508        98 G-DPRLQTFV  106 (115)
T ss_pred             C-CHHHHHHH
Confidence            6 55555554

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=80.33  E-value=1.1  Score=42.93  Aligned_cols=87  Identities=13%  Similarity=0.182  Sum_probs=69.2

Q ss_pred             hcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHH
Q 040576          500 RAGLMRDSEELVSKL-PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLR  577 (641)
Q Consensus       500 ~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  577 (641)
                      ..|.+++|++.|... +..|. ...+..-.+++.+.+....|++-+..+++++|+....|-.-+.+..-.|+|++|.+.+
T Consensus       126 n~G~~~~ai~~~t~ai~lnp~~a~l~~kr~sv~lkl~kp~~airD~d~A~ein~Dsa~~ykfrg~A~rllg~~e~aa~dl  205 (377)
T KOG1308|consen  126 NDGEFDTAIELFTSAIELNPPLAILYAKRASVFLKLKKPNAAIRDCDFAIEINPDSAKGYKFRGYAERLLGNWEEAAHDL  205 (377)
T ss_pred             cCcchhhhhcccccccccCCchhhhcccccceeeeccCCchhhhhhhhhhccCcccccccchhhHHHHHhhchHHHHHHH
Confidence            467788888888776 33343 4455556667888888999999999999999999888888888888899999999999


Q ss_pred             HHhhhCCCc
Q 040576          578 RIMKEKELE  586 (641)
Q Consensus       578 ~~m~~~~~~  586 (641)
                      ....+.+..
T Consensus       206 ~~a~kld~d  214 (377)
T KOG1308|consen  206 ALACKLDYD  214 (377)
T ss_pred             HHHHhcccc
Confidence            988776654

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=80.19  E-value=13  Score=31.23  Aligned_cols=106  Identities=14%  Similarity=0.210  Sum_probs=63.8

Q ss_pred             HHHHHHHHHH---HHhhccHHHHHHHHHHhHHhhCCCCc---hHHHHHHHHHHhhcCCHHHHHHHHHhCCCCC-CHHHHH
Q 040576          452 DATFICVLSA---CTHAGMVLEGWWYFDLMQRIYKIEPK---VEHYGCMVDLLGRAGLMRDSEELVSKLPMEA-GPALWG  524 (641)
Q Consensus       452 ~~~~~~ll~~---~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~  524 (641)
                      ....+.|+..   -...++.+++..+++.+.-   +.|+   ..++.  .-.+.+.|++.+|+.+|++....+ ....-.
T Consensus         7 ~~iv~gLi~~~~~aL~~~d~~D~e~lLdALrv---LrP~~~e~d~~d--g~l~i~rg~w~eA~rvlr~l~~~~~~~p~~k   81 (153)
T TIGR02561         7 NRLLGGLIEVLMYALRSADPYDAQAMLDALRV---LRPNLKELDMFD--GWLLIARGNYDEAARILRELLSSAGAPPYGK   81 (153)
T ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---hCCCccccchhH--HHHHHHcCCHHHHHHHHHhhhccCCCchHHH
Confidence            3444555543   3457899999999999976   5555   34444  445778999999999999995443 333334


Q ss_pred             HHHHHHH-hcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          525 ALLSACS-THSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       525 ~l~~~~~-~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      .|+..|. ..||.+                   |...+......|.-.+|..+.+.+.
T Consensus        82 AL~A~CL~al~Dp~-------------------Wr~~A~~~le~~~~~~a~~Lv~al~  120 (153)
T TIGR02561        82 ALLALCLNAKGDAE-------------------WHVHADEVLARDADADAVALVRALL  120 (153)
T ss_pred             HHHHHHHHhcCChH-------------------HHHHHHHHHHhCCCHhHHHHHHHHh
Confidence            4444443 344432                   4444444444555555555555553

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=80.07  E-value=3.3  Score=26.56  Aligned_cols=27  Identities=19%  Similarity=0.252  Sum_probs=22.7

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhhhCC
Q 040576          558 VLLSNIYASEGKWDEVENLRRIMKEKE  584 (641)
Q Consensus       558 ~~l~~~~~~~g~~~~A~~~~~~m~~~~  584 (641)
                      ..|+.+|...|+.+.|.+++++....|
T Consensus         3 LdLA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         3 LDLARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             hHHHHHHHHcCChHHHHHHHHHHHHcC
Confidence            458899999999999999999986543

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

---

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	641
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-11
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-08
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	8e-07
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-07

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 65.6 bits (158), Expect = 3e-11
 Identities = 32/302 (10%), Positives = 87/302 (28%), Gaps = 9/302 (2%)

Query: 348 KPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARN 407
            P E  L  +L        +D+ Q       + ++        +          + LA +
Sbjct: 89  SPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHH 148

Query: 408 VFDNMTEK-------NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLS 460
           +      +        +  +N++++G+   G  ++ + +   ++  G TP+  ++   L 
Sbjct: 149 LLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQ 208

Query: 461 ACTHAGMVLEGWW-YFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAG 519
                           + M +   ++ +      ++    RA +++   ++     +   
Sbjct: 209 CMGRQDQDAGTIERCLEQMSQ-EGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQ 267

Query: 520 PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRI 579
                            +      +  + L+         L    AS      VE     
Sbjct: 268 LPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHMELASRVCVVSVEKPTLP 327

Query: 580 MKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRRDVASQIS 639
            KE +  +    +L    E A    +       +  VY     +   + +       ++ 
Sbjct: 328 SKEVKHARKTLKTLRDQWEKALCRALRETKNRLEREVYEGRFSLYPFLCLLDEREVVRML 387

Query: 640 IQ 641
           +Q
Sbjct: 388 LQ 389

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 55.2 bits (131), Expect = 6e-08
 Identities = 29/309 (9%), Positives = 84/309 (27%), Gaps = 36/309 (11%)

Query: 222 DLVTWNSMIDGYVKNREVGFARELFDFMPER-------DIFTWNSMISGYVDVGDMEAAN 274
                 +     +   ++  A  L      +        +  +N+++ G+   G  +   
Sbjct: 126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELV 185

Query: 275 GLFDLMPFR----DVVSWNCMIDGYAKIGNVT-SARNCFDRMCMRNV----VSWNILLAL 325
            +  ++       D++S+   +    +      +   C ++M    +    +   +LL+ 
Sbjct: 186 YVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSE 245

Query: 326 YVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPD 385
             R        ++          P   +   +L              +H  ++  +   +
Sbjct: 246 EDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFE 305

Query: 386 VLL-----STSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMF 440
             L     S   +    K  +            +     W   +       +  +  +  
Sbjct: 306 KQLHMELASRVCVVSVEKPTLPSKEVKHARKTLKTLRDQWEKALC------RALRETKNR 359

Query: 441 MEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGR 500
           +E E      +   F+C+L       M+         +Q +  +  + E +  +   L  
Sbjct: 360 LEREVYEGRFSLYPFLCLLDEREVVRML---------LQVLQALPAQGESFTTLARELSA 410

Query: 501 AGLMRDSEE 509
               R   +
Sbjct: 411 RTFSRHVVQ 419

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 51.4 bits (121), Expect = 8e-07
 Identities = 13/139 (9%), Positives = 35/139 (25%), Gaps = 8/139 (5%)

Query: 283 RDVVSWNCMIDGYAKIGNVTSARNCFDRM-------CMRNVVSWNILLALYVRCKDYCEC 335
                             +  A +             +  +  +N ++  + R   + E 
Sbjct: 125 GQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKEL 184

Query: 336 LRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQW-IHSYIQKCRIKPDVLLSTSLLT 394
           + +   +      P+  S  + L                   + +  +K   L +  LL+
Sbjct: 185 VYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLS 244

Query: 395 MYAKCGVMDLARNVFDNMT 413
              +  V+     V    +
Sbjct: 245 EEDRATVLKAVHKVKPTFS 263

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 42.1 bits (97), Expect = 6e-04
 Identities = 11/178 (6%), Positives = 44/178 (24%), Gaps = 16/178 (8%)

Query: 156 NHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVF 215
                  L +   G  SL   +    +  +           +      +  ++  A  + 
Sbjct: 91  WEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLL 150

Query: 216 ED-------GPVWDLVTWNSMIDGYVKNREVGFARELFDFMPER----DIFTWNSMISGY 264
                      +  L  +N+++ G+ +         +   + +     D+ ++ + +   
Sbjct: 151 VVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCM 210

Query: 265 VDVG-DMEAANGLFDLM----PFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVV 317
                D        + M         +    ++    +   + +         +   +
Sbjct: 211 GRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQL 268

>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 = 53.3 bits (127), Expect = 2e-07
 Identities = 97/693 (13%), Positives = 189/693 (27%), Gaps = 238/693 (34%)

Query: 41  PKFT-DTDNQRLPIVDLSHPILQKLESCSTVKEFHQIHTQLLVSGLSQDSFAASRVLKKL 99
             F  + D + +   D+   IL K       +E   I                 R+   L
Sbjct: 27  DAFVDNFDCKDVQ--DMPKSILSK-------EEIDHII------MSKDAVSGTLRLFWTL 71

Query: 100 CTSLSSVSLSVLFFDGIQEPD-AFMCNTIMKSFLMLNDPFGALSFYYEKM------MAKF 152
            +    +     F + +   +  F+ + I         P      Y E+          F
Sbjct: 72  LSKQEEMVQK--FVEEVLRINYKFLMSPIKTEQ---RQPSMMTRMYIEQRDRLYNDNQVF 126

Query: 153 VEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIH-MYSVCGE-VLD 210
            ++N        K+   +  LR  K V                  LI  +    G+  + 
Sbjct: 127 AKYNVSRLQPYLKLRQALLELRPAKNV------------------LIDGVLG-SGKTWV- 166

Query: 211 ARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDM 270
           A  V     V                      +   DF     IF W ++ +       +
Sbjct: 167 ALDVCLSYKV----------------------QCKMDF----KIF-WLNLKNCNSPETVL 199

Query: 271 EAANGLF-DLMPFRDVVSWNCMIDGYAKIG-NVTSARNCFDRM--------C---MRNVV 317
           E    L   + P     +W    D  + I   + S +    R+        C   + NV 
Sbjct: 200 EMLQKLLYQIDP-----NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQ 254

Query: 318 SWNILLALYVRCK-----------DYC--------------------ECLRLFDRMIRGD 346
           +     A  + CK           D+                     E   L  + +   
Sbjct: 255 NAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR 314

Query: 347 AK--PNEAS-----LMSVLTACANMGVIDIGQWIHSYIQKCR--IKP--DVLLSTSLLTM 395
            +  P E        +S++      G+     W H    K    I+   +VL       M
Sbjct: 315 PQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM 374

Query: 396 YAKCGVMDLARNVFDNMTEKNVVS--WNSMIMGYGMHGQGEKALEMFM-EMEKRGPTPND 452
           + +  V     +   ++    ++S  W  +I         +  + + + ++ K       
Sbjct: 375 FDRLSVFP--PSA--HIPTI-LLSLIWFDVI---------KSDVMVVVNKLHKYS----- 415

Query: 453 ATFICVLSACTHAGMVLEGWW----------YFDLMQRI---YKIEPK-VEHYGCMVDLL 498
                          ++E             Y +L  ++   Y +    V+HY       
Sbjct: 416 ---------------LVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHY------- 453

Query: 499 GRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYV 558
                  DS++L+   P                 H        +  HL  +E  +     
Sbjct: 454 -NIPKTFDSDDLI--PPYLDQYFYS---------H--------IGHHLKNIEHPE--RMT 491

Query: 559 LLSNIYASEGKWDEVENLR----RIMKEKELEKAVGS--SLVHPGEFASESIVENCPPHR 612
           L   ++          + R    +I  +     A GS  + +   +F    I +N  P  
Sbjct: 492 LFRMVFL---------DFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDND-PKY 541

Query: 613 KCIVYSM---LGEIGAQMKMCR-RDVASQISIQ 641
           + +V ++   L +I   +   +  D+  +I++ 
Sbjct: 542 ERLVNAILDFLPKIEENLICSKYTDLL-RIALM 573

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	641
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.94
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.93
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.92
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.92
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.92
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.92
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.91
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.89
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.85
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.85
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.85
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.83
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.83
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.82
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.81
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.81
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.8
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.8
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.8
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.79
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.78
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.77
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.77
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.76
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.76
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.75
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.73
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.71
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.71
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.7
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.67
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.64
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.64
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.63
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.62
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.61
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.61
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.61
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.6
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.59
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.59
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.59
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.58
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.58
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.57
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.57
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.56
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.55
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.55
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.53
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.53
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.53
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.53
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.51
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.5
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.5
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.48
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.47
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.47
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.43
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.42
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.42
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.4
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.4
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.39
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.38
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.38
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.36
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.35
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.35
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.35
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.35
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.32
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.3
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.29
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.29
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.28
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.28
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.25
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.24
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.22
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.2
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.18
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.15
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.13
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.12
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.09
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.06
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.06
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.05
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.04
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.04
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.02
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.02
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.01
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.01
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.0
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.0
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.99
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.97
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.96
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.95
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.94
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.93
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.93
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.92
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.89
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.88
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.86
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.84
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.82
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.82
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.81
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.81
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.81
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.81
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.79
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.78
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.77
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.76
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.76
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.75
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.75
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.74
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.74
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.73
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.73
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.73
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.72
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.72
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.71
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.7
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.7
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.7
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.67
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.65
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.64
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.64
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.64
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.63
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.63
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.62
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.6
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.59
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.58
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.54
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.54
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.53
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.53
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.53
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.51
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.49
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.49
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.48
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.47
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.46
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.44
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.44
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.44
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.43
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.42
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.41
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.4
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.39
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.39
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.39
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.39
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.38
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.37
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.32
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.32
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.29
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.27
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.27
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.26
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.25
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.24
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.23
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.22
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.22
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.22
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.22
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.19
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.17
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.17
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.14
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.13
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.12
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.12
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.07
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.06
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.06
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.05
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.05
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.04
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.04
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	98.01
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.9
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.85
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.81
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.71
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.63
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.53
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.49
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.39
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.33
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.29
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.27
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.26
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.21
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.17
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	97.14
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.09
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.02
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.99
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.99
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.97
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.69
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.59
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	96.57
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.49
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.39
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	96.34
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.34
1pc2_A	152	Mitochondria fission protein; unknown function; NM	95.96
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.83
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.79
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.74
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	95.37
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	94.66
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.54
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.16
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	93.32
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	93.32
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	92.08
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	90.98
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	90.81
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	90.45
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	89.72
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	89.67
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	88.84
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	88.72
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	87.94
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	87.87
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	87.81
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	87.64
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	87.64
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	86.87
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	86.6
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	86.59
2p58_C	116	Putative type III secretion protein YSCG; type III	86.21
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	86.21
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	85.48
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	85.24
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	84.85
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	83.72
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	83.56
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	82.27
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	82.12
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	82.09
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	81.45
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	81.23
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	81.07

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.9e-44  Score=391.05  Aligned_cols=490  Identities=9%  Similarity=-0.004  Sum_probs=408.9

Q ss_pred             hhcCCChHHHHHhhhcCCCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHH
Q 040576          100 CTSLSSVSLSVLFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKV  179 (641)
Q Consensus       100 ~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  179 (641)
                      +.+.|.+..+...++.++.+++..|+.++..+.+.|++++|+.+|+ .|..  ..|+..++..++.+|.+.|++++|..+
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~-~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~  139 (597)
T 2xpi_A           63 TSTDGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGE-KVLD--ITGNPNDAFWLAQVYCCTGDYARAKCL  139 (597)
T ss_dssp             -------------------CHHHHHHHHHHHHHHTTCHHHHHHHHH-HHHH--HHCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ccccCccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHH-HHHh--hCCCchHHHHHHHHHHHcCcHHHHHHH
Confidence            3456777888888999888999999999999999999999999999 7764  467889999999999999999999999


Q ss_pred             HHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCCCCC-------------------eeHHHHHHHHHHhCCChH
Q 040576          180 HARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWD-------------------LVTWNSMIDGYVKNREVG  240 (641)
Q Consensus       180 ~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-------------------~~~~~~li~~~~~~g~~~  240 (641)
                      ++.+...  +++..+++.++.+|.++|++++|.++|++..+.+                   ..+|+.++.+|.+.|+++
T Consensus       140 ~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  217 (597)
T 2xpi_A          140 LTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFD  217 (597)
T ss_dssp             HHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHH
Confidence            9987643  6789999999999999999999999999754443                   789999999999999999


Q ss_pred             HHHHHHhhC--CCCC-chhHHHHHHHHhcCCChHHHHHH---HhhcCCCC----chHHHHHHHHHHhcCChHHHHHHHHh
Q 040576          241 FARELFDFM--PERD-IFTWNSMISGYVDVGDMEAANGL---FDLMPFRD----VVSWNCMIDGYAKIGNVTSARNCFDR  310 (641)
Q Consensus       241 ~A~~~~~~m--~~~~-~~~~~~ll~~~~~~g~~~~a~~~---~~~~~~~~----~~~~~~li~~~~~~~~~~~A~~~~~~  310 (641)
                      +|+++|++|  ..|+ ...+..+...+...+..+.+...   +..+...+    ..+|+.++..|.+.|++++|.++|++
T Consensus       218 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~  297 (597)
T 2xpi_A          218 RAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSS  297 (597)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHH
Confidence            999999999  3343 44555555544444332222111   22222222    45567778899999999999999999


Q ss_pred             cCC--CCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhH
Q 040576          311 MCM--RNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLL  388 (641)
Q Consensus       311 ~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  388 (641)
                      +..  +++.+|+.++.+|.+.|++++|+++|++|.+.+ +.+..++..++.++.+.|++++|..+++.+.+.. +.+..+
T Consensus       298 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~  375 (597)
T 2xpi_A          298 INGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVT  375 (597)
T ss_dssp             STTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHH
T ss_pred             hhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHH
Confidence            966  789999999999999999999999999999865 3366789999999999999999999999998764 567889


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhh
Q 040576          389 STSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHA  465 (641)
Q Consensus       389 ~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  465 (641)
                      ++.++.+|.+.|++++|.++|+++.+   .+..+|+.++.+|.+.|++++|+++|++|.+.+ +.+..++..++.+|.+.
T Consensus       376 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  454 (597)
T 2xpi_A          376 WLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQL  454 (597)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHc
Confidence            99999999999999999999998863   567899999999999999999999999999874 34788999999999999


Q ss_pred             ccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-------CCCCC--HHHHHHHHHHHHhcCCH
Q 040576          466 GMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-------PMEAG--PALWGALLSACSTHSNS  536 (641)
Q Consensus       466 g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~~~--~~~~~~l~~~~~~~g~~  536 (641)
                      |++++|.++|+++.+.  .+.+..+|..++.+|.+.|++++|+++|+++       +..|+  ..+|..++.+|...|++
T Consensus       455 g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~  532 (597)
T 2xpi_A          455 GNILLANEYLQSSYAL--FQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMY  532 (597)
T ss_dssp             TCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCH
T ss_pred             CCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCH
Confidence            9999999999999882  2346889999999999999999999999987       34677  78999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhH
Q 040576          537 ELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIV  616 (641)
Q Consensus       537 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~  616 (641)
                      ++|...++++++.+|+++.+|..++.+|.+.|++++|.+.++++                        .+++|++..  .
T Consensus       533 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~------------------------l~~~p~~~~--~  586 (597)
T 2xpi_A          533 DAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHES------------------------LAISPNEIM--A  586 (597)
T ss_dssp             HHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH------------------------HHHCTTCHH--H
T ss_pred             HHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHH------------------------HhcCCCChH--H
Confidence            99999999999999999999999999999999999999999999                        788999999  9


Q ss_pred             HHHHHHHHH
Q 040576          617 YSMLGEIGA  625 (641)
Q Consensus       617 ~~~l~~l~~  625 (641)
                      +..|++++.
T Consensus       587 ~~~l~~~~~  595 (597)
T 2xpi_A          587 SDLLKRALE  595 (597)
T ss_dssp             HHHHHHTTC
T ss_pred             HHHHHHHHh
Confidence            999888653

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1e-39  Score=353.83  Aligned_cols=473  Identities=7%  Similarity=-0.036  Sum_probs=402.7

Q ss_pred             CCChhHHHHHHHHHhhcCCChHHHHHhhhcCC--CCCcccHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHH
Q 040576           86 SQDSFAASRVLKKLCTSLSSVSLSVLFFDGIQ--EPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLL  163 (641)
Q Consensus        86 ~~~~~~~~~ll~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~l  163 (641)
                      .++...++.++. .|.+.|++++|..+|+++.  .|+..+|+.++.+|.+.|++++|+.+|+ .+..  .+++..+++.+
T Consensus        81 ~~~~~~~~~~~~-~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~-~~~~--~~~~~~~~~~l  156 (597)
T 2xpi_A           81 LSREDYLRLWRH-DALMQQQYKCAAFVGEKVLDITGNPNDAFWLAQVYCCTGDYARAKCLLT-KEDL--YNRSSACRYLA  156 (597)
T ss_dssp             -CHHHHHHHHHH-HHHHTTCHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHTTCHHHHHHHHH-HTCG--GGTCHHHHHHH
T ss_pred             HHHHHHHHHHHH-HHHHccCchHHHHHHHHHHhhCCCchHHHHHHHHHHHcCcHHHHHHHHH-HHhc--cccchhHHHHH
Confidence            357788889998 6899999999999999983  5777899999999999999999999999 6644  36788999999


Q ss_pred             HHHHhcCCCchhHHHHHHHHHHh---------------CCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CCeeH
Q 040576          164 GKVCAGIRSLREGKKVHARIVKC---------------GFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPV---WDLVT  225 (641)
Q Consensus       164 l~~~~~~~~~~~a~~~~~~~~~~---------------g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~  225 (641)
                      +.++.+.|++++|..+|+.+...               |.+++..+|+.++.+|.+.|++++|.++|+++..   .+...
T Consensus       157 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  236 (597)
T 2xpi_A          157 AFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEA  236 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHH
Confidence            99999999999999999853211               2234578999999999999999999999998653   34455


Q ss_pred             HHHHHHHHHhCCChHHHHHH---HhhCCC----CCchhHHHHHHHHhcCCChHHHHHHHhhcCC--CCchHHHHHHHHHH
Q 040576          226 WNSMIDGYVKNREVGFAREL---FDFMPE----RDIFTWNSMISGYVDVGDMEAANGLFDLMPF--RDVVSWNCMIDGYA  296 (641)
Q Consensus       226 ~~~li~~~~~~g~~~~A~~~---~~~m~~----~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~li~~~~  296 (641)
                      |..+...+...+..+.+...   +..+..    .+..+|+.++..|.+.|++++|.++|+++.+  ++..+++.++.+|.
T Consensus       237 ~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~  316 (597)
T 2xpi_A          237 FDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLF  316 (597)
T ss_dssp             HHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHH
Confidence            66665555443333222111   233322    2334566678889999999999999999987  78999999999999


Q ss_pred             hcCChHHHHHHHHhcC---CCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Q 040576          297 KIGNVTSARNCFDRMC---MRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWI  373 (641)
Q Consensus       297 ~~~~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~  373 (641)
                      +.|++++|.++|+++.   ..+..+|+.++.+|.+.|++++|..+++++.+. .+.+..++..++..|.+.|++++|..+
T Consensus       317 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~  395 (597)
T 2xpi_A          317 VRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDR-HPEKAVTWLAVGIYYLCVNKISEARRY  395 (597)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH-CTTSHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHHhccHHHHHHH
Confidence            9999999999999983   357789999999999999999999999999864 345688999999999999999999999


Q ss_pred             HHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC
Q 040576          374 HSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTP  450 (641)
Q Consensus       374 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p  450 (641)
                      |+.+.+.. +.+..+++.++.+|.+.|++++|.++|+++.+   .+..+|+.++.+|.+.|++++|.++|+++.+.. +.
T Consensus       396 ~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~  473 (597)
T 2xpi_A          396 FSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QY  473 (597)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CC
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CC
Confidence            99998864 45688999999999999999999999998763   578899999999999999999999999999864 33


Q ss_pred             CHHHHHHHHHHHHhhccHHHHHHHHHHhHHhh---CCCCc--hHHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHHHH
Q 040576          451 NDATFICVLSACTHAGMVLEGWWYFDLMQRIY---KIEPK--VEHYGCMVDLLGRAGLMRDSEELVSKL-PM-EAGPALW  523 (641)
Q Consensus       451 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~  523 (641)
                      +..+|..++..|.+.|++++|.++|+++.+..   +..|+  ..+|..++.+|.+.|++++|+++++++ .. +.+..+|
T Consensus       474 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  553 (597)
T 2xpi_A          474 DPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVH  553 (597)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHH
T ss_pred             ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHH
Confidence            78899999999999999999999999998732   66787  789999999999999999999999987 22 3478899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 040576          524 GALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYA  565 (641)
Q Consensus       524 ~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  565 (641)
                      ..+..+|...|++++|...++++++++|+++..+..++.+|.
T Consensus       554 ~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~  595 (597)
T 2xpi_A          554 TAIALVYLHKKIPGLAITHLHESLAISPNEIMASDLLKRALE  595 (597)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHh
Confidence            999999999999999999999999999999999999998875

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=1.5e-27  Score=243.36  Aligned_cols=365  Identities=11%  Similarity=0.074  Sum_probs=272.4

Q ss_pred             HHHHhCCChHHHHHHHhhC--CCC-CchhHHHHHHHHhcCCChHHHHHHHhhcCC--C-CchHHHHHHHHHHhcCChHHH
Q 040576          231 DGYVKNREVGFARELFDFM--PER-DIFTWNSMISGYVDVGDMEAANGLFDLMPF--R-DVVSWNCMIDGYAKIGNVTSA  304 (641)
Q Consensus       231 ~~~~~~g~~~~A~~~~~~m--~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~A  304 (641)
                      ..+.+.|++++|++.++++  ..| +...+..+...+...|++++|...++...+  | +..+|..+...|.+.|++++|
T Consensus         7 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~~A   86 (388)
T 1w3b_A            7 HREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEA   86 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHH
Confidence            3445556666666666555  223 233444445555666666666666655543  2 355677777777777777777


Q ss_pred             HHHHHhcC---CCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 040576          305 RNCFDRMC---MRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPN-EASLMSVLTACANMGVIDIGQWIHSYIQKC  380 (641)
Q Consensus       305 ~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  380 (641)
                      +..|+++.   +.+...|..+..++...|++++|.+.|+++.+.  .|+ ...+..+...+...|++++|...+..+.+.
T Consensus        87 ~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  164 (388)
T 1w3b_A           87 IEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRLEEAKACYLKAIET  164 (388)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            77777762   234456777888888888888888888887764  344 345556666777778888888888887775


Q ss_pred             CCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 040576          381 RIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFIC  457 (641)
Q Consensus       381 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~  457 (641)
                      . +.+..++..+..+|...|++++|...|+++.+   .+...|..+...+...|++++|+..|++...... .+..++..
T Consensus       165 ~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~  242 (388)
T 1w3b_A          165 Q-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGN  242 (388)
T ss_dssp             C-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHHHH
T ss_pred             C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-CCHHHHHH
Confidence            4 34567778888888888888888888887763   3456788888888888999999998888887532 24667888


Q ss_pred             HHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcC
Q 040576          458 VLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL--PMEAGPALWGALLSACSTHS  534 (641)
Q Consensus       458 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~g  534 (641)
                      +...+...|++++|.+.|+++.+   ..|+ ...|..++.+|.+.|++++|++.|+++  ..+.+...+..+...+...|
T Consensus       243 l~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g  319 (388)
T 1w3b_A          243 LACVYYEQGLIDLAIDTYRRAIE---LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQG  319 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH---TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHcC
Confidence            88888889999999999988887   3343 677888888899999999999988887  23356778888888899999


Q ss_pred             CHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchh
Q 040576          535 NSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKC  614 (641)
Q Consensus       535 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~  614 (641)
                      ++++|...++++++..|+++..+..++.+|.+.|++++|.+.++++                        .+++|++.. 
T Consensus       320 ~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a------------------------~~~~p~~~~-  374 (388)
T 1w3b_A          320 NIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEA------------------------IRISPTFAD-  374 (388)
T ss_dssp             CHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHH------------------------HTTCTTCHH-
T ss_pred             CHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH------------------------HhhCCCCHH-
Confidence            9999999999999999998889999999999999999999999988                        667888888 


Q ss_pred             hHHHHHHHHHHHHH
Q 040576          615 IVYSMLGEIGAQMK  628 (641)
Q Consensus       615 ~~~~~l~~l~~~~~  628 (641)
                       ++..++.+..+++
T Consensus       375 -a~~~lg~~~~~~~  387 (388)
T 1w3b_A          375 -AYSNMGNTLKEMQ  387 (388)
T ss_dssp             -HHHHHHHHHHHTC
T ss_pred             -HHHhHHHHHHHcc
Confidence             8888888777654

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.96  E-value=1.4e-26  Score=236.20  Aligned_cols=368  Identities=10%  Similarity=0.034  Sum_probs=274.7

Q ss_pred             HHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhc---CCCCCeeHHHHHHHHHHhCCChHH
Q 040576          165 KVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFED---GPVWDLVTWNSMIDGYVKNREVGF  241 (641)
Q Consensus       165 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~  241 (641)
                      ..+.+.|++++|...+..+.+.. +.+...+..+...+...|++++|...++.   ..+.+..+|..+..+|.+.|++++
T Consensus         7 ~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~~   85 (388)
T 1w3b_A            7 HREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQE   85 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHH
Confidence            34455666777777666666553 23344555555666666666666666654   223344555555555555555555


Q ss_pred             HHHHHhhCCCCCchhHHHHHHHHhcCCChHHHHHHHhhcCC--CC-chHHHHHHHHHHhcCChHHHHHHHHhcC--CC-C
Q 040576          242 ARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPF--RD-VVSWNCMIDGYAKIGNVTSARNCFDRMC--MR-N  315 (641)
Q Consensus       242 A~~~~~~m~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~--~~-~~~~~~li~~~~~~~~~~~A~~~~~~~~--~~-~  315 (641)
                      |+..|+++                               .+  |+ ...+..+...+.+.|++++|.+.|+++.  .| +
T Consensus        86 A~~~~~~a-------------------------------l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  134 (388)
T 1w3b_A           86 AIEHYRHA-------------------------------LRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDL  134 (388)
T ss_dssp             HHHHHHHH-------------------------------HHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHH-------------------------------HHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCc
Confidence            55555554                               21  22 3345556666666666666666666652  22 3


Q ss_pred             cchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 040576          316 VVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTM  395 (641)
Q Consensus       316 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  395 (641)
                      ...+..+...+...|++++|.+.|+++.+.. +-+..+|..+...+...|++++|...++.+.+.+ +.+...+..+...
T Consensus       135 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~  212 (388)
T 1w3b_A          135 YCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNV  212 (388)
T ss_dssp             THHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHH
Confidence            4456667777778888888888888887642 2345677778888888888888888888888764 4456778888888


Q ss_pred             HHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHH
Q 040576          396 YAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGW  472 (641)
Q Consensus       396 ~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~  472 (641)
                      +...|++++|...|++..+   .+..+|..++.+|...|++++|+..|+++.+.+.. +..++..+...+.+.|++++|.
T Consensus       213 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~  291 (388)
T 1w3b_A          213 LKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAE  291 (388)
T ss_dssp             HHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHH
Confidence            9999999999999887653   45678999999999999999999999999986422 5678999999999999999999


Q ss_pred             HHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 040576          473 WYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELE  550 (641)
Q Consensus       473 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  550 (641)
                      +.|+++.+.  .+.+..++..++..+.+.|++++|++.++++ ...| +...+..+...+...|++++|...+++++++.
T Consensus       292 ~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  369 (388)
T 1w3b_A          292 DCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS  369 (388)
T ss_dssp             HHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            999999882  3456888999999999999999999999987 3334 46789999999999999999999999999999


Q ss_pred             CCCCchHHHHHHHHHhcCC
Q 040576          551 PRDPGPYVLLSNIYASEGK  569 (641)
Q Consensus       551 p~~~~~~~~l~~~~~~~g~  569 (641)
                      |+++..|..++.++...|+
T Consensus       370 p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          370 PTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             TTCHHHHHHHHHHHHHTCC
T ss_pred             CCCHHHHHhHHHHHHHccC
Confidence            9999999999999887764

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.95  E-value=4.7e-27  Score=243.91  Aligned_cols=184  Identities=14%  Similarity=0.182  Sum_probs=168.5

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC---------HHHHHHHHHHHHHcCCCCchh
Q 040576          317 VSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGV---------IDIGQWIHSYIQKCRIKPDVL  387 (641)
Q Consensus       317 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~---------~~~a~~~~~~~~~~~~~~~~~  387 (641)
                      ..++.+|.+|++.|++++|+++|++|.+.|+.||..||+.+|.+|++.+.         ++.|.++|+.|.+.|+.||..
T Consensus        27 ~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~  106 (501)
T 4g26_A           27 ALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEA  106 (501)
T ss_dssp             HHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHH
Confidence            45788899999999999999999999999999999999999999987654         688999999999999999999


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcC----CCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 040576          388 LSTSLLTMYAKCGVMDLARNVFDNMT----EKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACT  463 (641)
Q Consensus       388 ~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~  463 (641)
                      +|++||.+|++.|++++|.++|++|.    .||..+|++||.+|++.|+.++|.++|++|.+.|+.||..||+.||.+|+
T Consensus       107 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~  186 (501)
T 4g26_A          107 TFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSM  186 (501)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Confidence            99999999999999999999999987    38999999999999999999999999999999999999999999999999


Q ss_pred             hhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhc
Q 040576          464 HAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRA  501 (641)
Q Consensus       464 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~  501 (641)
                      +.|++++|.++|++|.+ .+..|+..+|+.++..+...
T Consensus       187 ~~g~~d~A~~ll~~Mr~-~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          187 DTKNADKVYKTLQRLRD-LVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HTTCHHHHHHHHHHHHH-HTSSBCHHHHHHHHHHHHSH
T ss_pred             hCCCHHHHHHHHHHHHH-hCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999998 89999999999999888753

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.94  E-value=5.3e-26  Score=235.99  Aligned_cols=200  Identities=11%  Similarity=0.085  Sum_probs=173.4

Q ss_pred             HHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCC---------H
Q 040576          333 CECLRLFDRMIRGDAKPNE-ASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGV---------M  402 (641)
Q Consensus       333 ~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---------~  402 (641)
                      ..+..+.+++.+.++.+.+ ..++.+|.+|++.|++++|.++|++|.+.|+.||..+|++||.+|++.+.         +
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            3456677788877776654 46888999999999999999999999999999999999999999987765         7


Q ss_pred             HHHHHHHhhcC----CCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHh
Q 040576          403 DLARNVFDNMT----EKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLM  478 (641)
Q Consensus       403 ~~A~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~  478 (641)
                      +.|.++|++|.    .||..+|++||.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  166 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM  166 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHH
Confidence            89999999997    48999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhc
Q 040576          479 QRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL---PMEAGPALWGALLSACSTH  533 (641)
Q Consensus       479 ~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~~l~~~~~~~  533 (641)
                      .+ .|+.||..+|+.|+++|++.|++++|.+++++|   ...|+..+|+.++..|...
T Consensus       167 ~~-~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          167 VE-SEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HH-TTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             Hh-cCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            98 899999999999999999999999999999999   5789999999999988653

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.93  E-value=1.8e-23  Score=221.60  Aligned_cols=278  Identities=12%  Similarity=-0.066  Sum_probs=229.3

Q ss_pred             chHHHHHHHHHH---cCChHHHHHHHHHHHH-----CCCCC--------CHHHHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 040576          317 VSWNILLALYVR---CKDYCECLRLFDRMIR-----GDAKP--------NEASLMSVLTACANMGVIDIGQWIHSYIQKC  380 (641)
Q Consensus       317 ~~~~~li~~~~~---~g~~~~A~~~~~~m~~-----~g~~p--------~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  380 (641)
                      ..+......+..   .|++++|+..|+++.+     ....|        +..++..+...+...|++++|..+++.+.+.
T Consensus       187 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~  266 (514)
T 2gw1_A          187 DKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIEL  266 (514)
T ss_dssp             HHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence            344444444554   7899999999999887     31122        2446777888889999999999999999887


Q ss_pred             CCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 040576          381 RIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFIC  457 (641)
Q Consensus       381 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~  457 (641)
                      ...  ...+..+..+|...|++++|...|+++.+   .+...|..+...|...|++++|...|+++.+.... +...+..
T Consensus       267 ~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~  343 (514)
T 2gw1_A          267 FPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPE-NIFPYIQ  343 (514)
T ss_dssp             CCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSS-CSHHHHH
T ss_pred             Ccc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChh-hHHHHHH
Confidence            633  78888899999999999999999998764   46678999999999999999999999999986433 5678888


Q ss_pred             HHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC----CCCCC----HHHHHHHHHH
Q 040576          458 VLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL----PMEAG----PALWGALLSA  529 (641)
Q Consensus       458 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~~~----~~~~~~l~~~  529 (641)
                      +...+...|++++|...++.+.+.  .+.+...+..+...|.+.|++++|++.++++    +..++    ...+..+...
T Consensus       344 l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~  421 (514)
T 2gw1_A          344 LACLAYRENKFDDCETLFSEAKRK--FPEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATL  421 (514)
T ss_dssp             HHHHTTTTTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH--cccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHH
Confidence            999999999999999999999872  2234678888999999999999999999887    22232    3478889999


Q ss_pred             HHh---cCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccc
Q 040576          530 CST---HSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVE  606 (641)
Q Consensus       530 ~~~---~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~  606 (641)
                      +..   .|++++|...++++++..|+++..+..++.+|.+.|++++|.+.++++                        .+
T Consensus       422 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a------------------------~~  477 (514)
T 2gw1_A          422 LTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEES------------------------AD  477 (514)
T ss_dssp             HHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH------------------------HH
T ss_pred             HhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHH------------------------HH
Confidence            999   999999999999999999999999999999999999999999999999                        67


Q ss_pred             cCCCCchhhHHHHHHHHHH
Q 040576          607 NCPPHRKCIVYSMLGEIGA  625 (641)
Q Consensus       607 ~~p~~~~~~~~~~l~~l~~  625 (641)
                      ++|++.+  +...+..+..
T Consensus       478 ~~~~~~~--~~~~~~~~~~  494 (514)
T 2gw1_A          478 LARTMEE--KLQAITFAEA  494 (514)
T ss_dssp             HCSSHHH--HHHHHHHHHH
T ss_pred             hccccHH--HHHHHHHHHH
Confidence            7888888  7776655443

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.92  E-value=9.4e-23  Score=217.45  Aligned_cols=419  Identities=11%  Similarity=0.020  Sum_probs=228.0

Q ss_pred             cccHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHH
Q 040576          121 AFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIH  200 (641)
Q Consensus       121 ~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  200 (641)
                      ...|..+...+.+.|++++|+..|+ .+.... +.+..+|..+..++...|++++|...++.+.+.. +.+..++..+..
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~-~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~  101 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQ-YAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRAS  101 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHH-HHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHH-HHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHH
Confidence            4567777788888888888888888 454431 3456677788888888888888888888888775 346677888888


Q ss_pred             HHHhcCCHHHHHHHHhcCCCCCeeHHHHHHHHHHhCCChHHHHHHHhhCCCC------CchhHHHHHHHHhcCCChHHHH
Q 040576          201 MYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPER------DIFTWNSMISGYVDVGDMEAAN  274 (641)
Q Consensus       201 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------~~~~~~~ll~~~~~~g~~~~a~  274 (641)
                      +|...|++++|.+.|+.+ ..++...+..+..+...+...+|...++++...      ........+..+....+.+.+.
T Consensus       102 ~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  180 (537)
T 3fp2_A          102 ANESLGNFTDAMFDLSVL-SLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEV  180 (537)
T ss_dssp             HHHHHTCHHHHHHHHHHH-C-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHH
Confidence            888888888888888632 222223333344555566667777777777321      1122233344455556666666


Q ss_pred             HHHhhcCCCCch---HHHHHHHHHHhc--------CChHHHHHHHHhcCCCCc----------chHHHHHHHHHHcCChH
Q 040576          275 GLFDLMPFRDVV---SWNCMIDGYAKI--------GNVTSARNCFDRMCMRNV----------VSWNILLALYVRCKDYC  333 (641)
Q Consensus       275 ~~~~~~~~~~~~---~~~~li~~~~~~--------~~~~~A~~~~~~~~~~~~----------~~~~~li~~~~~~g~~~  333 (641)
                      ..+......+..   ....+...+...        |++++|..+|+++...++          .+|..+...+...|+++
T Consensus       181 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~  260 (537)
T 3fp2_A          181 SSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLL  260 (537)
T ss_dssp             HTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHH
Confidence            666555544422   333333322221        245555555555422111          12333444445555555


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcC
Q 040576          334 ECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMT  413 (641)
Q Consensus       334 ~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  413 (641)
                      +|...|+++.+.  .|+...+..+...+...|+++.|...+..+.+.. +                              
T Consensus       261 ~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~------------------------------  307 (537)
T 3fp2_A          261 DAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-P------------------------------  307 (537)
T ss_dssp             HHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-T------------------------------
T ss_pred             HHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-C------------------------------
Confidence            555555555442  2334444444444445555555555554444432 2                              


Q ss_pred             CCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHH
Q 040576          414 EKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGC  493 (641)
Q Consensus       414 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~  493 (641)
                       .+..+|..+...|...|++++|...|+++.+.... +...+..+...+...|++++|..+++++.+.  .+.+...+..
T Consensus       308 -~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~  383 (537)
T 3fp2_A          308 -EYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPE-NVYPYIQLACLLYKQGKFTESEAFFNETKLK--FPTLPEVPTF  383 (537)
T ss_dssp             -TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHH
T ss_pred             -CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHH
Confidence             23344555555555555555555555555543211 2344555555555555555555555555541  1222445555


Q ss_pred             HHHHHhhcCCHHHHHHHHHhC----C----CCCCHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHhcCCCCCc
Q 040576          494 MVDLLGRAGLMRDSEELVSKL----P----MEAGPALWGALLSACSTH----------SNSELGKIVAQHLMELEPRDPG  555 (641)
Q Consensus       494 li~~~~~~g~~~~A~~~~~~~----~----~~~~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~p~~~~  555 (641)
                      +...|...|++++|++.++++    +    .......+..+...+...          |++++|...++++++..|+++.
T Consensus       384 l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~  463 (537)
T 3fp2_A          384 FAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQ  463 (537)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHH
Confidence            555555555555555555553    1    001111223333445555          6666777777777666666666


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          556 PYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       556 ~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      .+..++.+|.+.|++++|.+.++++
T Consensus       464 ~~~~l~~~~~~~g~~~~A~~~~~~a  488 (537)
T 3fp2_A          464 AKIGLAQLKLQMEKIDEAIELFEDS  488 (537)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHH
Confidence            6666777777777777777776666

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.92  E-value=8e-23  Score=216.61  Aligned_cols=431  Identities=10%  Similarity=-0.021  Sum_probs=305.2

Q ss_pred             cHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHH
Q 040576          123 MCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMY  202 (641)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~  202 (641)
                      .|......+.+.|++++|+..|+ .+....  |+..+|..+..++...|++++|...++.+.+.. +.+..++..+..+|
T Consensus         8 ~~~~~g~~~~~~g~~~~A~~~~~-~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~   83 (514)
T 2gw1_A            8 ALKDKGNQFFRNKKYDDAIKYYN-WALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASAN   83 (514)
T ss_dssp             HHHHHHHHHHHTSCHHHHHHHHH-HHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHH-HHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHH
Confidence            34556667777788888888887 555532  577777777777777888888888888777765 34556777777888


Q ss_pred             HhcCCHHHHHHHHhcC---CCCCeeHHHHHHHHHHhCCChHHHHHHHhhC----CCCCchhHHHH---HHHHhcCCChHH
Q 040576          203 SVCGEVLDARKVFEDG---PVWDLVTWNSMIDGYVKNREVGFARELFDFM----PERDIFTWNSM---ISGYVDVGDMEA  272 (641)
Q Consensus       203 ~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~~l---l~~~~~~g~~~~  272 (641)
                      .+.|++++|...|++.   .+.+......++..+.+......+.+.+..+    ..|+...+..-   ............
T Consensus        84 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (514)
T 2gw1_A           84 EGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTS  163 (514)
T ss_dssp             HHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHH
T ss_pred             HHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHH
Confidence            8888888888777653   2333344444444443332222222222111    00000000000   000001111111


Q ss_pred             HHHHHhhcC---------CCC-chHHHHHHHHHHh---cCChHHHHHHHHhcCC-----------------CCcchHHHH
Q 040576          273 ANGLFDLMP---------FRD-VVSWNCMIDGYAK---IGNVTSARNCFDRMCM-----------------RNVVSWNIL  322 (641)
Q Consensus       273 a~~~~~~~~---------~~~-~~~~~~li~~~~~---~~~~~~A~~~~~~~~~-----------------~~~~~~~~l  322 (641)
                      +...+....         .++ ...+..+...+..   .|++++|...|+++..                 .+...|..+
T Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (514)
T 2gw1_A          164 MASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHT  243 (514)
T ss_dssp             HHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHH
Confidence            111111111         121 3444444444444   7889999988888743                 134578888


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCH
Q 040576          323 LALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVM  402 (641)
Q Consensus       323 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  402 (641)
                      ...+...|++++|...|+++.+..  |+...+..+...+...|++++|...++.+.+.. +.+..++..+..+|...|++
T Consensus       244 ~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  320 (514)
T 2gw1_A          244 GIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNY  320 (514)
T ss_dssp             HHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCH
Confidence            899999999999999999998854  447788889999999999999999999998864 44677888999999999999


Q ss_pred             HHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhH
Q 040576          403 DLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQ  479 (641)
Q Consensus       403 ~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  479 (641)
                      ++|...|+++.+   .+...|..+...|...|++++|...|+++.+.. +.+...+..+...+...|++++|...++.+.
T Consensus       321 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  399 (514)
T 2gw1_A          321 DQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAI  399 (514)
T ss_dssp             THHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999999998753   466789999999999999999999999998863 2256788889999999999999999999998


Q ss_pred             HhhCCCCc----hHHHHHHHHHHhh---cCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 040576          480 RIYKIEPK----VEHYGCMVDLLGR---AGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELE  550 (641)
Q Consensus       480 ~~~~~~p~----~~~~~~li~~~~~---~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  550 (641)
                      ....-.++    ...+..++..+.+   .|++++|.+.++++ . .+.+...+..+...+...|++++|...+++++++.
T Consensus       400 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  479 (514)
T 2gw1_A          400 ELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLA  479 (514)
T ss_dssp             HHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhc
Confidence            73322232    3488899999999   99999999999987 2 23457788899999999999999999999999999


Q ss_pred             CCCCchHHHHH
Q 040576          551 PRDPGPYVLLS  561 (641)
Q Consensus       551 p~~~~~~~~l~  561 (641)
                      |+++..+..+.
T Consensus       480 ~~~~~~~~~~~  490 (514)
T 2gw1_A          480 RTMEEKLQAIT  490 (514)
T ss_dssp             SSHHHHHHHHH
T ss_pred             cccHHHHHHHH
Confidence            99887776663

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.92  E-value=3.3e-22  Score=208.14  Aligned_cols=302  Identities=12%  Similarity=0.062  Sum_probs=151.2

Q ss_pred             chhHHHHHHHHhcCCChHHHHHHHhhcCC---CCchHHHHHHHHHHhcCChHHHHHHHHhcC---CCCcchHHHHHHHHH
Q 040576          254 IFTWNSMISGYVDVGDMEAANGLFDLMPF---RDVVSWNCMIDGYAKIGNVTSARNCFDRMC---MRNVVSWNILLALYV  327 (641)
Q Consensus       254 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~li~~~~  327 (641)
                      ...+..+...+.+.|++++|..+|+.+.+   .+..++..+..+|...|++++|...|+++.   +.+...|..+..+|.
T Consensus        26 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  105 (450)
T 2y4t_A           26 VEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHLLL  105 (450)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHH
Confidence            34566666666666666666666666543   235566666666666666666666666652   233455666666666


Q ss_pred             HcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHH------------HHccCCHHHHHHHHHHHHHcCCCCchhHHHH
Q 040576          328 RCKDYCECLRLFDRMIRGDAKPNE----ASLMSVLTA------------CANMGVIDIGQWIHSYIQKCRIKPDVLLSTS  391 (641)
Q Consensus       328 ~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~ll~~------------~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  391 (641)
                      ..|++++|...|+++.+.  .|+.    ..+..+...            +...|++++|...++.+.+.. +.+..++..
T Consensus       106 ~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  182 (450)
T 2y4t_A          106 KQGKLDEAEDDFKKVLKS--NPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELREL  182 (450)
T ss_dssp             HTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHH
Confidence            666666666666666653  2332    333333222            445555555555555555432 234444555


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH-HHHHHH---------
Q 040576          392 LLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPND-ATFICV---------  458 (641)
Q Consensus       392 li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-~~~~~l---------  458 (641)
                      ++.+|.+.|++++|...|+++.+   .+..+|..++..|...|++++|+..|+++...  .|+. ..+..+         
T Consensus       183 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~  260 (450)
T 2y4t_A          183 RAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKL  260 (450)
T ss_dssp             HHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHH
Confidence            55555555555555555554432   33445555555555555555555555555443  2222 222222         


Q ss_pred             ---HHHHHhhccHHHHHHHHHHhHHhhCCCCc-----hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHH
Q 040576          459 ---LSACTHAGMVLEGWWYFDLMQRIYKIEPK-----VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLS  528 (641)
Q Consensus       459 ---l~~~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~  528 (641)
                         ...|.+.|++++|..+|+.+.+   ..|+     ..++..++.++.+.|++++|++.++++ ...| +...|..+..
T Consensus       261 ~~~~~~~~~~g~~~~A~~~~~~~l~---~~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~  337 (450)
T 2y4t_A          261 IESAEELIRDGRYTDATSKYESVMK---TEPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPDNVNALKDRAE  337 (450)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHH---HCCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh---cCCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHH
Confidence               3444444555555555544444   1122     223444444444444444444444443 1112 3344444444


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHH
Q 040576          529 ACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNI  563 (641)
Q Consensus       529 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  563 (641)
                      +|...|++++|...++++++++|+++..+..++.+
T Consensus       338 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~  372 (450)
T 2y4t_A          338 AYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKA  372 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHH
Confidence            44444444444444444444444444444444433

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.92  E-value=2.1e-22  Score=209.60  Aligned_cols=301  Identities=9%  Similarity=0.008  Sum_probs=225.7

Q ss_pred             CeeHHHHHHHHHHhCCChHHHHHHHhhC---CCCCchhHHHHHHHHhcCCChHHHHHHHhhcCC--C-CchHHHHHHHHH
Q 040576          222 DLVTWNSMIDGYVKNREVGFARELFDFM---PERDIFTWNSMISGYVDVGDMEAANGLFDLMPF--R-DVVSWNCMIDGY  295 (641)
Q Consensus       222 ~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~  295 (641)
                      +...|..+...+.+.|++++|+.+|+++   .+.+..+|..+..++...|++++|...|+++.+  | +..++..+...|
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  104 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHLL  104 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHH
Confidence            4556788888888888888888888887   345667788888888888888888888888764  2 367788888888


Q ss_pred             HhcCChHHHHHHHHhcCCCC---c---chHHHHHHH------------HHHcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 040576          296 AKIGNVTSARNCFDRMCMRN---V---VSWNILLAL------------YVRCKDYCECLRLFDRMIRGDAKPNEASLMSV  357 (641)
Q Consensus       296 ~~~~~~~~A~~~~~~~~~~~---~---~~~~~li~~------------~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  357 (641)
                      .+.|++++|.+.|+++...+   .   ..|..++..            +...|++++|+..|+++.+.. +.+...+..+
T Consensus       105 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l  183 (450)
T 2y4t_A          105 LKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELR  183 (450)
T ss_dssp             HHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHH
Confidence            88888888888888884432   2   556665433            788888888888888887742 3456778888


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-ChhHHHHH-----------
Q 040576          358 LTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE--K-NVVSWNSM-----------  423 (641)
Q Consensus       358 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l-----------  423 (641)
                      ..++...|++++|..+++.+.+.. +.+..++..++.+|...|++++|...|+++.+  | +...+..+           
T Consensus       184 ~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~  262 (450)
T 2y4t_A          184 AECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLIE  262 (450)
T ss_dssp             HHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHH
Confidence            888888888888888888887754 45677888888888888888888888887763  3 34445444           


Q ss_pred             -HHHHHHcCChHHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHH
Q 040576          424 -IMGYGMHGQGEKALEMFMEMEKRGPTPN-----DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDL  497 (641)
Q Consensus       424 -i~~~~~~~~~~~A~~~~~~m~~~g~~p~-----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~  497 (641)
                       +..+...|++++|...|+++.+.  .|+     ...+..+...+.+.|++++|...++.+.+.  .+.+...|..++.+
T Consensus       263 ~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~  338 (450)
T 2y4t_A          263 SAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQM--EPDNVNALKDRAEA  338 (450)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHH
Confidence             77788888888888888888874  344     336677778888888888888888888761  22346778888888


Q ss_pred             HhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHH
Q 040576          498 LGRAGLMRDSEELVSKL-PMEAG-PALWGALLS  528 (641)
Q Consensus       498 ~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~  528 (641)
                      |...|++++|.+.++++ ...|+ ...+..+..
T Consensus       339 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~  371 (450)
T 2y4t_A          339 YLIEEMYDEAIQDYETAQEHNENDQQIREGLEK  371 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHH
Confidence            88888888888888876 44455 344444443

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.91  E-value=6e-22  Score=211.19  Aligned_cols=418  Identities=8%  Similarity=-0.002  Sum_probs=273.5

Q ss_pred             HhhcCCChHHHHHhhhcC---CCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchh
Q 040576           99 LCTSLSSVSLSVLFFDGI---QEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLRE  175 (641)
Q Consensus        99 ~~~~~~~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~  175 (641)
                      .+.+.|+++.|...|+++   .+.+...|..+..++...|++++|++.|+ ...+.. +.+..++..+..++...|++++
T Consensus        34 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~-~al~~~-p~~~~~~~~la~~~~~~g~~~~  111 (537)
T 3fp2_A           34 HFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTT-KALEIK-PDHSKALLRRASANESLGNFTD  111 (537)
T ss_dssp             HHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHH-HHHHHC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHH-HHHhcC-CchHHHHHHHHHHHHHcCCHHH
Confidence            678899999999999986   45678899999999999999999999999 555542 4456788889999999999999


Q ss_pred             HHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCCCC------CeeHHHHHHHHHHhCCChHHHHHHHhhC
Q 040576          176 GKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVW------DLVTWNSMIDGYVKNREVGFARELFDFM  249 (641)
Q Consensus       176 a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~m  249 (641)
                      |...++. ..  ..|+  .....+..+...+....|...+++....      ........+..+....+.+.+...+...
T Consensus       112 A~~~~~~-~~--~~~~--~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  186 (537)
T 3fp2_A          112 AMFDLSV-LS--LNGD--FDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTS  186 (537)
T ss_dssp             HHHHHHH-HC---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCC
T ss_pred             HHHHHHH-Hh--cCCC--CChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhc
Confidence            9999963 32  2233  2233455566667778899998874322      2223455667778888899998888887


Q ss_pred             CCCCch---hHHHHHHHHhcC--------CChHHHHHHHhhcCCCC----------chHHHHHHHHHHhcCChHHHHHHH
Q 040576          250 PERDIF---TWNSMISGYVDV--------GDMEAANGLFDLMPFRD----------VVSWNCMIDGYAKIGNVTSARNCF  308 (641)
Q Consensus       250 ~~~~~~---~~~~ll~~~~~~--------g~~~~a~~~~~~~~~~~----------~~~~~~li~~~~~~~~~~~A~~~~  308 (641)
                      ...+..   ....+...+...        |++++|..+++.+.+.+          ..++..+...+...|++++|...|
T Consensus       187 ~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~  266 (537)
T 3fp2_A          187 SNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLL  266 (537)
T ss_dssp             CSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHH
Confidence            554443   333343333333        47899999999887633          235777788899999999999999


Q ss_pred             Hhc--CCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCch
Q 040576          309 DRM--CMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDV  386 (641)
Q Consensus       309 ~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~  386 (641)
                      +++  ..|+...|..+...|...|++++|+..++++.+.. +.+..++..+...+...|++++|...++.+.+.. +.+.
T Consensus       267 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~  344 (537)
T 3fp2_A          267 QESINLHPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENV  344 (537)
T ss_dssp             HHHHHHCCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCS
T ss_pred             HHHHhcCCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCH
Confidence            998  33556788889999999999999999999998753 3356678788888888888888888888877754 2233


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhc
Q 040576          387 LLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAG  466 (641)
Q Consensus       387 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g  466 (641)
                      ..+..+..+|...|+                               +++|...|+++.+.. +.+...+..+...+...|
T Consensus       345 ~~~~~la~~~~~~g~-------------------------------~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g  392 (537)
T 3fp2_A          345 YPYIQLACLLYKQGK-------------------------------FTESEAFFNETKLKF-PTLPEVPTFFAEILTDRG  392 (537)
T ss_dssp             HHHHHHHHHHHHTTC-------------------------------HHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHcCC-------------------------------HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhC
Confidence            444444455555555                               455555554444432 112334444555555555


Q ss_pred             cHHHHHHHHHHhHHhhCCCC----chHHHHHHHHHHhhc----------CCHHHHHHHHHhC-C-CCCCHHHHHHHHHHH
Q 040576          467 MVLEGWWYFDLMQRIYKIEP----KVEHYGCMVDLLGRA----------GLMRDSEELVSKL-P-MEAGPALWGALLSAC  530 (641)
Q Consensus       467 ~~~~a~~~~~~~~~~~~~~p----~~~~~~~li~~~~~~----------g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~  530 (641)
                      ++++|.+.|+++.+...-.+    ....+..+..++.+.          |++++|+..|+++ . .+.+...+..+...+
T Consensus       393 ~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~  472 (537)
T 3fp2_A          393 DFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLK  472 (537)
T ss_dssp             CHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            55555555555443110001    111123334444455          6666666666654 1 123345666666677


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCchH
Q 040576          531 STHSNSELGKIVAQHLMELEPRDPGPY  557 (641)
Q Consensus       531 ~~~g~~~~a~~~~~~~~~~~p~~~~~~  557 (641)
                      ...|++++|...+++++++.|.++...
T Consensus       473 ~~~g~~~~A~~~~~~al~~~~~~~~~~  499 (537)
T 3fp2_A          473 LQMEKIDEAIELFEDSAILARTMDEKL  499 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--CHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCCcHHHH
Confidence            777777777777777777777665443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.89  E-value=2.4e-20  Score=187.38  Aligned_cols=314  Identities=11%  Similarity=0.048  Sum_probs=224.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhc---CCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 040576          288 WNCMIDGYAKIGNVTSARNCFDRM---CMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANM  364 (641)
Q Consensus       288 ~~~li~~~~~~~~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  364 (641)
                      +..+...+...|++++|...|+++   .+.+...|..+...|...|++++|+..++++.+.. +-+...+..+...+...
T Consensus         6 ~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~   84 (359)
T 3ieg_A            6 HLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQ   84 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHc
Confidence            344444555555555555555554   12234455555555555555555555555555431 12334555555555555


Q ss_pred             CCHHHHHHHHHHHHHcCCC--CchhHHHHH------------HHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHH
Q 040576          365 GVIDIGQWIHSYIQKCRIK--PDVLLSTSL------------LTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGY  427 (641)
Q Consensus       365 g~~~~a~~~~~~~~~~~~~--~~~~~~~~l------------i~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~  427 (641)
                      |++++|...++.+.+....  .+...+..+            ...+...|++++|...|+++.+   .+...+..+...+
T Consensus        85 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  164 (359)
T 3ieg_A           85 GKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVWDAELRELRAECF  164 (359)
T ss_dssp             TCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            5666665555555543210  122233222            5778888999999999888763   4667888888999


Q ss_pred             HHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHH------------HH
Q 040576          428 GMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYG------------CM  494 (641)
Q Consensus       428 ~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~------------~l  494 (641)
                      ...|++++|...++++.+.. +.+..++..+...+...|++++|...|+.+.+.   .|+ ...+.            .+
T Consensus       165 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~~~~~~~~~~  240 (359)
T 3ieg_A          165 IKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKL---DQDHKRCFAHYKQVKKLNKLIES  240 (359)
T ss_dssp             HHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---CccchHHHHHHHHHHHHHHHHHH
Confidence            99999999999999988764 336678888888899999999999999998872   233 22222            23


Q ss_pred             HHHHhhcCCHHHHHHHHHhC-CCCCC-HH----HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC
Q 040576          495 VDLLGRAGLMRDSEELVSKL-PMEAG-PA----LWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEG  568 (641)
Q Consensus       495 i~~~~~~g~~~~A~~~~~~~-~~~~~-~~----~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  568 (641)
                      +..+.+.|++++|++.++++ ...|+ ..    .+..+...+...|++++|...++++++..|+++..+..++.+|...|
T Consensus       241 a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g  320 (359)
T 3ieg_A          241 AEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAYLIEE  320 (359)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcC
Confidence            67789999999999999987 22333 32    34457788999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhhc
Q 040576          569 KWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRR  632 (641)
Q Consensus       569 ~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~  632 (641)
                      ++++|.+.++++                        .+++|++..  +...|+++...+++..+
T Consensus       321 ~~~~A~~~~~~a------------------------~~~~p~~~~--~~~~l~~~~~~~~~~~~  358 (359)
T 3ieg_A          321 MYDEAIQDYEAA------------------------QEHNENDQQ--IREGLEKAQRLLKQSQK  358 (359)
T ss_dssp             CHHHHHHHHHHH------------------------HTTCTTCHH--HHHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHH------------------------HhcCCCChH--HHHHHHHHHHHHHHhcc
Confidence            999999999999                        788899999  99999999888876543

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.85  E-value=1.4e-16  Score=174.71  Aligned_cols=352  Identities=13%  Similarity=0.022  Sum_probs=284.8

Q ss_pred             CChhHHHHHHHHHHhcCCHHHHHHHHhcCC-CC-----CeeHHHHHHHHHHhCCChHHHHHHHhhCCCCCchhHHHHHHH
Q 040576          190 LDLFVRNSLIHMYSVCGEVLDARKVFEDGP-VW-----DLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISG  263 (641)
Q Consensus       190 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~ll~~  263 (641)
                      .++.-....+++|...|...+|+++++++. .+     +....+.++.+..+. +..+..+...+...-+   ...+...
T Consensus       983 ~~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d---~~eIA~I 1058 (1630)
T 1xi4_A          983 QDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD---APDIANI 1058 (1630)
T ss_pred             cCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc---HHHHHHH
Confidence            344555778899999999999999999855 22     234566777777777 5566666666654222   4557788


Q ss_pred             HhcCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHHHHHH
Q 040576          264 YVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMI  343 (641)
Q Consensus       264 ~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  343 (641)
                      +...|.+++|..+|++....+ ...+.+   +-..+++++|.++.++..  +..+|..+..++...|++++|++.|.+. 
T Consensus      1059 ai~lglyEEAf~IYkKa~~~~-~A~~VL---ie~i~nldrAiE~Aervn--~p~vWsqLAKAql~~G~~kEAIdsYiKA- 1131 (1630)
T 1xi4_A         1059 AISNELFEEAFAIFRKFDVNT-SAVQVL---IEHIGNLDRAYEFAERCN--EPAVWSQLAKAQLQKGMVKEAIDSYIKA- 1131 (1630)
T ss_pred             HHhCCCHHHHHHHHHHcCCHH-HHHHHH---HHHHhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCHHHHHHHHHhc-
Confidence            899999999999999985221 112223   227889999999999874  4678999999999999999999999764 


Q ss_pred             HCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHH
Q 040576          344 RGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSM  423 (641)
Q Consensus       344 ~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l  423 (641)
                           -|...|..++.+|.+.|+++++.+++...++..  ++....+.++.+|++.+++++...+.   ..++...|..+
T Consensus      1132 -----dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI---~~~n~ad~~~i 1201 (1630)
T 1xi4_A         1132 -----DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI---NGPNNAHIQQV 1201 (1630)
T ss_pred             -----CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH---hCCCHHHHHHH
Confidence                 567788899999999999999999999988865  44444456999999999999655443   45677788889


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCC
Q 040576          424 IMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGL  503 (641)
Q Consensus       424 i~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  503 (641)
                      ...|...|++++|..+|...         ..|..+...+.+.|++++|.+.+++..       +..+|..+..+|...|+
T Consensus      1202 Gd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~-------n~~aWkev~~acve~~E 1265 (1630)
T 1xi4_A         1202 GDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKAN-------STRTWKEVCFACVDGKE 1265 (1630)
T ss_pred             HHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhC-------CHHHHHHHHHHHhhhhH
Confidence            99999999999999999985         478999999999999999999998773       45889999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc--CChHHHHHHHHHh
Q 040576          504 MRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASE--GKWDEVENLRRIM  580 (641)
Q Consensus       504 ~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~--g~~~~A~~~~~~m  580 (641)
                      +..|......+.  .++..+..++..|...|.+++|+.+++.++.++|.+...|..|+.+|++.  ++..++.+++..-
T Consensus      1266 f~LA~~cgl~Ii--v~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~f~~r 1342 (1630)
T 1xi4_A         1266 FRLAQMCGLHIV--VHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSR 1342 (1630)
T ss_pred             HHHHHHHHHhhh--cCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            999999887643  45666778999999999999999999999999999999999999998876  4667777776643

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.85  E-value=6.5e-19  Score=174.76  Aligned_cols=286  Identities=10%  Similarity=0.052  Sum_probs=217.5

Q ss_pred             CCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHH
Q 040576          314 RNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLL  393 (641)
Q Consensus       314 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  393 (641)
                      .+...+..+...+...|++++|+++|+++.+.. +.+...+..++..+...|++++|..+++.+.+.. +.+...+..+.
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   97 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVG   97 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHH
Confidence            355566667777777777777777777776642 2233345556666777777777777777777654 34566777777


Q ss_pred             HHHHhcC-CHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHH
Q 040576          394 TMYAKCG-VMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVL  469 (641)
Q Consensus       394 ~~~~~~g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~  469 (641)
                      ..|...| ++++|...|+++.+   .+...|..+...+...|++++|+..|+++.+.... +...+..+...+...|+++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhHH
Confidence            8888888 88888888887664   34567888888888888888888888888876422 4556666888888888999


Q ss_pred             HHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCC-----------CCCCHHHHHHHHHHHHhcCCHHH
Q 040576          470 EGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLP-----------MEAGPALWGALLSACSTHSNSEL  538 (641)
Q Consensus       470 ~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----------~~~~~~~~~~l~~~~~~~g~~~~  538 (641)
                      +|.+.++++.+  ..+.+...+..++..|.+.|++++|+..++++.           .......+..+...+...|++++
T Consensus       177 ~A~~~~~~al~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  254 (330)
T 3hym_B          177 LAERFFSQALS--IAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAE  254 (330)
T ss_dssp             HHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHH--hCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHH
Confidence            99888888876  223346778888888888999998888887751           02335688888889999999999


Q ss_pred             HHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHH
Q 040576          539 GKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYS  618 (641)
Q Consensus       539 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~  618 (641)
                      |...++++++..|+++..+..++.+|.+.|++++|.+.++++                        .+++|++..  .+.
T Consensus       255 A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a------------------------l~~~p~~~~--~~~  308 (330)
T 3hym_B          255 ALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTA------------------------LGLRRDDTF--SVT  308 (330)
T ss_dssp             HHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTT------------------------TTTCSCCHH--HHH
T ss_pred             HHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHH------------------------HccCCCchH--HHH
Confidence            999999999999999999999999999999999999999988                        677888888  888


Q ss_pred             HHHHHH-HHHHhh
Q 040576          619 MLGEIG-AQMKMC  630 (641)
Q Consensus       619 ~l~~l~-~~~~~~  630 (641)
                      .|+... ..+++.
T Consensus       309 ~l~~~~~~~~g~~  321 (330)
T 3hym_B          309 MLGHCIEMYIGDS  321 (330)
T ss_dssp             HHHHHHHTTTTC-
T ss_pred             HHHHHHHHHhCch
Confidence            888865 344433

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.85  E-value=1.4e-18  Score=174.38  Aligned_cols=306  Identities=10%  Similarity=0.012  Sum_probs=217.9

Q ss_pred             HHHHHHHhcCCChHHHHHHHhhcCC---CCchHHHHHHHHHHhcCChHHHHHHHHhcC---CCCcchHHHHHHHHHHcCC
Q 040576          258 NSMISGYVDVGDMEAANGLFDLMPF---RDVVSWNCMIDGYAKIGNVTSARNCFDRMC---MRNVVSWNILLALYVRCKD  331 (641)
Q Consensus       258 ~~ll~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~  331 (641)
                      ..+...+...|++++|...|+.+.+   .+..++..+...+...|++++|...|+++.   +.+...|..+...|...|+
T Consensus         7 ~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   86 (359)
T 3ieg_A            7 LELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLLKQGK   86 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHcCC
Confidence            3334444444444444444444432   123455555555566666666666665552   2244566666677777777


Q ss_pred             hHHHHHHHHHHHHCCCCC---C-HHHHHHH------------HHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 040576          332 YCECLRLFDRMIRGDAKP---N-EASLMSV------------LTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTM  395 (641)
Q Consensus       332 ~~~A~~~~~~m~~~g~~p---~-~~~~~~l------------l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  395 (641)
                      +++|...|+++.+.  .|   + ...+..+            ...+...|++++|...++.+.+.. +.+...+..+..+
T Consensus        87 ~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~  163 (359)
T 3ieg_A           87 LDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAEC  163 (359)
T ss_dssp             HHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHH
Confidence            77777777777653  34   2 2223222            467788889999999998888764 4567788888899


Q ss_pred             HHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHH------------HHHH
Q 040576          396 YAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFI------------CVLS  460 (641)
Q Consensus       396 ~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~------------~ll~  460 (641)
                      |...|++++|...++++.+   .+...|..+...|...|++++|...|++..+.... +...+.            .+..
T Consensus       164 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~a~  242 (359)
T 3ieg_A          164 FIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQVKKLNKLIESAE  242 (359)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-chHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999988764   46678889999999999999999999998875322 233322            2356


Q ss_pred             HHHhhccHHHHHHHHHHhHHhhCCCCch--HHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCH
Q 040576          461 ACTHAGMVLEGWWYFDLMQRIYKIEPKV--EHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNS  536 (641)
Q Consensus       461 ~~~~~g~~~~a~~~~~~~~~~~~~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~  536 (641)
                      .+.+.|++++|...++.+.+...-.+..  ..+..+..++...|++++|++.+++. ...| +...|..+...+...|++
T Consensus       243 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~  322 (359)
T 3ieg_A          243 ELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMY  322 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCH
Confidence            6889999999999999998832211111  33556888999999999999999987 2234 677899999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCchHHHHHHHHHhc
Q 040576          537 ELGKIVAQHLMELEPRDPGPYVLLSNIYASE  567 (641)
Q Consensus       537 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  567 (641)
                      ++|...++++++++|+++..+..+..++...
T Consensus       323 ~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~  353 (359)
T 3ieg_A          323 DEAIQDYEAAQEHNENDQQIREGLEKAQRLL  353 (359)
T ss_dssp             HHHHHHHHHHHTTCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCChHHHHHHHHHHHHH
Confidence            9999999999999999998888888776543

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.83  E-value=3.5e-19  Score=175.92  Aligned_cols=284  Identities=12%  Similarity=0.114  Sum_probs=117.1

Q ss_pred             hcCCChHHHHHhhhcCCCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHH
Q 040576          101 TSLSSVSLSVLFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVH  180 (641)
Q Consensus       101 ~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  180 (641)
                      .+.|++++|.+++++++.|+  +|..+..++.+.|++++|++.|. .      .+|..+|..++.++...|++++|..++
T Consensus        14 ~~~~~ld~A~~fae~~~~~~--vWs~La~A~l~~g~~~eAIdsfi-k------a~D~~~y~~V~~~ae~~g~~EeAi~yl   84 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCNEPA--VWSQLAKAQLQKGMVKEAIDSYI-K------ADDPSSYMEVVQAANTSGNWEELVKYL   84 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCCChH--HHHHHHHHHHHcCCHHHHHHHHH-c------CCCHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            45788999999999997764  89999999999999999999997 3      367889999999999999999999988


Q ss_pred             HHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCeeHHHHHHHHHHhCCChHHHHHHHhhCCCCCchhHHHH
Q 040576          181 ARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSM  260 (641)
Q Consensus       181 ~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l  260 (641)
                      +..++.  .+++.+.+.|+.+|.+.|+++++.++++.   |+..+|+.+...|...|++++|...|..+     ..|..+
T Consensus        85 ~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----~n~~~L  154 (449)
T 1b89_A           85 QMARKK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRL  154 (449)
T ss_dssp             --------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT-----TCHHHH
T ss_pred             HHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----hhHHHH
Confidence            877774  45678899999999999999999988864   66679999999999999999999999987     588888


Q ss_pred             HHHHhcCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHHH
Q 040576          261 ISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFD  340 (641)
Q Consensus       261 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  340 (641)
                      +.++.+.|++++|.+.+.++  .++.+|..++.+|...|+++.|......+. .++.....++..|.+.|++++|+.+++
T Consensus       155 A~~L~~Lg~yq~AVea~~KA--~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~eEai~lLe  231 (449)
T 1b89_A          155 ASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFEELITMLE  231 (449)
T ss_dssp             HHHHHTTTCHHHHHHHHHHH--TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHc--CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHHHHHHHHH
Confidence            88888888888888888888  367788888888888888888877666553 333334467778888888888888888


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHcc--CCHHHHHHHHHHHHHcCCCC------chhHHHHHHHHHHhcCCHHHHHHHH
Q 040576          341 RMIRGDAKPNEASLMSVLTACANM--GVIDIGQWIHSYIQKCRIKP------DVLLSTSLLTMYAKCGVMDLARNVF  409 (641)
Q Consensus       341 ~m~~~g~~p~~~~~~~ll~~~~~~--g~~~~a~~~~~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~  409 (641)
                      ...... +.....|+-+..++++-  +++.+..+.|.  .+.++++      +..+|..++..|..-++++.|..+.
T Consensus       232 ~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~--~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~tm  305 (449)
T 1b89_A          232 AALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFW--SRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM  305 (449)
T ss_dssp             HHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHS--TTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHH--HHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHH
Confidence            776543 33444555554444433  23333333332  1112222      3455666666666666666665544

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.83  E-value=3.5e-17  Score=171.87  Aligned_cols=363  Identities=11%  Similarity=-0.018  Sum_probs=271.2

Q ss_pred             ChhHHHHHHHHHHh----cCCHHHHHHHHhcCC-CCCeeHHHHHHHHHHh----CCChHHHHHHHhhC-CCCCchhHHHH
Q 040576          191 DLFVRNSLIHMYSV----CGEVLDARKVFEDGP-VWDLVTWNSMIDGYVK----NREVGFARELFDFM-PERDIFTWNSM  260 (641)
Q Consensus       191 ~~~~~~~li~~~~~----~g~~~~A~~~~~~~~-~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m-~~~~~~~~~~l  260 (641)
                      +...+..|...|..    .+++++|.+.|++.. ..+..++..+...|..    .+++++|++.|++. ...+...+..+
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~L  117 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKGLPQAQQNL  117 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            44555555555555    566666666665422 2344555566666666    66666666666665 22344555556


Q ss_pred             HHHHhc----CCChHHHHHHHhhcCCCC-chHHHHHHHHHHh----cCChHHHHHHHHhcCC-CCcchHHHHHHHHHH--
Q 040576          261 ISGYVD----VGDMEAANGLFDLMPFRD-VVSWNCMIDGYAK----IGNVTSARNCFDRMCM-RNVVSWNILLALYVR--  328 (641)
Q Consensus       261 l~~~~~----~g~~~~a~~~~~~~~~~~-~~~~~~li~~~~~----~~~~~~A~~~~~~~~~-~~~~~~~~li~~~~~--  328 (641)
                      ...+..    .+++++|...|++..+.+ ...+..|...|..    .++.++|.+.|++..+ .+...+..+...|..  
T Consensus       118 g~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~  197 (490)
T 2xm6_A          118 GVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGYMYSRGL  197 (490)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCC
Confidence            666655    667777777777665443 5566777777776    6788888888887733 466777888888887  


Q ss_pred             --cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHh----
Q 040576          329 --CKDYCECLRLFDRMIRGDAKPNEASLMSVLTACAN----MGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAK----  398 (641)
Q Consensus       329 --~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----  398 (641)
                        .+++++|+..|++..+.|   +...+..+...+..    .++.++|..+++...+.|   +...+..+..+|..    
T Consensus       198 g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~  271 (490)
T 2xm6_A          198 GVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAG  271 (490)
T ss_dssp             SSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTS
T ss_pred             CCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCC
Confidence              889999999999988864   45667777777765    789999999999988765   45566677778877    


Q ss_pred             cCCHHHHHHHHhhcCC-CChhHHHHHHHHHHHc-----CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhc---cHH
Q 040576          399 CGVMDLARNVFDNMTE-KNVVSWNSMIMGYGMH-----GQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAG---MVL  469 (641)
Q Consensus       399 ~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~-----~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g---~~~  469 (641)
                      .++.++|...|++..+ .+..++..+...|...     +++++|+.+|++..+.|   +...+..+...+...|   +.+
T Consensus       272 ~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~  348 (490)
T 2xm6_A          272 AKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHK  348 (490)
T ss_dssp             SCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHH
Confidence            8999999999998775 4667888888888887     89999999999999875   4566777777777655   889


Q ss_pred             HHHHHHHHhHHhhCCCCchHHHHHHHHHHhh----cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHH
Q 040576          470 EGWWYFDLMQRIYKIEPKVEHYGCMVDLLGR----AGLMRDSEELVSKLPMEAGPALWGALLSACST----HSNSELGKI  541 (641)
Q Consensus       470 ~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~  541 (641)
                      +|.++|++..+ .   .+...+..|...|..    .+++++|++.|++.....++..+..|...|..    .++.++|..
T Consensus       349 ~A~~~~~~a~~-~---~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~  424 (490)
T 2xm6_A          349 KAVEWFRKAAA-K---GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQLGEIYYYGLGVERDYVQAWA  424 (490)
T ss_dssp             HHHHHHHHHHH-T---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHH
T ss_pred             HHHHHHHHHHH-C---CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence            99999999988 3   357788888899988    89999999999987434567888888888888    899999999


Q ss_pred             HHHHHHhcCCC---CCchHHHHHHHHHh
Q 040576          542 VAQHLMELEPR---DPGPYVLLSNIYAS  566 (641)
Q Consensus       542 ~~~~~~~~~p~---~~~~~~~l~~~~~~  566 (641)
                      .|+++.+.+|+   ++.....++.++..
T Consensus       425 ~~~~A~~~~~~~~~~~~a~~~l~~~~~~  452 (490)
T 2xm6_A          425 WFDTASTNDMNLFGTENRNITEKKLTAK  452 (490)
T ss_dssp             HHHHHHHHHCCHHHHHHHHHHHTTSCHH
T ss_pred             HHHHHHHCCCCCcCCHHHHHHHHhcCHh
Confidence            99999999854   67677777766554

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.82  E-value=1.1e-17  Score=165.98  Aligned_cols=286  Identities=10%  Similarity=-0.025  Sum_probs=230.0

Q ss_pred             CCchHHHHHHHHHHhcCChHHHHHHHHhcC---CCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 040576          283 RDVVSWNCMIDGYAKIGNVTSARNCFDRMC---MRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLT  359 (641)
Q Consensus       283 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~  359 (641)
                      .+..++..+...+...|++++|.++|+++.   +.+...+..++..+...|++++|..+++++.+.. +.+...+..+..
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   98 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGC   98 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHH
Confidence            345666777777777888888888888772   3345567777788888899999999888888743 234567777888


Q ss_pred             HHHccC-CHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHH
Q 040576          360 ACANMG-VIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEK  435 (641)
Q Consensus       360 ~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~  435 (641)
                      .+...| ++++|...++.+.+.. +.+...+..+..+|...|++++|...|+++.+   .+...+..+...|...|++++
T Consensus        99 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~  177 (330)
T 3hym_B           99 YYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKL  177 (330)
T ss_dssp             HHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHH
Confidence            888888 8888999988888764 44567788888999999999999999988763   346778889999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhC-------CCCchHHHHHHHHHHhhcCCHHHHH
Q 040576          436 ALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYK-------IEPKVEHYGCMVDLLGRAGLMRDSE  508 (641)
Q Consensus       436 A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-------~~p~~~~~~~li~~~~~~g~~~~A~  508 (641)
                      |...++++.+.. +.+...+..+...+...|++++|...++++.+...       .+.....+..+..+|.+.|++++|+
T Consensus       178 A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  256 (330)
T 3hym_B          178 AERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEAL  256 (330)
T ss_dssp             HHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHH
Confidence            999999998864 33567888899999999999999999999887321       1333678889999999999999999


Q ss_pred             HHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHH-HhcCChH
Q 040576          509 ELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIY-ASEGKWD  571 (641)
Q Consensus       509 ~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~~  571 (641)
                      +.++++ . .+.+...+..+...+...|++++|...++++++++|+++..+..++.++ ...|+.+
T Consensus       257 ~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          257 DYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCchh
Confidence            999987 2 2345678889999999999999999999999999999999999999988 4556544

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.81  E-value=3.6e-18  Score=172.35  Aligned_cols=278  Identities=8%  Similarity=-0.044  Sum_probs=200.9

Q ss_pred             cCChHHHHH-HHHhcCC---C----CcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHH
Q 040576          298 IGNVTSARN-CFDRMCM---R----NVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDI  369 (641)
Q Consensus       298 ~~~~~~A~~-~~~~~~~---~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~  369 (641)
                      .|++++|.. .|++...   .    +...|..+...+...|++++|+..|+++.+.. +.+...+..+..++...|++++
T Consensus        38 ~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~  116 (368)
T 1fch_A           38 LSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELL  116 (368)
T ss_dssp             --------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHH
Confidence            355555555 5554411   1    23456666666777777777777777776642 2345566666666777777777


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-ChhHHH----------------HHHHHHHHc
Q 040576          370 GQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE--K-NVVSWN----------------SMIMGYGMH  430 (641)
Q Consensus       370 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~----------------~li~~~~~~  430 (641)
                      |...++.+.+.. +.+..++..+..+|...|++++|.+.|+++.+  | +...+.                .+...+ ..
T Consensus       117 A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~  194 (368)
T 1fch_A          117 AISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLL-SD  194 (368)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHH-HH
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHh-hc
Confidence            777777666654 34566666677777777777777777766543  1 111111                233334 88


Q ss_pred             CChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHH
Q 040576          431 GQGEKALEMFMEMEKRGPTP-NDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEE  509 (641)
Q Consensus       431 ~~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  509 (641)
                      |++++|...|+++.+..... +..++..+...+...|++++|...|+++...  .+.+...+..++.+|.+.|++++|++
T Consensus       195 ~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~  272 (368)
T 1fch_A          195 SLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVA  272 (368)
T ss_dssp             HHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999998864222 4778889999999999999999999999872  23347789999999999999999999


Q ss_pred             HHHhC-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-----------CchHHHHHHHHHhcCChHHHHHH
Q 040576          510 LVSKL-PM-EAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRD-----------PGPYVLLSNIYASEGKWDEVENL  576 (641)
Q Consensus       510 ~~~~~-~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g~~~~A~~~  576 (641)
                      .++++ .. +.+...+..+...+...|++++|...+++++++.|++           +..|..++.+|...|++++|..+
T Consensus       273 ~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  352 (368)
T 1fch_A          273 AYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAA  352 (368)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHH
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHh
Confidence            99987 22 3457789999999999999999999999999998887           78899999999999999999998


Q ss_pred             HHHh
Q 040576          577 RRIM  580 (641)
Q Consensus       577 ~~~m  580 (641)
                      +++.
T Consensus       353 ~~~~  356 (368)
T 1fch_A          353 DARD  356 (368)
T ss_dssp             HTTC
T ss_pred             HHHH
Confidence            8754

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.81  E-value=1.5e-18  Score=175.18  Aligned_cols=312  Identities=12%  Similarity=0.026  Sum_probs=223.9

Q ss_pred             CChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHH-HHHHHHHCCC-CC--CHHHHHHHHHHHHccCCHHHHHHHH
Q 040576          299 GNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLR-LFDRMIRGDA-KP--NEASLMSVLTACANMGVIDIGQWIH  374 (641)
Q Consensus       299 ~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~-~~~~m~~~g~-~p--~~~~~~~ll~~~~~~g~~~~a~~~~  374 (641)
                      +.++.+...|+.+...+..       ++...|++++|+. .+++...... .|  +...+..+...+...|++++|...+
T Consensus        15 ~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~   87 (368)
T 1fch_A           15 DFWDKLQAELEEMAKRDAE-------AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLF   87 (368)
T ss_dssp             --------------------------------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHcCCch-------hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHH
Confidence            3444555555555433322       3445689999998 8887654321 11  3455778888999999999999999


Q ss_pred             HHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC
Q 040576          375 SYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPN  451 (641)
Q Consensus       375 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~  451 (641)
                      +.+.+.. +.+...+..+..+|...|++++|...|+++.+   .+..+|..++..|...|++++|...|+++...... +
T Consensus        88 ~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~  165 (368)
T 1fch_A           88 EAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-Y  165 (368)
T ss_dssp             HHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-T
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-c
Confidence            9999875 55788899999999999999999999998763   56789999999999999999999999999986432 2


Q ss_pred             HHHHHH---------------HHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-C
Q 040576          452 DATFIC---------------VLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-P  515 (641)
Q Consensus       452 ~~~~~~---------------ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~  515 (641)
                      ...+..               .+..+...|++++|...|+++.+.....++..++..++.+|.+.|++++|++.++++ .
T Consensus       166 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  245 (368)
T 1fch_A          166 AHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALS  245 (368)
T ss_dssp             GGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            222211               234444899999999999999883222224788999999999999999999999987 2


Q ss_pred             -CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEE
Q 040576          516 -MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLV  594 (641)
Q Consensus       516 -~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~  594 (641)
                       .+.+...|..+...+...|++++|...+++++++.|+++..+..++.+|.+.|++++|...++++.+..+.....    
T Consensus       246 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~----  321 (368)
T 1fch_A          246 VRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGP----  321 (368)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC-------
T ss_pred             hCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCc----
Confidence             234577899999999999999999999999999999999999999999999999999999999985532211000    


Q ss_pred             EeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhhccc
Q 040576          595 HPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRRDV  634 (641)
Q Consensus       595 ~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~~~  634 (641)
                               ....+|....  ++..|+.+...+++..++.
T Consensus       322 ---------~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~  350 (368)
T 1fch_A          322 ---------RGEGGAMSEN--IWSTLRLALSMLGQSDAYG  350 (368)
T ss_dssp             ------------CCCCCHH--HHHHHHHHHHHHTCGGGHH
T ss_pred             ---------cccccchhhH--HHHHHHHHHHHhCChHhHH
Confidence                     0122344578  9999999999998876653

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.80  E-value=2.4e-15  Score=165.19  Aligned_cols=413  Identities=12%  Similarity=0.079  Sum_probs=288.0

Q ss_pred             cHHHHHHHHHcCCCchhHHHHHHHHHHhcCC--CCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHH
Q 040576          123 MCNTIMKSFLMLNDPFGALSFYYEKMMAKFV--EHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIH  200 (641)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  200 (641)
                      --...+++|...|.+.+|+++|+ .....+-  .-+...-+.++.+..+. +.....++.....+       .....+..
T Consensus       987 eVs~~vKaf~~aglp~EaieLLE-Kivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~-------~d~~eIA~ 1057 (1630)
T 1xi4_A          987 EVSVTVKAFMTADLPNELIELLE-KIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDN-------YDAPDIAN 1057 (1630)
T ss_pred             HhHHHHHHHHhCCCHHHHHHHHH-HHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhh-------ccHHHHHH
Confidence            34567788889999999999998 5553321  12233455566555555 55555555554431       11334666


Q ss_pred             HHHhcCCHHHHHHHHhcCCCCCeeHHHHHHHHHHhCCChHHHHHHHhhCCCCCchhHHHHHHHHhcCCChHHHHHHHhhc
Q 040576          201 MYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLM  280 (641)
Q Consensus       201 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~  280 (641)
                      .+...|.+++|..+|++.. ......+.++.   ..+++++|.+++++.  .+..+|..+..++...|++++|...|.+.
T Consensus      1058 Iai~lglyEEAf~IYkKa~-~~~~A~~VLie---~i~nldrAiE~Aerv--n~p~vWsqLAKAql~~G~~kEAIdsYiKA 1131 (1630)
T 1xi4_A         1058 IAISNELFEEAFAIFRKFD-VNTSAVQVLIE---HIGNLDRAYEFAERC--NEPAVWSQLAKAQLQKGMVKEAIDSYIKA 1131 (1630)
T ss_pred             HHHhCCCHHHHHHHHHHcC-CHHHHHHHHHH---HHhhHHHHHHHHHhc--CCHHHHHHHHHHHHhCCCHHHHHHHHHhc
Confidence            7778899999999998864 11122222222   678889998888876  33567788889999999999999998665


Q ss_pred             CCCCchHHHHHHHHHHhcCChHHHHHHHHhcCC--CCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 040576          281 PFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCM--RNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVL  358 (641)
Q Consensus       281 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll  358 (641)
                        .|...|..++..+.+.|++++|.+.|....+  +++...+.++.+|++.+++++.....    +   .++...|..+.
T Consensus      1132 --dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iG 1202 (1630)
T 1xi4_A         1132 --DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVG 1202 (1630)
T ss_pred             --CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHH
Confidence              5567778889999999999999998876532  33334445888888888888543332    2   35666777888


Q ss_pred             HHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHH
Q 040576          359 TACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALE  438 (641)
Q Consensus       359 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~  438 (641)
                      ..|...|++++|..+|..+         ..|..+..+|++.|++++|.+.+++.  .+..+|..+..+|...|++..|..
T Consensus      1203 d~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA--~n~~aWkev~~acve~~Ef~LA~~ 1271 (1630)
T 1xi4_A         1203 DRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKEFRLAQM 1271 (1630)
T ss_pred             HHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh--CCHHHHHHHHHHHhhhhHHHHHHH
Confidence            8899999999999998875         37888889999999999999999877  456888888888888888888877


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhh--cCCHHHHHHHHHhC-
Q 040576          439 MFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGR--AGLMRDSEELVSKL-  514 (641)
Q Consensus       439 ~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~--~g~~~~A~~~~~~~-  514 (641)
                      ....     +..++..+..++..|.+.|.+++|+.+++....   +.+. ...|+.|..+|++  -++..++.++|..- 
T Consensus      1272 cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~---LeraH~gmftELaiLyaKy~peklmEhlk~f~~ri 1343 (1630)
T 1xi4_A         1272 CGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALG---LERAHMGMFTELAILYSKFKPQKMREHLELFWSRV 1343 (1630)
T ss_pred             HHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhc---cChhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhc
Confidence            6543     334566677888888889999999999877754   3332 4556666666664  44666777766643 


Q ss_pred             CCCC------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh------------cCCCCCchHHHHHHHHHhcC--------
Q 040576          515 PMEA------GPALWGALLSACSTHSNSELGKIVAQHLME------------LEPRDPGPYVLLSNIYASEG--------  568 (641)
Q Consensus       515 ~~~~------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~------------~~p~~~~~~~~l~~~~~~~g--------  568 (641)
                      ...|      +...|..+...|.+.|+++.|....-.-..            ..+.|++.|+..+.-|...+        
T Consensus      1344 ni~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~kv~n~elyykai~Fyl~~~P~~lndLl 1423 (1630)
T 1xi4_A         1344 NIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYLEFKPLLLNDLL 1423 (1630)
T ss_pred             ccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhcccccHHHHHHHHHHHHhhChHHHHHHH
Confidence            3222      455788888888888888888733221111            13566777777777777666        


Q ss_pred             -------ChHHHHHHHH
Q 040576          569 -------KWDEVENLRR  578 (641)
Q Consensus       569 -------~~~~A~~~~~  578 (641)
                             +.+.+.++++
T Consensus      1424 ~~l~~rlD~~R~V~l~~ 1440 (1630)
T 1xi4_A         1424 MVLSPRLDHTRAVNYFS 1440 (1630)
T ss_pred             HHhhhcCChHHHHHHHH
Confidence                   6667766666

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.80  E-value=3.1e-18  Score=169.21  Aligned_cols=285  Identities=11%  Similarity=0.028  Sum_probs=120.4

Q ss_pred             hcCCHHHHHHHHhcCCCCCeeHHHHHHHHHHhCCChHHHHHHHhhCCCCCchhHHHHHHHHhcCCChHHHHHHHhhcCC-
Q 040576          204 VCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPF-  282 (641)
Q Consensus       204 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-  282 (641)
                      +.|++++|.+.+++...|  .+|..++.++.+.|++++|++.|.+.  +|..+|..++.++...|++++|+..++..++ 
T Consensus        15 ~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfika--~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~   90 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKK   90 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHcC--CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh
Confidence            566677777777777444  37777777777777777777777553  5566777777777777777777776665553 


Q ss_pred             -CCchHHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 040576          283 -RDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTAC  361 (641)
Q Consensus       283 -~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  361 (641)
                       +++.+.+.|+.+|.+.|+++++.++++.   |+..+|+.+...|...|++++|...|..+         ..|..+..++
T Consensus        91 ~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L  158 (449)
T 1b89_A           91 ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTL  158 (449)
T ss_dssp             ------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TCHHHHHHHH
T ss_pred             CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHH
Confidence             3356677777777777777777766653   56667777777777777777777777766         2577777777


Q ss_pred             HccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHH
Q 040576          362 ANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFM  441 (641)
Q Consensus       362 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~  441 (641)
                      .+.|++++|.+.+..+      .++.+|..++.+|...|+++.|......+. .++.-...++..|.+.|++++|..+++
T Consensus       159 ~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~eEai~lLe  231 (449)
T 1b89_A          159 VHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFEELITMLE  231 (449)
T ss_dssp             HTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHHHHHHHHH
Confidence            7777777777777766      256777777777777777777766666544 344444567888888888888888888


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHh--hccHHHHHHHHHHhHHhhCCCC------chHHHHHHHHHHhhcCCHHHHHHHHHh
Q 040576          442 EMEKRGPTPNDATFICVLSACTH--AGMVLEGWWYFDLMQRIYKIEP------KVEHYGCMVDLLGRAGLMRDSEELVSK  513 (641)
Q Consensus       442 ~m~~~g~~p~~~~~~~ll~~~~~--~g~~~~a~~~~~~~~~~~~~~p------~~~~~~~li~~~~~~g~~~~A~~~~~~  513 (641)
                      ...... +-....|+.+.-++++  .++..+.++.|..-   -.++|      +...|..++-.|...++++.|...+-+
T Consensus       232 ~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~---ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~tm~~  307 (449)
T 1b89_A          232 AALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSR---VNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMN  307 (449)
T ss_dssp             HHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTT---SCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH---hcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHh
Confidence            877543 2234456555555543  45555555555422   23444      356788889999999999998887665


Q ss_pred             CC
Q 040576          514 LP  515 (641)
Q Consensus       514 ~~  515 (641)
                      -+
T Consensus       308 h~  309 (449)
T 1b89_A          308 HP  309 (449)
T ss_dssp             ST
T ss_pred             CC
Confidence            53

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.80  E-value=4.5e-16  Score=163.43  Aligned_cols=350  Identities=12%  Similarity=0.022  Sum_probs=296.4

Q ss_pred             CCCeeHHHHHHHHHHh----CCChHHHHHHHhhC-CCCCchhHHHHHHHHhc----CCChHHHHHHHhhcCCCC-chHHH
Q 040576          220 VWDLVTWNSMIDGYVK----NREVGFARELFDFM-PERDIFTWNSMISGYVD----VGDMEAANGLFDLMPFRD-VVSWN  289 (641)
Q Consensus       220 ~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m-~~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~-~~~~~  289 (641)
                      ..++.++..+...|..    .+++++|+..|++. ...+...+..+...|..    .+++++|.+.|++..+.+ ...+.
T Consensus        36 ~g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~  115 (490)
T 2xm6_A           36 SGEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKGLPQAQQ  115 (490)
T ss_dssp             TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CCCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            3466677778888888    89999999999988 34567788888888888    899999999999987654 67788


Q ss_pred             HHHHHHHh----cCChHHHHHHHHhcCC-CCcchHHHHHHHHHH----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 040576          290 CMIDGYAK----IGNVTSARNCFDRMCM-RNVVSWNILLALYVR----CKDYCECLRLFDRMIRGDAKPNEASLMSVLTA  360 (641)
Q Consensus       290 ~li~~~~~----~~~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  360 (641)
                      .|...|..    .+++++|.+.|++... .++..+..+...|..    .+++++|++.|++..+.|   +...+..+...
T Consensus       116 ~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~  192 (490)
T 2xm6_A          116 NLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYM  192 (490)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHH
Confidence            88899988    8899999999999844 466778888888887    889999999999999865   66778888888


Q ss_pred             HHc----cCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHh----cCCHHHHHHHHhhcCC-CChhHHHHHHHHHHH--
Q 040576          361 CAN----MGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAK----CGVMDLARNVFDNMTE-KNVVSWNSMIMGYGM--  429 (641)
Q Consensus       361 ~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~--  429 (641)
                      |..    .++.++|...+....+.|   +...+..+..+|..    .+++++|...|++..+ .+..++..+...|..  
T Consensus       193 y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~  269 (490)
T 2xm6_A          193 YSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGYILEQGL  269 (490)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTT
T ss_pred             HhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCC
Confidence            887    899999999999999875   56677788888886    7899999999998775 567788888888888  


Q ss_pred             --cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhh-----ccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcC
Q 040576          430 --HGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHA-----GMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAG  502 (641)
Q Consensus       430 --~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~-----g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g  502 (641)
                        .+++++|+.+|++..+.|   +...+..+...+...     +++++|..+|++..+ .+   +...+..+...|.+.|
T Consensus       270 ~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~~y~~~g  342 (490)
T 2xm6_A          270 AGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAE-QG---DATAQANLGAIYFRLG  342 (490)
T ss_dssp             TSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHSC
T ss_pred             CCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHh-cC---CHHHHHHHHHHHHhCC
Confidence              899999999999998765   556777788888777     899999999999988 33   4567777888888767


Q ss_pred             ---CHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh----cCChH
Q 040576          503 ---LMRDSEELVSKLPMEAGPALWGALLSACST----HSNSELGKIVAQHLMELEPRDPGPYVLLSNIYAS----EGKWD  571 (641)
Q Consensus       503 ---~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~  571 (641)
                         ++++|++.|++.....++..+..+...|..    .++.++|...++++.+.+  ++..+..|+.+|..    .++++
T Consensus       343 ~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~--~~~a~~~Lg~~y~~g~g~~~d~~  420 (490)
T 2xm6_A          343 SEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG--LSAAQVQLGEIYYYGLGVERDYV  420 (490)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHH
T ss_pred             CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC--CHHHHHHHHHHHHcCCCCCCCHH
Confidence               889999999988434678889999999988    899999999999998864  57789999999998    89999


Q ss_pred             HHHHHHHHhhhCC
Q 040576          572 EVENLRRIMKEKE  584 (641)
Q Consensus       572 ~A~~~~~~m~~~~  584 (641)
                      +|...+++..+.+
T Consensus       421 ~A~~~~~~A~~~~  433 (490)
T 2xm6_A          421 QAWAWFDTASTND  433 (490)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCC
Confidence            9999999997655

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.79  E-value=7.3e-16  Score=163.55  Aligned_cols=406  Identities=11%  Similarity=0.038  Sum_probs=267.4

Q ss_pred             CCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCC--CCCeeHHHHHHH
Q 040576          154 EHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGP--VWDLVTWNSMID  231 (641)
Q Consensus       154 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~  231 (641)
                      +-|...|..++.. ...|+++.|+.+++.+.+.- +.+...|..++..+.+.|++++|.++|++..  .|++..|...+.
T Consensus        10 P~~~~~w~~l~~~-~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p~~~lw~~~~~   87 (530)
T 2ooe_A           10 PYDLDAWSILIRE-AQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVLHIDLWKCYLS   87 (530)
T ss_dssp             TTCHHHHHHHHHH-HHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCCCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHH-HHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCChHHHHHHHH
Confidence            3355677777774 56788888888888887653 4466678888888888888888888888743  245556666664


Q ss_pred             HH-HhCCChHHHHH----HHhhC-----CC-CCchhHHHHHHHHhc---------CCChHHHHHHHhhcCC-CCc---hH
Q 040576          232 GY-VKNREVGFARE----LFDFM-----PE-RDIFTWNSMISGYVD---------VGDMEAANGLFDLMPF-RDV---VS  287 (641)
Q Consensus       232 ~~-~~~g~~~~A~~----~~~~m-----~~-~~~~~~~~ll~~~~~---------~g~~~~a~~~~~~~~~-~~~---~~  287 (641)
                      .. ...|+.++|.+    +|++.     .. ++...|...+.....         .|+++.|..+|++..+ |..   ..
T Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~  167 (530)
T 2ooe_A           88 YVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQL  167 (530)
T ss_dssp             HHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHH
T ss_pred             HHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHH
Confidence            22 34566665554    45443     11 233445444443332         4556666666666554 111   11


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHHHHHH------HCC---CCCCH-------
Q 040576          288 WNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMI------RGD---AKPNE-------  351 (641)
Q Consensus       288 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~------~~g---~~p~~-------  351 (641)
                      |..........|. ..+..               ++.  ...+++..|..+++++.      +..   +.|+.       
T Consensus       168 ~~~~~~~e~~~~~-~~~~~---------------~l~--~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~  229 (530)
T 2ooe_A          168 WRDYNKYEEGINI-HLAKK---------------MIE--DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQ  229 (530)
T ss_dssp             HHHHHHHHHHHCH-HHHHH---------------HHH--TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHH
T ss_pred             HHHHHHHHHhhch-hHHHH---------------HHH--HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHH
Confidence            1111110000000 00011               110  12345666766666532      211   24431       


Q ss_pred             -HHHHHHHHHHHc----cCCH----HHHHHHHHHHHHcCCCCchhHHHHHHHHHHh-------cCCHH-------HHHHH
Q 040576          352 -ASLMSVLTACAN----MGVI----DIGQWIHSYIQKCRIKPDVLLSTSLLTMYAK-------CGVMD-------LARNV  408 (641)
Q Consensus       352 -~~~~~ll~~~~~----~g~~----~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-------~g~~~-------~A~~~  408 (641)
                       ..|...+.....    .++.    +.+..+|+.+.... +.+..+|..++..+.+       .|+++       +|..+
T Consensus       230 ~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~  308 (530)
T 2ooe_A          230 VDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANI  308 (530)
T ss_dssp             HHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHH
Confidence             344444432222    1232    36777888888763 5567888888888775       68876       89999


Q ss_pred             HhhcCC---C-ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-H-HHHHHHHHHHHhhccHHHHHHHHHHhHHhh
Q 040576          409 FDNMTE---K-NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPN-D-ATFICVLSACTHAGMVLEGWWYFDLMQRIY  482 (641)
Q Consensus       409 ~~~~~~---~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  482 (641)
                      |++..+   | +...|..++..+.+.|++++|..+|+++.+.  .|+ . ..|...+..+.+.|++++|.++|++..+  
T Consensus       309 ~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~--  384 (530)
T 2ooe_A          309 YERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARE--  384 (530)
T ss_dssp             HHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT--
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHh--
Confidence            998874   3 5678999999999999999999999999985  454 3 4788888888899999999999999987  


Q ss_pred             CCCCc-hHHHHHHHHH-HhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc---
Q 040576          483 KIEPK-VEHYGCMVDL-LGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPG---  555 (641)
Q Consensus       483 ~~~p~-~~~~~~li~~-~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~---  555 (641)
                       ..|. ...|...+.. +...|+.++|..+|++. ...| ++..|..++..+...|+.++|..+|++++...|.++.   
T Consensus       385 -~~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~  463 (530)
T 2ooe_A          385 -DARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSG  463 (530)
T ss_dssp             -CTTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCH
T ss_pred             -ccCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHH
Confidence             3333 3333332222 34689999999999976 2224 5788999999999999999999999999998877665   


Q ss_pred             -hHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 040576          556 -PYVLLSNIYASEGKWDEVENLRRIMKEKEL  585 (641)
Q Consensus       556 -~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  585 (641)
                       .|...+......|+.+.+..+.+++.+..+
T Consensus       464 ~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~p  494 (530)
T 2ooe_A          464 EIWARFLAFESNIGDLASILKVEKRRFTAFR  494 (530)
T ss_dssp             HHHHHHHHHHHHSSCHHHHHHHHHHHHHHTH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence             777778888889999999999999866543

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.78  E-value=2.5e-17  Score=159.53  Aligned_cols=245  Identities=11%  Similarity=0.029  Sum_probs=139.8

Q ss_pred             HHHhcCChHHHHHHHHhcCCCCc----chHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHH
Q 040576          294 GYAKIGNVTSARNCFDRMCMRNV----VSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDI  369 (641)
Q Consensus       294 ~~~~~~~~~~A~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~  369 (641)
                      -....|++..|+..++.....++    .....+.++|...|++++|+..++..    -.|+..++..+...+...|+.+.
T Consensus         8 ~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~----~~~~~~a~~~la~~~~~~~~~~~   83 (291)
T 3mkr_A            8 NAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKPS----SAPELQAVRMFAEYLASHSRRDA   83 (291)
T ss_dssp             HHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTT----SCHHHHHHHHHHHHHHCSTTHHH
T ss_pred             HHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhccc----CChhHHHHHHHHHHHcCCCcHHH
Confidence            34456777777777776543322    23345667777777777777655431    34555566666667777777777


Q ss_pred             HHHHHHHHHHcCCCC-chhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCC
Q 040576          370 GQWIHSYIQKCRIKP-DVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGP  448 (641)
Q Consensus       370 a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~  448 (641)
                      |.+.++.+...+..| +...+..+..+|...|++++|++.+++  ..+...+..++..|.+.|++++|...|+++.+.. 
T Consensus        84 A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~-  160 (291)
T 3mkr_A           84 IVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD-  160 (291)
T ss_dssp             HHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC-
Confidence            777777776655433 445555566666677777777777666  3455566666666666666666666666666542 


Q ss_pred             CCCHHHH---HHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHH
Q 040576          449 TPNDATF---ICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGA  525 (641)
Q Consensus       449 ~p~~~~~---~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  525 (641)
                       |+....   ...+..+...|++++|..+|+++.+.  .+                                .++..|+.
T Consensus       161 -p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p--------------------------------~~~~~~~~  205 (291)
T 3mkr_A          161 -EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CS--------------------------------PTLLLLNG  205 (291)
T ss_dssp             -TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SC--------------------------------CCHHHHHH
T ss_pred             -cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CC--------------------------------CcHHHHHH
Confidence             332211   11112222335555555555555441  22                                33444555


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHH-HHHHHHHh
Q 040576          526 LLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDE-VENLRRIM  580 (641)
Q Consensus       526 l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~-A~~~~~~m  580 (641)
                      +..++...|++++|+..++++++++|+++.++..++.++...|++++ +.++++++
T Consensus       206 la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~  261 (291)
T 3mkr_A          206 QAACHMAQGRWEAAEGVLQEALDKDSGHPETLINLVVLSQHLGKPPEVTNRYLSQL  261 (291)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            55555555555555555555555555555555555555555555544 34555555

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.77  E-value=2.1e-17  Score=166.68  Aligned_cols=257  Identities=11%  Similarity=-0.025  Sum_probs=170.4

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChH
Q 040576          358 LTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGE  434 (641)
Q Consensus       358 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~  434 (641)
                      ...+.+.|++++|..+++.+.+.. +.+..++..+..+|...|++++|...|+++.+   .+..+|..++.+|...|+++
T Consensus        72 ~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~  150 (365)
T 4eqf_A           72 GLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVSYTNTSHQQ  150 (365)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccccHH
Confidence            333333334444444443333332 22344455555555555666666665555542   34556777777777777777


Q ss_pred             HHHHHHHHHHHCCCCCC-----------HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCC
Q 040576          435 KALEMFMEMEKRGPTPN-----------DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGL  503 (641)
Q Consensus       435 ~A~~~~~~m~~~g~~p~-----------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  503 (641)
                      +|+..|+++.+.  .|+           ...+..+...+...|++++|.++++++.+.....++..++..++..|.+.|+
T Consensus       151 ~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~  228 (365)
T 4eqf_A          151 DACEALKNWIKQ--NPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGE  228 (365)
T ss_dssp             HHHHHHHHHHHH--CHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHh--CccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCC
Confidence            777777777664  222           2233445778889999999999999998832222257889999999999999


Q ss_pred             HHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          504 MRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       504 ~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      +++|++.|+++ . .+.+...|..+..+|...|++++|+..+++++++.|+++..+..++.+|.+.|++++|...++++.
T Consensus       229 ~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  308 (365)
T 4eqf_A          229 FNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREAVSNFLTAL  308 (365)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            99999999987 2 234577999999999999999999999999999999999999999999999999999999999996


Q ss_pred             hCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhh
Q 040576          582 EKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCR  631 (641)
Q Consensus       582 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~  631 (641)
                      +..+.....          ..  ......+..  ++..|+.....+++..
T Consensus       309 ~~~~~~~~~----------~~--~~~~~~~~~--~~~~l~~~~~~~g~~~  344 (365)
T 4eqf_A          309 SLQRKSRNQ----------QQ--VPHPAISGN--IWAALRIALSLMDQPE  344 (365)
T ss_dssp             HHHHCC------------------------CH--HHHHHHHHHHHHTCHH
T ss_pred             HhCcccCCC----------cc--cchhhhHHH--HHHHHHHHHHHcCcHH
Confidence            543221000          00  000111356  8889999888877654

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.77  E-value=1e-16  Score=167.71  Aligned_cols=363  Identities=11%  Similarity=-0.047  Sum_probs=188.6

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHhcC------------CCCCeeHHHHHHHHHHhCCChHHHHHHHhhCC-------C
Q 040576          191 DLFVRNSLIHMYSVCGEVLDARKVFEDG------------PVWDLVTWNSMIDGYVKNREVGFARELFDFMP-------E  251 (641)
Q Consensus       191 ~~~~~~~li~~~~~~g~~~~A~~~~~~~------------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~-------~  251 (641)
                      ....||.|...+...|++++|++.|++-            ......+|+.+..+|...|++++|...+++..       .
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            4567888888888888888888887641            12234567777777777777777777666541       0


Q ss_pred             ---C-CchhHHHHHHHHhc--CCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHH
Q 040576          252 ---R-DIFTWNSMISGYVD--VGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLAL  325 (641)
Q Consensus       252 ---~-~~~~~~~ll~~~~~--~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~  325 (641)
                         + ...++.....++..  .+++++|+..|++..+.                            .+.++..+..+..+
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~----------------------------~p~~~~~~~~~~~~  181 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK----------------------------KPKNPEFTSGLAIA  181 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH----------------------------STTCHHHHHHHHHH
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh----------------------------CCCCHHHHHHHHHH
Confidence               1 11233333322222  23344555555444321                            11122222222222


Q ss_pred             ---HHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHh
Q 040576          326 ---YVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACAN----MGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAK  398 (641)
Q Consensus       326 ---~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  398 (641)
                         +...++.++|++.+++..+.. +.+...+..+...+..    .|+.++|..+++...... +.+..++..+...|..
T Consensus       182 ~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~  259 (472)
T 4g1t_A          182 SYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRR  259 (472)
T ss_dssp             HHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHH
T ss_pred             HHHhcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHH
Confidence               223344444555554444321 1122223222222222    234444555554444432 2334444445555555


Q ss_pred             cCCHHHHHHHHhhcCC---CChhHHHHHHHHHHH-------------------cCChHHHHHHHHHHHHCCCCCCHHHHH
Q 040576          399 CGVMDLARNVFDNMTE---KNVVSWNSMIMGYGM-------------------HGQGEKALEMFMEMEKRGPTPNDATFI  456 (641)
Q Consensus       399 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~-------------------~~~~~~A~~~~~~m~~~g~~p~~~~~~  456 (641)
                      .|++++|...|++..+   .+..+|..+..+|..                   .+.+++|...+++..+... .+..++.
T Consensus       260 ~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~  338 (472)
T 4g1t_A          260 KDEPDKAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAND-NLFRVCS  338 (472)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCT-TTCCCHH
T ss_pred             cCchHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCC-chhhhhh
Confidence            5555555555554432   223334333333321                   2346778888888877532 2345677


Q ss_pred             HHHHHHHhhccHHHHHHHHHHhHHhhCCCCch--HHHHHHHHH-HhhcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHh
Q 040576          457 CVLSACTHAGMVLEGWWYFDLMQRIYKIEPKV--EHYGCMVDL-LGRAGLMRDSEELVSKL-PMEAGPALWGALLSACST  532 (641)
Q Consensus       457 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~--~~~~~li~~-~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~  532 (641)
                      .+...+...|++++|...|+++.+ ....+..  ..+..+... +...|++++|++.|++. ...|+...+..       
T Consensus       339 ~lg~~~~~~~~~~~A~~~~~kaL~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~-------  410 (472)
T 4g1t_A          339 ILASLHALADQYEEAEYYFQKEFS-KELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEK-------  410 (472)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHH-------
T ss_pred             hHHHHHHHhccHHHHHHHHHHHHh-cCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHH-------
Confidence            888899999999999999999887 2222221  123333332 34778999999999876 44565443322       


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEE
Q 040576          533 HSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLV  594 (641)
Q Consensus       533 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~  594 (641)
                        ....+..++++.++.+|+++.+|..|+.+|...|++++|++.+++..+.+.....+.+|+
T Consensus       411 --~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~  470 (472)
T 4g1t_A          411 --MKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWN  470 (472)
T ss_dssp             --HHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC-----------------------
T ss_pred             --HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcC
Confidence              234456778888999999999999999999999999999999999977665544455543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.76  E-value=5.2e-17  Score=163.73  Aligned_cols=261  Identities=8%  Similarity=-0.082  Sum_probs=189.7

Q ss_pred             cchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 040576          316 VVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTM  395 (641)
Q Consensus       316 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  395 (641)
                      ...|..+...+.+.|++++|+..|+++.+.. +.+..++..+...+...|++++|...++.+.+.. +.+...+..+..+
T Consensus        65 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  142 (365)
T 4eqf_A           65 WPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVS  142 (365)
T ss_dssp             CTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            3446666666666666666666666666532 2345566666666666666666666666666653 3345666667777


Q ss_pred             HHhcCCHHHHHHHHhhcCCC-------------ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCC-CCHHHHHHHHHH
Q 040576          396 YAKCGVMDLARNVFDNMTEK-------------NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPT-PNDATFICVLSA  461 (641)
Q Consensus       396 ~~~~g~~~~A~~~~~~~~~~-------------~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~-p~~~~~~~ll~~  461 (641)
                      |...|++++|...|+++.+.             ....+..+...+...|++++|...|+++.+.... ++..++..+...
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  222 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVL  222 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHH
Confidence            77777777777777666531             1223445678888999999999999999886432 157788899999


Q ss_pred             HHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHH
Q 040576          462 CTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELG  539 (641)
Q Consensus       462 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a  539 (641)
                      +...|++++|...|+++.+.  .+.+..+|..++.+|.+.|++++|++.|+++ ...| +...+..+..+|...|++++|
T Consensus       223 ~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          223 FHLSGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHH
Confidence            99999999999999999882  2335788999999999999999999999987 2234 477899999999999999999


Q ss_pred             HHHHHHHHhcCCC------------CCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          540 KIVAQHLMELEPR------------DPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       540 ~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      ...+++++++.|+            +...|..++.++...|+.+.|....++-
T Consensus       301 ~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  353 (365)
T 4eqf_A          301 VSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLGD  353 (365)
T ss_dssp             HHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTTC
T ss_pred             HHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHhh
Confidence            9999999998876            3668999999999999999998877653

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.76  E-value=6.6e-16  Score=149.51  Aligned_cols=233  Identities=10%  Similarity=-0.002  Sum_probs=184.3

Q ss_pred             HHHhcCCChHHHHHHHhhcCCCC----chHHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHH
Q 040576          262 SGYVDVGDMEAANGLFDLMPFRD----VVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLR  337 (641)
Q Consensus       262 ~~~~~~g~~~~a~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  337 (641)
                      .-....|+++.|+...+.....+    ......+..+|...|+++.|+..++....++..++..+...+...|+.++|++
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~~~~~~~a~~~la~~~~~~~~~~~A~~   86 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKPSSAPELQAVRMFAEYLASHSRRDAIVA   86 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTTSCHHHHHHHHHHHHHHCSTTHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcccCChhHHHHHHHHHHHcCCCcHHHHHH
Confidence            44566899999999998877644    23456678999999999999998887666677788889999999999999999


Q ss_pred             HHHHHHHCCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--
Q 040576          338 LFDRMIRGDAKPN-EASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE--  414 (641)
Q Consensus       338 ~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--  414 (641)
                      .++++...+..|+ ...+..+...+...|++++|...++.      +.+...+..++.+|.+.|++++|.+.|+++.+  
T Consensus        87 ~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~  160 (291)
T 3mkr_A           87 ELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD  160 (291)
T ss_dssp             HHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC
Confidence            9999998776565 44566666889999999999999987      56788899999999999999999999999874  


Q ss_pred             CChhHHHHHH----HHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC-chH
Q 040576          415 KNVVSWNSMI----MGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP-KVE  489 (641)
Q Consensus       415 ~~~~~~~~li----~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~  489 (641)
                      |+.. ...+.    ..+...|++++|+.+|+++.+.. +.+...++.+..++.+.|++++|.+.|+++.+   ..| +..
T Consensus       161 p~~~-~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~---~~p~~~~  235 (291)
T 3mkr_A          161 EDAT-LTQLATAWVSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALD---KDSGHPE  235 (291)
T ss_dssp             TTCH-HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHH
T ss_pred             cCcH-HHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHH
Confidence            4432 22232    33445589999999999999873 44777889999999999999999999999887   233 344


Q ss_pred             HHHHHHHHHhhcCCHH
Q 040576          490 HYGCMVDLLGRAGLMR  505 (641)
Q Consensus       490 ~~~~li~~~~~~g~~~  505 (641)
                      ++..++..+...|+.+
T Consensus       236 ~l~~l~~~~~~~g~~~  251 (291)
T 3mkr_A          236 TLINLVVLSQHLGKPP  251 (291)
T ss_dssp             HHHHHHHHHHHTTCCH
T ss_pred             HHHHHHHHHHHcCCCH
Confidence            4555555554444443

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.75  E-value=1.1e-16  Score=158.48  Aligned_cols=260  Identities=6%  Similarity=-0.080  Sum_probs=192.5

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 040576          317 VSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMY  396 (641)
Q Consensus       317 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  396 (641)
                      ..|..+...+...|++++|..+|+++.+.. +.+...+..+...+...|++++|...++.+.+.. +.+...+..+...|
T Consensus        22 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~   99 (327)
T 3cv0_A           22 ENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSH   99 (327)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHH
Confidence            345555666666666666666666665532 2244555566666666666666666666666653 33455666666667


Q ss_pred             HhcCCHHHHHHHHhhcCC--C-ChhHHHHH--------------HH-HHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 040576          397 AKCGVMDLARNVFDNMTE--K-NVVSWNSM--------------IM-GYGMHGQGEKALEMFMEMEKRGPTPNDATFICV  458 (641)
Q Consensus       397 ~~~g~~~~A~~~~~~~~~--~-~~~~~~~l--------------i~-~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~l  458 (641)
                      ...|++++|.+.|+++.+  | +...+..+              .. .+...|++++|...++++.+... .+...+..+
T Consensus       100 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l  178 (327)
T 3cv0_A          100 TNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNP-NDAQLHASL  178 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHST-TCHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCC-CCHHHHHHH
Confidence            777777777776666542  1 22222222              22 36778899999999999988643 367788889


Q ss_pred             HHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCCH
Q 040576          459 LSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PM-EAGPALWGALLSACSTHSNS  536 (641)
Q Consensus       459 l~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~g~~  536 (641)
                      ...+...|++++|.+.++++.+.  .+.+...+..++..+.+.|++++|.+.++++ .. +.+...+..+...+...|++
T Consensus       179 a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~  256 (327)
T 3cv0_A          179 GVLYNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQY  256 (327)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhccH
Confidence            99999999999999999999872  2334778889999999999999999999986 22 34577889999999999999


Q ss_pred             HHHHHHHHHHHhcCCC------------CCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          537 ELGKIVAQHLMELEPR------------DPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       537 ~~a~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      ++|...++++++..|+            ++..+..++.+|.+.|++++|..++++..
T Consensus       257 ~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          257 DLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             HHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             HHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            9999999999999998            78899999999999999999999988654

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.73  E-value=1.2e-14  Score=154.14  Aligned_cols=408  Identities=9%  Similarity=0.057  Sum_probs=286.8

Q ss_pred             CCCcccHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHH
Q 040576          118 EPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNS  197 (641)
Q Consensus       118 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~  197 (641)
                      +.+...|..++. +.+.|++++|..+|+ .+.+. .+.+...|...+..+.+.|+++.|+.+|+.+++..  |+...|..
T Consensus        10 P~~~~~w~~l~~-~~~~~~~~~a~~~~e-~al~~-~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~   84 (530)
T 2ooe_A           10 PYDLDAWSILIR-EAQNQPIDKARKTYE-RLVAQ-FPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKC   84 (530)
T ss_dssp             TTCHHHHHHHHH-HHHSSCHHHHHHHHH-HHHTT-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHH
T ss_pred             CCCHHHHHHHHH-HHHhCCHHHHHHHHH-HHHHH-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHH
Confidence            446789999998 478999999999999 66654 34566679999999999999999999999998764  67778877


Q ss_pred             HHHHH-HhcCCHHHHHH----HHhcC------CCCCeeHHHHHHHHHHh---------CCChHHHHHHHhhCCC-CCc--
Q 040576          198 LIHMY-SVCGEVLDARK----VFEDG------PVWDLVTWNSMIDGYVK---------NREVGFARELFDFMPE-RDI--  254 (641)
Q Consensus       198 li~~~-~~~g~~~~A~~----~~~~~------~~~~~~~~~~li~~~~~---------~g~~~~A~~~~~~m~~-~~~--  254 (641)
                      ++... ...|+.+.|.+    +|++.      ...+...|...+....+         .|++++|..+|++... |+.  
T Consensus        85 ~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~  164 (530)
T 2ooe_A           85 YLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINI  164 (530)
T ss_dssp             HHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTH
T ss_pred             HHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhH
Confidence            77533 35677777665    66642      23456778888876655         6889999999999843 332  


Q ss_pred             -hhHHHHHHHHhcCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhc------C-------CCC-----
Q 040576          255 -FTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRM------C-------MRN-----  315 (641)
Q Consensus       255 -~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~------~-------~~~-----  315 (641)
                       ..|..........|. ..+..++..                 +.++++.|..++...      .       .|+     
T Consensus       165 ~~~~~~~~~~e~~~~~-~~~~~~l~~-----------------~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~  226 (530)
T 2ooe_A          165 EQLWRDYNKYEEGINI-HLAKKMIED-----------------RSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQE  226 (530)
T ss_dssp             HHHHHHHHHHHHHHCH-HHHHHHHHT-----------------THHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCH
T ss_pred             HHHHHHHHHHHHhhch-hHHHHHHHH-----------------hhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhH
Confidence             122222111101110 111111110                 123445555444431      1       111     


Q ss_pred             ---cchHHHHHHHHHHc----CCh----HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc-------cCCHH-------HH
Q 040576          316 ---VVSWNILLALYVRC----KDY----CECLRLFDRMIRGDAKPNEASLMSVLTACAN-------MGVID-------IG  370 (641)
Q Consensus       316 ---~~~~~~li~~~~~~----g~~----~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~-------~g~~~-------~a  370 (641)
                         ...|...+......    ++.    +++..+|++.... .+-+...|......+..       .|+++       +|
T Consensus       227 ~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~-~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A  305 (530)
T 2ooe_A          227 AQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEA  305 (530)
T ss_dssp             HHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHH
Confidence               13454444332222    232    4777888888874 23456677777776664       68887       88


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--CC-h-hHHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 040576          371 QWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE--KN-V-VSWNSMIMGYGMHGQGEKALEMFMEMEKR  446 (641)
Q Consensus       371 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~-~-~~~~~li~~~~~~~~~~~A~~~~~~m~~~  446 (641)
                      ..+++...+.-.+.+...+..++..+.+.|++++|..+|+++.+  |+ . ..|..++..+.+.|+.++|..+|++..+.
T Consensus       306 ~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~  385 (530)
T 2ooe_A          306 ANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED  385 (530)
T ss_dssp             HHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            99999988632345688899999999999999999999998764  33 2 47999999999999999999999999876


Q ss_pred             CCCCCHHHHHHHHHH-HHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC----CCCCC--
Q 040576          447 GPTPNDATFICVLSA-CTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL----PMEAG--  519 (641)
Q Consensus       447 g~~p~~~~~~~ll~~-~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~~~--  519 (641)
                      .. .+...|...... +...|+.++|..+|+...+..  +.+...|..++..+.+.|+.++|..+|++.    +..|+  
T Consensus       386 ~~-~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~  462 (530)
T 2ooe_A          386 AR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKS  462 (530)
T ss_dssp             TT-CCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGC
T ss_pred             cC-CchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHH
Confidence            32 233334333222 346899999999999998832  234788999999999999999999999987    22332  


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 040576          520 PALWGALLSACSTHSNSELGKIVAQHLMELEPR  552 (641)
Q Consensus       520 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  552 (641)
                      ...|...+......|+.+.+..+++++.+..|+
T Consensus       463 ~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~p~  495 (530)
T 2ooe_A          463 GEIWARFLAFESNIGDLASILKVEKRRFTAFRE  495 (530)
T ss_dssp             HHHHHHHHHHHHHSSCHHHHHHHHHHHHHHTHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCch
Confidence            448888888889999999999999999998885

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.71  E-value=7e-16  Score=152.57  Aligned_cols=253  Identities=8%  Similarity=-0.030  Sum_probs=210.3

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHH
Q 040576          352 ASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYG  428 (641)
Q Consensus       352 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~  428 (641)
                      ..+......+...|++++|..+++.+.+.. +.+...+..+..+|...|++++|...|+++.+   .+..+|..+...|.
T Consensus        22 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~  100 (327)
T 3cv0_A           22 ENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHT  100 (327)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHHH
Confidence            345667778899999999999999999875 45778888999999999999999999998864   46778999999999


Q ss_pred             HcCChHHHHHHHHHHHHCCCCCCHHHHHHH--------------HH-HHHhhccHHHHHHHHHHhHHhhCCCCchHHHHH
Q 040576          429 MHGQGEKALEMFMEMEKRGPTPNDATFICV--------------LS-ACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGC  493 (641)
Q Consensus       429 ~~~~~~~A~~~~~~m~~~g~~p~~~~~~~l--------------l~-~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~  493 (641)
                      ..|++++|...++++.+.... +...+..+              .. .+...|++++|..+++++.+.  .+.+...+..
T Consensus       101 ~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~  177 (327)
T 3cv0_A          101 NEHNANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEM--NPNDAQLHAS  177 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHTSTT-TTTC--------------------CCTTSHHHHHHHHHHHHHHHHH--STTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhh--CCCCHHHHHH
Confidence            999999999999999986322 22222222              22 377889999999999999882  2335788899


Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChH
Q 040576          494 MVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWD  571 (641)
Q Consensus       494 li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  571 (641)
                      ++..|.+.|++++|++.++++ . .+.+...|..+...+...|++++|...++++++..|+++..+..++.+|...|+++
T Consensus       178 la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~  257 (327)
T 3cv0_A          178 LGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQYD  257 (327)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhccHH
Confidence            999999999999999999987 2 23457789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCC------------CchhhHHHHHHHHHHHHHhhhccc
Q 040576          572 EVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPP------------HRKCIVYSMLGEIGAQMKMCRRDV  634 (641)
Q Consensus       572 ~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~------------~~~~~~~~~l~~l~~~~~~~~~~~  634 (641)
                      +|.+.++++.                        +..|+            +..  ++..++.+...+++..++.
T Consensus       258 ~A~~~~~~a~------------------------~~~~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~  306 (327)
T 3cv0_A          258 LAAKQLVRAI------------------------YMQVGGTTPTGEASREATRS--MWDFFRMLLNVMNRPDLVE  306 (327)
T ss_dssp             HHHHHHHHHH------------------------HHHTTSCC-----CCTHHHH--HHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHH------------------------HhCCccccccccchhhcCHH--HHHHHHHHHHhcCCHHHHH
Confidence            9999999984                        44455            566  8889999888887766543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.71  E-value=2.3e-15  Score=143.25  Aligned_cols=215  Identities=8%  Similarity=-0.020  Sum_probs=164.3

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--C----C----hhHHHHH
Q 040576          354 LMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE--K----N----VVSWNSM  423 (641)
Q Consensus       354 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~----~----~~~~~~l  423 (641)
                      +..+...+...|++++|..+++.+.+..  .+...+..+..+|...|++++|...|++..+  |    +    ...|..+
T Consensus         8 ~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l   85 (258)
T 3uq3_A            8 EKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARI   85 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHH
Confidence            4444444555555555555555555444  4445555555666666666666666655542  1    1    4677888


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcC
Q 040576          424 IMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAG  502 (641)
Q Consensus       424 i~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g  502 (641)
                      ...|...|++++|...|+++.+.  .|+.       ..+...|++++|...++.+..   ..|+ ...+..+...+...|
T Consensus        86 ~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~  153 (258)
T 3uq3_A           86 GNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAY---VNPEKAEEARLEGKEYFTKS  153 (258)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHH---CCHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHH---cCcchHHHHHHHHHHHHHhc
Confidence            88889999999999999998875  4443       346677899999999999987   3444 677888999999999


Q ss_pred             CHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          503 LMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       503 ~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      ++++|++.++++ . .+.+...+..+...+...|++++|...++++++..|+++..+..++.+|...|++++|.+.+++.
T Consensus       154 ~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  233 (258)
T 3uq3_A          154 DWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAA  233 (258)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            999999999987 2 23457789999999999999999999999999999999999999999999999999999999998


Q ss_pred             hh
Q 040576          581 KE  582 (641)
Q Consensus       581 ~~  582 (641)
                      .+
T Consensus       234 ~~  235 (258)
T 3uq3_A          234 RT  235 (258)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.70  E-value=5.3e-15  Score=154.58  Aligned_cols=378  Identities=9%  Similarity=-0.082  Sum_probs=225.5

Q ss_pred             CCCcchHHHHHHHHhcCCCchhHHHHHHHHHHh--------CCCCChhHHHHHHHHHHhcCCHHHHHHHHhcC-------
Q 040576          154 EHNHYTFPLLGKVCAGIRSLREGKKVHARIVKC--------GFELDLFVRNSLIHMYSVCGEVLDARKVFEDG-------  218 (641)
Q Consensus       154 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--------g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-------  218 (641)
                      ......|+.+..++...|+.++|.+.++...+.        .......+|+.+..+|...|++++|...+++.       
T Consensus        48 ~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~  127 (472)
T 4g1t_A           48 EFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKF  127 (472)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS
T ss_pred             hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhc
Confidence            334557999999999999999999999987653        11223568999999999999999999988752       


Q ss_pred             CC----CCeeHHHHHHHHHHhC--CChHHHHHHHhhC--CCCC-chhHHHHHHH---HhcCCChHHHHHHHhhcCC--C-
Q 040576          219 PV----WDLVTWNSMIDGYVKN--REVGFARELFDFM--PERD-IFTWNSMISG---YVDVGDMEAANGLFDLMPF--R-  283 (641)
Q Consensus       219 ~~----~~~~~~~~li~~~~~~--g~~~~A~~~~~~m--~~~~-~~~~~~ll~~---~~~~g~~~~a~~~~~~~~~--~-  283 (641)
                      ..    ....+++.+..++.+.  +++++|++.|++.  ..|+ ...+..+..+   +...++.++|++.+++..+  | 
T Consensus       128 ~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~  207 (472)
T 4g1t_A          128 SSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPD  207 (472)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSS
T ss_pred             ccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCc
Confidence            11    1234566666666554  5789999999998  3444 4444444433   4456777778777776653  3 


Q ss_pred             CchHHHHHHHHHHh----cCChHHHHHHHHhc---CCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHH
Q 040576          284 DVVSWNCMIDGYAK----IGNVTSARNCFDRM---CMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPN-EASLM  355 (641)
Q Consensus       284 ~~~~~~~li~~~~~----~~~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~  355 (641)
                      +..++..+...+..    .|++++|.+.+++.   .+.+...+..+...|...|++++|+..+++..+.  .|+ ..++.
T Consensus       208 ~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~  285 (472)
T 4g1t_A          208 NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEY--IPNNAYLHC  285 (472)
T ss_dssp             CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHH
T ss_pred             chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCChHHHHH
Confidence            34455555544444    35677788888776   3345567777888888888888888888888774  343 34444


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCC
Q 040576          356 SVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQ  432 (641)
Q Consensus       356 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~  432 (641)
                      .+...|...+...         ....       ...........+..+.|...|+...+   .+..+|..+...|...|+
T Consensus       286 ~lg~~y~~~~~~~---------~~~~-------~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~  349 (472)
T 4g1t_A          286 QIGCCYRAKVFQV---------MNLR-------ENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQ  349 (472)
T ss_dssp             HHHHHHHHHHHHH---------HHC-------------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHh---------hhHH-------HHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhcc
Confidence            4444432211100         0000       00001111122345677777776653   456788999999999999


Q ss_pred             hHHHHHHHHHHHHCCCCCCHH--HHHHHHH-HHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHH
Q 040576          433 GEKALEMFMEMEKRGPTPNDA--TFICVLS-ACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEE  509 (641)
Q Consensus       433 ~~~A~~~~~~m~~~g~~p~~~--~~~~ll~-~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  509 (641)
                      +++|+..|++..+....|...  .+..+.. ...+.|++++|+..|++..+   +.|+........         ..+..
T Consensus       350 ~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~---i~~~~~~~~~~~---------~~l~~  417 (472)
T 4g1t_A          350 YEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK---INQKSREKEKMK---------DKLQK  417 (472)
T ss_dssp             HHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH---SCCCCHHHHHHH---------HHHHH
T ss_pred             HHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCcccHHHHHHH---------HHHHH
Confidence            999999999998865443322  2233332 24577999999999999987   566643322222         22333


Q ss_pred             HHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHH
Q 040576          510 LVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLS  561 (641)
Q Consensus       510 ~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  561 (641)
                      ++++. . .+.++.+|..+...+...|++++|+..|+++++++|.+|.+..-+|
T Consensus       418 ~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~G  471 (472)
T 4g1t_A          418 IAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWNG  471 (472)
T ss_dssp             HHHHHHHHCC-CTTHHHHHHHHHHHHHHCC------------------------
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcCC
Confidence            33332 1 2345678999999999999999999999999999999887766554

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.67  E-value=2.7e-15  Score=138.66  Aligned_cols=195  Identities=14%  Similarity=0.087  Sum_probs=156.0

Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 040576          383 KPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVL  459 (641)
Q Consensus       383 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll  459 (641)
                      +++...+..+...+...|++++|...|++..+   .+...|..+..++.+.|++++|+..|++..+..+. +...+..+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg   80 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVARTPR-YLGGYMVLS   80 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHH
Confidence            45667778888889999999999999988764   45678888999999999999999999999886422 566888888


Q ss_pred             HHHHhh-----------ccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHHHHHH
Q 040576          460 SACTHA-----------GMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPALWGAL  526 (641)
Q Consensus       460 ~~~~~~-----------g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l  526 (641)
                      ..+...           |++++|+..|++..+   +.|+ ...+..+..+|...|++++|++.|++. ....++..+..+
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~---~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~l  157 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAER---VNPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHH---hCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHHH
Confidence            889999           999999999999988   3454 678888999999999999999999987 212778899999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          527 LSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       527 ~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      ..++...|++++|+..++++++++|+++..+..++.++...|++++|+..+++..
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999999999998763

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.64  E-value=2.1e-16  Score=168.34  Aligned_cols=147  Identities=11%  Similarity=0.059  Sum_probs=121.7

Q ss_pred             chHHHHHHHHHHhcCChHHHHHHHHhc-------CCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 040576          285 VVSWNCMIDGYAKIGNVTSARNCFDRM-------CMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSV  357 (641)
Q Consensus       285 ~~~~~~li~~~~~~~~~~~A~~~~~~~-------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  357 (641)
                      ..+|++||++||+.|++++|.++|++|       ..||+++||+||.+|++.|++++|.++|++|.+.|+.||..||+++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            568999999999999999999999776       4689999999999999999999999999999999999999999999


Q ss_pred             HHHHHccCCH-HHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CChhHHHHHHHHHHHcC
Q 040576          358 LTACANMGVI-DIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE-----KNVVSWNSMIMGYGMHG  431 (641)
Q Consensus       358 l~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~~  431 (641)
                      |.++++.|+. +.|.+++++|.+.|+.||..+|++++..+.+.+-++.+.++...+.-     +.+.+...|.+.|.+.+
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s~d~  286 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDG  286 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHCCCS
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHccCC
Confidence            9999999984 78999999999999999999999999887776555555444333331     11334444555555444

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.64  E-value=3.2e-16  Score=166.99  Aligned_cols=125  Identities=10%  Similarity=0.134  Sum_probs=101.5

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcC-------CCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 040576          385 DVLLSTSLLTMYAKCGVMDLARNVFDNMT-------EKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFIC  457 (641)
Q Consensus       385 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~  457 (641)
                      -..+|++||++||+.|++++|.++|++|.       .||+++||+||.+||+.|+.++|.++|++|.+.|+.||..||++
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            45678888888888888888888886653       47888888888888888999999999999988899999999999


Q ss_pred             HHHHHHhhcc-HHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHH
Q 040576          458 VLSACTHAGM-VLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEEL  510 (641)
Q Consensus       458 ll~~~~~~g~-~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  510 (641)
                      +|.++++.|+ .++|.++|++|.+ .|+.||..+|++++....+.+-++...++
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~-kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv  258 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQ-EGLKLQALFTAVLLSEEDRATVLKAVHKV  258 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHH-HTCCSHHHHHHSCCCHHHHHHHHHHHGGG
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHH-cCCCCChhhcccccChhhHHHHHHHHHHh
Confidence            9998888887 4788888999988 78889988888888776665444444333

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.63  E-value=1.3e-14  Score=138.02  Aligned_cols=235  Identities=7%  Similarity=-0.086  Sum_probs=178.5

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCC--CCc----hhHHH
Q 040576          317 VSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRI--KPD----VLLST  390 (641)
Q Consensus       317 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~--~~~----~~~~~  390 (641)
                      ..|..+...+...|++++|+..|+++.+..  .+...+..+..++...|++++|...+..+.+...  .++    ..++.
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFA   83 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHH
Confidence            346667777777777888877777777765  6666777777777778888888777777765421  111    46777


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCC--CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccH
Q 040576          391 SLLTMYAKCGVMDLARNVFDNMTE--KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMV  468 (641)
Q Consensus       391 ~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~  468 (641)
                      .+..+|...|++++|...|+++.+  ++       ...+...|++++|...++++.... +.+...+..+...+...|++
T Consensus        84 ~l~~~~~~~~~~~~A~~~~~~a~~~~~~-------~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  155 (258)
T 3uq3_A           84 RIGNAYHKLGDLKKTIEYYQKSLTEHRT-------ADILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSDW  155 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCC-------HHHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCch-------hHHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcCH
Confidence            788888888888888888887764  33       245666788899999999988753 12345777888889999999


Q ss_pred             HHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 040576          469 LEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PM-EAGPALWGALLSACSTHSNSELGKIVAQHL  546 (641)
Q Consensus       469 ~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  546 (641)
                      ++|...++++.+.  .+.+...+..+..+|.+.|++++|++.++++ .. +.+...|..+..++...|++++|...++++
T Consensus       156 ~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  233 (258)
T 3uq3_A          156 PNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAA  233 (258)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            9999999999872  2334778888999999999999999999887 22 344778888999999999999999999999


Q ss_pred             HhcC------CCCCchHHHHHHH
Q 040576          547 MELE------PRDPGPYVLLSNI  563 (641)
Q Consensus       547 ~~~~------p~~~~~~~~l~~~  563 (641)
                      +++.      |++...+..+..+
T Consensus       234 ~~~~~~~~~~p~~~~~~~~l~~~  256 (258)
T 3uq3_A          234 RTKDAEVNNGSSAREIDQLYYKA  256 (258)
T ss_dssp             HHHHHHHHTTTTHHHHHHHHHHT
T ss_pred             HHhChhhcCCCchHHHHHHHHHh
Confidence            9988      7776666665543

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.62  E-value=8e-15  Score=138.10  Aligned_cols=215  Identities=9%  Similarity=0.042  Sum_probs=158.8

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 040576          385 DVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSA  461 (641)
Q Consensus       385 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  461 (641)
                      ....+..+...+...|++++|...|+++.+   .+...+..+...|...|++++|+..|+++.+.. +.+...+..+...
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  100 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNV  100 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHH
Confidence            345566677777888888888888887754   356778888888889999999999999888764 2356778888888


Q ss_pred             HHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHH
Q 040576          462 CTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELG  539 (641)
Q Consensus       462 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a  539 (641)
                      +...|++++|.++++++.+.  .+.+...+..++..+.+.|++++|++.++++ . ...+...+..+...+...|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999998872  2335677888889999999999999999886 2 234577888888999999999999


Q ss_pred             HHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHH
Q 040576          540 KIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSM  619 (641)
Q Consensus       540 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~  619 (641)
                      ...++++++..|+++..+..++.+|...|++++|.+.++++                        .+.+|++..  ++..
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~------------------------~~~~p~~~~--~~~~  232 (243)
T 2q7f_A          179 LSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKA------------------------IDIQPDHML--ALHA  232 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHH------------------------HHHCTTCHH--HHHH
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHH------------------------HccCcchHH--HHHH
Confidence            99999999999999999999999999999999999999998                        677888888  7777


Q ss_pred             HHHHHHHHH
Q 040576          620 LGEIGAQMK  628 (641)
Q Consensus       620 l~~l~~~~~  628 (641)
                      ++.+....+
T Consensus       233 ~~~l~~~~~  241 (243)
T 2q7f_A          233 KKLLGHHHH  241 (243)
T ss_dssp             HTC------
T ss_pred             HHHHHhhcc
Confidence            777665443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.61  E-value=3.4e-14  Score=136.39  Aligned_cols=238  Identities=10%  Similarity=-0.007  Sum_probs=151.2

Q ss_pred             HHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--CC----hhHHHHHHHHHHHcCC
Q 040576          359 TACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE--KN----VVSWNSMIMGYGMHGQ  432 (641)
Q Consensus       359 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~----~~~~~~li~~~~~~~~  432 (641)
                      ..+...|++++|..+++.+.+.. +.+...+..+..+|...|++++|...|++..+  ++    ..+|..+...|...|+
T Consensus        11 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~   89 (272)
T 3u4t_A           11 DFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQ   89 (272)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHccc
Confidence            33444444444444444444432 22233444455555555555555555555443  11    1236667777777777


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHH
Q 040576          433 GEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELV  511 (641)
Q Consensus       433 ~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~  511 (641)
                      +++|+..|++..+.... +...+..+...+...|++++|...|+++.+   ..|+ ...+..+...+...+++++|++.|
T Consensus        90 ~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~---~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  165 (272)
T 3u4t_A           90 DSLAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIR---PTTTDPKVFYELGQAYYYNKEYVKADSSF  165 (272)
T ss_dssp             HHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCC---SSCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhh---cCCCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777765322 445677777777777777777777777765   2333 555666662333445778888777


Q ss_pred             HhC-CCCCC-HHHHHHHHHHHHhcCC---HHHHHHHHHHHHhcC---CCC-----CchHHHHHHHHHhcCChHHHHHHHH
Q 040576          512 SKL-PMEAG-PALWGALLSACSTHSN---SELGKIVAQHLMELE---PRD-----PGPYVLLSNIYASEGKWDEVENLRR  578 (641)
Q Consensus       512 ~~~-~~~~~-~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~---p~~-----~~~~~~l~~~~~~~g~~~~A~~~~~  578 (641)
                      +++ ...|+ ...+..+...+...|+   .++|...++++++..   |+.     ...|..++.+|...|++++|.+.++
T Consensus       166 ~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  245 (272)
T 3u4t_A          166 VKVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWK  245 (272)
T ss_dssp             HHHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            766 22233 5566667777777777   777888888888765   432     2578889999999999999999999


Q ss_pred             HhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHH
Q 040576          579 IMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQM  627 (641)
Q Consensus       579 ~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~  627 (641)
                      ++                        .+++|++..  +...++.+....
T Consensus       246 ~a------------------------l~~~p~~~~--a~~~l~~~~~~~  268 (272)
T 3u4t_A          246 NI------------------------LALDPTNKK--AIDGLKMKLEHH  268 (272)
T ss_dssp             HH------------------------HHHCTTCHH--HHHHHC------
T ss_pred             HH------------------------HhcCccHHH--HHHHhhhhhccc
Confidence            99                        788899999  888888766544

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.61  E-value=5.3e-14  Score=135.21  Aligned_cols=241  Identities=9%  Similarity=-0.068  Sum_probs=188.3

Q ss_pred             HcCChHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHH
Q 040576          328 RCKDYCECLRLFDRMIRGDAK---PNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDL  404 (641)
Q Consensus       328 ~~g~~~~A~~~~~~m~~~g~~---p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  404 (641)
                      ..|++++|+..|+++.+....   .+..++..+...+...|++++|...++.+.+.. +.+..++..+..+|...|++++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHH
Confidence            457788888888888875321   134567777888888899999998888888765 4467888889999999999999


Q ss_pred             HHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHh
Q 040576          405 ARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRI  481 (641)
Q Consensus       405 A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  481 (641)
                      |...|+++.+   .+...|..+...|...|++++|...|+++.+.  .|+.......+..+...|++++|...++.....
T Consensus        96 A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A           96 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            9999988774   46788999999999999999999999999985  455555555555667789999999999888772


Q ss_pred             hCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 040576          482 YKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLP-MEAG-----PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPG  555 (641)
Q Consensus       482 ~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~~~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  555 (641)
                        .+++...+ .++..+...++.++|++.+++.- ..|.     ...+..+...+...|++++|...++++++.+|++..
T Consensus       174 --~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  250 (275)
T 1xnf_A          174 --SDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFV  250 (275)
T ss_dssp             --SCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCH
T ss_pred             --CCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHH
Confidence              33344444 47778888899999999998863 2232     467888899999999999999999999999998754


Q ss_pred             hHHHHHHHHHhcCChHHHHHHH
Q 040576          556 PYVLLSNIYASEGKWDEVENLR  577 (641)
Q Consensus       556 ~~~~l~~~~~~~g~~~~A~~~~  577 (641)
                         ..+.++...|++++|++.+
T Consensus       251 ---~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          251 ---EHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             ---HHHHHHHHHHHHHHC----
T ss_pred             ---HHHHHHHHHHHHHhhHHHH
Confidence               3467888899999998876

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.61  E-value=3.1e-14  Score=131.46  Aligned_cols=191  Identities=12%  Similarity=0.090  Sum_probs=162.0

Q ss_pred             CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHH
Q 040576          415 KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGC  493 (641)
Q Consensus       415 ~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~  493 (641)
                      ++...|..+...+.+.|++++|+..|++..+... .+...+..+...+.+.|++++|+..++++.+   ..|+ ...+..
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~   78 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKENP-QDPEALYWLARTQLKLGLVNPALENGKTLVA---RTPRYLGGYMV   78 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCcHHHHHH
Confidence            4567888999999999999999999999998642 2567888899999999999999999999988   3454 678889


Q ss_pred             HHHHHhhc-----------CCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHH
Q 040576          494 MVDLLGRA-----------GLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLL  560 (641)
Q Consensus       494 li~~~~~~-----------g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  560 (641)
                      +..+|.+.           |++++|+..+++. ...| +...|..+...+...|++++|+..++++++++ +++..+..+
T Consensus        79 lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~l  157 (217)
T 2pl2_A           79 LSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE-DTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCHHHHHHH
T ss_pred             HHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc-cchHHHHHH
Confidence            99999999           9999999999987 3344 46788899999999999999999999999999 999999999


Q ss_pred             HHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhhccccc
Q 040576          561 SNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRRDVAS  636 (641)
Q Consensus       561 ~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~~~~~  636 (641)
                      +.+|...|++++|+..++++                        .+.+|++..  ++..++.+...+++..+++..
T Consensus       158 a~~~~~~g~~~~A~~~~~~a------------------------l~~~P~~~~--~~~~la~~~~~~g~~~~A~~~  207 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKA------------------------LEQAPKDLD--LRVRYASALLLKGKAEEAARA  207 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHH------------------------HHHSTTCHH--HHHHHHHHHTC----------
T ss_pred             HHHHHHcCCHHHHHHHHHHH------------------------HHhCCCChH--HHHHHHHHHHHccCHHHHHHH
Confidence            99999999999999999999                        778999999  999999999999888877654

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.60  E-value=1.9e-14  Score=148.71  Aligned_cols=376  Identities=9%  Similarity=-0.030  Sum_probs=187.4

Q ss_pred             HHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCH---HHHHHHHhcCCCCCeeHHHHHHHHHHhCC--
Q 040576          163 LGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEV---LDARKVFEDGPVWDLVTWNSMIDGYVKNR--  237 (641)
Q Consensus       163 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~li~~~~~~g--  237 (641)
                      +...+.+.|++++|..+++...+.|   +...+..|..+|...|+.   ++|.+.|++....++..+..+...+...+  
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~   85 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGA   85 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC----------------------------CHHHHHHHHHTC--C
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCC
Confidence            3444556677777777777777665   233344455555556666   66777666644445555555555444443  


Q ss_pred             ---ChHHHHHHHhhCCC-CCchhHHHHHHHHhcCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhc-C
Q 040576          238 ---EVGFARELFDFMPE-RDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRM-C  312 (641)
Q Consensus       238 ---~~~~A~~~~~~m~~-~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~-~  312 (641)
                         ++++|+..|++... -+...+..+...|...+..+.+..                            +.+.+... .
T Consensus        86 ~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~----------------------------a~~~~~~a~~  137 (452)
T 3e4b_A           86 TEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVN----------------------------AQQQISQWQA  137 (452)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCC----------------------------HHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHH----------------------------HHHHHHHHHH
Confidence               45566666655522 222344444444443332222111                            22222222 1


Q ss_pred             CCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC---CHHHHHHHHHHHHHcCCCCchhHH
Q 040576          313 MRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMG---VIDIGQWIHSYIQKCRIKPDVLLS  389 (641)
Q Consensus       313 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g---~~~~a~~~~~~~~~~~~~~~~~~~  389 (641)
                      ..++..+..+...|...+.++++........+.-...+...+..+...|...|   +.++|...|....+.| .++...+
T Consensus       138 ~g~~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~  216 (452)
T 3e4b_A          138 AGYPEAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRV  216 (452)
T ss_dssp             HTCTTHHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHH
T ss_pred             CCCHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHH
Confidence            22344455555555555543333333222211111111124445555555555   5566666666665555 3334433


Q ss_pred             HHHHHHHHhc----CCHHHHHHHHhhcCCCChhHHHHHHHH-H--HHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 040576          390 TSLLTMYAKC----GVMDLARNVFDNMTEKNVVSWNSMIMG-Y--GMHGQGEKALEMFMEMEKRGPTPNDATFICVLSAC  462 (641)
Q Consensus       390 ~~li~~~~~~----g~~~~A~~~~~~~~~~~~~~~~~li~~-~--~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  462 (641)
                      ..|..+|...    +++++|.+.|++....+...+..|... |  ...+++++|+.+|++..+.|   +...+..+...|
T Consensus       217 ~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y  293 (452)
T 3e4b_A          217 DSVARVLGDATLGTPDEKTAQALLEKIAPGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLY  293 (452)
T ss_dssp             HHHHHHHTCGGGSSCCHHHHHHHHHHHGGGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHH
Confidence            4455555443    567777777766663344566666665 3  35677888888888777765   555666666666


Q ss_pred             Hhhc-----cHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhh----cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-
Q 040576          463 THAG-----MVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGR----AGLMRDSEELVSKLPMEAGPALWGALLSACST-  532 (641)
Q Consensus       463 ~~~g-----~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~-  532 (641)
                      . .|     ++++|.++|++..     .-+...+..|..+|..    ..++++|.+.|++.....++.....|...|.. 
T Consensus       294 ~-~G~g~~~d~~~A~~~~~~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~G  367 (452)
T 3e4b_A          294 Y-EGKWVPADAKAAEAHFEKAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSADFAIAQLFSQG  367 (452)
T ss_dssp             H-HCSSSCCCHHHHHHHHHTTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHHHHHHHHHSC
T ss_pred             H-cCCCCCCCHHHHHHHHHHHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHHHHHHHHHhC
Confidence            5 45     7788888777664     2345566666666655    33778888888776333444455556655543 


Q ss_pred             ---cCCHHHHHHHHHHHHhcCCCCCchHHHHHHHH--HhcCChHHHHHHHHHhh
Q 040576          533 ---HSNSELGKIVAQHLMELEPRDPGPYVLLSNIY--ASEGKWDEVENLRRIMK  581 (641)
Q Consensus       533 ---~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~--~~~g~~~~A~~~~~~m~  581 (641)
                         ..|.++|...|+++.+.++...  ...+..+.  ...++.++|..+.++-.
T Consensus       368 ~g~~~d~~~A~~~~~~A~~~g~~~a--~~~l~~l~~~~~~~~~~~a~~~~~~~~  419 (452)
T 3e4b_A          368 KGTKPDPLNAYVFSQLAKAQDTPEA--NDLATQLEAPLTPAQRAEGQRLVQQEL  419 (452)
T ss_dssp             TTBCCCHHHHHHHHHHHHTTCCHHH--HHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHCCCHHH--HHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence               4578888888888877665433  33333332  23345666666666543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.59  E-value=8.5e-14  Score=133.60  Aligned_cols=244  Identities=9%  Similarity=-0.021  Sum_probs=125.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhcCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHc
Q 040576          289 NCMIDGYAKIGNVTSARNCFDRMCM---RNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPN--EASLMSVLTACAN  363 (641)
Q Consensus       289 ~~li~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~ll~~~~~  363 (641)
                      ......+...|++++|+..|++...   .+...|..+...|...|++++|+..+++..+.+..|+  ...|..+...+..
T Consensus         7 ~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~   86 (272)
T 3u4t_A            7 FRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMK   86 (272)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHH
Confidence            3444555555555555555555411   2333555555555555555555555555554221111  1224444444444


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHH
Q 040576          364 MGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEM  443 (641)
Q Consensus       364 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m  443 (641)
                      .|++++|...++.+.+.. +                               .+...|..+...|...|++++|+..|++.
T Consensus        87 ~~~~~~A~~~~~~a~~~~-~-------------------------------~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  134 (272)
T 3u4t_A           87 KGQDSLAIQQYQAAVDRD-T-------------------------------TRLDMYGQIGSYFYNKGNFPLAIQYMEKQ  134 (272)
T ss_dssp             TTCHHHHHHHHHHHHHHS-T-------------------------------TCTHHHHHHHHHHHHTTCHHHHHHHHGGG
T ss_pred             cccHHHHHHHHHHHHhcC-c-------------------------------ccHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            555555555554444432 1                               23344555555555555555555555555


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCC---HHHHHHHHHhC----C
Q 040576          444 EKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGL---MRDSEELVSKL----P  515 (641)
Q Consensus       444 ~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~---~~~A~~~~~~~----~  515 (641)
                      .+.. +.+...+..+...+...+++++|.+.|+++.+   ..|+ ...+..+..++...|+   +++|...++++    .
T Consensus       135 l~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~---~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~  210 (272)
T 3u4t_A          135 IRPT-TTDPKVFYELGQAYYYNKEYVKADSSFVKVLE---LKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCA  210 (272)
T ss_dssp             CCSS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHG
T ss_pred             hhcC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---hCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHh
Confidence            4431 11233344444223333455555555555554   1222 3444445555555554   44444444433    1


Q ss_pred             CCCC------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC
Q 040576          516 MEAG------PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEG  568 (641)
Q Consensus       516 ~~~~------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  568 (641)
                      ..|+      ...+..+...|...|++++|...++++++++|+++.++..+..+....+
T Consensus       211 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~~  269 (272)
T 3u4t_A          211 PGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALDPTNKKAIDGLKMKLEHHH  269 (272)
T ss_dssp             GGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHC-------
T ss_pred             cccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCccHHHHHHHhhhhhcccc
Confidence            1122      2456678888889999999999999999999999888888776655444

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.59  E-value=1.6e-13  Score=127.31  Aligned_cols=194  Identities=12%  Similarity=-0.010  Sum_probs=147.0

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 040576          385 DVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSA  461 (641)
Q Consensus       385 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  461 (641)
                      +...+..+...|...|++++|.+.|+++.+   .+...|..+...|...|++++|...++++.+.. +.+..++..+...
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~   85 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            345566666777777777777777776552   345677777788888888888888888877753 2256677777888


Q ss_pred             HHhh-ccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCCHH
Q 040576          462 CTHA-GMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-PME-AGPALWGALLSACSTHSNSE  537 (641)
Q Consensus       462 ~~~~-g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~g~~~  537 (641)
                      +... |++++|...++.+.+ .+..|+ ...+..++.++...|++++|++.++++ ... .+...+..+...+...|+++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  164 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALA-DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLG  164 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHH
Confidence            8888 888888888888876 333343 566777888888888888888888776 222 34667788888888888999


Q ss_pred             HHHHHHHHHHhcCC-CCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          538 LGKIVAQHLMELEP-RDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       538 ~a~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      +|...++++++..| +++..+..++..+...|+.++|..+++.+
T Consensus       165 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  208 (225)
T 2vq2_A          165 DADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQL  208 (225)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            99999988888888 88888888888888889998888888887

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.59  E-value=1.1e-13  Score=143.11  Aligned_cols=340  Identities=10%  Similarity=-0.018  Sum_probs=213.9

Q ss_pred             HHHhCCChHHHHHHHhhC-CCCCchhHHHHHHHHhcCCCh---HHHHHHHhhcCCCCchHHHHHHHHHHhcC-----ChH
Q 040576          232 GYVKNREVGFARELFDFM-PERDIFTWNSMISGYVDVGDM---EAANGLFDLMPFRDVVSWNCMIDGYAKIG-----NVT  302 (641)
Q Consensus       232 ~~~~~g~~~~A~~~~~~m-~~~~~~~~~~ll~~~~~~g~~---~~a~~~~~~~~~~~~~~~~~li~~~~~~~-----~~~  302 (641)
                      .+.+.|++++|+++|++. ...+...+..+...+...|+.   ++|...|++..+.+...+..|...+...+     +.+
T Consensus        12 ~~~~~g~~~~A~~~~~~aa~~g~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~~~~~~~   91 (452)
T 3e4b_A           12 EALKRGDTVTAQQNYQQLAELGYSEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGATEAEHH   91 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTCCTGGGTCC----------------------------CHHHHHHHHHTC--CCHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCCCCcCHH
Confidence            334444444444444444 112223333333344444444   55555555555444445555555444433     566


Q ss_pred             HHHHHHHhcCC-CCcchHHHHHHHHHHcCChH---HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 040576          303 SARNCFDRMCM-RNVVSWNILLALYVRCKDYC---ECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQ  378 (641)
Q Consensus       303 ~A~~~~~~~~~-~~~~~~~~li~~~~~~g~~~---~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  378 (641)
                      +|...|++... .+...+..|...|...+..+   ++.+.+......|.   ......+...|...+.++.+......+.
T Consensus        92 ~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~Lg~~y~~~~~~~~~~~~a~~~~  168 (452)
T 3e4b_A           92 EAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGY---PEAGLAQVLLYRTQGTYDQHLDDVERIC  168 (452)
T ss_dssp             HHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTC---TTHHHHHHHHHHHHTCGGGGHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCC---HHHHHHHHHHHHcCCCcccCHHHHHHHH
Confidence            77777776633 34456777777777665543   34555555555443   3345566666777775444443333332


Q ss_pred             HcCCCCchhHHHHHHHHHHhcC---CHHHHHHHHhhcCC---CChhHHHHHHHHHHHc----CChHHHHHHHHHHHHCCC
Q 040576          379 KCRIKPDVLLSTSLLTMYAKCG---VMDLARNVFDNMTE---KNVVSWNSMIMGYGMH----GQGEKALEMFMEMEKRGP  448 (641)
Q Consensus       379 ~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~----~~~~~A~~~~~~m~~~g~  448 (641)
                      +.-...+...+..|..+|...|   +.++|.+.|++..+   ++...+..|...|...    +++++|+.+|++.. .| 
T Consensus       169 ~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g-  246 (452)
T 3e4b_A          169 KAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG-  246 (452)
T ss_dssp             HHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG-
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC-
Confidence            2222233447888999999999   99999999998764   3444457777777655    79999999999987 43 


Q ss_pred             CCCHHHHHHHHHH-H--HhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcC-----CHHHHHHHHHhCCCCCCH
Q 040576          449 TPNDATFICVLSA-C--THAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAG-----LMRDSEELVSKLPMEAGP  520 (641)
Q Consensus       449 ~p~~~~~~~ll~~-~--~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g-----~~~~A~~~~~~~~~~~~~  520 (641)
                        +...+..+... +  ...+++++|.++|++..+ .|   +...+..|..+|. .|     ++++|++.|++.. ..++
T Consensus       247 --~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~-~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g~~  318 (452)
T 3e4b_A          247 --YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRA-AD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GREV  318 (452)
T ss_dssp             --STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TTCH
T ss_pred             --CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH-CC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CCCH
Confidence              44556666665 3  468999999999999987 44   5667777888887 55     9999999999998 7778


Q ss_pred             HHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh----cCChHHHHHHHHHhhhCCCc
Q 040576          521 ALWGALLSACST----HSNSELGKIVAQHLMELEPRDPGPYVLLSNIYAS----EGKWDEVENLRRIMKEKELE  586 (641)
Q Consensus       521 ~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~~~  586 (641)
                      ..+..|...|..    ..+.++|...|+++.+.  .++.....|+.+|..    ..+.++|..++++..+.|..
T Consensus       319 ~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~--g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~  390 (452)
T 3e4b_A          319 AADYYLGQIYRRGYLGKVYPQKALDHLLTAARN--GQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTP  390 (452)
T ss_dssp             HHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTT--TCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCH
T ss_pred             HHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhh--ChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCH
Confidence            888888877766    34999999999998874  567789999999985    45899999999999887753

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.58  E-value=6.9e-13  Score=127.40  Aligned_cols=187  Identities=9%  Similarity=-0.064  Sum_probs=120.2

Q ss_pred             HHHHHHHHHh----cCCHHHHHHHHhhcCC-CChhHHHHHHHHHHH----cCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 040576          389 STSLLTMYAK----CGVMDLARNVFDNMTE-KNVVSWNSMIMGYGM----HGQGEKALEMFMEMEKRGPTPNDATFICVL  459 (641)
Q Consensus       389 ~~~li~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll  459 (641)
                      +..+..+|..    .+++++|...|++..+ .+..++..+...|..    .+++++|+..|++..+.+   +...+..+.
T Consensus        41 ~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg  117 (273)
T 1ouv_A           41 CFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLG  117 (273)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             HHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHH
Confidence            3334444444    4455555554444432 244455555666666    666777777777666653   555666666


Q ss_pred             HHHHh----hccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhh----cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 040576          460 SACTH----AGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGR----AGLMRDSEELVSKLPMEAGPALWGALLSACS  531 (641)
Q Consensus       460 ~~~~~----~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~  531 (641)
                      ..|..    .+++++|.++|++..+ .+   +...+..+...|..    .+++++|++.|++.....+...+..+...+.
T Consensus       118 ~~~~~~~~~~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~  193 (273)
T 1ouv_A          118 GIYHDGKVVTRDFKKAVEYFTKACD-LN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYH  193 (273)
T ss_dssp             HHHHHCSSSCCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHcCCCcccCHHHHHHHHHHHHh-cC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            66666    6777777777777766 22   34555666666666    6777777777776532244566666777777


Q ss_pred             h----cCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh----cCChHHHHHHHHHhhhCC
Q 040576          532 T----HSNSELGKIVAQHLMELEPRDPGPYVLLSNIYAS----EGKWDEVENLRRIMKEKE  584 (641)
Q Consensus       532 ~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~  584 (641)
                      .    .+++++|...++++.+.+|  +..+..++.+|..    .+++++|.+.+++..+.+
T Consensus       194 ~g~~~~~~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          194 HGEGATKNFKEALARYSKACELEN--GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HTCSSCCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             cCCCCCccHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            7    7788888888888777755  5567778888887    788888888888876554

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.58  E-value=1.6e-13  Score=130.12  Aligned_cols=193  Identities=8%  Similarity=-0.051  Sum_probs=145.1

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 040576          386 VLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSAC  462 (641)
Q Consensus       386 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  462 (641)
                      ...+..+...|...|++++|...|+++.+   .+...|..+...|...|++++|...|+++.+... .+...+..+...+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~  115 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASDS-RNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHHH
Confidence            44556666667777777777777776552   3556777777778888888888888888777532 2556777777788


Q ss_pred             HhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHH
Q 040576          463 THAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELG  539 (641)
Q Consensus       463 ~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a  539 (641)
                      ...|++++|.++++++.. .+..| +...+..++..|.+.|++++|.+.++++ . ...+...+..+...+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQ-DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHh-CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHH
Confidence            888888888888887765 33444 3566777788888888888888888776 2 223466777888888888888888


Q ss_pred             HHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          540 KIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       540 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      ...++++++..|+++..+..++.+|...|++++|.+.++++
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~  235 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQL  235 (252)
T ss_dssp             HHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            88888888888888888888888888888888888888888

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.57  E-value=1.3e-13  Score=137.93  Aligned_cols=243  Identities=9%  Similarity=0.032  Sum_probs=178.5

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCC-HHHHHHHHhhcCC---CChhHHHHHHHHHHH
Q 040576          354 LMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGV-MDLARNVFDNMTE---KNVVSWNSMIMGYGM  429 (641)
Q Consensus       354 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~~~~---~~~~~~~~li~~~~~  429 (641)
                      |..+...+...|++++|...++.+++.. +.+..+|+.+..+|...|+ +++|+..|+++.+   .+...|+.+..++..
T Consensus       100 ~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~~~  178 (382)
T 2h6f_A          100 YDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEW  178 (382)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Confidence            3344444445555555555555555443 3345566666667777775 7777777777653   456778888888888


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhh-cCCHHHH
Q 040576          430 HGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGR-AGLMRDS  507 (641)
Q Consensus       430 ~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~-~g~~~~A  507 (641)
                      .|++++|+..|+++.+.... +...|..+..++...|++++|+..|+++.+   +.| +...|+.+..+|.+ .|..++|
T Consensus       179 ~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~---l~P~~~~a~~~lg~~l~~l~~~~~eA  254 (382)
T 2h6f_A          179 LRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLK---EDVRNNSVWNQRYFVISNTTGYNDRA  254 (382)
T ss_dssp             HTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCSCSHH
T ss_pred             ccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHhcCcchHH
Confidence            88888899988888886433 567888888888888999999999998887   334 46778888888888 5665666


Q ss_pred             -----HHHHHhC-CCCC-CHHHHHHHHHHHHhcC--CHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC---------C
Q 040576          508 -----EELVSKL-PMEA-GPALWGALLSACSTHS--NSELGKIVAQHLMELEPRDPGPYVLLSNIYASEG---------K  569 (641)
Q Consensus       508 -----~~~~~~~-~~~~-~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g---------~  569 (641)
                           ++.|++. ...| +...|..+...+...|  ++++|...++++ +.+|+++..+..++.+|.+.|         .
T Consensus       255 ~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~~~~  333 (382)
T 2h6f_A          255 VLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNKEDI  333 (382)
T ss_dssp             HHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccchHHH
Confidence                 4667665 2334 4668888888888887  689999999998 889999999999999999875         3


Q ss_pred             hHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHH
Q 040576          570 WDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQM  627 (641)
Q Consensus       570 ~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~  627 (641)
                      +++|+++++++.                       .+++|....  .|..++......
T Consensus       334 ~~~A~~~~~~l~-----------------------~~~DP~r~~--~w~~~~~~l~~~  366 (382)
T 2h6f_A          334 LNKALELCEILA-----------------------KEKDTIRKE--YWRYIGRSLQSK  366 (382)
T ss_dssp             HHHHHHHHHHHH-----------------------HTTCGGGHH--HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH-----------------------HHhCchhHH--HHHHHHHHHHHH
Confidence            589999999872                       356788888  888887766554

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.57  E-value=9e-14  Score=141.90  Aligned_cols=293  Identities=12%  Similarity=0.006  Sum_probs=190.5

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHHc----CCCC-chhHH
Q 040576          319 WNILLALYVRCKDYCECLRLFDRMIRGDAKPN----EASLMSVLTACANMGVIDIGQWIHSYIQKC----RIKP-DVLLS  389 (641)
Q Consensus       319 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~~~  389 (641)
                      +......+...|++++|+..|++..+.+. .+    ...+..+...+...|+++.|...++.+.+.    +..+ ...++
T Consensus        12 l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   90 (406)
T 3sf4_A           12 LALEGERLCKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKAS   90 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHH
Confidence            44445556666666666666666655321 11    134555555666666666666666554332    1111 24455


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcCC-----CC----hhHHHHHHHHHHHcCC--------------------hHHHHHHH
Q 040576          390 TSLLTMYAKCGVMDLARNVFDNMTE-----KN----VVSWNSMIMGYGMHGQ--------------------GEKALEMF  440 (641)
Q Consensus       390 ~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~~~--------------------~~~A~~~~  440 (641)
                      ..+...|...|++++|...+++..+     .+    ..++..+...|...|+                    +++|...+
T Consensus        91 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~  170 (406)
T 3sf4_A           91 GNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFY  170 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHH
Confidence            6666777777777777777766553     12    3367777777888888                    88888887


Q ss_pred             HHHHHC----CCCCC-HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc----hHHHHHHHHHHhhcCCHHHHHHHH
Q 040576          441 MEMEKR----GPTPN-DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK----VEHYGCMVDLLGRAGLMRDSEELV  511 (641)
Q Consensus       441 ~~m~~~----g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~  511 (641)
                      ++..+.    +-.|. ..++..+...+...|++++|...++++.+...-.++    ...+..+...|...|++++|.+.+
T Consensus       171 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  250 (406)
T 3sf4_A          171 EENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYY  250 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            776542    11111 236677778888899999999998888762211122    346778888899999999999888


Q ss_pred             HhC----CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC------CchHHHHHHHHHhcCChHHHHHHH
Q 040576          512 SKL----PMEAG----PALWGALLSACSTHSNSELGKIVAQHLMELEPRD------PGPYVLLSNIYASEGKWDEVENLR  577 (641)
Q Consensus       512 ~~~----~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~A~~~~  577 (641)
                      ++.    +..++    ..++..+...+...|++++|...+++++++.+..      ...+..++.+|...|++++|.+.+
T Consensus       251 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  330 (406)
T 3sf4_A          251 KKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFA  330 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            875    11122    3466778888899999999999999988865443      457888999999999999999999


Q ss_pred             HHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhhc
Q 040576          578 RIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRR  632 (641)
Q Consensus       578 ~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~  632 (641)
                      ++..+....                  ....|....  ++..|+.+...+++..+
T Consensus       331 ~~al~~~~~------------------~~~~~~~~~--~~~~l~~~~~~~g~~~~  365 (406)
T 3sf4_A          331 EKHLEISRE------------------VGDKSGELT--ARLNLSDLQMVLGLSYS  365 (406)
T ss_dssp             HHHHHHHHH------------------TTCHHHHHH--HHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHH------------------hcCCcchhH--HHHHHHHHHHHhhHhHH
Confidence            987543110                  111233344  67777777777776644

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.56  E-value=9.1e-14  Score=133.54  Aligned_cols=241  Identities=13%  Similarity=0.007  Sum_probs=190.8

Q ss_pred             HccCCHHHHHHHHHHHHHcCCC---CchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHH
Q 040576          362 ANMGVIDIGQWIHSYIQKCRIK---PDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEK  435 (641)
Q Consensus       362 ~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~  435 (641)
                      ...|++++|...++.+.+....   .+..++..+...|...|++++|...|+++.+   .+...|..+...|...|++++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHH
Confidence            3457899999999999986421   2467888899999999999999999998873   467899999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-
Q 040576          436 ALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-  514 (641)
Q Consensus       436 A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-  514 (641)
                      |...|+++.+... .+...+..+...+...|++++|...|+++.+   ..|+..........+...|++++|...+++. 
T Consensus        96 A~~~~~~al~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  171 (275)
T 1xnf_A           96 AYEAFDSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQ---DDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  171 (275)
T ss_dssp             HHHHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCc-cccHHHHHHHHHHHHhccHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            9999999998642 2567888999999999999999999999988   3455444445555667789999999999765 


Q ss_pred             C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC----CCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccC
Q 040576          515 P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPR----DPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAV  589 (641)
Q Consensus       515 ~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~  589 (641)
                      . ..++...+ .++..+...++.++|...++++++..|.    ++..+..++.+|.+.|++++|...++++         
T Consensus       172 ~~~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a---------  241 (275)
T 1xnf_A          172 EKSDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLA---------  241 (275)
T ss_dssp             HHSCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH---------
T ss_pred             hcCCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHH---------
Confidence            2 22333334 4777788889999999999999887663    3678999999999999999999999999         


Q ss_pred             ceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhhccccc
Q 040576          590 GSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRRDVAS  636 (641)
Q Consensus       590 ~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~~~~~  636 (641)
                                     ...+|++..  .+   +....++++..+++.+
T Consensus       242 ---------------l~~~p~~~~--~~---~~~~~~l~~~~~a~~~  268 (275)
T 1xnf_A          242 ---------------VANNVHNFV--EH---RYALLELSLLGQDQDD  268 (275)
T ss_dssp             ---------------HTTCCTTCH--HH---HHHHHHHHHHHHC---
T ss_pred             ---------------HhCCchhHH--HH---HHHHHHHHHHHhhHHH
Confidence                           566676666  33   4455566666666554

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.55  E-value=2.5e-13  Score=135.95  Aligned_cols=244  Identities=10%  Similarity=0.022  Sum_probs=188.9

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHccCC-HHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 040576          317 VSWNILLALYVRCKDYCECLRLFDRMIRGDAKP-NEASLMSVLTACANMGV-IDIGQWIHSYIQKCRIKPDVLLSTSLLT  394 (641)
Q Consensus       317 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~li~  394 (641)
                      ..|+.+...+...|++++|+..+++..+.  .| +...|..+..++...|+ +++|...++.+++.. +.+...|..+..
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l--~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~  174 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
Confidence            45666677777777777777777777763  34 34566677777777775 888888887777765 446777888888


Q ss_pred             HHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-hccHHH
Q 040576          395 MYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTH-AGMVLE  470 (641)
Q Consensus       395 ~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~-~g~~~~  470 (641)
                      +|...|++++|+..|+++.+   .+..+|..+..++...|++++|+..|+++.+.... +...|..+..++.. .|..++
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcchH
Confidence            88888888888888888764   56778899999999999999999999999986433 56788888888888 565466


Q ss_pred             H-----HHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcC--CHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcC-------
Q 040576          471 G-----WWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAG--LMRDSEELVSKLPMEAG-PALWGALLSACSTHS-------  534 (641)
Q Consensus       471 a-----~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g--~~~~A~~~~~~~~~~~~-~~~~~~l~~~~~~~g-------  534 (641)
                      |     ++.|+++..   +.|+ ...|..+..+|...|  ++++|++.+.++...|+ ...+..++..|...|       
T Consensus       254 A~~~~el~~~~~Al~---l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~~~~  330 (382)
T 2h6f_A          254 AVLEREVQYTLEMIK---LVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNK  330 (382)
T ss_dssp             HHHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             HHHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcccccch
Confidence            6     588888877   4454 678888888898888  68999998888744444 567788888887764       


Q ss_pred             --CHHHHHHHHHHH-HhcCCCCCchHHHHHHHHHhc
Q 040576          535 --NSELGKIVAQHL-MELEPRDPGPYVLLSNIYASE  567 (641)
Q Consensus       535 --~~~~a~~~~~~~-~~~~p~~~~~~~~l~~~~~~~  567 (641)
                        ..++|+.+++++ .+++|.....|..++..+...
T Consensus       331 ~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~~  366 (382)
T 2h6f_A          331 EDILNKALELCEILAKEKDTIRKEYWRYIGRSLQSK  366 (382)
T ss_dssp             HHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHH
Confidence              358999999999 999999999999888876643

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.55  E-value=1.6e-12  Score=124.79  Aligned_cols=227  Identities=10%  Similarity=-0.056  Sum_probs=181.7

Q ss_pred             CcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCCCchhHHH
Q 040576          315 NVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACAN----MGVIDIGQWIHSYIQKCRIKPDVLLST  390 (641)
Q Consensus       315 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~  390 (641)
                      ++.++..+...|...|++++|+..|++..+.   -+...+..+...+..    .+++++|...++...+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            4456667777788888888888888888773   344566677777777    888888888888888765   567777


Q ss_pred             HHHHHHHh----cCCHHHHHHHHhhcCC-CChhHHHHHHHHHHH----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 040576          391 SLLTMYAK----CGVMDLARNVFDNMTE-KNVVSWNSMIMGYGM----HGQGEKALEMFMEMEKRGPTPNDATFICVLSA  461 (641)
Q Consensus       391 ~li~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  461 (641)
                      .+..+|..    .+++++|...|++..+ .+..++..+...|..    .+++++|+..|++..+.+   +...+..+...
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~  155 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSL  155 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHH
Confidence            78888888    8888888888887764 466788888888888    899999999999998875   56677778888


Q ss_pred             HHh----hccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhh----cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-
Q 040576          462 CTH----AGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGR----AGLMRDSEELVSKLPMEAGPALWGALLSACST-  532 (641)
Q Consensus       462 ~~~----~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~-  532 (641)
                      +..    .+++++|..+|++..+ .+   +...+..+..+|..    .+++++|++.|++.....+...+..+...|.. 
T Consensus       156 ~~~~~~~~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~l~~~~~~g  231 (273)
T 1ouv_A          156 YDAGRGTPKDLKKALASYDKACD-LK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELENGGGCFNLGAMQYNG  231 (273)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHcCCCCCCCHHHHHHHHHHHHH-CC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHcC
Confidence            887    8999999999999887 32   45677788889988    99999999999987322346778888888888 


Q ss_pred             ---cCCHHHHHHHHHHHHhcCCCCC
Q 040576          533 ---HSNSELGKIVAQHLMELEPRDP  554 (641)
Q Consensus       533 ---~g~~~~a~~~~~~~~~~~p~~~  554 (641)
                         .++.++|...++++.+.+|+++
T Consensus       232 ~~~~~~~~~A~~~~~~a~~~~~~~a  256 (273)
T 1ouv_A          232 EGVTRNEKQAIENFKKGCKLGAKGA  256 (273)
T ss_dssp             SSSSCCSTTHHHHHHHHHHHTCHHH
T ss_pred             CCcccCHHHHHHHHHHHHHcCCHHH
Confidence               8999999999999999988753

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.53  E-value=1.8e-12  Score=122.71  Aligned_cols=200  Identities=11%  Similarity=-0.022  Sum_probs=135.3

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCC
Q 040576          356 SVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQ  432 (641)
Q Consensus       356 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~  432 (641)
                      .+...+...|++++|...++.+.+.. +.+...+..+..+|...|++++|.+.|+++.+   .+...|..+...|...|+
T Consensus        42 ~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~  120 (252)
T 2ho1_A           42 QLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKR  120 (252)
T ss_dssp             HHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhH
Confidence            33333444444444444444444332 22344555555555666666666666655442   345567777777778888


Q ss_pred             hHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHH
Q 040576          433 GEKALEMFMEMEKRGPTPN-DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELV  511 (641)
Q Consensus       433 ~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  511 (641)
                      +++|..+|+++.+.+..|+ ...+..+...+...|++++|.++++++.+ . .+.+...+..++..|...|++++|.+.+
T Consensus       121 ~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~-~-~~~~~~~~~~la~~~~~~g~~~~A~~~~  198 (252)
T 2ho1_A          121 YEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLR-L-NRNQPSVALEMADLLYKEREYVPARQYY  198 (252)
T ss_dssp             HHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-H-CSCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh-c-CcccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            8888888888776333443 45677777788888888888888888877 2 2234677788888888999999999888


Q ss_pred             HhC-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHH
Q 040576          512 SKL-PM-EAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYV  558 (641)
Q Consensus       512 ~~~-~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  558 (641)
                      +++ .. ..+...+..+...+...|+.++|...++++.+..|+++....
T Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  247 (252)
T 2ho1_A          199 DLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPGSLEYQE  247 (252)
T ss_dssp             HHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSHHHHH
T ss_pred             HHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCHHHHH
Confidence            876 22 345667777888888999999999999999999998875543

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.53  E-value=2.5e-13  Score=139.01  Aligned_cols=260  Identities=11%  Similarity=-0.035  Sum_probs=175.5

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCCCC-H----HHHHHHHHHHHccCCHHHHHHHHHHHHHc----CC-CCchhHHH
Q 040576          321 ILLALYVRCKDYCECLRLFDRMIRGDAKPN-E----ASLMSVLTACANMGVIDIGQWIHSYIQKC----RI-KPDVLLST  390 (641)
Q Consensus       321 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~-~~~~~~~~  390 (641)
                      .+...+...|++++|+..|+++.+.+  |+ .    ..+..+...+...|++++|...++...+.    +. +.....+.
T Consensus        53 ~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  130 (411)
T 4a1s_A           53 LEGERLCNAGDCRAGVAFFQAAIQAG--TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSG  130 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHhc--ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHH
Confidence            34455666666666666666666532  22 1    24555555666666666666666655432    11 12345566


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCC---------CChhHHHHHHHHHHHcCC-----------------hHHHHHHHHHHH
Q 040576          391 SLLTMYAKCGVMDLARNVFDNMTE---------KNVVSWNSMIMGYGMHGQ-----------------GEKALEMFMEME  444 (641)
Q Consensus       391 ~li~~~~~~g~~~~A~~~~~~~~~---------~~~~~~~~li~~~~~~~~-----------------~~~A~~~~~~m~  444 (641)
                      .+...|...|++++|...|++..+         ....++..+...|...|+                 +++|+..+++..
T Consensus       131 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al  210 (411)
T 4a1s_A          131 NLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENL  210 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHH
Confidence            667777777777777777766542         123467777778888888                 888888877765


Q ss_pred             HC----CCCCC-HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc----hHHHHHHHHHHhhcCCHHHHHHHHHhCC
Q 040576          445 KR----GPTPN-DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK----VEHYGCMVDLLGRAGLMRDSEELVSKLP  515 (641)
Q Consensus       445 ~~----g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~  515 (641)
                      +.    +-.+. ..++..+...+...|++++|..++++..+...-.++    ...+..+..+|...|++++|++.+++..
T Consensus       211 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  290 (411)
T 4a1s_A          211 KLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTL  290 (411)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            42    11111 236677778888899999999998888762211111    2367788888999999999999888761


Q ss_pred             ----CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC------CchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          516 ----MEAG----PALWGALLSACSTHSNSELGKIVAQHLMELEPRD------PGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       516 ----~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                          ...+    ...+..+...+...|++++|...+++++++.+..      ...+..++.+|...|++++|.+.+++..
T Consensus       291 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  370 (411)
T 4a1s_A          291 ALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHL  370 (411)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence                1111    4567778888999999999999999998865433      3478889999999999999999999985


Q ss_pred             h
Q 040576          582 E  582 (641)
Q Consensus       582 ~  582 (641)
                      +
T Consensus       371 ~  371 (411)
T 4a1s_A          371 Q  371 (411)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.53  E-value=1.7e-13  Score=128.94  Aligned_cols=206  Identities=10%  Similarity=0.055  Sum_probs=135.0

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChH
Q 040576          358 LTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGE  434 (641)
Q Consensus       358 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~  434 (641)
                      ...+...|++++|..+++.+.+.. +.+...+..+...|...|++++|...|+++.+   .+...|..+...|...|+++
T Consensus        30 a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  108 (243)
T 2q7f_A           30 MGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEMYK  108 (243)
T ss_dssp             ------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccHH
Confidence            333334444444444444443322 22344444555555555555555555555442   34566777777788888888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC
Q 040576          435 KALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL  514 (641)
Q Consensus       435 ~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  514 (641)
                      +|...++++.+.. +.+...+..+...+...|++++|..+++++.+.  .+.+...+..++..+.+.|++++|++.++++
T Consensus       109 ~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  185 (243)
T 2q7f_A          109 EAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVEL--NENDTEARFQFGMCLANEGMLDEALSQFAAV  185 (243)
T ss_dssp             HHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            8888888877754 235667777888888888888888888888772  2234667788888888899999998888876


Q ss_pred             -C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc
Q 040576          515 -P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASE  567 (641)
Q Consensus       515 -~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  567 (641)
                       . ...+...+..+...+...|++++|...+++++++.|+++..+..++.+....
T Consensus       186 ~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~  240 (243)
T 2q7f_A          186 TEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDHMLALHAKKLLGHHH  240 (243)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTCHHHHHHHTC-----
T ss_pred             HHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcchHHHHHHHHHHHhhc
Confidence             2 2345678888999999999999999999999999999988887776654433

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.53  E-value=7.6e-13  Score=118.65  Aligned_cols=166  Identities=11%  Similarity=0.061  Sum_probs=141.4

Q ss_pred             ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHH
Q 040576          416 NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMV  495 (641)
Q Consensus       416 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li  495 (641)
                      +...|..+...|...|++++|+..|++..+..+. +...+..+..++.+.|++++|...+..+...  .+.+...+..+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHHH
Confidence            5567888999999999999999999998886422 5668888889999999999999999998772  223466777788


Q ss_pred             HHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHH
Q 040576          496 DLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEV  573 (641)
Q Consensus       496 ~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  573 (641)
                      ..+...+++++|.+.+++. . .+.+...+..+...+...|++++|+..++++++++|+++.+|..++.+|.+.|++++|
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            8899999999999998876 2 2345678888999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhCC
Q 040576          574 ENLRRIMKEKE  584 (641)
Q Consensus       574 ~~~~~~m~~~~  584 (641)
                      ++.+++..+.+
T Consensus       161 ~~~~~~al~~~  171 (184)
T 3vtx_A          161 VKYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHhCC
Confidence            99999986543

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.51  E-value=3.2e-12  Score=118.44  Aligned_cols=204  Identities=10%  Similarity=-0.076  Sum_probs=136.2

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHc
Q 040576          354 LMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMH  430 (641)
Q Consensus       354 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~  430 (641)
                      +..+...+...|++++|...++.+.+.. +.+...+..+...|...|++++|.+.|+++.+   .+...|..++..|...
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~   89 (225)
T 2vq2_A           11 KTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGR   89 (225)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHh
Confidence            3334444444444444444444444432 22344555555566666666666666655542   3455677777777788


Q ss_pred             -CChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHH
Q 040576          431 -GQGEKALEMFMEMEKRGPTPN-DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSE  508 (641)
Q Consensus       431 -~~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  508 (641)
                       |++++|...++++.+.+..|+ ...+..+...+...|++++|...++++.+.  .+.+...+..++.++.+.|++++|.
T Consensus        90 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~  167 (225)
T 2vq2_A           90 LNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAA--QPQFPPAFKELARTKMLAGQLGDAD  167 (225)
T ss_dssp             TCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             cCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCchHHHHHHHHHHHcCCHHHHH
Confidence             888888888888777333343 456777777888888888888888888772  2233677778888888888888888


Q ss_pred             HHHHhC-CCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHH
Q 040576          509 ELVSKL-PME--AGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLL  560 (641)
Q Consensus       509 ~~~~~~-~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  560 (641)
                      +.++++ ...  .+...+..+...+...|+.+.|...++.+.+..|+++.....+
T Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  222 (225)
T 2vq2_A          168 YYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANFPYSEELQTVL  222 (225)
T ss_dssp             HHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHh
Confidence            888876 222  3566677677778889999999999999988889887655444

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.50  E-value=7.7e-13  Score=130.88  Aligned_cols=261  Identities=12%  Similarity=0.003  Sum_probs=178.7

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHHccCCHHHHHHHHHHHHHc----CCCC-chhHHH
Q 040576          321 ILLALYVRCKDYCECLRLFDRMIRGDAKPN-----EASLMSVLTACANMGVIDIGQWIHSYIQKC----RIKP-DVLLST  390 (641)
Q Consensus       321 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~~~~  390 (641)
                      .....+...|++++|...|+++.+..  |+     ...+..+...+...|+++.|...++...+.    +..+ ...++.
T Consensus        10 ~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   87 (338)
T 3ro2_A           10 LEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASG   87 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHH
Confidence            34455566666666666666666532  22     234555566666666666666666554432    1111 244566


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCC-----CC----hhHHHHHHHHHHHcCC--------------------hHHHHHHHH
Q 040576          391 SLLTMYAKCGVMDLARNVFDNMTE-----KN----VVSWNSMIMGYGMHGQ--------------------GEKALEMFM  441 (641)
Q Consensus       391 ~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~~~--------------------~~~A~~~~~  441 (641)
                      .+...|...|++++|...+++..+     .+    ..++..+...|...|+                    +++|...++
T Consensus        88 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~  167 (338)
T 3ro2_A           88 NLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYE  167 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHH
Confidence            677777777777777777776542     22    2367777788888888                    888888887


Q ss_pred             HHHHC----CCCCC-HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc----hHHHHHHHHHHhhcCCHHHHHHHHH
Q 040576          442 EMEKR----GPTPN-DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK----VEHYGCMVDLLGRAGLMRDSEELVS  512 (641)
Q Consensus       442 ~m~~~----g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~  512 (641)
                      +....    +..|. ...+..+...+...|++++|...++++.+...-.++    ...+..+...+...|++++|.+.++
T Consensus       168 ~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  247 (338)
T 3ro2_A          168 ENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYK  247 (338)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            76542    11111 236777788888999999999999888752211111    3467788889999999999999888


Q ss_pred             hC----CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC------CchHHHHHHHHHhcCChHHHHHHHH
Q 040576          513 KL----PMEAG----PALWGALLSACSTHSNSELGKIVAQHLMELEPRD------PGPYVLLSNIYASEGKWDEVENLRR  578 (641)
Q Consensus       513 ~~----~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~A~~~~~  578 (641)
                      +.    +..++    ...+..+...+...|++++|...++++++..+..      ...+..++.+|.+.|++++|.+.++
T Consensus       248 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  327 (338)
T 3ro2_A          248 KTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAE  327 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            76    11122    4466778888999999999999999998875443      3478889999999999999999999


Q ss_pred             HhhhC
Q 040576          579 IMKEK  583 (641)
Q Consensus       579 ~m~~~  583 (641)
                      ++.+.
T Consensus       328 ~a~~~  332 (338)
T 3ro2_A          328 KHLEI  332 (338)
T ss_dssp             HHHHC
T ss_pred             HHHHH
Confidence            98654

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.50  E-value=3.7e-13  Score=139.98  Aligned_cols=208  Identities=8%  Similarity=-0.007  Sum_probs=125.8

Q ss_pred             HHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCH-HHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHH
Q 040576          367 IDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVM-DLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFME  442 (641)
Q Consensus       367 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~  442 (641)
                      ++.+...++...... +.+...+..+...|...|++ ++|.+.|++..+   .+...|..+..+|...|++++|...|++
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~  162 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSG  162 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            444444444433322 23555666666666666666 666666666542   3355666666666666666666666666


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhh---------ccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhc--------CCH
Q 040576          443 MEKRGPTPNDATFICVLSACTHA---------GMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRA--------GLM  504 (641)
Q Consensus       443 m~~~g~~p~~~~~~~ll~~~~~~---------g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~--------g~~  504 (641)
                      ..+.  .|+...+..+...+...         |++++|++.|+++.+   +.| +...|..+..+|...        |++
T Consensus       163 al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~  237 (474)
T 4abn_A          163 ALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQ---MDVLDGRSWYILGNAYLSLYFNTGQNPKIS  237 (474)
T ss_dssp             HHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHHHHhhccccchH
Confidence            6654  34555666666666666         666666666666665   223 255566666666666        666


Q ss_pred             HHHHHHHHhC-CCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHH
Q 040576          505 RDSEELVSKL-PMEA----GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRI  579 (641)
Q Consensus       505 ~~A~~~~~~~-~~~~----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  579 (641)
                      ++|++.|++. ...|    +...|..+..+|...|++++|...|+++++++|+++..+..++.++...|++++|++.+.+
T Consensus       238 ~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          238 QQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            6666666665 2233    4556666666666666666666666666666666666666666666666666666655444


Q ss_pred             h
Q 040576          580 M  580 (641)
Q Consensus       580 m  580 (641)
                      +
T Consensus       318 ~  318 (474)
T 4abn_A          318 T  318 (474)
T ss_dssp             C
T ss_pred             c
Confidence            3

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.48  E-value=1.3e-12  Score=121.78  Aligned_cols=204  Identities=12%  Similarity=-0.002  Sum_probs=111.0

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcCC----CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 040576          385 DVLLSTSLLTMYAKCGVMDLARNVFDNMTE----KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLS  460 (641)
Q Consensus       385 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~  460 (641)
                      ++..+......|...|++++|...|++..+    ++...+..+..++...|++++|+..|++..+.... +...+..+..
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~   84 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKSA   84 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHHH
Confidence            344555555555666666666666655442    34444555555566666666666666665553211 2334555555


Q ss_pred             HHHhhccHHHHHHHHHHhHHhhCCCCc-h-------HHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC---HHHHHHHHH
Q 040576          461 ACTHAGMVLEGWWYFDLMQRIYKIEPK-V-------EHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG---PALWGALLS  528 (641)
Q Consensus       461 ~~~~~g~~~~a~~~~~~~~~~~~~~p~-~-------~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~---~~~~~~l~~  528 (641)
                      .+...|++++|...+++..+   ..|+ .       ..|..+...+...|++++|++.|+++ ...|+   ...|..+..
T Consensus        85 ~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIK---AVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHH---HCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHH
Confidence            55566666666666665555   1222 2       33444555555555555555555554 23343   223444444


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccC
Q 040576          529 ACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENC  608 (641)
Q Consensus       529 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~  608 (641)
                      ++..     .+...++++..+.+.++..|..  ......+.+++|+..+++.                        .+++
T Consensus       162 ~~~~-----~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~~~A~~~~~~a------------------------~~l~  210 (228)
T 4i17_A          162 LFYN-----NGADVLRKATPLASSNKEKYAS--EKAKADAAFKKAVDYLGEA------------------------VTLS  210 (228)
T ss_dssp             HHHH-----HHHHHHHHHGGGTTTCHHHHHH--HHHHHHHHHHHHHHHHHHH------------------------HHHC
T ss_pred             HHHH-----HHHHHHHHHHhcccCCHHHHHH--HHHHHHHHHHHHHHHHHHH------------------------hhcC
Confidence            4432     2333444555554444333322  2223344559999999998                        7889


Q ss_pred             CCCchhhHHHHHHHHHH
Q 040576          609 PPHRKCIVYSMLGEIGA  625 (641)
Q Consensus       609 p~~~~~~~~~~l~~l~~  625 (641)
                      |++..  +...|+.+..
T Consensus       211 p~~~~--~~~~l~~i~~  225 (228)
T 4i17_A          211 PNRTE--IKQMQDQVKA  225 (228)
T ss_dssp             TTCHH--HHHHHHHHHT
T ss_pred             CCCHH--HHHHHHHHHH
Confidence            99999  8888887654

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.47  E-value=9.7e-13  Score=134.18  Aligned_cols=284  Identities=10%  Similarity=0.007  Sum_probs=184.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhcCC--C-C----cchHHHHHHHHHHcCChHHHHHHHHHHHHC----CCCCC-HHHHH
Q 040576          288 WNCMIDGYAKIGNVTSARNCFDRMCM--R-N----VVSWNILLALYVRCKDYCECLRLFDRMIRG----DAKPN-EASLM  355 (641)
Q Consensus       288 ~~~li~~~~~~~~~~~A~~~~~~~~~--~-~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~~~  355 (641)
                      +..+...+...|++++|...|++...  | +    ...|..+...|...|++++|...+++....    +-.|. ..++.
T Consensus        12 l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   91 (406)
T 3sf4_A           12 LALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASG   91 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHH
Confidence            34444555555555555555555421  1 1    134555666666666666666666654331    11111 23455


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcC----CC-CchhHHHHHHHHHHhcCC--------------------HHHHHHHHh
Q 040576          356 SVLTACANMGVIDIGQWIHSYIQKCR----IK-PDVLLSTSLLTMYAKCGV--------------------MDLARNVFD  410 (641)
Q Consensus       356 ~ll~~~~~~g~~~~a~~~~~~~~~~~----~~-~~~~~~~~li~~~~~~g~--------------------~~~A~~~~~  410 (641)
                      .+...+...|++++|...+....+..    -. ....++..+...|...|+                    +++|...++
T Consensus        92 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~  171 (406)
T 3sf4_A           92 NLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYE  171 (406)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHH
Confidence            55566666666666666666554421    00 013456667777777777                    777777776


Q ss_pred             hcCC-----C----ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhhccHHHHHHHHH
Q 040576          411 NMTE-----K----NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGP-TPN----DATFICVLSACTHAGMVLEGWWYFD  476 (641)
Q Consensus       411 ~~~~-----~----~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~g~~~~a~~~~~  476 (641)
                      +..+     .    ...++..+...|...|++++|...+++..+... .++    ..++..+...+...|++++|...++
T Consensus       172 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  251 (406)
T 3sf4_A          172 ENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYK  251 (406)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            5542     1    134677888888999999999999988765310 112    2367778888999999999999999


Q ss_pred             HhHHhhCCCCc----hHHHHHHHHHHhhcCCHHHHHHHHHhCC----CCCC----HHHHHHHHHHHHhcCCHHHHHHHHH
Q 040576          477 LMQRIYKIEPK----VEHYGCMVDLLGRAGLMRDSEELVSKLP----MEAG----PALWGALLSACSTHSNSELGKIVAQ  544 (641)
Q Consensus       477 ~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~  544 (641)
                      +......-.++    ..++..+...|...|++++|.+.+++..    ..++    ...+..+...+...|++++|...++
T Consensus       252 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  331 (406)
T 3sf4_A          252 KTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAE  331 (406)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            88752211111    4577788899999999999999988761    1122    4467778888999999999999999


Q ss_pred             HHHhcCC------CCCchHHHHHHHHHhcCChH
Q 040576          545 HLMELEP------RDPGPYVLLSNIYASEGKWD  571 (641)
Q Consensus       545 ~~~~~~p------~~~~~~~~l~~~~~~~g~~~  571 (641)
                      +++++.+      ....++..++.+|...|+..
T Consensus       332 ~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  364 (406)
T 3sf4_A          332 KHLEISREVGDKSGELTARLNLSDLQMVLGLSY  364 (406)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhH
Confidence            9988643      23457888888888888764

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.47  E-value=4.7e-13  Score=139.18  Aligned_cols=210  Identities=12%  Similarity=-0.015  Sum_probs=178.0

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH-HHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHH
Q 040576          330 KDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVI-DIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNV  408 (641)
Q Consensus       330 g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  408 (641)
                      +++++++..+++.... .+.+...+..+..++...|++ ++|...++.+.+.. +.+...+..+..+|...|++++|.+.
T Consensus        82 ~~~~~al~~l~~~~~~-~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~  159 (474)
T 4abn_A           82 EEMEKTLQQMEEVLGS-AQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTC  159 (474)
T ss_dssp             HHHHHHHHHHHHHHTT-CCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcc-CchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            3477888888876653 234677888899999999999 99999999999875 44688999999999999999999999


Q ss_pred             HhhcCC--CChhHHHHHHHHHHHc---------CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhh--------ccHH
Q 040576          409 FDNMTE--KNVVSWNSMIMGYGMH---------GQGEKALEMFMEMEKRGPTPNDATFICVLSACTHA--------GMVL  469 (641)
Q Consensus       409 ~~~~~~--~~~~~~~~li~~~~~~---------~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~--------g~~~  469 (641)
                      |++..+  |+...|..+...|...         |++++|+..|++..+.... +...+..+..+|...        |+++
T Consensus       160 ~~~al~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          160 FSGALTHCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHHHTTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHHHhhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhccccchHH
Confidence            999874  7778899999999999         9999999999999986422 577888999999998        9999


Q ss_pred             HHHHHHHHhHHhhCCCC----chHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHH
Q 040576          470 EGWWYFDLMQRIYKIEP----KVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVA  543 (641)
Q Consensus       470 ~a~~~~~~~~~~~~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~  543 (641)
                      +|...|+++.+   +.|    +...|..+..+|.+.|++++|++.|++. ...| +...+..+...+...|++++|...+
T Consensus       239 ~A~~~~~~al~---~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          239 QALSAYAQAEK---VDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHH---HCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHH---hCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999988   345    5788999999999999999999999987 2334 4667888888899999988888765


Q ss_pred             HH
Q 040576          544 QH  545 (641)
Q Consensus       544 ~~  545 (641)
                      .+
T Consensus       316 ~~  317 (474)
T 4abn_A          316 GK  317 (474)
T ss_dssp             TT
T ss_pred             cc
Confidence            43

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.43  E-value=1.7e-12  Score=132.87  Aligned_cols=263  Identities=10%  Similarity=0.004  Sum_probs=170.7

Q ss_pred             HHHHHHHhcCChHHHHHHHHhcCC--C-Cc----chHHHHHHHHHHcCChHHHHHHHHHHHHC----CCCC-CHHHHHHH
Q 040576          290 CMIDGYAKIGNVTSARNCFDRMCM--R-NV----VSWNILLALYVRCKDYCECLRLFDRMIRG----DAKP-NEASLMSV  357 (641)
Q Consensus       290 ~li~~~~~~~~~~~A~~~~~~~~~--~-~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~l  357 (641)
                      .+...+...|++++|+..|+++..  + +.    ..|..+...|...|++++|+..+++..+.    +-.| ....+..+
T Consensus        53 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  132 (411)
T 4a1s_A           53 LEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNL  132 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHH
Confidence            344445555555555555555421  1 11    24555556666666666666666655431    1111 22345555


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHc----CC-CCchhHHHHHHHHHHhcCC-----------------HHHHHHHHhhcCC-
Q 040576          358 LTACANMGVIDIGQWIHSYIQKC----RI-KPDVLLSTSLLTMYAKCGV-----------------MDLARNVFDNMTE-  414 (641)
Q Consensus       358 l~~~~~~g~~~~a~~~~~~~~~~----~~-~~~~~~~~~li~~~~~~g~-----------------~~~A~~~~~~~~~-  414 (641)
                      ...+...|++++|...+..+.+.    +- +....++..+...|...|+                 +++|.+.+++..+ 
T Consensus       133 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~  212 (411)
T 4a1s_A          133 GNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKL  212 (411)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHH
Confidence            55666666666666666655443    11 1124456667777777777                 7777777766542 


Q ss_pred             ----C----ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhhccHHHHHHHHHHhHHh
Q 040576          415 ----K----NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPT-PN----DATFICVLSACTHAGMVLEGWWYFDLMQRI  481 (641)
Q Consensus       415 ----~----~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~-p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  481 (641)
                          .    ....+..+...|...|++++|+..+++..+.... ++    ..++..+...+...|++++|...++++...
T Consensus       213 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  292 (411)
T 4a1s_A          213 MRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLAL  292 (411)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence                1    2246778888899999999999999887663111 12    226777888899999999999999988762


Q ss_pred             hCCCC----chHHHHHHHHHHhhcCCHHHHHHHHHhCC----CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 040576          482 YKIEP----KVEHYGCMVDLLGRAGLMRDSEELVSKLP----MEAG----PALWGALLSACSTHSNSELGKIVAQHLMEL  549 (641)
Q Consensus       482 ~~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  549 (641)
                      ..-..    ....+..+..+|...|++++|.+.+++..    ..++    ...+..+...+...|++++|...+++++++
T Consensus       293 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          293 AVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            21111    14677888999999999999999998761    1112    346777888899999999999999999887


Q ss_pred             CCC
Q 040576          550 EPR  552 (641)
Q Consensus       550 ~p~  552 (641)
                      .+.
T Consensus       373 ~~~  375 (411)
T 4a1s_A          373 AXX  375 (411)
T ss_dssp             CCH
T ss_pred             Hhh
Confidence            654

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.42  E-value=9.9e-10  Score=117.32  Aligned_cols=414  Identities=11%  Similarity=0.023  Sum_probs=252.4

Q ss_pred             CCCcccHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCC---chhHHHHHHHHHHhC-CCCChh
Q 040576          118 EPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRS---LREGKKVHARIVKCG-FELDLF  193 (641)
Q Consensus       118 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~g-~~~~~~  193 (641)
                      +.|...|..++..+.+.+.+..+..+|+ .+... .+.+...|...+..-.+.++   ++.+..+|+..+... ..|++.
T Consensus        63 p~d~~~W~~yi~~~~~~~~~~~aR~vyE-raL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~  140 (679)
T 4e6h_A           63 PTDIFLYVKLLKHHVSLKQWKQVYETFD-KLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLS  140 (679)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHH-HHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHH
T ss_pred             cCCHHHHHHHHHHHHhcCcHHHHHHHHH-HHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHH
Confidence            4566777777777777777777777777 44443 34445556666666666666   777777777776643 136666


Q ss_pred             HHHHHHHHHHhcCCH--------HHHHHHHhc-----CC-CC-CeeHHHHHHHHHH---------hCCChHHHHHHHhhC
Q 040576          194 VRNSLIHMYSVCGEV--------LDARKVFED-----GP-VW-DLVTWNSMIDGYV---------KNREVGFARELFDFM  249 (641)
Q Consensus       194 ~~~~li~~~~~~g~~--------~~A~~~~~~-----~~-~~-~~~~~~~li~~~~---------~~g~~~~A~~~~~~m  249 (641)
                      .|...+....+.++.        +...++|+.     +. .+ +...|...+.-..         ..++++.+..+|++.
T Consensus       141 LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~ra  220 (679)
T 4e6h_A          141 LWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTL  220 (679)
T ss_dssp             HHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHH
Confidence            776666655554443        223355554     22 22 3345666655432         223455666667666


Q ss_pred             CCCCchhHHHHHHHHh---cCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhc-------CC------
Q 040576          250 PERDIFTWNSMISGYV---DVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRM-------CM------  313 (641)
Q Consensus       250 ~~~~~~~~~~ll~~~~---~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~-------~~------  313 (641)
                      ..-....+..+-..|.   +.-+...+.+++.+                 ....++.|...+.++       ..      
T Consensus       221 L~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e-----------------~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~  283 (679)
T 4e6h_A          221 LCQPMDCLESMWQRYTQWEQDVNQLTARRHIGE-----------------LSAQYMNARSLYQDWLNITKGLKRNLPITL  283 (679)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHH-----------------HHHHHHHHHHHHHHHHHHTTTCCCCCCSSS
T ss_pred             HhCccHHHHHHHHHHHHHHHhcCcchHHHHHHH-----------------hhHHHHHHHHHHHHHHHHHHhHhhcccccc
Confidence            3211111111111110   00000001111110                 011222333333321       00      


Q ss_pred             --------C--C------cchHHHHHHHHHHcC-------ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHH
Q 040576          314 --------R--N------VVSWNILLALYVRCK-------DYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIG  370 (641)
Q Consensus       314 --------~--~------~~~~~~li~~~~~~g-------~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a  370 (641)
                              |  +      ...|...+.---..+       ..+.+..+|++.... ++-+...|......+...|+.+.|
T Consensus       284 ~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a  362 (679)
T 4e6h_A          284 NQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTV  362 (679)
T ss_dssp             TTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTH
T ss_pred             ccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHH
Confidence                    0  0      123444443322222       123455678777764 344666777777777788888888


Q ss_pred             H-HHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC-------------CC------------hhHHHHHH
Q 040576          371 Q-WIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE-------------KN------------VVSWNSMI  424 (641)
Q Consensus       371 ~-~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------------~~------------~~~~~~li  424 (641)
                      . .+++..... ++.+...+-..+....+.|+++.|.++|+++.+             |+            ...|...+
T Consensus       363 ~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~  441 (679)
T 4e6h_A          363 ITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYM  441 (679)
T ss_dssp             HHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHH
Confidence            6 999998874 355677777888888899999999999988763             21            23688888


Q ss_pred             HHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhh-ccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCC
Q 040576          425 MGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHA-GMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGL  503 (641)
Q Consensus       425 ~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~-g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  503 (641)
                      ....+.|+.+.|..+|.++.+.-..+....|...+..-.+. ++.+.|..+|+...+.+  +-+...+...++.....|+
T Consensus       442 ~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~--p~~~~~w~~y~~fe~~~~~  519 (679)
T 4e6h_A          442 NTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYF--ATDGEYINKYLDFLIYVNE  519 (679)
T ss_dssp             HHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCchHHHHHHHHHHHhCCC
Confidence            88888899999999999998861122334443333322333 55899999999998843  3345667788888889999


Q ss_pred             HHHHHHHHHhCC-CCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 040576          504 MRDSEELVSKLP-MEA----GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDP  554 (641)
Q Consensus       504 ~~~A~~~~~~~~-~~~----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  554 (641)
                      .+.|..+|++.. ..|    ....|...+.--...|+.+.+..+.+++.+..|+++
T Consensus       520 ~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~  575 (679)
T 4e6h_A          520 ESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVN  575 (679)
T ss_dssp             HHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCC
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCc
Confidence            999999999862 223    245788888888899999999999999999999875

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.42  E-value=5.7e-12  Score=127.58  Aligned_cols=222  Identities=9%  Similarity=-0.033  Sum_probs=121.0

Q ss_pred             HHHccCCHHHHHHHHHHHHHc----CCCC-chhHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CC-----hhHHHHHH
Q 040576          360 ACANMGVIDIGQWIHSYIQKC----RIKP-DVLLSTSLLTMYAKCGVMDLARNVFDNMTE-----KN-----VVSWNSMI  424 (641)
Q Consensus       360 ~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~-----~~~~~~li  424 (641)
                      .+...|++++|...+....+.    +-.+ ...++..+..+|...|++++|...+++..+     ++     ..+++.+.
T Consensus       112 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg  191 (383)
T 3ulq_A          112 YELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFA  191 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHH
Confidence            344555555555555555442    1011 234455555556666666665555554432     11     23556666


Q ss_pred             HHHHHcCChHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhhccHHHHHHHHHHhHHhh---CCCC-chHHHHHHH
Q 040576          425 MGYGMHGQGEKALEMFMEMEKRGPT-PN----DATFICVLSACTHAGMVLEGWWYFDLMQRIY---KIEP-KVEHYGCMV  495 (641)
Q Consensus       425 ~~~~~~~~~~~A~~~~~~m~~~g~~-p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---~~~p-~~~~~~~li  495 (641)
                      ..|...|++++|+..|++..+.... ++    ..++..+...|...|++++|.+.+++..+..   +..| ...++..+.
T Consensus       192 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~  271 (383)
T 3ulq_A          192 TNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLIT  271 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHH
Confidence            6666666777666666665542100 11    1255566666667777777777766665411   2212 245566666


Q ss_pred             HHHhhcCCHHHHHHHHHhCC----C--CCC-HHHHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 040576          496 DLLGRAGLMRDSEELVSKLP----M--EAG-PALWGALLSACSTHSN---SELGKIVAQHLMELEPRDPGPYVLLSNIYA  565 (641)
Q Consensus       496 ~~~~~~g~~~~A~~~~~~~~----~--~~~-~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  565 (641)
                      .+|.+.|++++|.+.+++.-    .  .|. ...+..+...+...|+   .++|...+++. ...|.....+..++.+|.
T Consensus       272 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~  350 (383)
T 3ulq_A          272 QIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK-MLYADLEDFAIDVAKYYH  350 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC-cCHHHHHHHHHHHHHHHH
Confidence            67777777777776666541    0  111 1123445555666666   55555555544 222333446667777777


Q ss_pred             hcCChHHHHHHHHHhhh
Q 040576          566 SEGKWDEVENLRRIMKE  582 (641)
Q Consensus       566 ~~g~~~~A~~~~~~m~~  582 (641)
                      ..|++++|.+.+++..+
T Consensus       351 ~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          351 ERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            77777777777777643

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.40  E-value=1.2e-11  Score=122.30  Aligned_cols=262  Identities=10%  Similarity=0.015  Sum_probs=166.6

Q ss_pred             HHHHHHhcCChHHHHHHHHhcCC--C-C----cchHHHHHHHHHHcCChHHHHHHHHHHHHC----CCCC-CHHHHHHHH
Q 040576          291 MIDGYAKIGNVTSARNCFDRMCM--R-N----VVSWNILLALYVRCKDYCECLRLFDRMIRG----DAKP-NEASLMSVL  358 (641)
Q Consensus       291 li~~~~~~~~~~~A~~~~~~~~~--~-~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~ll  358 (641)
                      ....+...|++++|...|+++..  | +    ...|..+...|...|++++|...+++..+.    +..| ....+..+.
T Consensus        11 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~   90 (338)
T 3ro2_A           11 EGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLG   90 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHH
Confidence            34445555566666555555511  1 1    234555666666666666666666655431    1111 123455556


Q ss_pred             HHHHccCCHHHHHHHHHHHHHcCCC-C----chhHHHHHHHHHHhcCC--------------------HHHHHHHHhhcC
Q 040576          359 TACANMGVIDIGQWIHSYIQKCRIK-P----DVLLSTSLLTMYAKCGV--------------------MDLARNVFDNMT  413 (641)
Q Consensus       359 ~~~~~~g~~~~a~~~~~~~~~~~~~-~----~~~~~~~li~~~~~~g~--------------------~~~A~~~~~~~~  413 (641)
                      ..+...|++++|...+....+.... +    ...++..+...|...|+                    +++|.+.+++..
T Consensus        91 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~  170 (338)
T 3ro2_A           91 NTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENL  170 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHH
Confidence            6666667777776666665442100 1    13356667777777777                    777777776653


Q ss_pred             C-----C----ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhhccHHHHHHHHHHhH
Q 040576          414 E-----K----NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGP-TPN----DATFICVLSACTHAGMVLEGWWYFDLMQ  479 (641)
Q Consensus       414 ~-----~----~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~  479 (641)
                      +     .    ....+..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|..++++..
T Consensus       171 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  250 (338)
T 3ro2_A          171 SLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTL  250 (338)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            2     1    134677788888889999999998888765310 111    2367778888889999999999998887


Q ss_pred             HhhCCCCc----hHHHHHHHHHHhhcCCHHHHHHHHHhCC----CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 040576          480 RIYKIEPK----VEHYGCMVDLLGRAGLMRDSEELVSKLP----MEAG----PALWGALLSACSTHSNSELGKIVAQHLM  547 (641)
Q Consensus       480 ~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~  547 (641)
                      ....-..+    ...+..+...|...|++++|.+.+++..    ..++    ..++..+...+...|++++|...+++++
T Consensus       251 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  330 (338)
T 3ro2_A          251 LLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHL  330 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            52211111    4567788889999999999999988761    1122    3366778888999999999999999999


Q ss_pred             hcCCC
Q 040576          548 ELEPR  552 (641)
Q Consensus       548 ~~~p~  552 (641)
                      ++.+.
T Consensus       331 ~~~~~  335 (338)
T 3ro2_A          331 EISRE  335 (338)
T ss_dssp             HC---
T ss_pred             HHHHh
Confidence            87654

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.40  E-value=6.1e-12  Score=136.00  Aligned_cols=163  Identities=15%  Similarity=0.169  Sum_probs=143.1

Q ss_pred             ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHH
Q 040576          416 NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTP-NDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGC  493 (641)
Q Consensus       416 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~  493 (641)
                      +..+|+.|...|.+.|++++|+..|++..+.  .| +...+..+..+|.+.|++++|++.|+++.+   +.|+ ...|..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l--~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~---l~P~~~~a~~n   82 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR---ISPTFADAYSN   82 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHH
Confidence            3467888999999999999999999998885  44 466888899999999999999999999988   4565 778899


Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChH
Q 040576          494 MVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWD  571 (641)
Q Consensus       494 li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  571 (641)
                      +..+|.+.|++++|++.|++. ...| +...|..+..++...|++++|+..|+++++++|+++..+..++.+|...|+|+
T Consensus        83 Lg~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           83 MGNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHH
Confidence            999999999999999999987 3344 46789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhC
Q 040576          572 EVENLRRIMKEK  583 (641)
Q Consensus       572 ~A~~~~~~m~~~  583 (641)
                      +|.+.++++.+.
T Consensus       163 ~A~~~~~kal~l  174 (723)
T 4gyw_A          163 DYDERMKKLVSI  174 (723)
T ss_dssp             THHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999887653

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.39  E-value=1.1e-11  Score=110.89  Aligned_cols=167  Identities=11%  Similarity=0.002  Sum_probs=138.1

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 040576          385 DVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSA  461 (641)
Q Consensus       385 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  461 (641)
                      ++.+|..+...|...|++++|.+.|++..+   .+..+|..+..+|...|++++|+..+.+....... +...+..+...
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~   82 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILGSA   82 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHHHH
Confidence            566788888888888888888888888763   46678888999999999999999999998876432 55677777788


Q ss_pred             HHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCCHHHH
Q 040576          462 CTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PME-AGPALWGALLSACSTHSNSELG  539 (641)
Q Consensus       462 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~g~~~~a  539 (641)
                      +...++++.|...+.+....  .+.+...+..+..+|.+.|++++|++.|++. ... .+...|..+..++...|++++|
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            88999999999999998872  2334677888999999999999999999887 223 4567889999999999999999


Q ss_pred             HHHHHHHHhcCCCCC
Q 040576          540 KIVAQHLMELEPRDP  554 (641)
Q Consensus       540 ~~~~~~~~~~~p~~~  554 (641)
                      +..|+++++++|+++
T Consensus       161 ~~~~~~al~~~p~~a  175 (184)
T 3vtx_A          161 VKYFKKALEKEEKKA  175 (184)
T ss_dssp             HHHHHHHHHTTHHHH
T ss_pred             HHHHHHHHhCCccCH
Confidence            999999999998764

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.38  E-value=4.6e-11  Score=116.75  Aligned_cols=235  Identities=9%  Similarity=0.039  Sum_probs=146.4

Q ss_pred             chHHHHHHHHHHc----CCh----HHHHHHHHHHHHCCCCCCHHHHHHHHHHHH-------ccCCH-------HHHHHHH
Q 040576          317 VSWNILLALYVRC----KDY----CECLRLFDRMIRGDAKPNEASLMSVLTACA-------NMGVI-------DIGQWIH  374 (641)
Q Consensus       317 ~~~~~li~~~~~~----g~~----~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~-------~~g~~-------~~a~~~~  374 (641)
                      ..|...+.--.+.    ++.    ++|..+|++..... +-+...|..++..+.       ..|++       ++|..+|
T Consensus         9 ~~W~~yi~~E~~~~~~~~~~~~~~~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~   87 (308)
T 2ond_A            9 DMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIY   87 (308)
T ss_dssp             HHHHHHHHHHHTCTTCCCCHHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcccCCchHHHHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHH
Confidence            3466666554433    233    56777777777632 334455666665554       24665       7777777


Q ss_pred             HHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-Chh-HHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC
Q 040576          375 SYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE--K-NVV-SWNSMIMGYGMHGQGEKALEMFMEMEKRGPTP  450 (641)
Q Consensus       375 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~-~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p  450 (641)
                      +...+.-.+.+...|..++..+.+.|++++|..+|+++.+  | +.. .|..++..+.+.|++++|..+|++..+... +
T Consensus        88 ~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~  166 (308)
T 2ond_A           88 ERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-T  166 (308)
T ss_dssp             HHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-C
T ss_pred             HHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-C
Confidence            7777631133455677777777777777777777777664  2 233 677777777777777777777777776532 2


Q ss_pred             CHHHHHHHHHHHH-hhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCC----CCC--CHHHH
Q 040576          451 NDATFICVLSACT-HAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLP----MEA--GPALW  523 (641)
Q Consensus       451 ~~~~~~~ll~~~~-~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~--~~~~~  523 (641)
                      +...|........ ..|++++|..+|+.+.+..  +-+...|..++..+.+.|++++|..+|++.-    ..|  ....|
T Consensus       167 ~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~  244 (308)
T 2ond_A          167 RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIW  244 (308)
T ss_dssp             CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHH
T ss_pred             CHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHH
Confidence            3334433322221 2577777777777776622  2235666777777777777777777777651    133  34567


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 040576          524 GALLSACSTHSNSELGKIVAQHLMELEPRDPG  555 (641)
Q Consensus       524 ~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  555 (641)
                      ..++......|+.+.|..+++++.+..|+++.
T Consensus       245 ~~~~~~~~~~g~~~~a~~~~~~a~~~~p~~~~  276 (308)
T 2ond_A          245 ARFLAFESNIGDLASILKVEKRRFTAFREEYE  276 (308)
T ss_dssp             HHHHHHHHHHSCHHHHHHHHHHHHHHTTTTTS
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHcccccc
Confidence            77777777777777777777777777776543

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.38  E-value=1.9e-11  Score=123.76  Aligned_cols=229  Identities=7%  Similarity=-0.017  Sum_probs=173.6

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHHcC--C----CCchhHHH
Q 040576          322 LLALYVRCKDYCECLRLFDRMIRG----DAKP-NEASLMSVLTACANMGVIDIGQWIHSYIQKCR--I----KPDVLLST  390 (641)
Q Consensus       322 li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--~----~~~~~~~~  390 (641)
                      ....+...|++++|+..|++..+.    +-.+ ...++..+...+...|+++.|...+....+..  .    +....+++
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            455677888888888888888763    1111 23467777788888888888888888776531  1    11245777


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCC-----CC----hhHHHHHHHHHHHcCChHHHHHHHHHHHHC----CCCCC-HHHHH
Q 040576          391 SLLTMYAKCGVMDLARNVFDNMTE-----KN----VVSWNSMIMGYGMHGQGEKALEMFMEMEKR----GPTPN-DATFI  456 (641)
Q Consensus       391 ~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~~~~~~A~~~~~~m~~~----g~~p~-~~~~~  456 (641)
                      .+..+|...|++++|...|++..+     ++    ..++..+...|...|++++|+..|++..+.    +..|+ ..++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            888899999999999999887763     22    247888999999999999999999998772    33233 45788


Q ss_pred             HHHHHHHhhccHHHHHHHHHHhHHhhC---CCCchHHHHHHHHHHhhcCC---HHHHHHHHHhCCCCCCH-HHHHHHHHH
Q 040576          457 CVLSACTHAGMVLEGWWYFDLMQRIYK---IEPKVEHYGCMVDLLGRAGL---MRDSEELVSKLPMEAGP-ALWGALLSA  529 (641)
Q Consensus       457 ~ll~~~~~~g~~~~a~~~~~~~~~~~~---~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~~~~-~~~~~l~~~  529 (641)
                      .+...+...|++++|...+++..+...   -+.....+..+...|...|+   +++|+.++++....|+. ..+..+...
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~  348 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAIDVAKY  348 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence            899999999999999999999876221   11123345678888999999   99999999998644443 366778888


Q ss_pred             HHhcCCHHHHHHHHHHHHhcC
Q 040576          530 CSTHSNSELGKIVAQHLMELE  550 (641)
Q Consensus       530 ~~~~g~~~~a~~~~~~~~~~~  550 (641)
                      |...|++++|...+++++++.
T Consensus       349 y~~~g~~~~A~~~~~~al~~~  369 (383)
T 3ulq_A          349 YHERKNFQKASAYFLKVEQVR  369 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHH
Confidence            999999999999999998754

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.36  E-value=1.4e-12  Score=127.66  Aligned_cols=235  Identities=12%  Similarity=0.106  Sum_probs=119.2

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHHC-------CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHc------CC-
Q 040576          317 VSWNILLALYVRCKDYCECLRLFDRMIRG-------DAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKC------RI-  382 (641)
Q Consensus       317 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~-------g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~------~~-  382 (641)
                      .+|..+...|...|++++|..+++++.+.       ........+..+...+...|++++|...++.+.+.      +- 
T Consensus        28 ~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  107 (311)
T 3nf1_A           28 RTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDH  107 (311)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCC
Confidence            45777778888888888888888887662       11222345556666666677777777666665543      11 


Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHC------CCCCC-HHHH
Q 040576          383 KPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKR------GPTPN-DATF  455 (641)
Q Consensus       383 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~------g~~p~-~~~~  455 (641)
                      +....++..+...|...|++++|...|+                               ++.+.      +-.|+ ...+
T Consensus       108 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~-------------------------------~a~~~~~~~~~~~~~~~~~~~  156 (311)
T 3nf1_A          108 PAVAATLNNLAVLYGKRGKYKEAEPLCK-------------------------------RALEIREKVLGKDHPDVAKQL  156 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHH-------------------------------HHHHHHHHHHCTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCcHHHHHHHHH-------------------------------HHHHHHHHhcCCCChHHHHHH
Confidence            1123344444555555555555555444                               44332      11111 2234


Q ss_pred             HHHHHHHHhhccHHHHHHHHHHhHHhh-----CCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhCC----------CCCC
Q 040576          456 ICVLSACTHAGMVLEGWWYFDLMQRIY-----KIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKLP----------MEAG  519 (641)
Q Consensus       456 ~~ll~~~~~~g~~~~a~~~~~~~~~~~-----~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~----------~~~~  519 (641)
                      ..+...+...|++++|.++++++.+..     +..|. ...+..+..+|...|++++|.+.++++.          ..+.
T Consensus       157 ~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  236 (311)
T 3nf1_A          157 NNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDE  236 (311)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC-----
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcc
Confidence            444555555555555555555554410     11121 3344455555555555555555555431          0000


Q ss_pred             -------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          520 -------PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       520 -------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                             ...+..+...+...+.+.++...++.+....|..+..+..++.+|.+.|++++|.+.+++..+
T Consensus       237 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          237 NKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             -CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                   111112222234445555566666666666777777888888888888888888888887743

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.35  E-value=2.5e-10  Score=111.52  Aligned_cols=245  Identities=10%  Similarity=0.004  Sum_probs=168.9

Q ss_pred             HHHHHHHHHHHHcCCCCchhHHHHHHHHHH-------hcCCH-------HHHHHHHhhcCC---C-ChhHHHHHHHHHHH
Q 040576          368 DIGQWIHSYIQKCRIKPDVLLSTSLLTMYA-------KCGVM-------DLARNVFDNMTE---K-NVVSWNSMIMGYGM  429 (641)
Q Consensus       368 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~-------~~g~~-------~~A~~~~~~~~~---~-~~~~~~~li~~~~~  429 (641)
                      +.|..+|+.+.+.. +.+...|..++..+.       ..|++       ++|..+|++..+   | +...|..++..+..
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            56777787777753 456677777777665       34775       888888887654   2 44578888888888


Q ss_pred             cCChHHHHHHHHHHHHCCCCCC-HH-HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHh-hcCCHHH
Q 040576          430 HGQGEKALEMFMEMEKRGPTPN-DA-TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLG-RAGLMRD  506 (641)
Q Consensus       430 ~~~~~~A~~~~~~m~~~g~~p~-~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~-~~g~~~~  506 (641)
                      .|++++|..+|+++.+.  .|+ .. .|..++..+.+.|++++|..+|+++.+ . .+++...|...+.... ..|++++
T Consensus       112 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~-~-~p~~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARE-D-ARTRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             TTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHT-S-TTCCTHHHHHHHHHHHHTSCCHHH
T ss_pred             cCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHh-c-CCCCHHHHHHHHHHHHHHcCCHHH
Confidence            88999999999888874  443 33 677888888888889999988888876 1 1233445544433322 3688888


Q ss_pred             HHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc---CCC-CCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          507 SEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMEL---EPR-DPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       507 A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      |.++|++. . .+.+...|..++..+...|++++|..+|+++++.   .|+ ....|..++..+.+.|++++|..+++++
T Consensus       188 A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          188 AFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            88888876 1 1235677888888888888999999999988885   443 5567888888888889999998888888


Q ss_pred             hhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHH
Q 040576          581 KEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLG  621 (641)
Q Consensus       581 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~  621 (641)
                      .+..+..............  -++..++|++.+  ...-||
T Consensus       268 ~~~~p~~~~~~~~~~~~~r--~~~l~~~P~~~~--~ln~lg  304 (308)
T 2ond_A          268 FTAFREEYEGKETALLVDR--YKFMDLYPCSAS--ELKALG  304 (308)
T ss_dssp             HHHTTTTTSSCHHHHHHTT--TCBTTBCSSCHH--HHHTTT
T ss_pred             HHHcccccccchHHHHHHH--HHhcccCCCCHH--HHHhcC
Confidence            7766543222111101000  123567888877  544443

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.35  E-value=3.3e-09  Score=113.30  Aligned_cols=434  Identities=10%  Similarity=0.030  Sum_probs=279.7

Q ss_pred             CCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCC---HHHH
Q 040576          135 NDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGE---VLDA  211 (641)
Q Consensus       135 g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~---~~~A  211 (641)
                      ....+.+..|++.+...  +-|..+|..++..+.+.+.++.++.+++.+... ++.....|...+..-.+.|.   ++.+
T Consensus        46 ~~~~d~i~~lE~~l~~n--p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v  122 (679)
T 4e6h_A           46 RDESDVIGKLNDMIEEQ--PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVI  122 (679)
T ss_dssp             CCCSCHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHH
T ss_pred             cCCHHHHHHHHHHHHHC--cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHH
Confidence            34566676777566664  568889999999999999999999999999987 46677889999999888888   9999


Q ss_pred             HHHHhcCC-----CCCeeHHHHHHHHHHhCCCh--------HHHHHHHhhC-----C-CCC-chhHHHHHHHHhc-----
Q 040576          212 RKVFEDGP-----VWDLVTWNSMIDGYVKNREV--------GFARELFDFM-----P-ERD-IFTWNSMISGYVD-----  266 (641)
Q Consensus       212 ~~~~~~~~-----~~~~~~~~~li~~~~~~g~~--------~~A~~~~~~m-----~-~~~-~~~~~~ll~~~~~-----  266 (641)
                      .++|++..     .+++..|...+.-..+.++.        +.+.++|+..     . .++ ...|...+.-...     
T Consensus       123 ~~lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~  202 (679)
T 4e6h_A          123 EPVLARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVN  202 (679)
T ss_dssp             HHHHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCS
T ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccC
Confidence            99999833     26777888887766555543        2333566653     2 333 2355555543321     


Q ss_pred             ----CCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHHHHH
Q 040576          267 ----VGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRM  342 (641)
Q Consensus       267 ----~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  342 (641)
                          .++++.+..+|+.+......-+..+-..|..   ++..       .  +..+...++.-  ...+++.|...+.++
T Consensus       203 ~~eeq~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~---fe~~-------~--~~~~a~~~~~e--~~~~y~~Ar~~~~e~  268 (679)
T 4e6h_A          203 KFEEQQRVQYIRKLYKTLLCQPMDCLESMWQRYTQ---WEQD-------V--NQLTARRHIGE--LSAQYMNARSLYQDW  268 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTSCCSSHHHHHHHHHH---HHHH-------H--CTTTHHHHHHH--HHHHHHHHHHHHHHH
T ss_pred             cHHHHhHHHHHHHHHHHHHhCccHHHHHHHHHHHH---HHHh-------c--CcchHHHHHHH--hhHHHHHHHHHHHHH
Confidence                2345566677776664211111111111111   0000       0  01111111111  112344444555443


Q ss_pred             HH--CCCC---------------C-----C---HHHHHHHHHHHHccC-------CHHHHHHHHHHHHHcCCCCchhHHH
Q 040576          343 IR--GDAK---------------P-----N---EASLMSVLTACANMG-------VIDIGQWIHSYIQKCRIKPDVLLST  390 (641)
Q Consensus       343 ~~--~g~~---------------p-----~---~~~~~~ll~~~~~~g-------~~~~a~~~~~~~~~~~~~~~~~~~~  390 (641)
                      ..  .++.               |     +   ...|...+.---..+       ..+.+..+|++.+.. ++....+|-
T Consensus       269 ~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~  347 (679)
T 4e6h_A          269 LNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWF  347 (679)
T ss_dssp             HHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHH
T ss_pred             HHHHHhHhhccccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHH
Confidence            22  1111               1     1   123433333222221       123456678888775 355778888


Q ss_pred             HHHHHHHhcCCHHHHH-HHHhhcCC--C-ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCC---------CCC------
Q 040576          391 SLLTMYAKCGVMDLAR-NVFDNMTE--K-NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGP---------TPN------  451 (641)
Q Consensus       391 ~li~~~~~~g~~~~A~-~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~---------~p~------  451 (641)
                      ..+..+...|+.++|. ++|++...  | +...|...+....+.|++++|..+|+++.+...         .|+      
T Consensus       348 ~ya~~~~~~~~~~~a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~  427 (679)
T 4e6h_A          348 NMANYQGEKNTDSTVITKYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAIN  427 (679)
T ss_dssp             HHHHHHHHHSCCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHH
T ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhh
Confidence            8888888899999996 99988764  3 555678888889999999999999999886410         132      


Q ss_pred             ------HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhc-CCHHHHHHHHHhC--CCCCCHHH
Q 040576          452 ------DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRA-GLMRDSEELVSKL--PMEAGPAL  522 (641)
Q Consensus       452 ------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~-g~~~~A~~~~~~~--~~~~~~~~  522 (641)
                            ...|...+....+.|+.+.|..+|..+.+..+ ......|...+..-.+. ++.+.|..+|+..  ....+...
T Consensus       428 ~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~~~  506 (679)
T 4e6h_A          428 QLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKK-LVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFATDGEY  506 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTCHHH
T ss_pred             hhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCchHH
Confidence                  23567777777888999999999999988201 11234444444433444 4589999999876  22345667


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCC---CCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcc
Q 040576          523 WGALLSACSTHSNSELGKIVAQHLMELEPR---DPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEK  587 (641)
Q Consensus       523 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  587 (641)
                      |...+......|+.+.|..+|++++...|+   ....|...+..-.+.|+.+.+.++.+++.+..+..
T Consensus       507 w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~  574 (679)
T 4e6h_A          507 INKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEV  574 (679)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            778888888899999999999999998874   34567777777788999999999999997766543

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.35  E-value=2.9e-11  Score=108.02  Aligned_cols=161  Identities=11%  Similarity=-0.024  Sum_probs=103.5

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHh
Q 040576          420 WNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLG  499 (641)
Q Consensus       420 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~  499 (641)
                      |..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|..+++++.+.  .+.+...+..++..+.
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~   87 (186)
T 3as5_A           11 YRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHH
Confidence            4444555555555555555555554432 123445555555566666666666666665551  1223455556666666


Q ss_pred             hcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHH
Q 040576          500 RAGLMRDSEELVSKL--PMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLR  577 (641)
Q Consensus       500 ~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  577 (641)
                      ..|++++|.+.++++  ..+.+...+..+...+...|++++|...++++++..|+++..+..++.+|...|++++|.+.+
T Consensus        88 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  167 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPHF  167 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHHH
Confidence            666666666666654  122345667777777888888888888888888888888888888888888888888888888


Q ss_pred             HHhhhC
Q 040576          578 RIMKEK  583 (641)
Q Consensus       578 ~~m~~~  583 (641)
                      +++.+.
T Consensus       168 ~~~~~~  173 (186)
T 3as5_A          168 KKANEL  173 (186)
T ss_dssp             HHHHHH
T ss_pred             HHHHHc
Confidence            887543

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.35  E-value=8.3e-10  Score=111.10  Aligned_cols=261  Identities=9%  Similarity=-0.040  Sum_probs=162.8

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCCCCHH----HHHHHHHHHHccCCHHHHHHHHHHHHHcCC---CC--chhHHHHH
Q 040576          322 LLALYVRCKDYCECLRLFDRMIRGDAKPNEA----SLMSVLTACANMGVIDIGQWIHSYIQKCRI---KP--DVLLSTSL  392 (641)
Q Consensus       322 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~---~~--~~~~~~~l  392 (641)
                      ....+...|++++|...+++........+..    .+..+...+...|+++.|...+.......-   .+  ....+..+
T Consensus        20 ~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   99 (373)
T 1hz4_A           20 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   99 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            3344556677777777777666543222221    344445556667777777777666554210   01  12234556


Q ss_pred             HHHHHhcCCHHHHHHHHhhcCC-------C----ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCC--C--CHHHHHH
Q 040576          393 LTMYAKCGVMDLARNVFDNMTE-------K----NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPT--P--NDATFIC  457 (641)
Q Consensus       393 i~~~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~--p--~~~~~~~  457 (641)
                      ...+...|++++|...+++..+       +    ....+..+...+...|++++|...+++..+....  +  ...++..
T Consensus       100 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  179 (373)
T 1hz4_A          100 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  179 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHH
Confidence            6677777888877777776542       1    1234566777788888888888888887653221  1  1245666


Q ss_pred             HHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHH-----HHHHHHhhcCCHHHHHHHHHhCC-CCCC-----HHHHHHH
Q 040576          458 VLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYG-----CMVDLLGRAGLMRDSEELVSKLP-MEAG-----PALWGAL  526 (641)
Q Consensus       458 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~-----~li~~~~~~g~~~~A~~~~~~~~-~~~~-----~~~~~~l  526 (641)
                      +...+...|++++|...+++......-......+.     ..+..+...|++++|...+++.. ..|.     ...+..+
T Consensus       180 la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~l  259 (373)
T 1hz4_A          180 LIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNI  259 (373)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHH
Confidence            77778888888888888888765222111111111     23344678888888888888772 1121     2245566


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCC------CchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          527 LSACSTHSNSELGKIVAQHLMELEPRD------PGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       527 ~~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      ...+...|++++|...++++.+..+..      ...+..++.+|...|++++|...+++..+
T Consensus       260 a~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          260 ARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            777888888888888888887654321      13566778888888888888888888754

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.32  E-value=9.7e-12  Score=121.56  Aligned_cols=238  Identities=12%  Similarity=0.067  Sum_probs=151.1

Q ss_pred             chHHHHHHHHHHhcCChHHHHHHHHhcCC--------C---CcchHHHHHHHHHHcCChHHHHHHHHHHHHC------CC
Q 040576          285 VVSWNCMIDGYAKIGNVTSARNCFDRMCM--------R---NVVSWNILLALYVRCKDYCECLRLFDRMIRG------DA  347 (641)
Q Consensus       285 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~--------~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~  347 (641)
                      ..++..+...+...|++++|..+|+++..        .   ....+..+...|...|++++|...+++..+.      +-
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            56788999999999999999999998843        1   2356788899999999999999999998764      22


Q ss_pred             CC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHHc------CCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHH
Q 040576          348 KP-NEASLMSVLTACANMGVIDIGQWIHSYIQKC------RIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSW  420 (641)
Q Consensus       348 ~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~------~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~  420 (641)
                      .| ....+..+...+...|++++|...++.+.+.      +..+.                              ....+
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~------------------------------~~~~~  156 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPD------------------------------VAKQL  156 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHH------------------------------HHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChH------------------------------HHHHH
Confidence            23 3457788888999999999999999888764      11111                              12234


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHC------CCCCC-HHHHHHHHHHHHhhccHHHHHHHHHHhHHhh------CCCCc
Q 040576          421 NSMIMGYGMHGQGEKALEMFMEMEKR------GPTPN-DATFICVLSACTHAGMVLEGWWYFDLMQRIY------KIEPK  487 (641)
Q Consensus       421 ~~li~~~~~~~~~~~A~~~~~~m~~~------g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~------~~~p~  487 (641)
                      ..+...|...|++++|+.+|+++.+.      +..|+ ..++..+...+...|++++|.++++++.+..      ...+.
T Consensus       157 ~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  236 (311)
T 3nf1_A          157 NNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDE  236 (311)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC-----
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcc
Confidence            44455555555555555555555442      11222 2355666667777777777777777766411      11111


Q ss_pred             -------hHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 040576          488 -------VEHYGCMVDLLGRAGLMRDSEELVSKLP-MEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPR  552 (641)
Q Consensus       488 -------~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  552 (641)
                             ...+..+...+...+.+.+|...++... ..|+ ..++..+..+|...|++++|...+++++++.|.
T Consensus       237 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          237 NKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             -CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             hHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence                   1122223333445555566666666653 2233 456788888999999999999999999988765

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.30  E-value=2.2e-11  Score=131.61  Aligned_cols=157  Identities=10%  Similarity=0.075  Sum_probs=141.4

Q ss_pred             CCC-HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHH
Q 040576          449 TPN-DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG-PALWG  524 (641)
Q Consensus       449 ~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~  524 (641)
                      .|+ ...|+.+...+.+.|++++|++.|+++.+   +.|+ ...|..+..+|.+.|++++|++.|++. ...|+ ...|.
T Consensus         5 ~P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~---l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~~~~a~~   81 (723)
T 4gyw_A            5 CPTHADSLNNLANIKREQGNIEEAVRLYRKALE---VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYS   81 (723)
T ss_dssp             -CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHH
Confidence            454 45899999999999999999999999988   4565 788999999999999999999999987 33454 77899


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccc
Q 040576          525 ALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESI  604 (641)
Q Consensus       525 ~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~  604 (641)
                      .+..++...|++++|+..|+++++++|+++..|..++.+|.+.|++++|++.+++.                        
T Consensus        82 nLg~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~A------------------------  137 (723)
T 4gyw_A           82 NMGNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTA------------------------  137 (723)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH------------------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH------------------------
Confidence            99999999999999999999999999999999999999999999999999999999                        


Q ss_pred             cccCCCCchhhHHHHHHHHHHHHHhhhccc
Q 040576          605 VENCPPHRKCIVYSMLGEIGAQMKMCRRDV  634 (641)
Q Consensus       605 ~~~~p~~~~~~~~~~l~~l~~~~~~~~~~~  634 (641)
                      .+++|++..  ++..|+.++..+++..++.
T Consensus       138 l~l~P~~~~--a~~~L~~~l~~~g~~~~A~  165 (723)
T 4gyw_A          138 LKLKPDFPD--AYCNLAHCLQIVCDWTDYD  165 (723)
T ss_dssp             HHHCSCCHH--HHHHHHHHHHHTTCCTTHH
T ss_pred             HHhCCCChH--HHhhhhhHHHhcccHHHHH
Confidence            788999999  9999999998888776654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.29  E-value=1.1e-10  Score=117.84  Aligned_cols=221  Identities=8%  Similarity=-0.057  Sum_probs=125.5

Q ss_pred             HHccCCHHHHHHHHHHHHHcC--CC---CchhHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CC-----hhHHHHHHH
Q 040576          361 CANMGVIDIGQWIHSYIQKCR--IK---PDVLLSTSLLTMYAKCGVMDLARNVFDNMTE-----KN-----VVSWNSMIM  425 (641)
Q Consensus       361 ~~~~g~~~~a~~~~~~~~~~~--~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~-----~~~~~~li~  425 (641)
                      +...|++++|...+....+..  ..   ....++..+..+|...|+++.|...+++..+     ++     ..+++.+..
T Consensus       111 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~  190 (378)
T 3q15_A          111 EFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAG  190 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHH
Confidence            445555555555555554321  00   0133455556666666666666665554431     11     235566667


Q ss_pred             HHHHcCChHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhhccHHHHHHHHHHhHHhh---CCCCchHHHHHHHHH
Q 040576          426 GYGMHGQGEKALEMFMEMEKR----GPTP-NDATFICVLSACTHAGMVLEGWWYFDLMQRIY---KIEPKVEHYGCMVDL  497 (641)
Q Consensus       426 ~~~~~~~~~~A~~~~~~m~~~----g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---~~~p~~~~~~~li~~  497 (641)
                      .|...|++++|+..|++..+.    +-.+ ...++..+...+...|++++|.+.+++.....   +.+....++..+..+
T Consensus       191 ~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  270 (378)
T 3q15_A          191 NYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWT  270 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHH
Confidence            777777777777777665542    1111 12355666667777777777777777765411   222224556667777


Q ss_pred             HhhcCCHHHHHHHHHhC----CC--CCC-HHHHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc
Q 040576          498 LGRAGLMRDSEELVSKL----PM--EAG-PALWGALLSACSTHSN---SELGKIVAQHLMELEPRDPGPYVLLSNIYASE  567 (641)
Q Consensus       498 ~~~~g~~~~A~~~~~~~----~~--~~~-~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  567 (641)
                      |.+.|++++|.+.+++.    +.  .+. ...+..+...+...++   +++|...+++. ...|.....+..++.+|...
T Consensus       271 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~  349 (378)
T 3q15_A          271 LCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEACARSAAAVFESS  349 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHHHHHHHHHHHHHC
Confidence            77777777777777664    11  222 2234444445566666   56666555541 11233334666788888888


Q ss_pred             CChHHHHHHHHHhhh
Q 040576          568 GKWDEVENLRRIMKE  582 (641)
Q Consensus       568 g~~~~A~~~~~~m~~  582 (641)
                      |++++|.+.+++..+
T Consensus       350 g~~~~A~~~~~~al~  364 (378)
T 3q15_A          350 CHFEQAAAFYRKVLK  364 (378)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            888888888877643

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.29  E-value=2.7e-10  Score=108.31  Aligned_cols=206  Identities=9%  Similarity=-0.005  Sum_probs=135.2

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-C---hhHHHHHHHHHHHcCChHHHHHHHHHHHHCCC-CCC-HHHHH
Q 040576          385 DVLLSTSLLTMYAKCGVMDLARNVFDNMTE--K-N---VVSWNSMIMGYGMHGQGEKALEMFMEMEKRGP-TPN-DATFI  456 (641)
Q Consensus       385 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~---~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~-~p~-~~~~~  456 (641)
                      +...+-.+...+.+.|++++|...|+++.+  | +   ...+..+..+|.+.|++++|+..|++..+... .|. ...+.
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            445555566666677777777777776653  2 2   34566666777777777777777777766422 112 23455


Q ss_pred             HHHHHHHh--------hccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHH
Q 040576          457 CVLSACTH--------AGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALL  527 (641)
Q Consensus       457 ~ll~~~~~--------~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~  527 (641)
                      .+..++..        .|++++|...|+++.+.   .|+ ......+.......+.+               ...+..+.
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~p~~~~~~~a~~~~~~~~~~~---------------~~~~~~la  155 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR---YPNHELVDDATQKIRELRAKL---------------ARKQYEAA  155 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH---CTTCTTHHHHHHHHHHHHHHH---------------HHHHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHH---CcCchhHHHHHHHHHHHHHHH---------------HHHHHHHH
Confidence            55566666        67777777777776662   232 12221111111000000               11245677


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCC---chHHHHHHHHHhc----------CChHHHHHHHHHhhhCCCcccCceEEE
Q 040576          528 SACSTHSNSELGKIVAQHLMELEPRDP---GPYVLLSNIYASE----------GKWDEVENLRRIMKEKELEKAVGSSLV  594 (641)
Q Consensus       528 ~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~----------g~~~~A~~~~~~m~~~~~~~~~~~~~~  594 (641)
                      ..+...|++++|+..++++++..|+++   ..+..++.+|...          |++++|...++++              
T Consensus       156 ~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~--------------  221 (261)
T 3qky_A          156 RLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERL--------------  221 (261)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHH--------------
T ss_pred             HHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHH--------------
Confidence            889999999999999999999999854   4788999999877          9999999999999              


Q ss_pred             EeeeeecccccccCCCCc---hhhHHHHHHHHHHHHHhhhccc
Q 040576          595 HPGEFASESIVENCPPHR---KCIVYSMLGEIGAQMKMCRRDV  634 (641)
Q Consensus       595 ~~~~~~~~~~~~~~p~~~---~~~~~~~l~~l~~~~~~~~~~~  634 (641)
                                .+..|++.   .  ....|+.+...+++..+..
T Consensus       222 ----------~~~~p~~~~~~~--a~~~l~~~~~~~~~~~~~~  252 (261)
T 3qky_A          222 ----------LQIFPDSPLLRT--AEELYTRARQRLTELEGDA  252 (261)
T ss_dssp             ----------HHHCTTCTHHHH--HHHHHHHHHHHHHHHHTCT
T ss_pred             ----------HHHCCCChHHHH--HHHHHHHHHHHHHHhhhhh
Confidence                      56677774   5  6777888888887776553

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.28  E-value=1.9e-10  Score=106.85  Aligned_cols=205  Identities=11%  Similarity=0.016  Sum_probs=161.6

Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHH
Q 040576          349 PNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIM  425 (641)
Q Consensus       349 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~  425 (641)
                      .|+..+......+...|++++|...|+...+...+++...+..+..+|...|++++|...|++..+   .+...|..+..
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   84 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSA   84 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHH
Confidence            456788888899999999999999999999987446777777799999999999999999998874   34568899999


Q ss_pred             HHHHcCChHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc---hHHHHHHH
Q 040576          426 GYGMHGQGEKALEMFMEMEKRGPTPND-------ATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK---VEHYGCMV  495 (641)
Q Consensus       426 ~~~~~~~~~~A~~~~~~m~~~g~~p~~-------~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~li  495 (641)
                      +|...|++++|+..|++..+.... +.       ..|..+...+...|++++|++.|+++.+   ..|+   ...+..+.
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~~~l~  160 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD---VTSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SSCHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh---cCCCcccHHHHHHHH
Confidence            999999999999999999986322 34       4577788888999999999999999977   5565   56777888


Q ss_pred             HHHhhcCCH--HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 040576          496 DLLGRAGLM--RDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIY  564 (641)
Q Consensus       496 ~~~~~~g~~--~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  564 (641)
                      .+|...|+.  ++|..+    . ..+...+....  ....+.+++|...++++++++|+++.....+..+.
T Consensus       161 ~~~~~~~~~~~~~a~~~----~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i~  224 (228)
T 4i17_A          161 VLFYNNGADVLRKATPL----A-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQVK  224 (228)
T ss_dssp             HHHHHHHHHHHHHHGGG----T-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhc----c-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHH
Confidence            888766643  222221    1 22344444333  34556799999999999999999988877776654

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.28  E-value=2.9e-10  Score=101.39  Aligned_cols=168  Identities=9%  Similarity=-0.072  Sum_probs=143.2

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 040576          386 VLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSAC  462 (641)
Q Consensus       386 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  462 (641)
                      ...+..+...+...|++++|...|+++.+   .+...+..+...+...|++++|...++++.+.. +.+...+..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            44566778889999999999999999875   466788899999999999999999999998863 33667888889999


Q ss_pred             HhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHH
Q 040576          463 THAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGK  540 (641)
Q Consensus       463 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~  540 (641)
                      ...|++++|.++++++.+.  .+.+...+..+...+...|++++|.+.++++ . ...+...+..+...+...|++++|.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHH
Confidence            9999999999999999872  3345778888999999999999999999987 2 2345778889999999999999999


Q ss_pred             HHHHHHHhcCCCCCch
Q 040576          541 IVAQHLMELEPRDPGP  556 (641)
Q Consensus       541 ~~~~~~~~~~p~~~~~  556 (641)
                      ..++++++..|+++..
T Consensus       165 ~~~~~~~~~~~~~~~~  180 (186)
T 3as5_A          165 PHFKKANELDEGASVE  180 (186)
T ss_dssp             HHHHHHHHHHHCCCGG
T ss_pred             HHHHHHHHcCCCchhh
Confidence            9999999999887643

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.25  E-value=1.3e-09  Score=109.80  Aligned_cols=228  Identities=11%  Similarity=0.046  Sum_probs=171.1

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHHcCC-----CC-chhHH
Q 040576          321 ILLALYVRCKDYCECLRLFDRMIRGDA-KPN----EASLMSVLTACANMGVIDIGQWIHSYIQKCRI-----KP-DVLLS  389 (641)
Q Consensus       321 ~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-----~~-~~~~~  389 (641)
                      .....+...|++++|+..|++..+... .++    ..++..+...+...|+++.|...+....+...     .+ ...++
T Consensus       106 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  185 (378)
T 3q15_A          106 FRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSL  185 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHH
Confidence            344556788888888888888875311 122    34567777788888888888888887765311     11 24567


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcCC-----CC----hhHHHHHHHHHHHcCChHHHHHHHHHHHH-----CCCCCCHHHH
Q 040576          390 TSLLTMYAKCGVMDLARNVFDNMTE-----KN----VVSWNSMIMGYGMHGQGEKALEMFMEMEK-----RGPTPNDATF  455 (641)
Q Consensus       390 ~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~~~~~~A~~~~~~m~~-----~g~~p~~~~~  455 (641)
                      +.+..+|...|++++|.+.|++..+     ++    ..++..+..+|...|++++|+..|++..+     .... ...++
T Consensus       186 ~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~-~~~~~  264 (378)
T 3q15_A          186 FVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDL-LPKVL  264 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGG-HHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChh-HHHHH
Confidence            7888889999999999998887653     22    24678889999999999999999999877     4322 35678


Q ss_pred             HHHHHHHHhhccHHHHHHHHHHhHHhhCCC--C-chHHHHHHHHHHhhcCC---HHHHHHHHHhCCCCCCH-HHHHHHHH
Q 040576          456 ICVLSACTHAGMVLEGWWYFDLMQRIYKIE--P-KVEHYGCMVDLLGRAGL---MRDSEELVSKLPMEAGP-ALWGALLS  528 (641)
Q Consensus       456 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~--p-~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~~~~-~~~~~l~~  528 (641)
                      ..+...+.+.|++++|..++++..+...-.  | ....+..+...|...|+   +.+|+..+++....|+. ..+..+..
T Consensus       265 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~  344 (378)
T 3q15_A          265 FGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAA  344 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            888999999999999999999998733221  2 24456677778888888   99999999997544443 35667888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhc
Q 040576          529 ACSTHSNSELGKIVAQHLMEL  549 (641)
Q Consensus       529 ~~~~~g~~~~a~~~~~~~~~~  549 (641)
                      .|...|++++|...++++++.
T Consensus       345 ~y~~~g~~~~A~~~~~~al~~  365 (378)
T 3q15_A          345 VFESSCHFEQAAAFYRKVLKA  365 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHH
Confidence            899999999999999998764

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.24  E-value=1.4e-11  Score=105.96  Aligned_cols=142  Identities=10%  Similarity=-0.022  Sum_probs=115.5

Q ss_pred             HHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcC
Q 040576          458 VLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHS  534 (641)
Q Consensus       458 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g  534 (641)
                      |...+...|++++|++.++....   ..|+ ...+..+...|.+.|++++|++.|++. ...| +...|..+..++...|
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~---~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~   79 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTP---SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEE   79 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSC---SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHcChHHHHHHHHHHhcc---cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            44566778899999998888755   3444 445667889999999999999999987 3334 5778999999999999


Q ss_pred             CHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHH-HHHhhhCCCcccCceEEEEeeeeecccccccCCCCch
Q 040576          535 NSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENL-RRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRK  613 (641)
Q Consensus       535 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~-~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~  613 (641)
                      ++++|+..|+++++++|+++.+|..++.+|.+.|++++|.+. +++.                        .+++|++..
T Consensus        80 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~a------------------------l~l~P~~~~  135 (150)
T 4ga2_A           80 NTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERA------------------------AKLFPGSPA  135 (150)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHH------------------------HHHSTTCHH
T ss_pred             chHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH------------------------HHhCcCCHH
Confidence            999999999999999999999999999999999999887765 5777                        788999999


Q ss_pred             hhHHHHHHHHHHHHH
Q 040576          614 CIVYSMLGEIGAQMK  628 (641)
Q Consensus       614 ~~~~~~l~~l~~~~~  628 (641)
                        ++...++|....+
T Consensus       136 --~~~l~~~ll~~~G  148 (150)
T 4ga2_A          136 --VYKLKEQLLDCEG  148 (150)
T ss_dssp             --HHHHHHHHHHTCC
T ss_pred             --HHHHHHHHHHHhC
Confidence              9988888765443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.22  E-value=1.8e-09  Score=102.24  Aligned_cols=236  Identities=10%  Similarity=0.029  Sum_probs=160.3

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCH
Q 040576          323 LALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVM  402 (641)
Q Consensus       323 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  402 (641)
                      |+-..-.|.+..++.-..++.   .........-+.+++...|+++..         ..-.|....+..+.. |...+  
T Consensus        20 ikn~fy~G~yq~~i~e~~~~~---~~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~-~~~~~--   84 (310)
T 3mv2_B           20 IKQNYYTGNFVQCLQEIEKFS---KVTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQ-FLDTK--   84 (310)
T ss_dssp             HHHHHTTTCHHHHTHHHHTSS---CCCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHH-HHTTT--
T ss_pred             HHHHHHhhHHHHHHHHHHhcC---ccchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHH-Hhccc--
Confidence            344556677777776333221   112222333344566666655421         111233323333333 33322  


Q ss_pred             HHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhhccHHHHHHHHHHh
Q 040576          403 DLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTP-NDATFICVLSACTHAGMVLEGWWYFDLM  478 (641)
Q Consensus       403 ~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~  478 (641)
                        |...|++..+   ++..++..+..++...|++++|++++.+....|..+ +...+..++..+.+.|+.+.|.+.++.|
T Consensus        85 --a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           85 --NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             --CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             --HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence              6777777663   455666788889999999999999999987765423 4557778889999999999999999999


Q ss_pred             HHhhCCCC-----chHHHHHHHHH--Hhh--cCCHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040576          479 QRIYKIEP-----KVEHYGCMVDL--LGR--AGLMRDSEELVSKLP-MEAGPALWGALLSACSTHSNSELGKIVAQHLME  548 (641)
Q Consensus       479 ~~~~~~~p-----~~~~~~~li~~--~~~--~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  548 (641)
                      .+   ..|     +..+...|+.+  ...  .+++.+|..+|+++. ..|+...-..++.++...|++++|+..++.+.+
T Consensus       163 ~~---~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          163 TN---AIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH---HSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             Hh---cCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            87   456     34455555555  333  348999999999983 346534444555589999999999999998887


Q ss_pred             c----------CCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          549 L----------EPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       549 ~----------~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      .          +|+++.++..++.+....|+  +|.++++++
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL  279 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQL  279 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHH
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHH
Confidence            6          58899999888878788887  899999999

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.20  E-value=2.1e-10  Score=111.04  Aligned_cols=200  Identities=10%  Similarity=-0.012  Sum_probs=145.2

Q ss_pred             CHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CC----hhHHHHHHHHHHHcCChHHH
Q 040576          366 VIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE-----KN----VVSWNSMIMGYGMHGQGEKA  436 (641)
Q Consensus       366 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~~~~~~A  436 (641)
                      ++++|...+...               ...|...|++++|...|++..+     .+    ..+|+.+..+|...|++++|
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A   96 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            477777776665               3467778888888888876653     11    45788899999999999999


Q ss_pred             HHHHHHHHHCCC---CCC--HHHHHHHHHHHHhh-ccHHHHHHHHHHhHHhhCCCCc----hHHHHHHHHHHhhcCCHHH
Q 040576          437 LEMFMEMEKRGP---TPN--DATFICVLSACTHA-GMVLEGWWYFDLMQRIYKIEPK----VEHYGCMVDLLGRAGLMRD  506 (641)
Q Consensus       437 ~~~~~~m~~~g~---~p~--~~~~~~ll~~~~~~-g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~  506 (641)
                      +..|++..+...   .+.  ..++..+...|... |++++|+..|++..+...-..+    ..++..+...|.+.|++++
T Consensus        97 ~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~  176 (292)
T 1qqe_A           97 VDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIE  176 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHH
Confidence            999988776311   111  34778888899996 9999999999998872211111    3568889999999999999


Q ss_pred             HHHHHHhC----CCCCCH-----HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch-----HHHHHHHHH--hcCCh
Q 040576          507 SEELVSKL----PMEAGP-----ALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGP-----YVLLSNIYA--SEGKW  570 (641)
Q Consensus       507 A~~~~~~~----~~~~~~-----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~-----~~~l~~~~~--~~g~~  570 (641)
                      |++.|++.    +..+..     ..+..+..++...|++++|...++++++++|.....     +..++.+|.  ..+++
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~  256 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQL  256 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTH
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHH
Confidence            99999986    212221     256778888999999999999999999999986643     344566665  45789


Q ss_pred             HHHHHHHHHh
Q 040576          571 DEVENLRRIM  580 (641)
Q Consensus       571 ~~A~~~~~~m  580 (641)
                      ++|+..++++
T Consensus       257 ~~A~~~~~~~  266 (292)
T 1qqe_A          257 SEHCKEFDNF  266 (292)
T ss_dssp             HHHHHHHTTS
T ss_pred             HHHHHHhccC
Confidence            9999988877

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.18  E-value=1.3e-09  Score=109.71  Aligned_cols=261  Identities=10%  Similarity=-0.034  Sum_probs=162.3

Q ss_pred             HHHHHHhcCChHHHHHHHHhcC----CCCc----chHHHHHHHHHHcCChHHHHHHHHHHHHCCC-CCCH----HHHHHH
Q 040576          291 MIDGYAKIGNVTSARNCFDRMC----MRNV----VSWNILLALYVRCKDYCECLRLFDRMIRGDA-KPNE----ASLMSV  357 (641)
Q Consensus       291 li~~~~~~~~~~~A~~~~~~~~----~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~----~~~~~l  357 (641)
                      +...+...|++++|...+++..    ..+.    ..++.+...+...|++++|...+++...... ..+.    .++..+
T Consensus        20 ~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   99 (373)
T 1hz4_A           20 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   99 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            3344555666666666665541    1111    1345555667777777777777776654210 1111    224455


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHc----CCC--C-chhHHHHHHHHHHhcCCHHHHHHHHhhcCC--C------ChhHHHH
Q 040576          358 LTACANMGVIDIGQWIHSYIQKC----RIK--P-DVLLSTSLLTMYAKCGVMDLARNVFDNMTE--K------NVVSWNS  422 (641)
Q Consensus       358 l~~~~~~g~~~~a~~~~~~~~~~----~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~------~~~~~~~  422 (641)
                      ...+...|++++|...++...+.    +..  | ....+..+...|...|++++|...+++...  +      ...+|..
T Consensus       100 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  179 (373)
T 1hz4_A          100 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  179 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHH
Confidence            56677777887777777766542    221  2 234556677778888888888888876542  1      1245777


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCCCC--HHHHH----HHHHHHHhhccHHHHHHHHHHhHHhhCCCC---chHHHHH
Q 040576          423 MIMGYGMHGQGEKALEMFMEMEKRGPTPN--DATFI----CVLSACTHAGMVLEGWWYFDLMQRIYKIEP---KVEHYGC  493 (641)
Q Consensus       423 li~~~~~~~~~~~A~~~~~~m~~~g~~p~--~~~~~----~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p---~~~~~~~  493 (641)
                      +...+...|++++|...+++.......++  .....    ..+..+...|++++|..+++.... ....+   ....+..
T Consensus       180 la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~-~~~~~~~~~~~~~~~  258 (373)
T 1hz4_A          180 LIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAK-PEFANNHFLQGQWRN  258 (373)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCC-CCCTTCGGGHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCC-CCCCcchhhHHHHHH
Confidence            78888888999999999888765321211  11111    223346688999999999888765 21111   1234567


Q ss_pred             HHHHHhhcCCHHHHHHHHHhCC----CCC---CH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 040576          494 MVDLLGRAGLMRDSEELVSKLP----MEA---GP-ALWGALLSACSTHSNSELGKIVAQHLMELEPR  552 (641)
Q Consensus       494 li~~~~~~g~~~~A~~~~~~~~----~~~---~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  552 (641)
                      +...+...|++++|.+.+++..    ..+   +. ..+..+..++...|+.++|...+++++++.+.
T Consensus       259 la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~~  325 (373)
T 1hz4_A          259 IARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANR  325 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhcc
Confidence            7788889999999988888751    111   22 24555667788899999999999998876543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.15  E-value=4.1e-10  Score=93.33  Aligned_cols=114  Identities=7%  Similarity=0.044  Sum_probs=99.2

Q ss_pred             CCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHH
Q 040576          484 IEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-PM-EAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLL  560 (641)
Q Consensus       484 ~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  560 (641)
                      +.|+ ...+......|.+.|++++|++.|++. .. +.+...|..+..++...|++++|+..++++++++|+++..|..+
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l   87 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRK   87 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHH
Confidence            4565 456777888899999999999999886 22 34577888899999999999999999999999999999999999


Q ss_pred             HHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHH
Q 040576          561 SNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEI  623 (641)
Q Consensus       561 ~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l  623 (641)
                      +.+|...|++++|++.+++.                        .+++|++.+  +...|+++
T Consensus        88 g~~~~~~~~~~~A~~~~~~a------------------------l~l~P~~~~--a~~~l~~~  124 (126)
T 4gco_A           88 AACLVAMREWSKAQRAYEDA------------------------LQVDPSNEE--AREGVRNC  124 (126)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH------------------------HHHCTTCHH--HHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHH------------------------HHHCcCCHH--HHHHHHHh
Confidence            99999999999999999998                        788999999  88888765

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.13  E-value=7.2e-10  Score=106.33  Aligned_cols=221  Identities=13%  Similarity=0.140  Sum_probs=152.5

Q ss_pred             HccCCHHHHHHHHHHHHHc-------CCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC-----------CChhHHHHH
Q 040576          362 ANMGVIDIGQWIHSYIQKC-------RIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE-----------KNVVSWNSM  423 (641)
Q Consensus       362 ~~~g~~~~a~~~~~~~~~~-------~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----------~~~~~~~~l  423 (641)
                      ...|+++.|..+++...+.       ..+....++..+...|...|++++|...|+++.+           ....+|..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            4567777777777766552       2233467788899999999999999999987652           123578888


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHC-----CC-CCC-HHHHHHHHHHHHhhccHHHHHHHHHHhHHhh-----CCCCc-hHH
Q 040576          424 IMGYGMHGQGEKALEMFMEMEKR-----GP-TPN-DATFICVLSACTHAGMVLEGWWYFDLMQRIY-----KIEPK-VEH  490 (641)
Q Consensus       424 i~~~~~~~~~~~A~~~~~~m~~~-----g~-~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-----~~~p~-~~~  490 (641)
                      ...|...|++++|...|+++.+.     +. .|+ ..++..+...+...|++++|..+++++.+..     +..|. ...
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            99999999999999999988764     11 232 4577788889999999999999999988721     11333 567


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhCC----------CCCC-HHHHHHHHHHHHhcC------CHHHHHHHHHHHHhcCCCC
Q 040576          491 YGCMVDLLGRAGLMRDSEELVSKLP----------MEAG-PALWGALLSACSTHS------NSELGKIVAQHLMELEPRD  553 (641)
Q Consensus       491 ~~~li~~~~~~g~~~~A~~~~~~~~----------~~~~-~~~~~~l~~~~~~~g------~~~~a~~~~~~~~~~~p~~  553 (641)
                      +..+..+|.+.|++++|.+.++++.          ..+. ...|..+.......+      .+..+...++......|..
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTV  251 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHH
Confidence            8888999999999999999988761          1222 223333333333322      2333333333333334555


Q ss_pred             CchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          554 PGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       554 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      +..+..++.+|...|++++|..++++..+
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            66899999999999999999999998864

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.12  E-value=1.4e-09  Score=105.22  Aligned_cols=171  Identities=9%  Similarity=-0.074  Sum_probs=104.6

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CC----hhHHHHHHHHHHHc-CChHHHHHHHHHHHHCCCCC-C----
Q 040576          387 LLSTSLLTMYAKCGVMDLARNVFDNMTE-----KN----VVSWNSMIMGYGMH-GQGEKALEMFMEMEKRGPTP-N----  451 (641)
Q Consensus       387 ~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~-~~~~~A~~~~~~m~~~g~~p-~----  451 (641)
                      .+++.+..+|.+.|++++|...|++..+     .+    ..+|+.+...|... |++++|+..|++..+..... +    
T Consensus        78 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~  157 (292)
T 1qqe_A           78 NTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALS  157 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHH
Confidence            3444555555555555555555554432     11    23567777788875 88888888888776531110 1    


Q ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCch-----HHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHH----
Q 040576          452 DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKV-----EHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPA----  521 (641)
Q Consensus       452 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~-----~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~----  521 (641)
                      ..++..+...+...|++++|+..|+++.+...-.+..     ..|..+..++...|++++|+..+++. ...|+..    
T Consensus       158 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~  237 (292)
T 1qqe_A          158 NKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRE  237 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHH
Confidence            2457777888888888888888888887721111111     14666777888888888888888876 3334321    


Q ss_pred             --HHHHHHHHHH--hcCCHHHHHHHHHHHHhcCCCCCchH
Q 040576          522 --LWGALLSACS--THSNSELGKIVAQHLMELEPRDPGPY  557 (641)
Q Consensus       522 --~~~~l~~~~~--~~g~~~~a~~~~~~~~~~~p~~~~~~  557 (641)
                        .+..++.++.  ..+++++|+..|+++.+++|.+...+
T Consensus       238 ~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~~~~~  277 (292)
T 1qqe_A          238 SNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKITIL  277 (292)
T ss_dssp             HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHHHHHH
Confidence              2334455554  45668888888887777777654333

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.09  E-value=5.8e-09  Score=96.47  Aligned_cols=183  Identities=10%  Similarity=-0.007  Sum_probs=117.0

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhcCC--CC----hhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH--HHHHHH
Q 040576          387 LLSTSLLTMYAKCGVMDLARNVFDNMTE--KN----VVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPND--ATFICV  458 (641)
Q Consensus       387 ~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~----~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~--~~~~~l  458 (641)
                      ..+..+...+...|++++|...|+++.+  |+    ...+..++.+|.+.|++++|+..|+++.+.......  ..+..+
T Consensus         5 ~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~   84 (225)
T 2yhc_A            5 NEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMR   84 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHH
Confidence            3444556667777888888888877663  32    235666777777888888888888877765322111  133344


Q ss_pred             HHHHHh------------------hccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCC
Q 040576          459 LSACTH------------------AGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKLPMEAG  519 (641)
Q Consensus       459 l~~~~~------------------~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~  519 (641)
                      ..++..                  .|++++|...|+++.+   ..|+ ...+......    +......           
T Consensus        85 g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~---~~P~~~~a~~a~~~l----~~~~~~~-----------  146 (225)
T 2yhc_A           85 GLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVR---GYPNSQYTTDATKRL----VFLKDRL-----------  146 (225)
T ss_dssp             HHHHHHHHC--------------CCHHHHHHHHHHHHHHT---TCTTCTTHHHHHHHH----HHHHHHH-----------
T ss_pred             HHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHH---HCcCChhHHHHHHHH----HHHHHHH-----------
Confidence            444443                  3556666666666655   2232 1121111110    0000000           


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC---chHHHHHHHHHhcCChHHHHHHHHHhhhCCCcc
Q 040576          520 PALWGALLSACSTHSNSELGKIVAQHLMELEPRDP---GPYVLLSNIYASEGKWDEVENLRRIMKEKELEK  587 (641)
Q Consensus       520 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  587 (641)
                      ......+...+...|++++|+..++++++..|+++   ..+..++.+|.+.|++++|.+.++++...++..
T Consensus       147 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~  217 (225)
T 2yhc_A          147 AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNT  217 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCC
T ss_pred             HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCc
Confidence            00113456678899999999999999999999986   579999999999999999999999997776553

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.06  E-value=1.3e-09  Score=118.55  Aligned_cols=144  Identities=10%  Similarity=-0.128  Sum_probs=67.0

Q ss_pred             hHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHH
Q 040576          418 VSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVD  496 (641)
Q Consensus       418 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~  496 (641)
                      ..|..+..+|...|++++|+..|+++.+.... +...+..+..++...|++++|.+.|+++.+   +.|+ ...|..+..
T Consensus       434 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~---l~P~~~~~~~~lg~  509 (681)
T 2pzi_A          434 ELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAELLTGDYDSATKHFTEVLD---TFPGELAPKLALAA  509 (681)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HSTTCSHHHHHHHH
T ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCChHHHHHHHH
Confidence            34444444555555555555555554443211 333444444445555555555555555444   2222 344444455


Q ss_pred             HHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 040576          497 LLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYAS  566 (641)
Q Consensus       497 ~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  566 (641)
                      +|.+.|++++ ++.|++. ...| +...|..+..++...|++++|+..|+++++++|++...+..++.+|..
T Consensus       510 ~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~~~~~~~~  580 (681)
T 2pzi_A          510 TAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTLDEVPPTSRHFTTARLTSAVTLLS  580 (681)
T ss_dssp             HHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCTTSTTHHHHHHHHHHHTC-
T ss_pred             HHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHHHhhcccCcccHHHHHHHHHHHHc
Confidence            5555555555 4444443 1112 233444455555555555555555555555555555555555555444

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.06  E-value=1.6e-09  Score=104.35  Aligned_cols=151  Identities=11%  Similarity=-0.011  Sum_probs=87.5

Q ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCHHHHHHHHH-H
Q 040576          453 ATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKLP-MEAGPALWGALLS-A  529 (641)
Q Consensus       453 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~-~  529 (641)
                      ..+..+...+...|++++|...|+++.+   ..| +...+..+..+|.+.|++++|++.++++. ..|+......... .
T Consensus       118 ~~~~~~a~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~~~  194 (287)
T 3qou_A          118 ELXAQQAMQLMQESNYTDALPLLXDAWQ---LSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQIE  194 (287)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH---HTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHH---hCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHHHH
Confidence            3444555556666666666666666655   223 24555566666666666666666666652 3344433222222 2


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCC
Q 040576          530 CSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCP  609 (641)
Q Consensus       530 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p  609 (641)
                      +...++.+.|...++++++.+|+++..+..++.+|...|++++|+..++++                        .+.+|
T Consensus       195 l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~------------------------l~~~p  250 (287)
T 3qou_A          195 LLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGH------------------------LRXDL  250 (287)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH------------------------HHHCT
T ss_pred             HHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHH------------------------Hhccc
Confidence            445555566666666666666666666666666666666666666666666                        45555


Q ss_pred             CC--chhhHHHHHHHHHHHHHhhhc
Q 040576          610 PH--RKCIVYSMLGEIGAQMKMCRR  632 (641)
Q Consensus       610 ~~--~~~~~~~~l~~l~~~~~~~~~  632 (641)
                      ++  ..  ++..|+.+...+++..+
T Consensus       251 ~~~~~~--a~~~l~~~~~~~g~~~~  273 (287)
T 3qou_A          251 TAADGQ--TRXTFQEILAALGTGDA  273 (287)
T ss_dssp             TGGGGH--HHHHHHHHHHHHCTTCH
T ss_pred             ccccch--HHHHHHHHHHHcCCCCc
Confidence            55  45  66666666666555443

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.05  E-value=4.7e-09  Score=87.70  Aligned_cols=125  Identities=18%  Similarity=0.169  Sum_probs=73.7

Q ss_pred             HHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcC
Q 040576          457 CVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHS  534 (641)
Q Consensus       457 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g  534 (641)
                      .+...+...|++++|..+++.+.+ . .+.+...+..++..+...|++++|...++++ . ...+...+..+...+...|
T Consensus         6 ~l~~~~~~~~~~~~A~~~~~~~~~-~-~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   83 (136)
T 2fo7_A            6 NLGNAYYKQGDYDEAIEYYQKALE-L-DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQG   83 (136)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHH-H-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHcCcHHHHHHHHHHHHH-c-CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHhc
Confidence            344444444555555555554443 1 1122334444455555555555555555544 1 1223445666666677777


Q ss_pred             CHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 040576          535 NSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       535 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  583 (641)
                      ++++|...++++.+..|+++..+..++.+|...|++++|.+.++++.+.
T Consensus        84 ~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           84 DYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            7777777777777777777777777777787888888888777777543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.04  E-value=5.6e-09  Score=99.13  Aligned_cols=202  Identities=12%  Similarity=0.019  Sum_probs=145.4

Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCc---hhHHHHHHHHHHhcCCHHHHHHHHhhcCC--CC----hhH
Q 040576          349 PNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPD---VLLSTSLLTMYAKCGVMDLARNVFDNMTE--KN----VVS  419 (641)
Q Consensus       349 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~----~~~  419 (641)
                      .+...+......+.+.|++++|...|+.+.+.. +.+   ...+..+..+|.+.|++++|...|++..+  |+    ..+
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            455677778888999999999999999999864 223   66788899999999999999999999874  32    346


Q ss_pred             HHHHHHHHHH--------cCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHH
Q 040576          420 WNSMIMGYGM--------HGQGEKALEMFMEMEKRGPTPND-ATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEH  490 (641)
Q Consensus       420 ~~~li~~~~~--------~~~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~  490 (641)
                      +..+..++..        .|++++|+..|+++.+..  |+. .....+              ..+..+..     --...
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~--------------~~~~~~~~-----~~~~~  150 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDAT--------------QKIRELRA-----KLARK  150 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHH--------------HHHHHHHH-----HHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHH--------------HHHHHHHH-----HHHHH
Confidence            7788888988        999999999999999863  432 222111              11111111     00122


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhc----------CCHHHHHHHHHHHHhcCCCCCc
Q 040576          491 YGCMVDLLGRAGLMRDSEELVSKL-PMEAG----PALWGALLSACSTH----------SNSELGKIVAQHLMELEPRDPG  555 (641)
Q Consensus       491 ~~~li~~~~~~g~~~~A~~~~~~~-~~~~~----~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~p~~~~  555 (641)
                      +..+...|.+.|++++|+..|+++ ...|+    ...+..+..++...          |++++|...++++++..|+++.
T Consensus       151 ~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  230 (261)
T 3qky_A          151 QYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPL  230 (261)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChH
Confidence            556778888999999999988876 22232    44667777777755          8999999999999999999864


Q ss_pred             ---hHHHHHHHHHhcCChHH
Q 040576          556 ---PYVLLSNIYASEGKWDE  572 (641)
Q Consensus       556 ---~~~~l~~~~~~~g~~~~  572 (641)
                         ....+..++.+.|++++
T Consensus       231 ~~~a~~~l~~~~~~~~~~~~  250 (261)
T 3qky_A          231 LRTAEELYTRARQRLTELEG  250 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHhhh
Confidence               34445555555554443

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.04  E-value=2.3e-10  Score=98.34  Aligned_cols=142  Identities=9%  Similarity=-0.019  Sum_probs=106.4

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhh
Q 040576          423 MIMGYGMHGQGEKALEMFMEMEKRGPTPN-DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGR  500 (641)
Q Consensus       423 li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~  500 (641)
                      |...+...|++++|+..+++....  .|+ ...+..+...|.+.|++++|++.|+++.+   +.|+ ...|..+..+|.+
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~---~~p~~~~a~~~lg~~~~~   77 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYIN---VQERDPKAHRFLGLLYEL   77 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHH
Confidence            344455567778888887776553  333 23555677788888888888888888877   3443 6778888888888


Q ss_pred             cCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHH-HHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 040576          501 AGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKI-VAQHLMELEPRDPGPYVLLSNIYASEGK  569 (641)
Q Consensus       501 ~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~-~~~~~~~~~p~~~~~~~~l~~~~~~~g~  569 (641)
                      .|++++|+..|++. ...| +...|..+...+...|+.++|.. .++++++++|+++.+|.....++...|+
T Consensus        78 ~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           78 EENTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             cCchHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            88888888888876 3334 46688888889999999876655 5699999999999999999999988885

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.02  E-value=1.5e-09  Score=118.03  Aligned_cols=166  Identities=9%  Similarity=-0.102  Sum_probs=142.3

Q ss_pred             HHcCChHHHHHHHHHHH--------HCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHH
Q 040576          428 GMHGQGEKALEMFMEME--------KRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLL  498 (641)
Q Consensus       428 ~~~~~~~~A~~~~~~m~--------~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~  498 (641)
                      ...|++++|++.+++..        +.. ..+...+..+..++...|++++|++.|+++.+   ..| +...|..+..+|
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~---~~p~~~~a~~~lg~~~  477 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAE---RVGWRWRLVWYRAVAE  477 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HHCCCHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhc---cCcchHHHHHHHHHHH
Confidence            67899999999999998        432 22456788889999999999999999999988   334 467888999999


Q ss_pred             hhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHH
Q 040576          499 GRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENL  576 (641)
Q Consensus       499 ~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  576 (641)
                      ...|++++|++.|++. ...| +...|..+..++...|++++ +..|+++++++|+++..|..++.+|.+.|++++|++.
T Consensus       478 ~~~g~~~~A~~~~~~al~l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          478 LLTGDYDSATKHFTEVLDTFPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HHHTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999999987 3334 46788899999999999999 9999999999999999999999999999999999999


Q ss_pred             HHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHH
Q 040576          577 RRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIG  624 (641)
Q Consensus       577 ~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~  624 (641)
                      ++++                        .+++|++..  ++..++.+.
T Consensus       557 ~~~a------------------------l~l~P~~~~--a~~~~~~~~  578 (681)
T 2pzi_A          557 LDEV------------------------PPTSRHFTT--ARLTSAVTL  578 (681)
T ss_dssp             HHTS------------------------CTTSTTHHH--HHHHHHHHT
T ss_pred             HHhh------------------------cccCcccHH--HHHHHHHHH
Confidence            9998                        566677766  666666654

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=99.02  E-value=1.4e-09  Score=93.04  Aligned_cols=97  Identities=11%  Similarity=0.044  Sum_probs=85.7

Q ss_pred             CCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHH
Q 040576          484 IEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLL  560 (641)
Q Consensus       484 ~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  560 (641)
                      +.|+ ...+..+...+.+.|++++|+..|++. . .+.+...|..+..++...|++++|+..|+++++++|+++..+..+
T Consensus        16 ~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~l   95 (148)
T 2vgx_A           16 ISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHA   95 (148)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHH
T ss_pred             CCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHH
Confidence            4454 566777888899999999999999987 2 234677888999999999999999999999999999999999999


Q ss_pred             HHHHHhcCChHHHHHHHHHh
Q 040576          561 SNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       561 ~~~~~~~g~~~~A~~~~~~m  580 (641)
                      +.+|...|++++|.+.+++.
T Consensus        96 g~~~~~~g~~~~A~~~~~~a  115 (148)
T 2vgx_A           96 AECLLQXGELAEAESGLFLA  115 (148)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHH
Confidence            99999999999999999998

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.01  E-value=7.4e-09  Score=99.17  Aligned_cols=197  Identities=9%  Similarity=-0.013  Sum_probs=112.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHc------CC-CCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC-------C---
Q 040576          353 SLMSVLTACANMGVIDIGQWIHSYIQKC------RI-KPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE-------K---  415 (641)
Q Consensus       353 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~------~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------~---  415 (641)
                      ++..+...+...|++++|...+..+.+.      +- +....++..+..+|...|++++|...|++..+       +   
T Consensus        45 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  124 (283)
T 3edt_B           45 MLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHP  124 (283)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCCh
Confidence            3444444445555555555555444432      11 11234555566666666666666666655432       1   


Q ss_pred             -ChhHHHHHHHHHHHcCChHHHHHHHHHHHHC------CCCCC-HHHHHHHHHHHHhhccHHHHHHHHHHhHHhh-----
Q 040576          416 -NVVSWNSMIMGYGMHGQGEKALEMFMEMEKR------GPTPN-DATFICVLSACTHAGMVLEGWWYFDLMQRIY-----  482 (641)
Q Consensus       416 -~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~------g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-----  482 (641)
                       ...+|..+...|...|++++|...|+++.+.      +-.|+ ..++..+...+...|++++|..+++++.+..     
T Consensus       125 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~  204 (283)
T 3edt_B          125 DVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEF  204 (283)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcC
Confidence             2345677777788888888888888877664      11222 3467778888888999999999988887621     


Q ss_pred             -CCCCc-hHHHHHHHHHHhhc------CCHHHHHHHHHhCC-CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 040576          483 -KIEPK-VEHYGCMVDLLGRA------GLMRDSEELVSKLP-MEAG-PALWGALLSACSTHSNSELGKIVAQHLMEL  549 (641)
Q Consensus       483 -~~~p~-~~~~~~li~~~~~~------g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  549 (641)
                       ...+. ...+..+...+...      ..+.++...++... ..|+ ...+..+...|...|++++|...++++++.
T Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          205 GSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             SSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             CCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             11222 23333333333332      23555555566553 2233 346778888899999999999999998875

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.01  E-value=2.1e-08  Score=91.69  Aligned_cols=172  Identities=6%  Similarity=-0.075  Sum_probs=139.1

Q ss_pred             HHHHHhhcCC-CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhc----cHHHHHHHHHHhH
Q 040576          405 ARNVFDNMTE-KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAG----MVLEGWWYFDLMQ  479 (641)
Q Consensus       405 A~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g----~~~~a~~~~~~~~  479 (641)
                      |.+.|++..+ .++.++..+...|...+++++|+.+|++..+.|   +...+..+...|.. +    ++++|.++|++..
T Consensus         5 A~~~~~~aa~~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A            5 PGSQYQQQAEAGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             TTHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            4444444432 567788888888888999999999999998875   56777777777777 6    8999999999997


Q ss_pred             HhhCCCCchHHHHHHHHHHhh----cCCHHHHHHHHHhCC-CCCC---HHHHHHHHHHHHh----cCCHHHHHHHHHHHH
Q 040576          480 RIYKIEPKVEHYGCMVDLLGR----AGLMRDSEELVSKLP-MEAG---PALWGALLSACST----HSNSELGKIVAQHLM  547 (641)
Q Consensus       480 ~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~-~~~~---~~~~~~l~~~~~~----~g~~~~a~~~~~~~~  547 (641)
                      + .+   +...+..|...|..    .+++++|+++|++.. ..+.   +..+..|...|..    .++.++|...|+++.
T Consensus        81 ~-~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~  156 (212)
T 3rjv_A           81 E-AG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSS  156 (212)
T ss_dssp             H-TT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHH
T ss_pred             H-CC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            7 33   46677788888877    889999999999874 3342   7788888888888    889999999999999


Q ss_pred             hcCCCCCchHHHHHHHHHhc-C-----ChHHHHHHHHHhhhCCC
Q 040576          548 ELEPRDPGPYVLLSNIYASE-G-----KWDEVENLRRIMKEKEL  585 (641)
Q Consensus       548 ~~~p~~~~~~~~l~~~~~~~-g-----~~~~A~~~~~~m~~~~~  585 (641)
                      +. |+++..+..|+.+|... |     ++++|.+++++..+.|.
T Consensus       157 ~~-~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          157 SL-SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HT-SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             Hc-CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            98 77788999999999865 3     89999999999976653

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.00  E-value=3.8e-08  Score=93.22  Aligned_cols=237  Identities=9%  Similarity=0.009  Sum_probs=159.3

Q ss_pred             hcCChHHHHHHHHhcCCCCcc-hHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 040576          297 KIGNVTSARNCFDRMCMRNVV-SWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHS  375 (641)
Q Consensus       297 ~~~~~~~A~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  375 (641)
                      -.|.+..++.-...+...+.. .-.-+.++|...|+++..         ..-.|....+..+.. |...+    +...++
T Consensus        25 y~G~yq~~i~e~~~~~~~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~-~~~~~----a~~~l~   90 (310)
T 3mv2_B           25 YTGNFVQCLQEIEKFSKVTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQ-FLDTK----NIEELE   90 (310)
T ss_dssp             TTTCHHHHTHHHHTSSCCCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHH-HHTTT----CCHHHH
T ss_pred             HhhHHHHHHHHHHhcCccchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHH-Hhccc----HHHHHH
Confidence            356666666655554332222 223345778888877642         122344334433333 33322    566677


Q ss_pred             HHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC
Q 040576          376 YIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE-----KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTP  450 (641)
Q Consensus       376 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p  450 (641)
                      ...+.+ .++......+..+|...|++++|++++.+...     .+...+..++..+.+.|+.+.|.+.+++|.+.  .|
T Consensus        91 ~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--~~  167 (310)
T 3mv2_B           91 NLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--IE  167 (310)
T ss_dssp             HTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SC
T ss_pred             HHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--Cc
Confidence            666554 44555556788889999999999999988743     24567788889999999999999999999874  56


Q ss_pred             -----CHHHHHHHHHH--HHhhc--cHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCC-----
Q 040576          451 -----NDATFICVLSA--CTHAG--MVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPM-----  516 (641)
Q Consensus       451 -----~~~~~~~ll~~--~~~~g--~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----  516 (641)
                           +..+...+..+  ....|  ++.+|..+|+++..   ..|+......+..++.+.|++++|.+.++.+..     
T Consensus       168 d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~---~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~  244 (310)
T 3mv2_B          168 DTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQ---TFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSV  244 (310)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHT---TSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHT
T ss_pred             cccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHH---hCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccc
Confidence                 35566666666  33334  89999999999876   335433333444489999999999999876521     


Q ss_pred             ------CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 040576          517 ------EAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPG  555 (641)
Q Consensus       517 ------~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  555 (641)
                            .|+ +.+...++......|+  +|.++++++.+..|+++.
T Consensus       245 ~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~  288 (310)
T 3mv2_B          245 EQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAF  288 (310)
T ss_dssp             TTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHH
T ss_pred             cccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChH
Confidence                  244 4566567666666787  889999999999999973

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.00  E-value=8.1e-09  Score=99.43  Aligned_cols=176  Identities=10%  Similarity=-0.027  Sum_probs=139.8

Q ss_pred             HHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHh
Q 040576          402 MDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRI  481 (641)
Q Consensus       402 ~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  481 (641)
                      .+.....+......+...+..+...+...|++++|...|++..+.... +...+..+...+...|++++|...++.+.. 
T Consensus       102 ~~~l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~l~~~~~-  179 (287)
T 3qou_A          102 EEAIRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQ-NGEIGLLLAETLIALNRSEDAEAVLXTIPL-  179 (287)
T ss_dssp             HHHHHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHTTCHHHHHHHHTTSCG-
T ss_pred             HHHHHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHHCCCHHHHHHHHHhCch-
Confidence            344455555555455667778888899999999999999999886322 566888888999999999999999998866 


Q ss_pred             hCCCCchHHHH-HHHHHHhhcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC--Cch
Q 040576          482 YKIEPKVEHYG-CMVDLLGRAGLMRDSEELVSKL-PM-EAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRD--PGP  556 (641)
Q Consensus       482 ~~~~p~~~~~~-~li~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~--~~~  556 (641)
                        ..|+..... .....+.+.++.++|++.+++. .. +.+...+..+...+...|++++|...++++++.+|++  ...
T Consensus       180 --~~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a  257 (287)
T 3qou_A          180 --QDQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQT  257 (287)
T ss_dssp             --GGCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHH
T ss_pred             --hhcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchH
Confidence              345543332 2333466778888888888876 22 3457788999999999999999999999999999998  889


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          557 YVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       557 ~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      +..++.+|...|+.++|...+++..
T Consensus       258 ~~~l~~~~~~~g~~~~a~~~~r~al  282 (287)
T 3qou_A          258 RXTFQEILAALGTGDALASXYRRQL  282 (287)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHH
Confidence            9999999999999999999988764

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.99  E-value=2e-08  Score=83.75  Aligned_cols=133  Identities=17%  Similarity=0.189  Sum_probs=106.8

Q ss_pred             hHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHH
Q 040576          418 VSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDL  497 (641)
Q Consensus       418 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~  497 (641)
                      ..|..++..+...|++++|..+++++.+.+. .+...+..+...+...|++++|..+++++.. . .+.+...+..++..
T Consensus         2 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~-~-~~~~~~~~~~l~~~   78 (136)
T 2fo7_A            2 EAWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALE-L-DPRSAEAWYNLGNA   78 (136)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH-H-CTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHcCcHHHHHHHHHHHHHcCC-cchhHHHHHHHHHHHhcCHHHHHHHHHHHHH-H-CCCchHHHHHHHHH
Confidence            3567788888888999999999998887642 3566777888888889999999999999877 2 23346677888889


Q ss_pred             HhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 040576          498 LGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRD  553 (641)
Q Consensus       498 ~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  553 (641)
                      +...|++++|.+.++++ . ...+...+..+...+...|++++|...++++++..|++
T Consensus        79 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~  136 (136)
T 2fo7_A           79 YYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRS  136 (136)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTTC
T ss_pred             HHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCCC
Confidence            99999999999998876 2 23456778888888999999999999999999888763

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.97  E-value=7.8e-09  Score=110.31  Aligned_cols=151  Identities=13%  Similarity=0.063  Sum_probs=85.4

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHH
Q 040576          431 GQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEE  509 (641)
Q Consensus       431 ~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~  509 (641)
                      |++++|+..|++..+... -+...+..+...+...|++++|.+.+++..+   ..|+ ...+..+..+|...|++++|++
T Consensus         3 g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHRP-QDFVAWLMLADAELGMGDTTAGEMAVQRGLA---LHPGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT---TSTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            556666666666655421 1345566666666666666666666666655   2333 5556666666666666666666


Q ss_pred             HHHhC-CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc---CChHHHHHHHHHhhhCC
Q 040576          510 LVSKL-PME-AGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASE---GKWDEVENLRRIMKEKE  584 (641)
Q Consensus       510 ~~~~~-~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~---g~~~~A~~~~~~m~~~~  584 (641)
                      .+++. ... .+...+..+..++...|++++|...++++++++|+++..+..++.+|...   |++++|.+.+++..+.+
T Consensus        79 ~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           79 LLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            66655 112 23556666666777777777777777777777777777777777777777   77777777777765544


Q ss_pred             C
Q 040576          585 L  585 (641)
Q Consensus       585 ~  585 (641)
                      .
T Consensus       159 p  159 (568)
T 2vsy_A          159 V  159 (568)
T ss_dssp             C
T ss_pred             C
Confidence            3

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.96  E-value=5.6e-09  Score=89.16  Aligned_cols=99  Identities=8%  Similarity=-0.032  Sum_probs=88.2

Q ss_pred             CCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHH
Q 040576          484 IEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-PME-AGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLL  560 (641)
Q Consensus       484 ~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  560 (641)
                      +.|+ ...+..+...+.+.|++++|++.|++. ... .++..|..+..++...|++++|+..|+++++++|+++..|..+
T Consensus        31 l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~l  110 (151)
T 3gyz_A           31 IPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHT  110 (151)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHH
Confidence            5555 567778888999999999999999987 233 4577899999999999999999999999999999999999999


Q ss_pred             HHHHHhcCChHHHHHHHHHhhh
Q 040576          561 SNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       561 ~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      +.+|...|++++|+..+++..+
T Consensus       111 g~~~~~lg~~~eA~~~~~~al~  132 (151)
T 3gyz_A          111 GQCQLRLKAPLKAKECFELVIQ  132 (151)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH
Confidence            9999999999999999999943

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.95  E-value=2.1e-08  Score=91.38  Aligned_cols=119  Identities=10%  Similarity=0.018  Sum_probs=54.4

Q ss_pred             HHHHHHhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcC
Q 040576          458 VLSACTHAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHS  534 (641)
Q Consensus       458 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g  534 (641)
                      +..++.+.|++++|+..|++..+   +.| +...+..+..+|...|++++|++.|++. ...| +...|..+...+...|
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~  136 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQ---KAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTA  136 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHh
Confidence            44455555555555555555554   223 2445555555555555555555555554 1122 2344554544443332


Q ss_pred             C--HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          535 N--SELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       535 ~--~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      +  .+.+...++++....|.. ..+..++.++...|++++|+..+++.
T Consensus       137 ~~~~~~~~~~~~~~~~~~~~~-~a~~~~g~~~~~~~~~~~A~~~~~~a  183 (208)
T 3urz_A          137 EQEKKKLETDYKKLSSPTKMQ-YARYRDGLSKLFTTRYEKARNSLQKV  183 (208)
T ss_dssp             HHHHHHHHHHHC---CCCHHH-HHHHHHHHHHHHHHTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCCchh-HHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            2  223333343333221111 13344455555555666666666655

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.94  E-value=1.5e-08  Score=98.67  Aligned_cols=180  Identities=11%  Similarity=0.037  Sum_probs=125.0

Q ss_pred             HHHHhcCCHHHHHHHHhhcCC-----CC----hhHHHHHHHHHHHcCChHHHHHHHHHHHHCC---CCCC--HHHHHHHH
Q 040576          394 TMYAKCGVMDLARNVFDNMTE-----KN----VVSWNSMIMGYGMHGQGEKALEMFMEMEKRG---PTPN--DATFICVL  459 (641)
Q Consensus       394 ~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g---~~p~--~~~~~~ll  459 (641)
                      ..|...|++++|...|.+..+     .+    ..+|+.+...|...|++++|+..|++..+.-   -.|.  ..++..+.
T Consensus        44 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg  123 (307)
T 2ifu_A           44 VAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAG  123 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            345566666666666665442     11    2467778888888899999999888876531   1122  34677788


Q ss_pred             HHHHhhccHHHHHHHHHHhHHhhCCC---C-chHHHHHHHHHHhhcCCHHHHHHHHHhCC----CCCC----HHHHHHHH
Q 040576          460 SACTHAGMVLEGWWYFDLMQRIYKIE---P-KVEHYGCMVDLLGRAGLMRDSEELVSKLP----MEAG----PALWGALL  527 (641)
Q Consensus       460 ~~~~~~g~~~~a~~~~~~~~~~~~~~---p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~~l~  527 (641)
                      ..|.. |++++|+..|++......-.   + ...++..+...|.+.|++++|++.|++..    ..++    ...+..++
T Consensus       124 ~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g  202 (307)
T 2ifu_A          124 KLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQV  202 (307)
T ss_dssp             HHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHH
Confidence            88888 99999999999887622111   1 14678888999999999999999998761    1122    22556666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCch-----HHHHHHHHHhcCChHHHHHH
Q 040576          528 SACSTHSNSELGKIVAQHLMELEPRDPGP-----YVLLSNIYASEGKWDEVENL  576 (641)
Q Consensus       528 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~-----~~~l~~~~~~~g~~~~A~~~  576 (641)
                      .++...|++++|...+++++ +.|.....     ...++.++ ..|+.+.+.++
T Consensus       203 ~~~~~~g~~~~A~~~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          203 LVQLHRADYVAAQKCVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            77788899999999999999 98876543     34455555 56777666663

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.93  E-value=7e-09  Score=91.77  Aligned_cols=155  Identities=7%  Similarity=-0.022  Sum_probs=89.7

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHH-Hhhc
Q 040576          423 MIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDL-LGRA  501 (641)
Q Consensus       423 li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~-~~~~  501 (641)
                      +...+...|++++|+..|++..+... -+...+..+...+...|++++|...++.+..   ..|+...+..+... +...
T Consensus        12 ~a~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~---~~p~~~~~~~~~~~~~~~~   87 (176)
T 2r5s_A           12 QVSELLQQGEHAQALNVIQTLSDELQ-SRGDVKLAKADCLLETKQFELAQELLATIPL---EYQDNSYKSLIAKLELHQQ   87 (176)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSCHHHH-TSHHHHHHHHHHHHHTTCHHHHHHHHTTCCG---GGCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHhhh---ccCChHHHHHHHHHHHHhh
Confidence            33444445555555555554443211 1233444444455555555555555554433   11222111111111 1111


Q ss_pred             CCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC--CchHHHHHHHHHhcCChHHHHHHH
Q 040576          502 GLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRD--PGPYVLLSNIYASEGKWDEVENLR  577 (641)
Q Consensus       502 g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~A~~~~  577 (641)
                      +...+|++.+++. ...| +...+..+...+...|++++|...++++++.+|+.  +..+..++.+|...|+.++|...+
T Consensus        88 ~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y  167 (176)
T 2r5s_A           88 AAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKY  167 (176)
T ss_dssp             HTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHH
T ss_pred             cccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHH
Confidence            1222345555554 2234 46778888888899999999999999999998875  558889999999999999999988


Q ss_pred             HHhh
Q 040576          578 RIMK  581 (641)
Q Consensus       578 ~~m~  581 (641)
                      ++..
T Consensus       168 ~~al  171 (176)
T 2r5s_A          168 RRQL  171 (176)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8764

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.93  E-value=5.1e-09  Score=92.66  Aligned_cols=151  Identities=10%  Similarity=0.004  Sum_probs=118.2

Q ss_pred             HHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCHHHHHHHHHH-HH
Q 040576          455 FICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKLP-MEAGPALWGALLSA-CS  531 (641)
Q Consensus       455 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~-~~  531 (641)
                      +......+...|++++|...|+++.+   ..|+ ...+..+..+|.+.|++++|+..+++.. ..|++..+..+... +.
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSD---ELQSRGDVKLAKADCLLETKQFELAQELLATIPLEYQDNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCH---HHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH---HCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccCChHHHHHHHHHHHH
Confidence            44566778899999999999999876   3344 6788899999999999999999999983 34544433322222 22


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCC
Q 040576          532 THSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPH  611 (641)
Q Consensus       532 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~  611 (641)
                      ..++...|+..++++++.+|+++..+..++.+|...|++++|...++++                        .+.+|+.
T Consensus        86 ~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~------------------------l~~~p~~  141 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNI------------------------LKVNLGA  141 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH------------------------HTTCTTT
T ss_pred             hhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHH------------------------HHhCccc
Confidence            2233345789999999999999999999999999999999999999998                        5556654


Q ss_pred             --chhhHHHHHHHHHHHHHhhhccc
Q 040576          612 --RKCIVYSMLGEIGAQMKMCRRDV  634 (641)
Q Consensus       612 --~~~~~~~~l~~l~~~~~~~~~~~  634 (641)
                        ..  .+..|+.+...+++..+++
T Consensus       142 ~~~~--a~~~l~~~~~~~g~~~~A~  164 (176)
T 2r5s_A          142 QDGE--VKKTFMDILSALGQGNAIA  164 (176)
T ss_dssp             TTTH--HHHHHHHHHHHHCSSCHHH
T ss_pred             ChHH--HHHHHHHHHHHhCCCCcHH
Confidence              56  8889999998888776554

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.92  E-value=2e-08  Score=91.56  Aligned_cols=128  Identities=11%  Similarity=0.056  Sum_probs=99.8

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHh
Q 040576          421 NSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLG  499 (641)
Q Consensus       421 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~  499 (641)
                      +.+..+|.+.|++++|+..|++..+.... +...+..+...+...|++++|...|+++.+   +.|+ ...+..+..+|.
T Consensus        58 ~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~lg~~~~  133 (208)
T 3urz_A           58 TELALAYKKNRNYDKAYLFYKELLQKAPN-NVDCLEACAEMQVCRGQEKDALRMYEKILQ---LEADNLAANIFLGNYYY  133 (208)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---cCCCCHHHHHHHHHHHH
Confidence            34888999999999999999999986422 567888899999999999999999999988   4454 678888888887


Q ss_pred             hcCC--HHHHHHHHHhCCCCCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 040576          500 RAGL--MRDSEELVSKLPMEAGPA--LWGALLSACSTHSNSELGKIVAQHLMELEPRD  553 (641)
Q Consensus       500 ~~g~--~~~A~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  553 (641)
                      ..|+  .+.+...++... .|++.  .+..+..++...|++++|+..|++++++.|++
T Consensus       134 ~~~~~~~~~~~~~~~~~~-~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~  190 (208)
T 3urz_A          134 LTAEQEKKKLETDYKKLS-SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPST  190 (208)
T ss_dssp             HHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCH
T ss_pred             HHhHHHHHHHHHHHHHHh-CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCH
Confidence            6654  455667777764 34443  44455666778899999999999999999974

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.89  E-value=1.6e-08  Score=85.72  Aligned_cols=97  Identities=11%  Similarity=-0.013  Sum_probs=84.4

Q ss_pred             CCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHH
Q 040576          484 IEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-PME-AGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLL  560 (641)
Q Consensus       484 ~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  560 (641)
                      +.|+ ...+..+...+.+.|++++|++.|++. ... .+...|..+..++...|++++|+..++++++++|+++..+..+
T Consensus        13 ~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l   92 (142)
T 2xcb_A           13 LSEDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHA   92 (142)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHH
Confidence            3443 455667788888999999999999886 223 4577888899999999999999999999999999999999999


Q ss_pred             HHHHHhcCChHHHHHHHHHh
Q 040576          561 SNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       561 ~~~~~~~g~~~~A~~~~~~m  580 (641)
                      +.+|...|++++|.+.+++.
T Consensus        93 g~~~~~~g~~~~A~~~~~~a  112 (142)
T 2xcb_A           93 AECHLQLGDLDGAESGFYSA  112 (142)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHH
Confidence            99999999999999999998

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.88  E-value=2.7e-08  Score=96.86  Aligned_cols=196  Identities=10%  Similarity=-0.011  Sum_probs=147.0

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHH
Q 040576          364 MGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEM  443 (641)
Q Consensus       364 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m  443 (641)
                      .|++++|.++++...+..- ..         .+...+++++|...|.+.           +..|...|++++|...|.+.
T Consensus         4 ~~~~~eA~~~~~~a~k~~~-~~---------~~~~~~~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~a   62 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLK-TS---------FMKWKPDYDSAASEYAKA-----------AVAFKNAKQLEQAKDAYLQE   62 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-CC---------SSSCSCCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHcc-cc---------ccCCCCCHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHHH
Confidence            4566777777776665321 11         011157888888887653           66788999999999999987


Q ss_pred             HHC----CCCCC-HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCC--CCc--hHHHHHHHHHHhhcCCHHHHHHHHHhC
Q 040576          444 EKR----GPTPN-DATFICVLSACTHAGMVLEGWWYFDLMQRIYKI--EPK--VEHYGCMVDLLGRAGLMRDSEELVSKL  514 (641)
Q Consensus       444 ~~~----g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~--~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~  514 (641)
                      .+.    |-.+. ..+|..+...|...|++++|+..|++......-  .+.  ..++..+..+|.. |++++|++.|++.
T Consensus        63 l~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~A  141 (307)
T 2ifu_A           63 AEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQA  141 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHH
Confidence            663    21111 347888888999999999999999998763211  111  4677888999988 9999999999876


Q ss_pred             ----CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc------hHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          515 ----PMEAG----PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPG------PYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       515 ----~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~------~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                          +...+    ..++..+...+...|++++|+..+++++++.|.+..      .+..++.++...|++++|...+++.
T Consensus       142 l~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~a  221 (307)
T 2ifu_A          142 AAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRES  221 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                11111    356778888999999999999999999998765542      6777888899999999999999998


Q ss_pred             h
Q 040576          581 K  581 (641)
Q Consensus       581 ~  581 (641)
                      .
T Consensus       222 l  222 (307)
T 2ifu_A          222 Y  222 (307)
T ss_dssp             T
T ss_pred             h
Confidence            5

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.86  E-value=1.5e-08  Score=83.86  Aligned_cols=113  Identities=6%  Similarity=-0.046  Sum_probs=96.1

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 040576          488 VEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYA  565 (641)
Q Consensus       488 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  565 (641)
                      ...+..+...+.+.|++++|++.|++. . .+.+...|..+..++...|++++|+..++++++++|+++..|..++.+|.
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            455677778888899999999988876 2 23457788899999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccC------CCCchhhHHHHHHHHHHH
Q 040576          566 SEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENC------PPHRKCIVYSMLGEIGAQ  626 (641)
Q Consensus       566 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~------p~~~~~~~~~~l~~l~~~  626 (641)
                      ..|++++|.+.+++.                        .+++      |++..  +...|..+..+
T Consensus        84 ~~~~~~~A~~~~~~a------------------------l~~~p~~~~~p~~~~--~~~~l~~~~~~  124 (126)
T 3upv_A           84 AVKEYASALETLDAA------------------------RTKDAEVNNGSSARE--IDQLYYKASQQ  124 (126)
T ss_dssp             HTTCHHHHHHHHHHH------------------------HHHHHHHHTTTTHHH--HHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHH------------------------HHhCcccCCchhHHH--HHHHHHHHHHh
Confidence            999999999999998                        4555      88888  88888776554

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.84  E-value=5.9e-08  Score=103.51  Aligned_cols=159  Identities=9%  Similarity=-0.022  Sum_probs=120.2

Q ss_pred             cCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHH
Q 040576          399 CGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYF  475 (641)
Q Consensus       399 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~  475 (641)
                      .|++++|.+.|++..+   .+...|..+...|...|++++|...|++..+... .+...+..+...+...|++++|.+.+
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHP-GHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTST-TCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            3677888888887764   3567888889999999999999999999888642 25678888888999999999999999


Q ss_pred             HHhHHhhCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHhc
Q 040576          476 DLMQRIYKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKL-PME-AGPALWGALLSACSTH---SNSELGKIVAQHLMEL  549 (641)
Q Consensus       476 ~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~  549 (641)
                      ++..+   ..| +...+..+..+|.+.|++++|++.+++. ... .+...+..+...+...   |+.++|...++++++.
T Consensus        81 ~~al~---~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           81 QQASD---AAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHh---cCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            99987   234 4678888999999999999999999886 223 3467888888999999   9999999999999999


Q ss_pred             CCCCCchHHHHH
Q 040576          550 EPRDPGPYVLLS  561 (641)
Q Consensus       550 ~p~~~~~~~~l~  561 (641)
                      +|.+...|..++
T Consensus       158 ~p~~~~~~~~l~  169 (568)
T 2vsy_A          158 GVGAVEPFAFLS  169 (568)
T ss_dssp             TCCCSCHHHHTT
T ss_pred             CCcccChHHHhC
Confidence            999888887766

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.82  E-value=1.8e-08  Score=89.16  Aligned_cols=116  Identities=9%  Similarity=0.052  Sum_probs=88.2

Q ss_pred             HhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHH-HHhcCCH--H
Q 040576          463 THAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PM-EAGPALWGALLSA-CSTHSNS--E  537 (641)
Q Consensus       463 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~-~~~~g~~--~  537 (641)
                      ...|++++|...++...+.  .+.+...+..+..+|...|++++|++.|++. .. ..+...+..+..+ +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchH
Confidence            4457777788888777662  2234667777888888888888888888776 11 2356677777777 7788888  9


Q ss_pred             HHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          538 LGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       538 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      +|...++++++.+|+++..+..++.+|...|++++|...++++
T Consensus        99 ~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a  141 (177)
T 2e2e_A           99 QTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKV  141 (177)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999998

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.82  E-value=7.9e-08  Score=87.79  Aligned_cols=127  Identities=7%  Similarity=-0.136  Sum_probs=66.8

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHh
Q 040576          420 WNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLG  499 (641)
Q Consensus       420 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~  499 (641)
                      +..+...+...|++++|+..|++..    .|+...+..+...+...|++++|...|++....  .+.+...+..+..+|.
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHH
Confidence            4445555666666666666665552    445555666666666666666666666666551  1223444555555555


Q ss_pred             hcCCHHHHHHHHHhC-CCCC-C----------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 040576          500 RAGLMRDSEELVSKL-PMEA-G----------------PALWGALLSACSTHSNSELGKIVAQHLMELEPR  552 (641)
Q Consensus       500 ~~g~~~~A~~~~~~~-~~~~-~----------------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  552 (641)
                      ..|++++|++.|++. ...| +                ...+..+..++...|++++|...+++++++.|+
T Consensus        83 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~  153 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  153 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcc
Confidence            555555555555544 1111 1                134444555555555555555555555555443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.81  E-value=3.8e-07  Score=87.40  Aligned_cols=147  Identities=13%  Similarity=0.134  Sum_probs=70.5

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHH--HHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCC-----
Q 040576          431 GQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVL--EGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGL-----  503 (641)
Q Consensus       431 ~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~--~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~-----  503 (641)
                      +++++++.+++++.+...+ |...+..-...+.+.|.++  +++++++++.+ . -.-|...|+.-..++.+.|.     
T Consensus       124 ~~~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~-~-d~~N~sAW~~R~~ll~~l~~~~~~~  200 (306)
T 3dra_A          124 FDPYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVID-T-DLKNNSAWSHRFFLLFSKKHLATDN  200 (306)
T ss_dssp             CCTHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH-H-CTTCHHHHHHHHHHHHSSGGGCCHH
T ss_pred             CCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHH-h-CCCCHHHHHHHHHHHHhccccchhh
Confidence            4455555555555544322 3444444444444444444  55555555544 1 11223344433333333333     


Q ss_pred             -HHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHhcC---CCCCchHHHHHHHHHhcCChHHHHHH
Q 040576          504 -MRDSEELVSKL--PMEAGPALWGALLSACSTHSNS-ELGKIVAQHLMELE---PRDPGPYVLLSNIYASEGKWDEVENL  576 (641)
Q Consensus       504 -~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~~A~~~  576 (641)
                       ++++++.++++  ...-|...|+-+...+...|+. +....+.+++.+++   |.++.++..++.+|.+.|+.++|.++
T Consensus       201 ~~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~  280 (306)
T 3dra_A          201 TIDEELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Confidence             55555555443  1123344555555555555442 22334455544444   55555666666666666666666666


Q ss_pred             HHHh
Q 040576          577 RRIM  580 (641)
Q Consensus       577 ~~~m  580 (641)
                      ++.+
T Consensus       281 ~~~l  284 (306)
T 3dra_A          281 YDLL  284 (306)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6665

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.81  E-value=1.5e-07  Score=86.92  Aligned_cols=178  Identities=12%  Similarity=0.037  Sum_probs=122.0

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCC-CC-HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCch-HHHHH
Q 040576          417 VVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPT-PN-DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKV-EHYGC  493 (641)
Q Consensus       417 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~-p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~  493 (641)
                      ...+..+...+...|++++|+..|+++.+.... |. ...+..+..++.+.|++++|+..|+++.+...-.+.. ..+..
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~   83 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYM   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHH
Confidence            445666777888889999999999998875322 11 3467778888888999999999999988733222221 24444


Q ss_pred             HHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchH----------------
Q 040576          494 MVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPY----------------  557 (641)
Q Consensus       494 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~----------------  557 (641)
                      +..++.+.|..     .++         .+..+...+...|+.++|...|+++++..|+++..+                
T Consensus        84 ~g~~~~~~~~~-----~~~---------~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~~~a~~a~~~l~~~~~~~~~~  149 (225)
T 2yhc_A           84 RGLTNMALDDS-----ALQ---------GFFGVDRSDRDPQQARAAFSDFSKLVRGYPNSQYTTDATKRLVFLKDRLAKY  149 (225)
T ss_dssp             HHHHHHHHHC----------------------------CCHHHHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhhh-----hhh---------hhhccchhhcCcHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHHH
Confidence            55555544321     111         122233345567889999999999999999988665                


Q ss_pred             -HHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCc---hhhHHHHHHHHHHHHHhhhcc
Q 040576          558 -VLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHR---KCIVYSMLGEIGAQMKMCRRD  633 (641)
Q Consensus       558 -~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~---~~~~~~~l~~l~~~~~~~~~~  633 (641)
                       ..++..|.+.|++++|+..++++                        .+..|++.   +  .+..++.+..++++..++
T Consensus       150 ~~~~a~~~~~~~~~~~A~~~~~~~------------------------l~~~p~~~~~~~--a~~~l~~~~~~~g~~~~A  203 (225)
T 2yhc_A          150 EYSVAEYYTERGAWVAVVNRVEGM------------------------LRDYPDTQATRD--ALPLMENAYRQMQMNAQA  203 (225)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHH------------------------HHHSTTSHHHHH--HHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHH------------------------HHHCcCCCccHH--HHHHHHHHHHHcCCcHHH
Confidence             46788899999999999999999                        56667765   5  688888888888777665


Q ss_pred             c
Q 040576          634 V  634 (641)
Q Consensus       634 ~  634 (641)
                      .
T Consensus       204 ~  204 (225)
T 2yhc_A          204 E  204 (225)
T ss_dssp             H
T ss_pred             H
Confidence            4

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.81  E-value=4e-08  Score=81.16  Aligned_cols=113  Identities=6%  Similarity=-0.049  Sum_probs=92.9

Q ss_pred             CCCCH-HHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHHHH
Q 040576          448 PTPND-ATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKL-PM-EAGPALW  523 (641)
Q Consensus       448 ~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~  523 (641)
                      +.|+. ..+......+.+.|++++|++.|+++.+   +.| +...|..+..+|.+.|++++|++.+++. .. +.+...|
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~   84 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVK---RDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGY   84 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHH
Confidence            44543 3667778888889999999999998887   334 4778888889999999999999998886 22 3447789


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHH
Q 040576          524 GALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNI  563 (641)
Q Consensus       524 ~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  563 (641)
                      ..+..++...|++++|+..|+++++++|+++.++..|+.+
T Consensus        85 ~~lg~~~~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~  124 (126)
T 4gco_A           85 IRKAACLVAMREWSKAQRAYEDALQVDPSNEEAREGVRNC  124 (126)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHh
Confidence            9999999999999999999999999999999888887765

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.81  E-value=4.7e-08  Score=81.43  Aligned_cols=115  Identities=6%  Similarity=-0.038  Sum_probs=82.0

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 040576          488 VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYA  565 (641)
Q Consensus       488 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  565 (641)
                      ...+..+...+.+.|++++|++.+++. ...| +...+..+...+...|++++|...++++++..|+++..+..++.+|.
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~   95 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAALE   95 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHHH
Confidence            555666777777777777777777765 2233 45667777777777778888888888887777777777777888888


Q ss_pred             hcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHH
Q 040576          566 SEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMK  628 (641)
Q Consensus       566 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~  628 (641)
                      ..|++++|.+.+++.                        .+.+|++..  .+..++.+...++
T Consensus        96 ~~~~~~~A~~~~~~~------------------------~~~~p~~~~--~~~~l~~~~~~~~  132 (133)
T 2lni_A           96 AMKDYTKAMDVYQKA------------------------LDLDSSCKE--AADGYQRCMMAQY  132 (133)
T ss_dssp             HTTCHHHHHHHHHHH------------------------HHHCGGGTH--HHHHHHHHHHHHT
T ss_pred             HHhhHHHHHHHHHHH------------------------HHhCCCchH--HHHHHHHHHHHhc
Confidence            888888888887777                        555666667  7777776665543

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.79  E-value=7.8e-08  Score=78.90  Aligned_cols=92  Identities=18%  Similarity=0.228  Sum_probs=54.4

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 040576          489 EHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYAS  566 (641)
Q Consensus       489 ~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  566 (641)
                      ..+..+...+.+.|++++|++.++++ . ...+...+..+...+...|++++|...++++.+..|+++..+..++.+|..
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~   89 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYK   89 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHH
Confidence            34445555555555555555555554 1 122344555566666666666666666666666666666666666666666


Q ss_pred             cCChHHHHHHHHHh
Q 040576          567 EGKWDEVENLRRIM  580 (641)
Q Consensus       567 ~g~~~~A~~~~~~m  580 (641)
                      .|++++|...++++
T Consensus        90 ~~~~~~A~~~~~~~  103 (125)
T 1na0_A           90 QGDYDEAIEYYQKA  103 (125)
T ss_dssp             TTCHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHH
Confidence            66666666666666

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.78  E-value=4.4e-06  Score=86.52  Aligned_cols=346  Identities=10%  Similarity=0.003  Sum_probs=203.4

Q ss_pred             CCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCC-HHHHHHHHhc-----C-CCCCeeHHHHHHHHHH----hCCCh
Q 040576          171 RSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGE-VLDARKVFED-----G-PVWDLVTWNSMIDGYV----KNREV  239 (641)
Q Consensus       171 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~-----~-~~~~~~~~~~li~~~~----~~g~~  239 (641)
                      ++++.+..+|++....  .|+...|...+....+.++ .+....+|+.     + ...+...|...+.-+.    ..|+.
T Consensus        28 ~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~  105 (493)
T 2uy1_A           28 KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRI  105 (493)
T ss_dssp             TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHH
T ss_pred             CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHH
Confidence            8899999999988874  4688888888887777663 3445556654     1 2345567777776543    24567


Q ss_pred             HHHHHHHhhCCCCCchhHHHHHHHHh---cCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhcCC---
Q 040576          240 GFARELFDFMPERDIFTWNSMISGYV---DVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCM---  313 (641)
Q Consensus       240 ~~A~~~~~~m~~~~~~~~~~ll~~~~---~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~---  313 (641)
                      +.+..+|++.+.-....+..+-..|.   +......+..+....                 .+.+..|..+++.+..   
T Consensus       106 ~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~-----------------~~~y~~ar~~y~~~~~~~~  168 (493)
T 2uy1_A          106 EKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDT-----------------LPIFQSSFQRYQQIQPLIR  168 (493)
T ss_dssp             HHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHH-----------------hHHHHHHHHHHHHHHHHHh
Confidence            77888888873211111222222221   111122222222111                 0122233333333211   


Q ss_pred             -CCcchHHHHHHHHHHcC--C-----hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCc
Q 040576          314 -RNVVSWNILLALYVRCK--D-----YCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPD  385 (641)
Q Consensus       314 -~~~~~~~~li~~~~~~g--~-----~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~  385 (641)
                       .+...|...+.--...+  -     .+.+..+|+++... .+.+...|...+..+...|+.+.|..+++.....  +.+
T Consensus       169 ~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~-~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~  245 (493)
T 2uy1_A          169 GWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDS-FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDG  245 (493)
T ss_dssp             TCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCS
T ss_pred             hccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCc
Confidence             12334544443322211  0     34466788887774 3445667777777777888899999999888887  444


Q ss_pred             hhHHHHHHHHHHhcCCHHHH-HHHHhhcC------------CCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH
Q 040576          386 VLLSTSLLTMYAKCGVMDLA-RNVFDNMT------------EKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPND  452 (641)
Q Consensus       386 ~~~~~~li~~~~~~g~~~~A-~~~~~~~~------------~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~  452 (641)
                      ...+..    |+...+.++. ..+.+...            ......|...+..+.+.++.+.|..+|++. .. ...+.
T Consensus       246 ~~l~~~----y~~~~e~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~  319 (493)
T 2uy1_A          246 MFLSLY----YGLVMDEEAVYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGP  319 (493)
T ss_dssp             SHHHHH----HHHHTTCTHHHHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCH
T ss_pred             HHHHHH----HHhhcchhHHHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCCh
Confidence            433332    2221111111 11222111            011245667777777788899999999998 32 22344


Q ss_pred             HHHHHHHHHHHh-hccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 040576          453 ATFICVLSACTH-AGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACS  531 (641)
Q Consensus       453 ~~~~~ll~~~~~-~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~  531 (641)
                      ..|......-.. .++.+.|..+|+...+..+  -+...+...++.....|+.+.|..+|+++.  .....|...+.--.
T Consensus       320 ~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~--~~~~~~~~yid~e~~~~~~~~aR~l~er~~--k~~~lw~~~~~fE~  395 (493)
T 2uy1_A          320 HVFIYCAFIEYYATGSRATPYNIFSSGLLKHP--DSTLLKEEFFLFLLRIGDEENARALFKRLE--KTSRMWDSMIEYEF  395 (493)
T ss_dssp             HHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHTCHHHHHHHHHHSC--CBHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH--HHHHHHHHHHHHHH
Confidence            455432222222 3369999999999988432  234556677888889999999999999984  35778888888878


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 040576          532 THSNSELGKIVAQHLME  548 (641)
Q Consensus       532 ~~g~~~~a~~~~~~~~~  548 (641)
                      ..|+.+.+..++++..+
T Consensus       396 ~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          396 MVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHSCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            88999999998888875

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.77  E-value=1e-07  Score=78.96  Aligned_cols=116  Identities=13%  Similarity=0.024  Sum_probs=72.0

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 040576          488 VEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYA  565 (641)
Q Consensus       488 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  565 (641)
                      ...+..+...+...|++++|++.+++. . ...+...+..+...+...|++++|...++++++..|+++..+..++.+|.
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLALS   91 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHHH
Confidence            344555555666666666666666654 1 12245556666666666666777777777666666666666666677777


Q ss_pred             hcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHh
Q 040576          566 SEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKM  629 (641)
Q Consensus       566 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~  629 (641)
                      ..|++++|.+.+++.                        .+..|++..  .+..++.+...+++
T Consensus        92 ~~~~~~~A~~~~~~~------------------------~~~~p~~~~--~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           92 SLNKHVEAVAYYKKA------------------------LELDPDNET--YKSNLKIAELKLRE  129 (131)
T ss_dssp             HTTCHHHHHHHHHHH------------------------HHHSTTCHH--HHHHHHHHHHHHTT
T ss_pred             HhCCHHHHHHHHHHH------------------------HhcCccchH--HHHHHHHHHHHHhc
Confidence            777777777776666                        455566666  66666666655544

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.76  E-value=6.2e-07  Score=86.53  Aligned_cols=161  Identities=8%  Similarity=-0.043  Sum_probs=119.6

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCC-CCCHH----HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc----hHHHH
Q 040576          422 SMIMGYGMHGQGEKALEMFMEMEKRGP-TPNDA----TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK----VEHYG  492 (641)
Q Consensus       422 ~li~~~~~~~~~~~A~~~~~~m~~~g~-~p~~~----~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~  492 (641)
                      ..+..+...|++++|..++++..+... .|+..    .+..+...+...|++++|+..|+++.....-.++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            346678888999999999998877421 22211    2334566667778999999999998872122222    33688


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhCC-----CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC------CchH
Q 040576          493 CMVDLLGRAGLMRDSEELVSKLP-----MEAG----PALWGALLSACSTHSNSELGKIVAQHLMELEPRD------PGPY  557 (641)
Q Consensus       493 ~li~~~~~~g~~~~A~~~~~~~~-----~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~  557 (641)
                      .+..+|...|++++|++.|+++-     ...+    ..++..+...|...|++++|...+++++++.+..      +..|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            89999999999999998888762     1112    2367788889999999999999999998865433      4579


Q ss_pred             HHHHHHHHhcCC-hHHHHHHHHHhhh
Q 040576          558 VLLSNIYASEGK-WDEVENLRRIMKE  582 (641)
Q Consensus       558 ~~l~~~~~~~g~-~~~A~~~~~~m~~  582 (641)
                      ..++.+|.+.|+ +++|.+.+++...
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            999999999995 6999999988753

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.76  E-value=1.3e-07  Score=76.63  Aligned_cols=111  Identities=10%  Similarity=0.028  Sum_probs=88.1

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 040576          488 VEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYA  565 (641)
Q Consensus       488 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  565 (641)
                      ...+..++..+...|++++|...+++. . .+.+...+..+...+...|++++|...++++++..|+++..+..++.+|.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            455666777778888888888888776 2 22356677788888888899999999999999988888888889999999


Q ss_pred             hcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHH
Q 040576          566 SEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIG  624 (641)
Q Consensus       566 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~  624 (641)
                      ..|++++|.+.+++.                        .+.+|++..  .+..++.+.
T Consensus        84 ~~~~~~~A~~~~~~~------------------------~~~~~~~~~--~~~~l~~~~  116 (118)
T 1elw_A           84 FLNRFEEAKRTYEEG------------------------LKHEANNPQ--LKEGLQNME  116 (118)
T ss_dssp             HTTCHHHHHHHHHHH------------------------HTTCTTCHH--HHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHH------------------------HHcCCCCHH--HHHHHHHhh
Confidence            999999999999888                        566777777  777776654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.75  E-value=2.1e-07  Score=89.81  Aligned_cols=163  Identities=7%  Similarity=-0.057  Sum_probs=120.7

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH-----HHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCC--Cc--hH
Q 040576          419 SWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPND-----ATFICVLSACTHAGMVLEGWWYFDLMQRIYKIE--PK--VE  489 (641)
Q Consensus       419 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~--p~--~~  489 (641)
                      .+...+..+...|++++|.+.+.+..+.....+.     ..+..+...+...|++++|...+++......-.  +.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            4455677788899999999999888775322111     123345556677889999999999887521111  11  45


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCC----CCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--C----C
Q 040576          490 HYGCMVDLLGRAGLMRDSEELVSKLP----MEAG-----PALWGALLSACSTHSNSELGKIVAQHLMELEPR--D----P  554 (641)
Q Consensus       490 ~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~--~----~  554 (641)
                      +|+.+...|...|++++|++.++++.    ..|+     ..++..+...|...|++++|...+++++++.++  +    .
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            78888999999999999999988751    1122     147788888999999999999999999876532  1    4


Q ss_pred             chHHHHHHHHHhcCChHHH-HHHHHHhh
Q 040576          555 GPYVLLSNIYASEGKWDEV-ENLRRIMK  581 (641)
Q Consensus       555 ~~~~~l~~~~~~~g~~~~A-~~~~~~m~  581 (641)
                      .+|..++.+|.+.|++++| ...+++..
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            5788999999999999999 77788764

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.75  E-value=8.3e-08  Score=80.55  Aligned_cols=119  Identities=8%  Similarity=-0.044  Sum_probs=96.3

Q ss_pred             CchHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHH
Q 040576          486 PKVEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNI  563 (641)
Q Consensus       486 p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  563 (641)
                      .+...+..+...+...|++++|+..|++. . .+.+...|..+..++...|++++|...++++++++|+++..+..++.+
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   86 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   86 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHH
Confidence            34667777888888888888888888876 2 223467888888999999999999999999999999999999999999


Q ss_pred             HHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCC-----CchhhHHHHHHHHHHHHHhh
Q 040576          564 YASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPP-----HRKCIVYSMLGEIGAQMKMC  630 (641)
Q Consensus       564 ~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~-----~~~~~~~~~l~~l~~~~~~~  630 (641)
                      |...|++++|...+++..+                        +.|+     +..  +...+..+..+..+.
T Consensus        87 ~~~~~~~~~A~~~~~~a~~------------------------~~p~~~~~~~~~--~~~~l~~~~~~~~~~  132 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAYS------------------------LAKEQRLNFGDD--IPSALRIAKKKRWNS  132 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHHH------------------------HHHHTTCCCTTH--HHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHH------------------------HChhHHHHHHHH--HHHHHHHHHHHHHHH
Confidence            9999999999999999843                        3344     566  777777776665443

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.74  E-value=1.7e-08  Score=91.26  Aligned_cols=120  Identities=7%  Similarity=-0.073  Sum_probs=93.0

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhC----CCCCC--------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 040576          489 EHYGCMVDLLGRAGLMRDSEELVSKL----PMEAG--------------PALWGALLSACSTHSNSELGKIVAQHLMELE  550 (641)
Q Consensus       489 ~~~~~li~~~~~~g~~~~A~~~~~~~----~~~~~--------------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  550 (641)
                      ..+..+...+.+.|++++|++.|++.    +..|+              ...|..+..++...|++++|+..++++++++
T Consensus        39 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~  118 (198)
T 2fbn_A           39 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID  118 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            34555566666667777776666654    11111              2567778888889999999999999999999


Q ss_pred             CCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhh
Q 040576          551 PRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMC  630 (641)
Q Consensus       551 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~  630 (641)
                      |+++..+..++.+|...|++++|.+.+++.                        .+++|++..  ++..++.+...+++.
T Consensus       119 p~~~~~~~~lg~~~~~~~~~~~A~~~~~~a------------------------l~~~p~~~~--~~~~l~~~~~~~~~~  172 (198)
T 2fbn_A          119 KNNVKALYKLGVANMYFGFLEEAKENLYKA------------------------ASLNPNNLD--IRNSYELCVNKLKEA  172 (198)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH------------------------HHHSTTCHH--HHHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcccHHHHHHHHHHH------------------------HHHCCCcHH--HHHHHHHHHHHHHHH
Confidence            999999999999999999999999999988                        677888888  899999988888777


Q ss_pred             hccc
Q 040576          631 RRDV  634 (641)
Q Consensus       631 ~~~~  634 (641)
                      .+..
T Consensus       173 ~~~~  176 (198)
T 2fbn_A          173 RKKD  176 (198)
T ss_dssp             HC--
T ss_pred             HHHH
Confidence            6654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.74  E-value=5.3e-08  Score=84.63  Aligned_cols=89  Identities=11%  Similarity=0.107  Sum_probs=80.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeee
Q 040576          520 PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEF  599 (641)
Q Consensus       520 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~  599 (641)
                      ...|..+..++...|++++|+..++++++++|+++..|..++.+|...|++++|...+++.                   
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~a-------------------  123 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLL-------------------  123 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH-------------------
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHH-------------------
Confidence            4578888889999999999999999999999999999999999999999999999999998                   


Q ss_pred             ecccccccCCCCc-hhhHHHHHHHHHHHHHhhhccc
Q 040576          600 ASESIVENCPPHR-KCIVYSMLGEIGAQMKMCRRDV  634 (641)
Q Consensus       600 ~~~~~~~~~p~~~-~~~~~~~l~~l~~~~~~~~~~~  634 (641)
                           .+++|++. .  +...|+.+...+++..+..
T Consensus       124 -----l~l~p~~~~~--~~~~l~~~~~~~~~~~~~~  152 (162)
T 3rkv_A          124 -----LRNHPAAASV--VAREMKIVTERRAEKKADS  152 (162)
T ss_dssp             -----HHHCGGGHHH--HHHHHHHHHHHHHHHTTSS
T ss_pred             -----HhcCCCCHHH--HHHHHHHHHHHHHHHHHHH
Confidence                 78889998 6  8889999888887765543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.73  E-value=4.3e-06  Score=80.05  Aligned_cols=226  Identities=9%  Similarity=-0.025  Sum_probs=166.4

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHccC--CHHHHHHHHHHHHHcCCCCchhHHHHHHHHH----Hhc---C
Q 040576          331 DYCECLRLFDRMIRGDAKPNEA-SLMSVLTACANMG--VIDIGQWIHSYIQKCRIKPDVLLSTSLLTMY----AKC---G  400 (641)
Q Consensus       331 ~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~----~~~---g  400 (641)
                      ..++|++++++++.  +.|+.. .|+.--..+...|  +++++...++.+...+ +-+..+|+.-..++    ...   +
T Consensus        48 ~s~~aL~~t~~~L~--~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~  124 (306)
T 3dra_A           48 YSERALHITELGIN--ELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDF  124 (306)
T ss_dssp             CSHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCC
T ss_pred             CCHHHHHHHHHHHH--HCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccC
Confidence            34578888877776  345443 4555556666666  7888888888877765 33444555443444    444   7


Q ss_pred             CHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChH--HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhcc------HH
Q 040576          401 VMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGE--KALEMFMEMEKRGPTPNDATFICVLSACTHAGM------VL  469 (641)
Q Consensus       401 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~--~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~------~~  469 (641)
                      ++++++.+++.+.+   +|..+|+.-.-.+...|+++  ++++.++++.+..+. |...++.-...+.+.|.      ++
T Consensus       125 ~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~  203 (306)
T 3dra_A          125 DPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTID  203 (306)
T ss_dssp             CTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHH
Confidence            88899999988874   56778888877888888888  999999999997655 67777766666666666      89


Q ss_pred             HHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHH-HHHHHHhCC-C----CCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 040576          470 EGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRD-SEELVSKLP-M----EAGPALWGALLSACSTHSNSELGKIVA  543 (641)
Q Consensus       470 ~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~-A~~~~~~~~-~----~~~~~~~~~l~~~~~~~g~~~~a~~~~  543 (641)
                      ++++.++.+..  --+-|...|+.+...+.+.|+..+ +.++.+++. .    ..+...+..+...+.+.|+.++|..++
T Consensus       204 eEl~~~~~aI~--~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~  281 (306)
T 3dra_A          204 EELNYVKDKIV--KCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVY  281 (306)
T ss_dssp             HHHHHHHHHHH--HCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHH--hCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            99999999987  133457788888888888887544 555666652 1    346778889999999999999999999


Q ss_pred             HHHHh-cCCCCCchHHHHHH
Q 040576          544 QHLME-LEPRDPGPYVLLSN  562 (641)
Q Consensus       544 ~~~~~-~~p~~~~~~~~l~~  562 (641)
                      +.+.+ .+|.....|...+.
T Consensus       282 ~~l~~~~Dpir~~yW~~~~~  301 (306)
T 3dra_A          282 DLLKSKYNPIRSNFWDYQIS  301 (306)
T ss_dssp             HHHHHTTCGGGHHHHHHHHH
T ss_pred             HHHHhccChHHHHHHHHHHh
Confidence            99997 79998877776654

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.73  E-value=1.2e-07  Score=82.58  Aligned_cols=93  Identities=10%  Similarity=0.034  Sum_probs=53.7

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 040576          488 VEHYGCMVDLLGRAGLMRDSEELVSKL-PME-AGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYA  565 (641)
Q Consensus       488 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  565 (641)
                      ...+..+...+.+.|++++|++.|++. ... .+...|..+..++...|++++|+..++++++++|+++..|..++.+|.
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   90 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLARF   90 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            344445555555555555555555554 111 234455555556666666666666666666666666666666666666


Q ss_pred             hcCChHHHHHHHHHh
Q 040576          566 SEGKWDEVENLRRIM  580 (641)
Q Consensus       566 ~~g~~~~A~~~~~~m  580 (641)
                      ..|++++|++.+++.
T Consensus        91 ~~g~~~~A~~~~~~a  105 (164)
T 3sz7_A           91 DMADYKGAKEAYEKG  105 (164)
T ss_dssp             HTTCHHHHHHHHHHH
T ss_pred             HccCHHHHHHHHHHH
Confidence            666666666666665

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.73  E-value=1.2e-06  Score=79.91  Aligned_cols=170  Identities=8%  Similarity=-0.027  Sum_probs=113.4

Q ss_pred             HHHHHHhc-CCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC----CHHHHHHHHHHHH
Q 040576          304 ARNCFDRM-CMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMG----VIDIGQWIHSYIQ  378 (641)
Q Consensus       304 A~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g----~~~~a~~~~~~~~  378 (641)
                      |.+.|++. ...++..+..+...|...+++++|+..|++..+.|   +...+..+...|.. +    +.++|...|+...
T Consensus         5 A~~~~~~aa~~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A            5 PGSQYQQQAEAGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             TTHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            44445444 23456667777777777788888888888877754   44556666666666 5    7778888877777


Q ss_pred             HcCCCCchhHHHHHHHHHHh----cCCHHHHHHHHhhcCCCC-----hhHHHHHHHHHHH----cCChHHHHHHHHHHHH
Q 040576          379 KCRIKPDVLLSTSLLTMYAK----CGVMDLARNVFDNMTEKN-----VVSWNSMIMGYGM----HGQGEKALEMFMEMEK  445 (641)
Q Consensus       379 ~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~-----~~~~~~li~~~~~----~~~~~~A~~~~~~m~~  445 (641)
                      +.|   +...+..|..+|..    .+++++|.+.|++..+.+     +.++..|...|..    .+++++|+.+|++..+
T Consensus        81 ~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~  157 (212)
T 3rjv_A           81 EAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSS  157 (212)
T ss_dssp             HTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHH
T ss_pred             HCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH
Confidence            654   45566666667765    677788888877777532     4677777777777    6777888888877776


Q ss_pred             CCCCCCHHHHHHHHHHHHhh-c-----cHHHHHHHHHHhHHhhC
Q 040576          446 RGPTPNDATFICVLSACTHA-G-----MVLEGWWYFDLMQRIYK  483 (641)
Q Consensus       446 ~g~~p~~~~~~~ll~~~~~~-g-----~~~~a~~~~~~~~~~~~  483 (641)
                      .  ..+...+..|...|... |     +.++|..+|+...+ .|
T Consensus       158 ~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~-~g  198 (212)
T 3rjv_A          158 L--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCL-EG  198 (212)
T ss_dssp             T--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHH-HT
T ss_pred             c--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHH-cC
Confidence            5  12334555566665543 2     67777777777776 44

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.72  E-value=2.3e-08  Score=95.84  Aligned_cols=192  Identities=11%  Similarity=-0.042  Sum_probs=121.8

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 040576          385 DVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSA  461 (641)
Q Consensus       385 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  461 (641)
                      +...+..+...+...|++++|...|++..+   .+...|..+..+|...|++++|+..+++..+... -+...+..+..+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~   81 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLGQC   81 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT-TCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHH
Confidence            344555666677777777777777776652   3566777778888888888888888888776532 245677777778


Q ss_pred             HHhhccHHHHHHHHHHhHHhhCCCCch-HHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 040576          462 CTHAGMVLEGWWYFDLMQRIYKIEPKV-EHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGK  540 (641)
Q Consensus       462 ~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  540 (641)
                      +...|++++|...|+++.+.   .|+. ..+...+....+.++...... ........+......+ ..+ ..|+.++|.
T Consensus        82 ~~~~g~~~~A~~~~~~al~l---~p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~l-~~l-~~~~~~~A~  155 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSL---AKEQRLNFGDDIPSALRIAKKKRWNS-IEERRIHQESELHSYL-TRL-IAAEREREL  155 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---HHHTTCCCCSHHHHHHHHHHHHHHHH-HHHTCCCCCCHHHHHH-HHH-HHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh---CccchhhHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHHHHHH-HHH-HHHHHHHHH
Confidence            88888888888888877662   2221 011111111111111111111 2222222333333333 333 268899999


Q ss_pred             HHHHHHHhcCCCCCchHHHHHHHHHhc-CChHHHHHHHHHhhhC
Q 040576          541 IVAQHLMELEPRDPGPYVLLSNIYASE-GKWDEVENLRRIMKEK  583 (641)
Q Consensus       541 ~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~A~~~~~~m~~~  583 (641)
                      ..++++++++|++......+...+.+. +.+++|.++|+++.+.
T Consensus       156 ~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          156 EECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             TTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            999999999998877777777777776 7789999999988764

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.72  E-value=1.8e-07  Score=87.45  Aligned_cols=179  Identities=9%  Similarity=-0.093  Sum_probs=109.1

Q ss_pred             hcCCHHHHHHHHhhcCC---CChhHHHHH-------HHHHHHcCChHHHHHHHHHHHHCCCCCC----------------
Q 040576          398 KCGVMDLARNVFDNMTE---KNVVSWNSM-------IMGYGMHGQGEKALEMFMEMEKRGPTPN----------------  451 (641)
Q Consensus       398 ~~g~~~~A~~~~~~~~~---~~~~~~~~l-------i~~~~~~~~~~~A~~~~~~m~~~g~~p~----------------  451 (641)
                      ..++...|.+.|.++..   .....|..+       ...+...++..+++..+.+-..  +.|+                
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHhChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCcccccc
Confidence            35666666666666653   233456655       3445555555555555554433  1221                


Q ss_pred             ------HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCH----H
Q 040576          452 ------DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGP----A  521 (641)
Q Consensus       452 ------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~----~  521 (641)
                            ......+...+...|++++|.+.|+.+..   ..|+......+...+.+.|++++|+..|++....|++    .
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~---~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~  172 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPV---AGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGA  172 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCC---TTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHH
Confidence                  11223345566677777777777777654   2344335555566777778888888877766433332    2


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CC-CCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          522 LWGALLSACSTHSNSELGKIVAQHLMELE--PR-DPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       522 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      .+..+..++...|++++|+..|+++....  |. .+.....++.++.+.|+.++|...|+++.
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~  235 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQ  235 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            45666677777888888888888776432  33 33466777777888888888888888773

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.71  E-value=1.5e-08  Score=85.45  Aligned_cols=85  Identities=8%  Similarity=-0.095  Sum_probs=75.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhc-------CCCCCchH----HHHHHHHHhcCChHHHHHHHHHhhhCCCcccCc
Q 040576          522 LWGALLSACSTHSNSELGKIVAQHLMEL-------EPRDPGPY----VLLSNIYASEGKWDEVENLRRIMKEKELEKAVG  590 (641)
Q Consensus       522 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------~p~~~~~~----~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~  590 (641)
                      .|..+..++...|++++|+..+++++++       +|+++..|    +..+.++...|++++|+..+++.          
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kA----------  128 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKV----------  128 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH----------
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHH----------
Confidence            7888888899999999999999999999       99999999    99999999999999999999999          


Q ss_pred             eEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhhc
Q 040576          591 SSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRR  632 (641)
Q Consensus       591 ~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~  632 (641)
                                    .++.|++..  ++..+..+.+..++..+
T Consensus       129 --------------lel~p~d~~--~~~~~~~~~~~~~~~~~  154 (159)
T 2hr2_A          129 --------------VEMIEERKG--ETPGKERMMEVAIDRIA  154 (159)
T ss_dssp             --------------HHHHHHCCS--CCTTHHHHHHHHHHHHH
T ss_pred             --------------HhcCCCcHH--HHHHHHHHHHHHHHHHH
Confidence                          778888888  88888887776655443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.70  E-value=2.2e-07  Score=78.99  Aligned_cols=112  Identities=14%  Similarity=0.056  Sum_probs=90.8

Q ss_pred             chHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHH
Q 040576          487 KVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG----PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLS  561 (641)
Q Consensus       487 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  561 (641)
                      +...+..+...+...|++++|++.|++. ...|+    ...|..+..++...|++++|+..++++++..|+++..+..++
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a  106 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRS  106 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHH
Confidence            3566777777888888888888888876 44566    467777888888899999999999999999998888899999


Q ss_pred             HHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHH
Q 040576          562 NIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIG  624 (641)
Q Consensus       562 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~  624 (641)
                      .+|...|++++|.+.+++.                        .+.+|++..  +...+.++.
T Consensus       107 ~~~~~~~~~~~A~~~~~~a------------------------l~~~p~~~~--~~~~l~~~~  143 (148)
T 2dba_A          107 QALEKLGRLDQAVLDLQRC------------------------VSLEPKNKV--FQEALRNIS  143 (148)
T ss_dssp             HHHHHHTCHHHHHHHHHHH------------------------HHHCSSCHH--HHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHH------------------------HHcCCCcHH--HHHHHHHHH
Confidence            9999999999999999988                        667788888  777666653

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.70  E-value=7.3e-07  Score=81.25  Aligned_cols=131  Identities=9%  Similarity=-0.050  Sum_probs=108.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccH
Q 040576          389 STSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMV  468 (641)
Q Consensus       389 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~  468 (641)
                      +..+...+...|++++|...|++...++...|..+...|...|++++|+..|++..+.. +.+...+..+..++...|++
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~   87 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   87 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccH
Confidence            44567788899999999999999988888999999999999999999999999998864 23567888899999999999


Q ss_pred             HHHHHHHHHhHHhhC-------------CCC-chHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCH
Q 040576          469 LEGWWYFDLMQRIYK-------------IEP-KVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGP  520 (641)
Q Consensus       469 ~~a~~~~~~~~~~~~-------------~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~  520 (641)
                      ++|.+.|+++.+...             ..| ....+..+..+|.+.|++++|.+.|++. ...|+.
T Consensus        88 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  154 (213)
T 1hh8_A           88 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  154 (213)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc
Confidence            999999999987221             111 1367888999999999999999999987 445554

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.70  E-value=2.4e-07  Score=80.52  Aligned_cols=126  Identities=5%  Similarity=-0.077  Sum_probs=95.0

Q ss_pred             HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHH
Q 040576          454 TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACS  531 (641)
Q Consensus       454 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~  531 (641)
                      .+..+...+...|++++|...|+...+.  .+.+...+..+..++...|++++|++.+++. . ...+...|..+..++.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            4555666667777777777777777661  2224666777777788888888888877765 2 2234667888888899


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCchHHHHHHH--HHhcCChHHHHHHHHHhh
Q 040576          532 THSNSELGKIVAQHLMELEPRDPGPYVLLSNI--YASEGKWDEVENLRRIMK  581 (641)
Q Consensus       532 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~A~~~~~~m~  581 (641)
                      ..|++++|...++++++..|.++..+..+..+  +.+.|++++|++.+++..
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            99999999999999999999988877554444  888899999999988764

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.67  E-value=9.3e-08  Score=94.21  Aligned_cols=146  Identities=11%  Similarity=-0.047  Sum_probs=107.3

Q ss_pred             CChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc----------------hHHHHH
Q 040576          431 GQGEKALEMFMEMEKRGPTP-NDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK----------------VEHYGC  493 (641)
Q Consensus       431 ~~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----------------~~~~~~  493 (641)
                      +++++|...|+...+.  .| +...+..+...+.+.|++++|+..|+++..   +.|+                ...|..
T Consensus       127 ~~~~~A~~~~~~a~~~--~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~---~~p~~~~~~~~~~~~~~~~~~~~~~n  201 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEE--KLEQSTIVKERGTVYFKEGKYKQALLQYKKIVS---WLEYESSFSNEEAQKAQALRLASHLN  201 (336)
T ss_dssp             EEEECCCCGGGCCHHH--HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HTTTCCCCCSHHHHHHHHHHHHHHHH
T ss_pred             eecccccchhcCCHHH--HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---HhhccccCChHHHHHHHHHHHHHHHH
Confidence            3444555555443332  23 345777788888889999999999998887   2233                367778


Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChH
Q 040576          494 MVDLLGRAGLMRDSEELVSKL-PM-EAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWD  571 (641)
Q Consensus       494 li~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  571 (641)
                      +..+|.+.|++++|++.+++. .. +.+...|..+..++...|++++|+..|+++++++|+++..+..++.++.+.|+++
T Consensus       202 la~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~  281 (336)
T 1p5q_A          202 LAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQL  281 (336)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH
Confidence            888888888888888888876 22 2356677788888888888888888888888888888888888888888888888


Q ss_pred             HH-HHHHHHhh
Q 040576          572 EV-ENLRRIMK  581 (641)
Q Consensus       572 ~A-~~~~~~m~  581 (641)
                      +| ...+++|.
T Consensus       282 ~a~~~~~~~~~  292 (336)
T 1p5q_A          282 AREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            87 45666663

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.65  E-value=1.8e-07  Score=92.08  Aligned_cols=145  Identities=8%  Similarity=-0.040  Sum_probs=114.7

Q ss_pred             CHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC--------------HHHHHHHHHHHH
Q 040576          401 VMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPN--------------DATFICVLSACT  463 (641)
Q Consensus       401 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~--------------~~~~~~ll~~~~  463 (641)
                      ++++|...|+...+   .+...|..+...|.+.|++++|+..|++..+......              ...|..+..++.
T Consensus       128 ~~~~A~~~~~~a~~~~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~  207 (336)
T 1p5q_A          128 SFEKAKESWEMNSEEKLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHL  207 (336)
T ss_dssp             EEECCCCGGGCCHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ecccccchhcCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444332   2456888999999999999999999999998643321              478889999999


Q ss_pred             hhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHH-
Q 040576          464 HAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELG-  539 (641)
Q Consensus       464 ~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a-  539 (641)
                      +.|++++|+..++++.+   +.| +...|..+..+|...|++++|++.|+++ ...| +...+..+..++...|+.++| 
T Consensus       208 ~~g~~~~A~~~~~~al~---~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~  284 (336)
T 1p5q_A          208 KLQAFSAAIESCNKALE---LDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLARE  284 (336)
T ss_dssp             HTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999988   334 5788999999999999999999999987 2334 466888888899999999988 


Q ss_pred             HHHHHHHHh
Q 040576          540 KIVAQHLME  548 (641)
Q Consensus       540 ~~~~~~~~~  548 (641)
                      ...+++++.
T Consensus       285 ~~~~~~~~~  293 (336)
T 1p5q_A          285 KKLYANMFE  293 (336)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            456666654

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.64  E-value=3.5e-07  Score=75.98  Aligned_cols=115  Identities=7%  Similarity=-0.075  Sum_probs=86.5

Q ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHH
Q 040576          452 DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLS  528 (641)
Q Consensus       452 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~  528 (641)
                      ...+..+...+...|++++|...|+++.+   ..| +...+..+..+|...|++++|++.+++. . ...+...+..+..
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~---~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~   92 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIK---RNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAA   92 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHT---TCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH---cCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHH
Confidence            34566666667777777777777777665   223 4566667777777777777777777765 1 2235667888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 040576          529 ACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGK  569 (641)
Q Consensus       529 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  569 (641)
                      ++...|++++|...++++++..|.+...+..++.++...|+
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            89999999999999999999999999999999999887764

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.64  E-value=5.2e-07  Score=73.80  Aligned_cols=115  Identities=16%  Similarity=0.132  Sum_probs=87.4

Q ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHH
Q 040576          452 DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSA  529 (641)
Q Consensus       452 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~  529 (641)
                      ...+..+...+...|++++|.+.++++.+.  .+.+...+..++..+.+.|++++|+..++++ . ...+...+..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHH
Confidence            345666667777777777887777777662  2234566777777888888888888887776 1 23456678888888


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC
Q 040576          530 CSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEG  568 (641)
Q Consensus       530 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  568 (641)
                      +...|++++|...++++++..|+++..+..++.++...|
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            999999999999999999999999888888888877654

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.64  E-value=3.7e-07  Score=75.49  Aligned_cols=117  Identities=8%  Similarity=-0.051  Sum_probs=91.7

Q ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHH
Q 040576          452 DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSA  529 (641)
Q Consensus       452 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~  529 (641)
                      ...+..+...+...|++++|...|+++...  .+.+...+..+...+...|++++|++.+++. . ...+...+..+...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHH
Confidence            345666677777778888888888877762  2234667777788888888888888888775 2 22346678888888


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCh
Q 040576          530 CSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKW  570 (641)
Q Consensus       530 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  570 (641)
                      +...|++++|...++++++..|+++..+..++.++.+.|++
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999988875

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.63  E-value=1.1e-07  Score=77.77  Aligned_cols=94  Identities=13%  Similarity=0.032  Sum_probs=81.9

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc
Q 040576          490 HYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASE  567 (641)
Q Consensus       490 ~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  567 (641)
                      .+..+...+.+.|++++|+..|++. ...| +...|..+..++...|++++|+..++++++++|+++..+..++.+|...
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            3455677888999999999999887 2234 5778888999999999999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHhhhC
Q 040576          568 GKWDEVENLRRIMKEK  583 (641)
Q Consensus       568 g~~~~A~~~~~~m~~~  583 (641)
                      |++++|+..+++..+.
T Consensus        99 g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           99 HNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHC-
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            9999999999998544

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.63  E-value=2.3e-07  Score=76.67  Aligned_cols=94  Identities=3%  Similarity=-0.072  Sum_probs=78.4

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc-------hHH
Q 040576          488 VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPG-------PYV  558 (641)
Q Consensus       488 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~-------~~~  558 (641)
                      ...+..+...+.+.|++++|++.|++. ...| +...|..+..+|...|++++|+..++++++++|++..       +|.
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            345667888888889999999888876 2233 4678888999999999999999999999999887754       677


Q ss_pred             HHHHHHHhcCChHHHHHHHHHhh
Q 040576          559 LLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       559 ~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      .++.+|...|++++|++.+++..
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal  110 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSL  110 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHH
Confidence            78889999999999999999983

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.62  E-value=7.2e-06  Score=78.95  Aligned_cols=202  Identities=12%  Similarity=-0.082  Sum_probs=137.6

Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhH---HHHHHHHHHhcCCHHHHHHHHhhcCCC
Q 040576          339 FDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLL---STSLLTMYAKCGVMDLARNVFDNMTEK  415 (641)
Q Consensus       339 ~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~---~~~li~~~~~~g~~~~A~~~~~~~~~~  415 (641)
                      +.++......|+..++..+...+.-.-         +.+.......+...   +...+..+...|++++|...+++..+.
T Consensus        34 ~s~~e~g~~~~~~~~l~~i~~~l~~~~---------~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~~  104 (293)
T 3u3w_A           34 VSRIESGAVYPSMDILQGIAAKLQIPI---------IHFYEVLIYSDIERKKQFKDQVIMLCKQKRYKEIYNKVWNELKK  104 (293)
T ss_dssp             HHHHHTTSCCCCHHHHHHHHHHHTCCT---------HHHHHTTTSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHCCCCCCCHHHHHHHHHHhCcCH---------HHHhCCCCCCcchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhcc
Confidence            444444445677766666665543221         11111111222222   233467788899999999999887641


Q ss_pred             ---Ch------hHHHHHHHHHHHcCChHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhhccHHHHHHHHHHhHHh
Q 040576          416 ---NV------VSWNSMIMGYGMHGQGEKALEMFMEMEKRGPT-PN----DATFICVLSACTHAGMVLEGWWYFDLMQRI  481 (641)
Q Consensus       416 ---~~------~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~-p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  481 (641)
                         +.      ..+..+...+...|++++|+..|++..+.... ++    ..+++.+...|...|++++|..+|+++.+.
T Consensus       105 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~  184 (293)
T 3u3w_A          105 EEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQ  184 (293)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence               11      12334667777788999999999999884322 22    236888999999999999999999998752


Q ss_pred             h----CCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-------CCCCC-HHHHHHHHHHHHhcC-CHHHHHHHHHHHH
Q 040576          482 Y----KIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-------PMEAG-PALWGALLSACSTHS-NSELGKIVAQHLM  547 (641)
Q Consensus       482 ~----~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~~~-~~~~~~l~~~~~~~g-~~~~a~~~~~~~~  547 (641)
                      .    +..+. ..+|..+...|.+.|++++|++.+++.       ...+. ...+..+..++...| ++++|...+++++
T Consensus       185 ~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          185 LEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHH
Confidence            1    12222 347888999999999999999998875       12222 567888999999999 5799999999987


Q ss_pred             hc
Q 040576          548 EL  549 (641)
Q Consensus       548 ~~  549 (641)
                      ++
T Consensus       265 ~i  266 (293)
T 3u3w_A          265 FF  266 (293)
T ss_dssp             HH
T ss_pred             HH
Confidence            64

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.60  E-value=7.2e-07  Score=83.39  Aligned_cols=137  Identities=11%  Similarity=-0.018  Sum_probs=97.1

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc--hHHHHHHHHH
Q 040576          420 WNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK--VEHYGCMVDL  497 (641)
Q Consensus       420 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~li~~  497 (641)
                      +-.....+...|++++|.++|..+...+  |+......+...+.+.+++++|+..|+.... .. .|.  ...+..+..+
T Consensus       105 ~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~-~~-d~~~~~~a~~~LG~a  180 (282)
T 4f3v_A          105 TMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGK-WP-DKFLAGAAGVAHGVA  180 (282)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGG-CS-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhc-cC-CcccHHHHHHHHHHH
Confidence            3445667778888888888888777643  4443444555577788888888888875544 11 121  2356677888


Q ss_pred             HhhcCCHHHHHHHHHhCCCC---CC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHH
Q 040576          498 LGRAGLMRDSEELVSKLPME---AG--PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLS  561 (641)
Q Consensus       498 ~~~~g~~~~A~~~~~~~~~~---~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  561 (641)
                      +.+.|++++|+..|++....   |.  ...+.....++.+.|+.++|...|+++...+|+ +..+..|.
T Consensus       181 l~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL~  248 (282)
T 4f3v_A          181 AANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAALK  248 (282)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHHh
Confidence            88899999999888877212   33  336667777888999999999999999999988 66655554

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.59  E-value=3.6e-07  Score=75.61  Aligned_cols=117  Identities=8%  Similarity=0.010  Sum_probs=94.2

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-------CchHH
Q 040576          488 VEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRD-------PGPYV  558 (641)
Q Consensus       488 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~-------~~~~~  558 (641)
                      ...+..+...+...|++++|+..+++. . .+.+...+..+...+...|++++|...++++++..|++       +..+.
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            345667777788888888888888776 1 23456778888888999999999999999999988766       77899


Q ss_pred             HHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhh
Q 040576          559 LLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCR  631 (641)
Q Consensus       559 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~  631 (641)
                      .++.+|...|++++|.+.++++                        .+..| +..  ....++.+...+++..
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~------------------------~~~~~-~~~--~~~~l~~~~~~~~~~~  129 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKS------------------------LAEHR-TPD--VLKKCQQAEKILKEQE  129 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHH------------------------HHHCC-CHH--HHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHhccHHHHHHHHHHH------------------------HHhCC-CHH--HHHHHHHHHHHHHHhh
Confidence            9999999999999999999998                        45566 466  7888888888777654

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.58  E-value=5.9e-07  Score=78.02  Aligned_cols=119  Identities=13%  Similarity=0.029  Sum_probs=98.6

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 040576          488 VEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYA  565 (641)
Q Consensus       488 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  565 (641)
                      ...+..+...+...|++++|...|++. . .+.+...+..+...+...|++++|...++++++..|+++..+..++.+|.
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            455777888899999999999999986 2 23457788899999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHH--HHHHHhhhc
Q 040576          566 SEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEI--GAQMKMCRR  632 (641)
Q Consensus       566 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l--~~~~~~~~~  632 (641)
                      ..|++++|.+.++++                        .+.+|++..  ++..++..  ....++..+
T Consensus        93 ~~~~~~~A~~~~~~a------------------------~~~~p~~~~--~~~~~~~~~~~~~~~~~~~  135 (166)
T 1a17_A           93 ALGKFRAALRDYETV------------------------VKVKPHDKD--AKMKYQECNKIVKQKAFER  135 (166)
T ss_dssp             HTTCHHHHHHHHHHH------------------------HHHSTTCHH--HHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHH------------------------HHhCCCCHH--HHHHHHHHHHHHHHHHHHH
Confidence            999999999999998                        566788777  66555544  333444433

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.54  E-value=3.9e-07  Score=75.39  Aligned_cols=107  Identities=14%  Similarity=0.075  Sum_probs=81.1

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC-CCCCC-H---HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC---CchHHHHHHHH
Q 040576          493 CMVDLLGRAGLMRDSEELVSKL-PMEAG-P---ALWGALLSACSTHSNSELGKIVAQHLMELEPRD---PGPYVLLSNIY  564 (641)
Q Consensus       493 ~li~~~~~~g~~~~A~~~~~~~-~~~~~-~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~  564 (641)
                      .+...+.+.|++++|++.|+++ ...|+ .   ..+..+..++...|++++|...++++++..|++   +..+..++.+|
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~   86 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQ   86 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHH
Confidence            4556677788888888877765 11222 2   466777788888999999999999999999988   66788899999


Q ss_pred             HhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHH
Q 040576          565 ASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGA  625 (641)
Q Consensus       565 ~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~  625 (641)
                      ...|++++|...++++                        .+..|++..  ......++..
T Consensus        87 ~~~g~~~~A~~~~~~~------------------------~~~~p~~~~--~~~a~~~l~~  121 (129)
T 2xev_A           87 YGEGKNTEAQQTLQQV------------------------ATQYPGSDA--ARVAQERLQS  121 (129)
T ss_dssp             HHTTCHHHHHHHHHHH------------------------HHHSTTSHH--HHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHH------------------------HHHCCCChH--HHHHHHHHHH
Confidence            9999999999999988                        566677777  6555555443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.54  E-value=1.7e-07  Score=79.81  Aligned_cols=114  Identities=9%  Similarity=0.051  Sum_probs=94.3

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC
Q 040576          490 HYGCMVDLLGRAGLMRDSEELVSKLPMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEG  568 (641)
Q Consensus       490 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  568 (641)
                      ....+.+.+...+.+.+++      ...|+ ...+..+...+...|++++|+..|+++++++|+++..|..++.+|...|
T Consensus        11 ~~~~l~~~~~~~~~l~~al------~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g   84 (151)
T 3gyz_A           11 ISTAVIDAINSGATLKDIN------AIPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKE   84 (151)
T ss_dssp             HHHHHHHHHHTSCCTGGGC------CSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHCCCCHHHHh------CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHc
Confidence            3445555554444433332      33454 4477888889999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhhcccc
Q 040576          569 KWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRRDVA  635 (641)
Q Consensus       569 ~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~~~~  635 (641)
                      ++++|+..++++                        .+++|++..  .+..++..+..+++..+++.
T Consensus        85 ~~~~Ai~~~~~a------------------------l~l~P~~~~--~~~~lg~~~~~lg~~~eA~~  125 (151)
T 3gyz_A           85 QFQQAADLYAVA------------------------FALGKNDYT--PVFHTGQCQLRLKAPLKAKE  125 (151)
T ss_dssp             CHHHHHHHHHHH------------------------HHHSSSCCH--HHHHHHHHHHHTTCHHHHHH
T ss_pred             cHHHHHHHHHHH------------------------HhhCCCCcH--HHHHHHHHHHHcCCHHHHHH
Confidence            999999999999                        788999999  99999999999988877654

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.53  E-value=4.2e-07  Score=72.76  Aligned_cols=98  Identities=16%  Similarity=0.009  Sum_probs=81.4

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CCchHHHHHHH
Q 040576          488 VEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPR--DPGPYVLLSNI  563 (641)
Q Consensus       488 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~  563 (641)
                      ...+..+...+.+.|++++|+..+++. . ...+...|..+...+...|++++|...++++++..|.  ++..+..++.+
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            455666777888888888888888776 2 2345667888888899999999999999999999999  88999999999


Q ss_pred             HHhc-CChHHHHHHHHHhhhCCC
Q 040576          564 YASE-GKWDEVENLRRIMKEKEL  585 (641)
Q Consensus       564 ~~~~-g~~~~A~~~~~~m~~~~~  585 (641)
                      |... |++++|.+.+++.....+
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhccc
Confidence            9999 999999999999866544

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.53  E-value=2.1e-06  Score=77.32  Aligned_cols=153  Identities=8%  Similarity=-0.080  Sum_probs=82.5

Q ss_pred             HcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhh---CCCC-chHHHHHHHHHHhhcCCH
Q 040576          429 MHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIY---KIEP-KVEHYGCMVDLLGRAGLM  504 (641)
Q Consensus       429 ~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---~~~p-~~~~~~~li~~~~~~g~~  504 (641)
                      ..|++++|.++++.+.. ........+..+...+...|++++|...+++.....   +..| ....+..+...|...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            34555555553333322 111123345555555556666666666665554411   1111 134455566666666666


Q ss_pred             HHHHHHHHhCC----CCC-C----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC--CCC----chHHHHHHHHHhcCC
Q 040576          505 RDSEELVSKLP----MEA-G----PALWGALLSACSTHSNSELGKIVAQHLMELEP--RDP----GPYVLLSNIYASEGK  569 (641)
Q Consensus       505 ~~A~~~~~~~~----~~~-~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p--~~~----~~~~~l~~~~~~~g~  569 (641)
                      ++|.+.+++..    ..+ +    ...+..+...+...|++++|...+++++++.+  +++    ..+..++.+|...|+
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            66666665541    011 2    22355566667777777777777777765432  111    235677888888888


Q ss_pred             hHHHHHHHHHhhh
Q 040576          570 WDEVENLRRIMKE  582 (641)
Q Consensus       570 ~~~A~~~~~~m~~  582 (641)
                      +++|.+.+++..+
T Consensus       163 ~~~A~~~~~~al~  175 (203)
T 3gw4_A          163 LLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            8888888877643

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.53  E-value=7.1e-08  Score=87.05  Aligned_cols=168  Identities=9%  Similarity=-0.076  Sum_probs=99.1

Q ss_pred             HHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHH
Q 040576          395 MYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEG  471 (641)
Q Consensus       395 ~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a  471 (641)
                      +....|+++++.+.|+.-.+   .....+..+...+...|++++|+..|++..+..  |+...+...        .... 
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~--------~~~~-   81 (198)
T 2fbn_A           13 GRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFF--IHTEEWDDQ--------ILLD-   81 (198)
T ss_dssp             ---------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTCTTCCCH--------HHHH-
T ss_pred             hhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH--hcccccchh--------hHHH-
Confidence            33445556655555554332   133455666666677777777777777766532  111000000        0000 


Q ss_pred             HHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 040576          472 WWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMEL  549 (641)
Q Consensus       472 ~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  549 (641)
                           ....     .....+..+..+|.+.|++++|+..+++. . ...+...+..+..++...|++++|...+++++++
T Consensus        82 -----~~~~-----~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  151 (198)
T 2fbn_A           82 -----KKKN-----IEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL  151 (198)
T ss_dssp             -----HHHH-----HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             -----HHHH-----HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence                 0000     01356677788888888888888888876 2 2245678888889999999999999999999999


Q ss_pred             CCCCCchHHHHHHHHHhcCChHHHH-HHHHHhhhC
Q 040576          550 EPRDPGPYVLLSNIYASEGKWDEVE-NLRRIMKEK  583 (641)
Q Consensus       550 ~p~~~~~~~~l~~~~~~~g~~~~A~-~~~~~m~~~  583 (641)
                      .|+++..+..++.++...|+.+++. ..+..|...
T Consensus       152 ~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~  186 (198)
T 2fbn_A          152 NPNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDK  186 (198)
T ss_dssp             STTCHHHHHHHHHHHHHHHHHHC------------
T ss_pred             CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            9999999999999999988888777 556666443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.51  E-value=5.3e-06  Score=79.89  Aligned_cols=162  Identities=10%  Similarity=-0.127  Sum_probs=110.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcCC--C-Ch------hHHHHHHHHHHHcCChHHHHHHHHHHHHCCC---CCC--HH
Q 040576          388 LSTSLLTMYAKCGVMDLARNVFDNMTE--K-NV------VSWNSMIMGYGMHGQGEKALEMFMEMEKRGP---TPN--DA  453 (641)
Q Consensus       388 ~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~------~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~---~p~--~~  453 (641)
                      .+...+..+...|++++|.+.+....+  + ..      ..+..+...+...|++++|+..+++..+...   .+.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            334456677778888888887765432  1 11      2234455667777888899888888775321   122  34


Q ss_pred             HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-----hHHHHHHHHHHhhcCCHHHHHHHHHhCC-------CCCC-H
Q 040576          454 TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-----VEHYGCMVDLLGRAGLMRDSEELVSKLP-------MEAG-P  520 (641)
Q Consensus       454 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~~~-~  520 (641)
                      ++..+...|...|++++|..+|+++.+.....|+     ..++..+..+|.+.|++++|++.+++.-       .... .
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            7778888888889999999988888732111222     2577788888889999999988888651       1111 5


Q ss_pred             HHHHHHHHHHHhcCCHHHH-HHHHHHHHhc
Q 040576          521 ALWGALLSACSTHSNSELG-KIVAQHLMEL  549 (641)
Q Consensus       521 ~~~~~l~~~~~~~g~~~~a-~~~~~~~~~~  549 (641)
                      .++..+..++...|++++| ...+++++.+
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            5777888888899999998 7778877653

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.49  E-value=2.9e-07  Score=78.42  Aligned_cols=115  Identities=8%  Similarity=-0.062  Sum_probs=87.4

Q ss_pred             HHHHHHHCCCCCC-HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhC-C
Q 040576          439 MFMEMEKRGPTPN-DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKL-P  515 (641)
Q Consensus       439 ~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~  515 (641)
                      .|+++...  .|+ ...+..+...+...|++++|...|+.+..   ..| +...|..+..+|...|++++|++.|++. .
T Consensus         9 ~~~~al~~--~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   83 (148)
T 2vgx_A            9 TIAMLNEI--SSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCV---LDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAV   83 (148)
T ss_dssp             SHHHHTTC--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hHHHHHcC--CHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHH---cCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            34444432  343 34566677788888999999999988877   234 4677788888888999999999988886 2


Q ss_pred             CC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHH
Q 040576          516 ME-AGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYV  558 (641)
Q Consensus       516 ~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  558 (641)
                      .. .++..+..+..++...|++++|+..|++++++.|+++....
T Consensus        84 l~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  127 (148)
T 2vgx_A           84 MDIXEPRFPFHAAECLLQXGELAEAESGLFLAQELIANXPEFXE  127 (148)
T ss_dssp             HSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCGGGHH
T ss_pred             cCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCCcchH
Confidence            22 34667888888999999999999999999999998876543

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.49  E-value=1e-06  Score=90.74  Aligned_cols=148  Identities=13%  Similarity=0.011  Sum_probs=102.6

Q ss_pred             CChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-------------hHHHHHHHH
Q 040576          431 GQGEKALEMFMEMEKRGPTP-NDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-------------VEHYGCMVD  496 (641)
Q Consensus       431 ~~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-------------~~~~~~li~  496 (641)
                      +++++|...|+...+.  .| ....+..+...+.+.|++++|+..|+++.+.....++             ...|..+..
T Consensus       248 ~~~~~A~~~~~~~~~~--~~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~  325 (457)
T 1kt0_A          248 KSFEKAKESWEMDTKE--KLEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAM  325 (457)
T ss_dssp             EEEECCCCGGGSCHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhcccCcchhhcCHHH--HHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHH
Confidence            3445555555443332  22 3447778888899999999999999999873222211             467777888


Q ss_pred             HHhhcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHH
Q 040576          497 LLGRAGLMRDSEELVSKL-PM-EAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVE  574 (641)
Q Consensus       497 ~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  574 (641)
                      +|.+.|++++|+..++++ .. ..+...|..+..+|...|++++|+..|+++++++|++...+..++.++.+.|++++|.
T Consensus       326 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          326 CYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888888876 22 2346677778888888888888888888888888888888888888888888887766


Q ss_pred             H-HHHHh
Q 040576          575 N-LRRIM  580 (641)
Q Consensus       575 ~-~~~~m  580 (641)
                      + .+++|
T Consensus       406 ~~~~~~~  412 (457)
T 1kt0_A          406 RRIYANM  412 (457)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHHH
Confidence            4 45555

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.48  E-value=5.7e-07  Score=86.08  Aligned_cols=177  Identities=6%  Similarity=-0.096  Sum_probs=122.6

Q ss_pred             ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHH
Q 040576          416 NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCM  494 (641)
Q Consensus       416 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l  494 (641)
                      +...+..+...+...|++++|+..|++..+.... +...|..+..++.+.|++++|...++++.+   +.|+ ...+..+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~l   78 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALE---LDGQSVKAHFFL   78 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SCTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHH---hCCCCHHHHHHH
Confidence            4567788888999999999999999998886322 667888888899999999999999999876   4454 6778888


Q ss_pred             HHHHhhcCCHHHHHHHHHhC-CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHH
Q 040576          495 VDLLGRAGLMRDSEELVSKL-PMEAGP-ALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDE  572 (641)
Q Consensus       495 i~~~~~~g~~~~A~~~~~~~-~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  572 (641)
                      ..+|...|++++|+..|++. ...|+. ..+...+.....   ...+...........|.++.....++..+  .|++++
T Consensus        79 g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~i~~~l~~l~--~~~~~~  153 (281)
T 2c2l_A           79 GQCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALR---IAKKKRWNSIEERRIHQESELHSYLTRLI--AAERER  153 (281)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHH---HHHHHHHHHHHHTCCCCCCHHHHHHHHHH--HHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHH---HHHHHHHHHHHHHHHhhhHHHHHHHHHHH--HHHHHH
Confidence            99999999999999998876 111211 011111111111   11222222333345677777777776654  688899


Q ss_pred             HHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHH
Q 040576          573 VENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQM  627 (641)
Q Consensus       573 A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~  627 (641)
                      |++.+++.                        .+++|++..  +...++.+..+.
T Consensus       154 A~~~~~~a------------------------l~~~p~~~~--~~~~l~~~~~~~  182 (281)
T 2c2l_A          154 ELEECQRN------------------------HEGHEDDGH--IRAQQACIEAKH  182 (281)
T ss_dssp             HHTTTSGG------------------------GTTTSCHHH--HTHHHHHHHHHH
T ss_pred             HHHHHHhh------------------------hccccchhh--hhhHHHHHHHHH
Confidence            98888877                        667788777  777776666554

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.47  E-value=2.4e-05  Score=75.29  Aligned_cols=191  Identities=12%  Similarity=0.011  Sum_probs=102.0

Q ss_pred             HHHHHHHhhcCC---CChhHHHHHHHHHHHcC--ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhcc-HHHHHHHHH
Q 040576          403 DLARNVFDNMTE---KNVVSWNSMIMGYGMHG--QGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGM-VLEGWWYFD  476 (641)
Q Consensus       403 ~~A~~~~~~~~~---~~~~~~~~li~~~~~~~--~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~-~~~a~~~~~  476 (641)
                      ++++.+++.+..   .+..+|+.-.-.+...+  .+++++.+++++.+...+ |...|+.-...+...|. ++++++.++
T Consensus        91 ~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~  169 (331)
T 3dss_A           91 KAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTD  169 (331)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHH
Confidence            344444444432   34444544444444444  255555555555554322 44444444444444454 455555555


Q ss_pred             HhHHhhCCCCchHHHHHHHHHHhhc--------------CCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhc-------
Q 040576          477 LMQRIYKIEPKVEHYGCMVDLLGRA--------------GLMRDSEELVSKL--PMEAGPALWGALLSACSTH-------  533 (641)
Q Consensus       477 ~~~~~~~~~p~~~~~~~li~~~~~~--------------g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~-------  533 (641)
                      .+.+ . -+-|...|+....++.+.              +.++++++.+.+.  ..+.|...|+-+-..+...       
T Consensus       170 ~~I~-~-~p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~  247 (331)
T 3dss_A          170 SLIT-R-NFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELS  247 (331)
T ss_dssp             HHHH-H-CSCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCC
T ss_pred             HHHH-H-CCCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccc
Confidence            5555 1 122334444433333332              3355666666554  1223444555443333332       


Q ss_pred             ----CCHHHHHHHHHHHHhcCCCCCchHHHHHHHH---HhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccc
Q 040576          534 ----SNSELGKIVAQHLMELEPRDPGPYVLLSNIY---ASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVE  606 (641)
Q Consensus       534 ----g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~---~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~  606 (641)
                          +.+++++..++++++++|++.-.+..++...   ...|..+++...+.++                        .+
T Consensus       248 ~~~~~~l~~el~~~~elle~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l------------------------~~  303 (331)
T 3dss_A          248 VEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTL------------------------KA  303 (331)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHH------------------------HH
T ss_pred             hHHHHHHHHHHHHHHHHHhhCcccchHHHHHHHHHHhhcccccHHHHHHHHHHH------------------------HH
Confidence                4578888889999999998854443333221   2457777888888887                        67


Q ss_pred             cCCCCchhhHHHHHHH
Q 040576          607 NCPPHRKCIVYSMLGE  622 (641)
Q Consensus       607 ~~p~~~~~~~~~~l~~  622 (641)
                      ++|....  .|.-|+.
T Consensus       304 ~Dp~r~~--~y~d~~~  317 (331)
T 3dss_A          304 VDPMRAA--YLDDLRS  317 (331)
T ss_dssp             HCGGGHH--HHHHHHH
T ss_pred             hCcchhh--HHHHHHH
Confidence            8888887  7766654

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.46  E-value=2.4e-06  Score=77.02  Aligned_cols=153  Identities=10%  Similarity=-0.017  Sum_probs=88.4

Q ss_pred             hcCCHHHHHH---HHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhhccHH
Q 040576          398 KCGVMDLARN---VFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKR----GPTP-NDATFICVLSACTHAGMVL  469 (641)
Q Consensus       398 ~~g~~~~A~~---~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~----g~~p-~~~~~~~ll~~~~~~g~~~  469 (641)
                      ..|++++|.+   .+..-.......+..+...+...|++++|...+++..+.    |..| ....+..+...+...|+++
T Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   83 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWD   83 (203)
T ss_dssp             ---CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             ccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            3456666666   443322233455666666666777777777776665541    1111 1235556666677777777


Q ss_pred             HHHHHHHHhHHhh---CCCC--chHHHHHHHHHHhhcCCHHHHHHHHHhCC----CCCCH----HHHHHHHHHHHhcCCH
Q 040576          470 EGWWYFDLMQRIY---KIEP--KVEHYGCMVDLLGRAGLMRDSEELVSKLP----MEAGP----ALWGALLSACSTHSNS  536 (641)
Q Consensus       470 ~a~~~~~~~~~~~---~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~----~~~~~l~~~~~~~g~~  536 (641)
                      +|...+++.....   +-.|  ....+..+...+...|++++|.+.+++.-    ..++.    ..+..+...+...|++
T Consensus        84 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  163 (203)
T 3gw4_A           84 AARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNL  163 (203)
T ss_dssp             HHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCH
Confidence            7777777766521   1111  13445666777777777777777776541    11222    2345666677788888


Q ss_pred             HHHHHHHHHHHhcC
Q 040576          537 ELGKIVAQHLMELE  550 (641)
Q Consensus       537 ~~a~~~~~~~~~~~  550 (641)
                      ++|...+++++++.
T Consensus       164 ~~A~~~~~~al~~~  177 (203)
T 3gw4_A          164 LEAQQHWLRARDIF  177 (203)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            88888887776643

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.44  E-value=1.5e-06  Score=76.59  Aligned_cols=128  Identities=10%  Similarity=0.081  Sum_probs=98.9

Q ss_pred             HHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHH-HhhcCCH--
Q 040576          428 GMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDL-LGRAGLM--  504 (641)
Q Consensus       428 ~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~-~~~~g~~--  504 (641)
                      ...|++++|+..+++..+.. +.+...+..+...+...|++++|...|+++.+..  +.+...+..+..+ +...|++  
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCcch
Confidence            45678888999998888764 2356788888889999999999999999988722  2346677778888 7788998  


Q ss_pred             HHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHH
Q 040576          505 RDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYV  558 (641)
Q Consensus       505 ~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  558 (641)
                      ++|+..++++ ...| +...+..+...+...|++++|...++++++..|+++....
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  153 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRINRTQ  153 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSCHHH
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCccHHH
Confidence            9999999887 2233 4678888888999999999999999999999999875443

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.44  E-value=3.2e-06  Score=68.21  Aligned_cols=110  Identities=11%  Similarity=-0.016  Sum_probs=75.5

Q ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHH
Q 040576          453 ATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PME-AGPALWGALLSAC  530 (641)
Q Consensus       453 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~  530 (641)
                      ..+..+...+...|++++|...|+.+...  .+.+...+..+..++.+.|++++|...+++. ... .+...+..+..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            34555566666667777777777766651  1224556666677777777777777777665 122 3466777788888


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 040576          531 STHSNSELGKIVAQHLMELEPRDPGPYVLLSNIY  564 (641)
Q Consensus       531 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  564 (641)
                      ...|++++|...++++++..|+++..+..++.+.
T Consensus        83 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  116 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKHEANNPQLKEGLQNME  116 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHhh
Confidence            8888888888888888888888877777766553

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.44  E-value=1.8e-07  Score=76.03  Aligned_cols=80  Identities=14%  Similarity=0.095  Sum_probs=58.4

Q ss_pred             cCCHHHHHHHHHhC-CC---CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHH
Q 040576          501 AGLMRDSEELVSKL-PM---EAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVEN  575 (641)
Q Consensus       501 ~g~~~~A~~~~~~~-~~---~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  575 (641)
                      .|++++|+..|++. ..   .|+ ...+..+..++...|++++|+..++++++.+|+++..+..++.+|...|++++|+.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHH
Confidence            46667777777765 22   133 34667777778888888888888888888888888888888888888888888888


Q ss_pred             HHHHh
Q 040576          576 LRRIM  580 (641)
Q Consensus       576 ~~~~m  580 (641)
                      .+++.
T Consensus        83 ~~~~a   87 (117)
T 3k9i_A           83 LLLKI   87 (117)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            88887

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.43  E-value=0.00023  Score=73.65  Aligned_cols=120  Identities=8%  Similarity=-0.054  Sum_probs=57.9

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC-CHHHHHHHHhhcCC---CChhHHHHHHHHHHH
Q 040576          354 LMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCG-VMDLARNVFDNMTE---KNVVSWNSMIMGYGM  429 (641)
Q Consensus       354 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~~  429 (641)
                      |...+....+.++.+.|..+|+.+ +.. ..+..+|......-...+ +.+.|..+|+...+   .+...|...+.-...
T Consensus       289 w~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~~~~~~~yid~e~~  366 (493)
T 2uy1_A          289 RINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDSTLLKEEFFLFLLR  366 (493)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Confidence            444444444455566666666655 211 122233332222222222 46666666655442   123334444555555


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHH
Q 040576          430 HGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQR  480 (641)
Q Consensus       430 ~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  480 (641)
                      .|+.+.|..+|+++.     .....+...+.--...|+.+.+.+++++...
T Consensus       367 ~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          367 IGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            666666666666652     1234444555444455666666666666553

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.42  E-value=8.7e-07  Score=88.24  Aligned_cols=137  Identities=8%  Similarity=0.002  Sum_probs=102.2

Q ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCC-CHHHHHHHHHHH
Q 040576          452 DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEA-GPALWGALLSAC  530 (641)
Q Consensus       452 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~l~~~~  530 (641)
                      ...+..+...+.+.|++++|++.|+++.+.   .+...          .....+++.+      ..| +...|..+..++
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~---~~~~~----------~~~~~~~~~~------~~~~~~~~~~nla~~~  283 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRY---VEGSR----------AAAEDADGAK------LQPVALSCVLNIGACK  283 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---HHHHH----------HHSCHHHHGG------GHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHH---hhcCc----------cccChHHHHH------HHHHHHHHHHHHHHHH
Confidence            445677777888888888888888888761   11100          0011111111      112 345777888888


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCC
Q 040576          531 STHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPP  610 (641)
Q Consensus       531 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~  610 (641)
                      ...|++++|+..++++++++|+++.+|..++.+|...|++++|++.++++                        .+++|+
T Consensus       284 ~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~A------------------------l~l~P~  339 (370)
T 1ihg_A          284 LKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKA------------------------QEIAPE  339 (370)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH------------------------HHHCTT
T ss_pred             HhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHH------------------------HHhCCC
Confidence            99999999999999999999999999999999999999999999999988                        677888


Q ss_pred             CchhhHHHHHHHHHHHHHhhhcc
Q 040576          611 HRKCIVYSMLGEIGAQMKMCRRD  633 (641)
Q Consensus       611 ~~~~~~~~~l~~l~~~~~~~~~~  633 (641)
                      +..  +...|+.+...+++..+.
T Consensus       340 ~~~--~~~~l~~~~~~~~~~~~a  360 (370)
T 1ihg_A          340 DKA--IQAELLKVKQKIKAQKDK  360 (370)
T ss_dssp             CHH--HHHHHHHHHHHHHHHHHH
T ss_pred             CHH--HHHHHHHHHHHHHHHHHH
Confidence            888  888898888887766554

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.41  E-value=2.7e-05  Score=75.28  Aligned_cols=31  Identities=10%  Similarity=0.172  Sum_probs=26.2

Q ss_pred             CCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          551 PRDPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       551 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      +..+.++..|+++|...|+.++|.++++.+.
T Consensus       299 ~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~  329 (349)
T 3q7a_A          299 LPVPLALEYLADSFIEQNRVDDAAKVFEKLS  329 (349)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            4556678889999999999999999999884

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.40  E-value=3.5e-06  Score=73.08  Aligned_cols=109  Identities=10%  Similarity=-0.043  Sum_probs=86.2

Q ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHH
Q 040576          452 DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLS  528 (641)
Q Consensus       452 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~  528 (641)
                      ...+..+...+...|++++|+..|++..+   +.| +...|..+..+|.+.|++++|++.|++. ...| +...|..+..
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~   87 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALS---IAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            44666777778888888888888888877   234 4677778888888888888888888876 2233 4778888999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHH
Q 040576          529 ACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNI  563 (641)
Q Consensus       529 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  563 (641)
                      ++...|++++|...|+++++++|+++..+...+..
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  122 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAEGNGGSDAMKRGLE  122 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            99999999999999999999999999876666543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.39  E-value=4.6e-06  Score=70.57  Aligned_cols=111  Identities=11%  Similarity=-0.075  Sum_probs=77.4

Q ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc----hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHHHHHH
Q 040576          452 DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK----VEHYGCMVDLLGRAGLMRDSEELVSKL-PME-AGPALWGA  525 (641)
Q Consensus       452 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~  525 (641)
                      ...+..+...+...|++++|...|++..+   ..|+    ...+..+..+|...|++++|++.+++. ... .+...+..
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  104 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALG---LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYR  104 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHH
Confidence            44555566666666666666666666655   3344    455666677777777777777777665 222 34667777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 040576          526 LLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYA  565 (641)
Q Consensus       526 l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  565 (641)
                      +..++...|++++|...+++++++.|+++..+..+..+..
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  144 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNISG  144 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHh
Confidence            8888888899999999999999999888777776666543

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.39  E-value=2.1e-06  Score=68.67  Aligned_cols=93  Identities=9%  Similarity=-0.013  Sum_probs=77.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeee
Q 040576          519 GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGE  598 (641)
Q Consensus       519 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~  598 (641)
                      +...|..+...+...|++++|+..+++++++.|+++..+..++.+|...|++++|++.+++.                  
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~a------------------   64 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQG------------------   64 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH------------------
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHH------------------
Confidence            45567778888889999999999999999999999999999999999999999999999988                  


Q ss_pred             eecccccccCCCC------chhhHHHHHHHHHHHHHhhhcccccc
Q 040576          599 FASESIVENCPPH------RKCIVYSMLGEIGAQMKMCRRDVASQ  637 (641)
Q Consensus       599 ~~~~~~~~~~p~~------~~~~~~~~l~~l~~~~~~~~~~~~~~  637 (641)
                            .+++|++      ..  ++..++.....+++...++...
T Consensus        65 ------l~~~p~~~~~~~~~~--~~~~~~~~~~~~~~~~~a~~~~  101 (111)
T 2l6j_A           65 ------LRYTSTAEHVAIRSK--LQYRLELAQGAVGSVQIPVVEV  101 (111)
T ss_dssp             ------HTSCSSTTSHHHHHH--HHHHHHHHHHHHHCCCCCSSSS
T ss_pred             ------HHhCCCccHHHHHHH--HHHHHHHHHHHHHhHhhhHhHH
Confidence                  6667777      66  7888888888888776665543

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.39  E-value=2.9e-06  Score=69.80  Aligned_cols=109  Identities=6%  Similarity=-0.168  Sum_probs=73.6

Q ss_pred             HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHH
Q 040576          454 TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACS  531 (641)
Q Consensus       454 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~  531 (641)
                      .+..+...+.+.|++++|+..|++..+.  .+.+...|..+..+|.+.|++++|++.+++. ...| +...|..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            4555566666677777777777776661  1223566666777777777777777777765 2223 3567777777888


Q ss_pred             hcCCHHHHHHHHHHHHhcC------CCCCchHHHHHHHH
Q 040576          532 THSNSELGKIVAQHLMELE------PRDPGPYVLLSNIY  564 (641)
Q Consensus       532 ~~g~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~~  564 (641)
                      ..|++++|...++++++++      |.+...+..+..+.
T Consensus        84 ~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~~  122 (126)
T 3upv_A           84 AVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKAS  122 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHHH
Confidence            8888888888888888888      77766666665554

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.39  E-value=2.1e-06  Score=72.52  Aligned_cols=107  Identities=10%  Similarity=-0.045  Sum_probs=80.4

Q ss_pred             HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHH
Q 040576          454 TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKL-PM-EAGPALWGALLSAC  530 (641)
Q Consensus       454 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~  530 (641)
                      .+..+...+.+.|++++|...|+.+..   ..| +...|..+..+|.+.|++++|+..|++. .. +.++..+..+..++
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   96 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCM---LDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHH---hCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Confidence            455566677788888888888888876   233 4667777888888888888888888876 22 23456777888889


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHH
Q 040576          531 STHSNSELGKIVAQHLMELEPRDPGPYVLLSNI  563 (641)
Q Consensus       531 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  563 (641)
                      ...|++++|...+++++++.|+++........+
T Consensus        97 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~  129 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARALAAAQPAHEALAARA  129 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHTCGGGHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCcchHHHHHHH
Confidence            999999999999999999999887665544433

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.38  E-value=0.00016  Score=69.99  Aligned_cols=230  Identities=11%  Similarity=0.062  Sum_probs=152.8

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHccC-CHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhc-C-C
Q 040576          326 YVRCKDYCECLRLFDRMIRGDAKPNE-ASLMSVLTACANMG-VIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKC-G-V  401 (641)
Q Consensus       326 ~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g-~  401 (641)
                      ....+..++|+++++++...  .|+. ..|+.--..+...| .++++..+++.+.... +-+..+|+.-..++.+. + +
T Consensus        64 ~~~~e~se~AL~lt~~~L~~--nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~  140 (349)
T 3q7a_A           64 AAKEEKSERALELTEIIVRM--NPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQD  140 (349)
T ss_dssp             HHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSC
T ss_pred             HHhCCCCHHHHHHHHHHHHh--CchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCC
Confidence            33444556777777777763  3443 34555555555566 4777777777777654 34566666665666655 6 7


Q ss_pred             HHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChH--------HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhcc---
Q 040576          402 MDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGE--------KALEMFMEMEKRGPTPNDATFICVLSACTHAGM---  467 (641)
Q Consensus       402 ~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~--------~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~---  467 (641)
                      +++++++++.+.+   +|..+|+.-.-.+.+.|+++        ++++.++++.+..+. |...++.....+.+.+.   
T Consensus       141 ~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~~  219 (349)
T 3q7a_A          141 PVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAET  219 (349)
T ss_dssp             CHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCCC
T ss_pred             hHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcccccc
Confidence            7888888888876   35556666555555555555        899999999987544 67777777777766665   


Q ss_pred             ----HHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCCH--------------------HHHHHHHHhCC-C-----
Q 040576          468 ----VLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGLM--------------------RDSEELVSKLP-M-----  516 (641)
Q Consensus       468 ----~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~--------------------~~A~~~~~~~~-~-----  516 (641)
                          +++++++++++..   ..| |...|+.+-..+.+.|+.                    .+..+...++. .     
T Consensus       220 ~~~~~~eELe~~~~aI~---~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  296 (349)
T 3q7a_A          220 SSRSLQDELIYILKSIH---LIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPED  296 (349)
T ss_dssp             CHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSS
T ss_pred             chHHHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccc
Confidence                7888888888877   334 466777766667666653                    34444444442 1     


Q ss_pred             --CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-hcCCCCCchHHHHHH
Q 040576          517 --EAGPALWGALLSACSTHSNSELGKIVAQHLM-ELEPRDPGPYVLLSN  562 (641)
Q Consensus       517 --~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~~~p~~~~~~~~l~~  562 (641)
                        .+....+..|+..|...|+.++|..+++.+. +.+|-....|...+.
T Consensus       297 ~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpir~~yw~~~~~  345 (349)
T 3q7a_A          297 TPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYWEFRRR  345 (349)
T ss_dssp             CCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHHHH
T ss_pred             cCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChHHHHHHHHHHH
Confidence              2567788889999999999999999999986 678876666655544

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.37  E-value=8.2e-05  Score=71.61  Aligned_cols=193  Identities=10%  Similarity=0.022  Sum_probs=134.5

Q ss_pred             HHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC--CHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCC-hHHHHHHH
Q 040576          367 IDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCG--VMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQ-GEKALEMF  440 (641)
Q Consensus       367 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~-~~~A~~~~  440 (641)
                      ++++..+++.+.... +-+..+|+.-.-++.+.|  .+++++.+++.+.+   .|..+|+.-.-.+...|. ++++++.+
T Consensus        90 l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           90 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            466677777777654 446666766666666666  47888888888774   566777777777777787 58899999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhh--------------ccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhc----
Q 040576          441 MEMEKRGPTPNDATFICVLSACTHA--------------GMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRA----  501 (641)
Q Consensus       441 ~~m~~~g~~p~~~~~~~ll~~~~~~--------------g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~----  501 (641)
                      .++.+..+. |...|+.....+.+.              +.++++++++.....   ..|+ ...|+.+-..+.+.    
T Consensus       169 ~~~I~~~p~-N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~---~~P~d~SaW~Y~r~ll~~~~~~~  244 (331)
T 3dss_A          169 DSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFF---TDPNDQSAWFYHRWLLGAGSGRC  244 (331)
T ss_dssp             HHHHHHCSC-CHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHSSSCGG
T ss_pred             HHHHHHCCC-CHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHhccCcc
Confidence            998887544 666666655555444              568889999988887   3444 56666555555544    


Q ss_pred             -------CCHHHHHHHHHhC-CCCCCHHHHHHHHHH-----HHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 040576          502 -------GLMRDSEELVSKL-PMEAGPALWGALLSA-----CSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYA  565 (641)
Q Consensus       502 -------g~~~~A~~~~~~~-~~~~~~~~~~~l~~~-----~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  565 (641)
                             +.++++++.++++ ...|+. .|..+..+     ....|..++....+.++++++|...+-|..+...+.
T Consensus       245 ~~~~~~~~~l~~el~~~~elle~~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d~~~~~~  320 (331)
T 3dss_A          245 ELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFL  320 (331)
T ss_dssp             GCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHHHHhhCccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHHHHHHHH
Confidence                   4578899888887 345664 34322222     224678889999999999999998888887765543

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.32  E-value=6.6e-06  Score=84.66  Aligned_cols=144  Identities=7%  Similarity=-0.070  Sum_probs=108.9

Q ss_pred             CHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC--------------HHHHHHHHHHHH
Q 040576          401 VMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPN--------------DATFICVLSACT  463 (641)
Q Consensus       401 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~--------------~~~~~~ll~~~~  463 (641)
                      ++++|...|+...+   .....|..+...|.+.|++++|+..|++..+......              ...|..+..++.
T Consensus       249 ~~~~A~~~~~~~~~~~~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~  328 (457)
T 1kt0_A          249 SFEKAKESWEMDTKEKLEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYL  328 (457)
T ss_dssp             EEECCCCGGGSCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hcccCcchhhcCHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444443332   2355788899999999999999999999988532211              478888999999


Q ss_pred             hhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHH
Q 040576          464 HAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG-PALWGALLSACSTHSNSELGK  540 (641)
Q Consensus       464 ~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~  540 (641)
                      +.|++++|+..++++.+   +.| +...|..+..+|...|++++|+..|+++ ...|+ ...+..+..++...++.+++.
T Consensus       329 ~~g~~~~A~~~~~~al~---~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          329 KLREYTKAVECCDKALG---LDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             HTTCHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHh---cCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999988   334 4788899999999999999999999987 44555 447778888888888888776


Q ss_pred             HH-HHHHH
Q 040576          541 IV-AQHLM  547 (641)
Q Consensus       541 ~~-~~~~~  547 (641)
                      .. +++++
T Consensus       406 ~~~~~~~f  413 (457)
T 1kt0_A          406 RRIYANMF  413 (457)
T ss_dssp             HHHHHHC-
T ss_pred             HHHHHHHH
Confidence            43 44443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.32  E-value=2.1e-06  Score=70.06  Aligned_cols=87  Identities=11%  Similarity=-0.097  Sum_probs=79.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecc
Q 040576          523 WGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASE  602 (641)
Q Consensus       523 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~  602 (641)
                      +..+...+...|++++|+..++++++.+|+++..|..++.++...|++++|+..+++.                      
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a----------------------   77 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHA----------------------   77 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH----------------------
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH----------------------
Confidence            5556778899999999999999999999999999999999999999999999999998                      


Q ss_pred             cccccCCCCchhhHHHHHHHHHHHHHhhhcccc
Q 040576          603 SIVENCPPHRKCIVYSMLGEIGAQMKMCRRDVA  635 (641)
Q Consensus       603 ~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~~~~  635 (641)
                        .+++|++..  .+..|+.+...+++..+++.
T Consensus        78 --l~l~P~~~~--~~~~la~~~~~~g~~~~A~~  106 (121)
T 1hxi_A           78 --RMLDPKDIA--VHAALAVSHTNEHNANAALA  106 (121)
T ss_dssp             --HHHCTTCHH--HHHHHHHHHHHHHHHHHHHH
T ss_pred             --HHhCCCCHH--HHHHHHHHHHHcCCHHHHHH
Confidence              788999999  99999999999988777654

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.29  E-value=6.1e-06  Score=68.85  Aligned_cols=100  Identities=5%  Similarity=-0.215  Sum_probs=72.2

Q ss_pred             CHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHHHHHHHHH
Q 040576          451 NDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PM-EAGPALWGALLS  528 (641)
Q Consensus       451 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~  528 (641)
                      +...+..+...+...|++++|...|+.+...  .+.+...+..+..+|...|++++|+..+++. .. +.+...|..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHH
Confidence            4556667777777777777777777777661  1223566777777777788888887777765 22 234667778888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCC
Q 040576          529 ACSTHSNSELGKIVAQHLMELEPR  552 (641)
Q Consensus       529 ~~~~~g~~~~a~~~~~~~~~~~p~  552 (641)
                      ++...|++++|...+++++++.|+
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~~p~  109 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSLAKE  109 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHChh
Confidence            888888888888888888888777

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.27  E-value=1.1e-06  Score=86.60  Aligned_cols=112  Identities=9%  Similarity=-0.056  Sum_probs=81.5

Q ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 040576          452 DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACS  531 (641)
Q Consensus       452 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~  531 (641)
                      ...+..+...+.+.|++++|...|+++..   +.|+...       +...|+.+++...+.       ...|..+..++.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~---~~p~~~~-------~~~~~~~~~~~~~l~-------~~~~~nla~~~~  241 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIA---YMGDDFM-------FQLYGKYQDMALAVK-------NPCHLNIAACLI  241 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHH---HSCHHHH-------HTCCHHHHHHHHHHH-------THHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHH---Hhccchh-------hhhcccHHHHHHHHH-------HHHHHHHHHHHH
Confidence            44667777788889999999999999877   3354321       233444444444332       135677777788


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          532 THSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       532 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      ..|++++|+..++++++++|+++..|..++.+|...|++++|...++++
T Consensus       242 ~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~a  290 (338)
T 2if4_A          242 KLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKA  290 (338)
T ss_dssp             TTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHT
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            8888888888888888888888888888888888888888888888887

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.27  E-value=7.4e-06  Score=67.48  Aligned_cols=61  Identities=10%  Similarity=-0.075  Sum_probs=35.7

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHH
Q 040576          419 SWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQR  480 (641)
Q Consensus       419 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  480 (641)
                      ++..++..+.+.|++++|+..|++..+..+. +...|..+..+|.+.|++++|++.+++..+
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~-~~~~~~nlg~~~~~~~~~~~A~~~~~~al~   70 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPS-NITFYNNKAAVYFEEKKFAECVQFCEKAVE   70 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4455566666666666666666666654211 344555566666666666666666666554

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.26  E-value=3.6e-06  Score=87.00  Aligned_cols=117  Identities=6%  Similarity=-0.026  Sum_probs=71.1

Q ss_pred             HHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCH
Q 040576          460 SACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNS  536 (641)
Q Consensus       460 ~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~  536 (641)
                      ..+.+.|++++|.+.|+++.+   ..|+ ...|..+..+|.+.|++++|++.+++. ...| +...|..+..++...|++
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~---~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIE---LNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHhCCHHHHHHHHHHHHH---hCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence            345566777777777777766   2333 556666666677777777777766665 2223 345666666666677777


Q ss_pred             HHHHHHHHHHHhcCCCCCchHHHHHHH--HHhcCChHHHHHHHHH
Q 040576          537 ELGKIVAQHLMELEPRDPGPYVLLSNI--YASEGKWDEVENLRRI  579 (641)
Q Consensus       537 ~~a~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~A~~~~~~  579 (641)
                      ++|+..+++++++.|+++..+..++.+  +.+.|++++|++.+++
T Consensus        91 ~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           91 RAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             HHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            777777777777777666666666666  6666666666666554

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.25  E-value=2.8e-06  Score=87.86  Aligned_cols=121  Identities=9%  Similarity=-0.055  Sum_probs=91.5

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHh
Q 040576          421 NSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLG  499 (641)
Q Consensus       421 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~  499 (641)
                      ..+...+.+.|++++|++.|++..+... -+...+..+..++.+.|++++|++.++++.+   +.| +...+..+..+|.
T Consensus        10 ~~lg~~~~~~g~~~~A~~~~~~Al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---l~p~~~~~~~~lg~~~~   85 (477)
T 1wao_1           10 KTQANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIE---LDKKYIKGYYRRAASNM   85 (477)
T ss_dssp             SSSSSSTTTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---SCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHH
Confidence            3445567789999999999999998632 2577888999999999999999999999988   345 4778889999999


Q ss_pred             hcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHH--HHhcCCHHHHHHHHHH
Q 040576          500 RAGLMRDSEELVSKL-PMEAG-PALWGALLSA--CSTHSNSELGKIVAQH  545 (641)
Q Consensus       500 ~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~--~~~~g~~~~a~~~~~~  545 (641)
                      +.|++++|++.+++. ...|+ ...+..+..+  +...|++++|+..+++
T Consensus        86 ~~g~~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           86 ALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             HHTCHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            999999999999986 22232 3345445544  7888999999999883

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.24  E-value=9.7e-06  Score=82.93  Aligned_cols=164  Identities=9%  Similarity=-0.102  Sum_probs=105.4

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCC-CCCCHH----HHHHHHHHHHhhccHHHHHHHHHHhHHhh---CCCC-chH
Q 040576          419 SWNSMIMGYGMHGQGEKALEMFMEMEKRG-PTPNDA----TFICVLSACTHAGMVLEGWWYFDLMQRIY---KIEP-KVE  489 (641)
Q Consensus       419 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g-~~p~~~----~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---~~~p-~~~  489 (641)
                      ++..++..|...|++++|.+++.++...- -.++..    ..+.+...+...|+++.|..+++......   +..+ ...
T Consensus        57 al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  136 (434)
T 4b4t_Q           57 SILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHS  136 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHH
Confidence            35667777777888888877777765421 111211    22223333445677888888777765421   2222 245


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhC-------CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC---CC----C
Q 040576          490 HYGCMVDLLGRAGLMRDSEELVSKL-------PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEP---RD----P  554 (641)
Q Consensus       490 ~~~~li~~~~~~g~~~~A~~~~~~~-------~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p---~~----~  554 (641)
                      ++..++..|...|++++|..++++.       ..++. ...+..++..|...|++++|...++++....+   ++    .
T Consensus       137 ~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  216 (434)
T 4b4t_Q          137 LSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVA  216 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHH
Confidence            6777888888888888888887765       11222 34667777788888888888888888876542   21    2


Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          555 GPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       555 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      ..+..++..+...|++++|...+.+..+
T Consensus       217 ~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          217 ELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            3566677778888888888887777643

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.23  E-value=3.9e-06  Score=70.67  Aligned_cols=104  Identities=11%  Similarity=-0.034  Sum_probs=71.7

Q ss_pred             HHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-------------hHHHHHHHHHHhhcCCHHHHHHHHHhC-CC------
Q 040576          457 CVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-------------VEHYGCMVDLLGRAGLMRDSEELVSKL-PM------  516 (641)
Q Consensus       457 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-------------~~~~~~li~~~~~~g~~~~A~~~~~~~-~~------  516 (641)
                      .....+.+.|++++|+..|++..+   +.|+             ...|..+..++.+.|++++|+..+++. ..      
T Consensus        16 ~~G~~l~~~g~~eeAi~~Y~kAL~---l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e   92 (159)
T 2hr2_A           16 SDAQRQLVAGEYDEAAANCRRAME---ISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE   92 (159)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHH---HHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHh---hCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcccc
Confidence            344444555555555555555554   1222             226666777777777777777766654 23      


Q ss_pred             -CCCH-HHH----HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHH
Q 040576          517 -EAGP-ALW----GALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNI  563 (641)
Q Consensus       517 -~~~~-~~~----~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  563 (641)
                       .|+. ..|    .....++...|++++|+..|+++++++|++...+..+..+
T Consensus        93 ~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~  145 (159)
T 2hr2_A           93 LNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERM  145 (159)
T ss_dssp             TTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHH
T ss_pred             CCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHH
Confidence             6764 478    8899999999999999999999999999998766555443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.22  E-value=7.3e-06  Score=70.39  Aligned_cols=129  Identities=12%  Similarity=-0.006  Sum_probs=77.9

Q ss_pred             HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc----hHHHHHHHHHHhhcCCHHHHHHHHHhC----CCCCC----HH
Q 040576          454 TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK----VEHYGCMVDLLGRAGLMRDSEELVSKL----PMEAG----PA  521 (641)
Q Consensus       454 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~~~----~~  521 (641)
                      ++..+...+...|++++|...+++..+...-.++    ...+..+...+...|++++|.+.+++.    +..++    ..
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            3444445555555555555555555441110011    134555666666666666666666654    11111    23


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC------CCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          522 LWGALLSACSTHSNSELGKIVAQHLMELEPR------DPGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       522 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~------~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      .+..+...+...|++++|...++++++..+.      ....+..++.+|...|++++|.+.+++..+
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            4556666777788888888888877765321      134677888889999999999999888753

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.22  E-value=2.2e-06  Score=84.32  Aligned_cols=148  Identities=8%  Similarity=-0.079  Sum_probs=86.9

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHH
Q 040576          417 VVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVD  496 (641)
Q Consensus       417 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  496 (641)
                      ...|..+...+.+.|++++|+..|++....  .|+...       +...|+.+++...+           ....|..+..
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l-----------~~~~~~nla~  238 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV-----------KNPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH-----------HTHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH-----------HHHHHHHHHH
Confidence            456788888899999999999999998874  444432       23345555543322           1236788899


Q ss_pred             HHhhcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHH-HhcCChHHH
Q 040576          497 LLGRAGLMRDSEELVSKL-PME-AGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIY-ASEGKWDEV  573 (641)
Q Consensus       497 ~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~~~A  573 (641)
                      +|.+.|++++|+..+++. ... .+...|..+..+|...|++++|+..|+++++++|+++..+..|..+. ...+..+++
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999887 223 45778999999999999999999999999999999999999998884 455778888


Q ss_pred             HHHHHHhhhCC
Q 040576          574 ENLRRIMKEKE  584 (641)
Q Consensus       574 ~~~~~~m~~~~  584 (641)
                      ...+++|....
T Consensus       319 ~~~~~~~l~~~  329 (338)
T 2if4_A          319 KEMYKGIFKGK  329 (338)
T ss_dssp             -----------
T ss_pred             HHHHHHhhCCC
Confidence            89999885543

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.22  E-value=1.9e-05  Score=83.13  Aligned_cols=173  Identities=11%  Similarity=0.025  Sum_probs=139.0

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhcc----------HHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhh
Q 040576          431 GQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGM----------VLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGR  500 (641)
Q Consensus       431 ~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~----------~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~  500 (641)
                      ...++|++.++++...... +...|+.--.++...|+          ++++++.++.+.+  .-+-+..+|..-.-++.+
T Consensus        43 ~~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~--~~pK~y~aW~hR~w~l~~  119 (567)
T 1dce_A           43 ELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLR--VNPKSYGTWHHRCWLLSR  119 (567)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHH
Confidence            3456789999999886422 44566665556666666          8999999999988  223346778877778888


Q ss_pred             cC--CHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc--------
Q 040576          501 AG--LMRDSEELVSKL--PMEAGPALWGALLSACSTHS-NSELGKIVAQHLMELEPRDPGPYVLLSNIYASE--------  567 (641)
Q Consensus       501 ~g--~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~--------  567 (641)
                      .|  +++++++.++++  ....+...|+.-...+...| .++++.+.++++++.+|.|..+|...+.++.+.        
T Consensus       120 l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~  199 (567)
T 1dce_A          120 LPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGP  199 (567)
T ss_dssp             CSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             cccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccccc
Confidence            88  779999999988  23456778988888888888 899999999999999999999999999998874        


Q ss_pred             ------CChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhhc
Q 040576          568 ------GKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRR  632 (641)
Q Consensus       568 ------g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~  632 (641)
                            +.+++|++.++++                        ...+|+++.  ++.-++.+..+.++..+
T Consensus       200 ~~~~~~~~~~eel~~~~~a------------------------i~~~P~~~s--aW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          200 QGRLPENVLLKELELVQNA------------------------FFTDPNDQS--AWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CCSSCHHHHHHHHHHHHHH------------------------HHHCSSCSH--HHHHHHHHHSCCCCCSC
T ss_pred             cccccHHHHHHHHHHHHHH------------------------HhhCCCCcc--HHHHHHHHHhcCCCccc
Confidence                  5678999999988                        788999999  99999998888776444

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.22  E-value=8.4e-06  Score=62.24  Aligned_cols=82  Identities=21%  Similarity=0.294  Sum_probs=62.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeee
Q 040576          520 PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEF  599 (641)
Q Consensus       520 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~  599 (641)
                      ...+..+...+...|++++|+..++++++..|+++..+..++.+|...|++++|.+.+++.                   
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a-------------------   69 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKA-------------------   69 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH-------------------
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHH-------------------
Confidence            3456667777778888888888888888888888878888888888888888888888877                   


Q ss_pred             ecccccccCCCCchhhHHHHHHHHHHHH
Q 040576          600 ASESIVENCPPHRKCIVYSMLGEIGAQM  627 (641)
Q Consensus       600 ~~~~~~~~~p~~~~~~~~~~l~~l~~~~  627 (641)
                           .+.+|++..  .+..++.+...+
T Consensus        70 -----~~~~p~~~~--~~~~l~~~~~~~   90 (91)
T 1na3_A           70 -----LELDPNNAE--AKQNLGNAKQKQ   90 (91)
T ss_dssp             -----HHHCTTCHH--HHHHHHHHHHHH
T ss_pred             -----HhcCCCCHH--HHHHHHHHHHhc
Confidence                 566777777  777777766543

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.19  E-value=1.3e-06  Score=73.49  Aligned_cols=108  Identities=9%  Similarity=0.055  Sum_probs=76.3

Q ss_pred             hhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 040576          464 HAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIV  542 (641)
Q Consensus       464 ~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  542 (641)
                      +.+.+++|.+.++...+   ..| +...|..+..++...|+++.+.+.++                      .+++|+..
T Consensus        14 r~~~feeA~~~~~~Ai~---l~P~~aea~~n~G~~l~~l~~~~~g~~al~----------------------~~~eAi~~   68 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYK---SNPLDADNLTRWGGVLLELSQFHSISDAKQ----------------------MIQEAITK   68 (158)
T ss_dssp             HHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHHHSCHHHHHH----------------------HHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHhcccchhhhhHh----------------------HHHHHHHH
Confidence            44555666666666555   223 34455555555555554443333221                      37899999


Q ss_pred             HHHHHhcCCCCCchHHHHHHHHHhcC-----------ChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCC
Q 040576          543 AQHLMELEPRDPGPYVLLSNIYASEG-----------KWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPH  611 (641)
Q Consensus       543 ~~~~~~~~p~~~~~~~~l~~~~~~~g-----------~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~  611 (641)
                      |+++++++|++..+|+.++.+|...|           ++++|++.+++.                        .+++|++
T Consensus        69 le~AL~ldP~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kA------------------------l~l~P~~  124 (158)
T 1zu2_A           69 FEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQA------------------------VDEQPDN  124 (158)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH------------------------HHHCTTC
T ss_pred             HHHHHHhCcCcHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHH------------------------HHhCCCC
Confidence            99999999999999999999999875           899999999999                        7888888


Q ss_pred             chhhHHHHHHH
Q 040576          612 RKCIVYSMLGE  622 (641)
Q Consensus       612 ~~~~~~~~l~~  622 (641)
                      ..  ....|..
T Consensus       125 ~~--y~~al~~  133 (158)
T 1zu2_A          125 TH--YLKSLEM  133 (158)
T ss_dssp             HH--HHHHHHH
T ss_pred             HH--HHHHHHH
Confidence            77  5555544

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.17  E-value=6.7e-06  Score=67.71  Aligned_cols=106  Identities=6%  Similarity=-0.083  Sum_probs=52.5

Q ss_pred             HHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC----C-CCCC----HHHHHHH
Q 040576          456 ICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL----P-MEAG----PALWGAL  526 (641)
Q Consensus       456 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----~-~~~~----~~~~~~l  526 (641)
                      ..+...+...|++++|...|+.+.. . .+.+...+..+...|...|++++|...++++    + ..++    ...+..+
T Consensus         8 ~~l~~~~~~~~~~~~A~~~~~~a~~-~-~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~l   85 (131)
T 1elr_A            8 KELGNDAYKKKDFDTALKHYDKAKE-L-DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH-H-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHh-c-CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHH
Confidence            3333444444444444444444443 1 1122334444444444444444444444443    0 0111    4455566


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 040576          527 LSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIY  564 (641)
Q Consensus       527 ~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  564 (641)
                      ..++...|++++|...++++++..| ++.....+..+.
T Consensus        86 a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~  122 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQAE  122 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHHH
Confidence            6667777777777777777777766 354555555443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.17  E-value=1.9e-05  Score=65.01  Aligned_cols=102  Identities=11%  Similarity=-0.037  Sum_probs=66.1

Q ss_pred             HHHHHHhhccHHHHHHHHHHhHHhhCCCCc-h---HHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHH
Q 040576          458 VLSACTHAGMVLEGWWYFDLMQRIYKIEPK-V---EHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG----PALWGALLS  528 (641)
Q Consensus       458 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~---~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~----~~~~~~l~~  528 (641)
                      +...+...|++++|...|+.+.+.   .|+ .   ..+..+..++.+.|++++|+..|++. ...|+    +..+..+..
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~   84 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLEL---YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH---CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHH---CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHH
Confidence            444555667777777777766652   122 2   35556667777777777777777665 11222    455667777


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHH
Q 040576          529 ACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSN  562 (641)
Q Consensus       529 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  562 (641)
                      ++...|++++|...++++++..|+++........
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~  118 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVATQYPGSDAARVAQER  118 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTSHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCCChHHHHHHHH
Confidence            7888888888888888888888887655444433

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.14  E-value=1.4e-05  Score=79.50  Aligned_cols=138  Identities=7%  Similarity=-0.036  Sum_probs=107.0

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHH
Q 040576          417 VVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMV  495 (641)
Q Consensus       417 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li  495 (641)
                      ...|..+...+.+.|++++|+..|++..+.  .++.          ......       +....   ..| +...|..+.
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~--~~~~----------~~~~~~-------~~~~~---~~~~~~~~~~nla  280 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRY--VEGS----------RAAAED-------ADGAK---LQPVALSCVLNIG  280 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HHHH----------HHHSCH-------HHHGG---GHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHH--hhcC----------ccccCh-------HHHHH---HHHHHHHHHHHHH
Confidence            456888899999999999999999988762  1110          000111       11111   122 356788889


Q ss_pred             HHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHH
Q 040576          496 DLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEV  573 (641)
Q Consensus       496 ~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  573 (641)
                      .+|.+.|++++|++.+++. ...| +...+..+..++...|++++|+..++++++++|++...+..+..++...++.+++
T Consensus       281 ~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~~~~~~a  360 (370)
T 1ihg_A          281 ACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDK  360 (370)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999887 4444 4678888999999999999999999999999999999999999999999888877


Q ss_pred             HHH
Q 040576          574 ENL  576 (641)
Q Consensus       574 ~~~  576 (641)
                      .+.
T Consensus       361 ~k~  363 (370)
T 1ihg_A          361 EKA  363 (370)
T ss_dssp             HHC
T ss_pred             HHH
Confidence            653

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.13  E-value=1.6e-05  Score=63.19  Aligned_cols=99  Identities=9%  Similarity=-0.025  Sum_probs=60.1

Q ss_pred             HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC---CHHHHHHHHHH
Q 040576          454 TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA---GPALWGALLSA  529 (641)
Q Consensus       454 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~---~~~~~~~l~~~  529 (641)
                      .+..+...+...|++++|...|+++.+.  .+.+...+..+..++...|++++|++.+++. ...|   +...+..+..+
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            3444555555666666666666666551  1223455556666666666666666666654 2222   35566667777


Q ss_pred             HHhc-CCHHHHHHHHHHHHhcCCCCC
Q 040576          530 CSTH-SNSELGKIVAQHLMELEPRDP  554 (641)
Q Consensus       530 ~~~~-g~~~~a~~~~~~~~~~~p~~~  554 (641)
                      +... |++++|...++++.+..|+++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhcccCCC
Confidence            7777 777777777777777777654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.12  E-value=9.5e-06  Score=70.12  Aligned_cols=78  Identities=13%  Similarity=0.020  Sum_probs=62.5

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-chHHHHHHHH
Q 040576          488 VEHYGCMVDLLGRAGLMRDSEELVSKL-PME-AGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDP-GPYVLLSNIY  564 (641)
Q Consensus       488 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~-~~~~~l~~~~  564 (641)
                      ...|..+..+|.+.|++++|+..+++. ... .+...|..+..++...|++++|...++++++++|+++ .....+..+.
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~~  142 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKIVT  142 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            467788888899999999999988876 223 4467888899999999999999999999999999987 4455555443


Q ss_pred             H
Q 040576          565 A  565 (641)
Q Consensus       565 ~  565 (641)
                      .
T Consensus       143 ~  143 (162)
T 3rkv_A          143 E  143 (162)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.12  E-value=7.5e-05  Score=78.56  Aligned_cols=169  Identities=8%  Similarity=-0.020  Sum_probs=131.6

Q ss_pred             CHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCC----------hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhc-
Q 040576          401 VMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQ----------GEKALEMFMEMEKRGPTPNDATFICVLSACTHAG-  466 (641)
Q Consensus       401 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~----------~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g-  466 (641)
                      ..++|++.++.+..   .+..+|+.-..++...|+          ++++++.++++.+...+ +..+|..-...+.+.| 
T Consensus        44 ~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           44 LDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             CSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSS
T ss_pred             CCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHccc
Confidence            34566777777663   344567766666666666          89999999999987544 6678888777888888 


Q ss_pred             -cHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcC-CHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhc---------
Q 040576          467 -MVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAG-LMRDSEELVSKL-PME-AGPALWGALLSACSTH---------  533 (641)
Q Consensus       467 -~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~---------  533 (641)
                       +++++++.++++.+.  -+-+...|+.-..++.+.| .++++++.++++ ... -+...|+.....+...         
T Consensus       123 ~~~~~el~~~~k~l~~--d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~  200 (567)
T 1dce_A          123 PNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             CCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             ccHHHHHHHHHHHHhh--ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccccccc
Confidence             779999999999882  2335677887777788888 899999999887 333 4567888777776553         


Q ss_pred             -----CCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHH
Q 040576          534 -----SNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDE  572 (641)
Q Consensus       534 -----g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  572 (641)
                           +.++++.+.++++++.+|++..+|..+..++.+.++.++
T Consensus       201 ~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          201 GRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                 568999999999999999999999999999999988655

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.07  E-value=2e-06  Score=68.77  Aligned_cols=94  Identities=12%  Similarity=-0.007  Sum_probs=77.0

Q ss_pred             chHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC------CchHH
Q 040576          487 KVEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRD------PGPYV  558 (641)
Q Consensus       487 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~  558 (641)
                      +...+..+...+.+.|++++|++.|++. . .+.+...|..+..++...|++++|+..++++++++|++      ...+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~   82 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQY   82 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHH
Confidence            4566777888888999999999988876 2 23457788889999999999999999999999999998      67788


Q ss_pred             HHHHHHHhcCChHHHHHHHHHh
Q 040576          559 LLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       559 ~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      .++.++...|++++|.+.++++
T Consensus        83 ~~~~~~~~~~~~~~a~~~~~~~  104 (111)
T 2l6j_A           83 RLELAQGAVGSVQIPVVEVDEL  104 (111)
T ss_dssp             HHHHHHHHHHCCCCCSSSSSSC
T ss_pred             HHHHHHHHHHhHhhhHhHHHHh
Confidence            8888888888887776655544

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.06  E-value=4.4e-06  Score=67.70  Aligned_cols=93  Identities=13%  Similarity=0.042  Sum_probs=65.0

Q ss_pred             hccHHHHHHHHHHhHHhhCC-CC-chHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHH
Q 040576          465 AGMVLEGWWYFDLMQRIYKI-EP-KVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGK  540 (641)
Q Consensus       465 ~g~~~~a~~~~~~~~~~~~~-~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~  540 (641)
                      .|++++|+..|+++.+ .+. .| +...+..+..+|.+.|++++|++.|++. ...| +...+..+..++...|++++|+
T Consensus         3 ~g~~~~A~~~~~~al~-~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIA-SGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHS-SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHH-cCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            4677777788877766 210 23 3566777788888888888888888876 2223 4667777888888889999999


Q ss_pred             HHHHHHHhcCCCCCchHH
Q 040576          541 IVAQHLMELEPRDPGPYV  558 (641)
Q Consensus       541 ~~~~~~~~~~p~~~~~~~  558 (641)
                      ..++++++..|+++....
T Consensus        82 ~~~~~al~~~p~~~~~~~   99 (117)
T 3k9i_A           82 ELLLKIIAETSDDETIQS   99 (117)
T ss_dssp             HHHHHHHHHHCCCHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHH
Confidence            999999888888865443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.06  E-value=1.6e-05  Score=62.12  Aligned_cols=65  Identities=22%  Similarity=0.235  Sum_probs=60.4

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          518 AGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       518 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      .+...|..+..++...|++++|+..++++++++|+++..|..++.+|...|++++|++.+++..+
T Consensus         5 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            5 EDPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            35678889999999999999999999999999999999999999999999999999999999843

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.05  E-value=7.5e-05  Score=76.22  Aligned_cols=159  Identities=8%  Similarity=-0.046  Sum_probs=118.4

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCCCC----------------HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc
Q 040576          424 IMGYGMHGQGEKALEMFMEMEKRGPTPN----------------DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK  487 (641)
Q Consensus       424 i~~~~~~~~~~~A~~~~~~m~~~g~~p~----------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~  487 (641)
                      ...+.+.|++++|++.|.++.+......                ...+..+...|...|++++|.+++..+....+..++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            3456677888888888888877532211                124677899999999999999999998774333333


Q ss_pred             h----HHHHHHHHHHhhcCCHHHHHHHHHhC-------CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC-----
Q 040576          488 V----EHYGCMVDLLGRAGLMRDSEELVSKL-------PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELE-----  550 (641)
Q Consensus       488 ~----~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-----  550 (641)
                      .    .+.+.+...+...|++++|.+++++.       ...+. ..++..+...+...|++++|...++.+....     
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            2    23344455566788999999888765       22333 4577888999999999999999999987642     


Q ss_pred             -CCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          551 -PRDPGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       551 -p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                       |.....+..++.+|...|++++|..++++...
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  203 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAART  203 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence             22235788899999999999999999998854

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.05  E-value=2.4e-05  Score=67.09  Aligned_cols=132  Identities=8%  Similarity=-0.050  Sum_probs=75.0

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc----hH
Q 040576          419 SWNSMIMGYGMHGQGEKALEMFMEMEKRGPT-PN----DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK----VE  489 (641)
Q Consensus       419 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~-p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~  489 (641)
                      ++..+...|...|++++|+..+++..+.... ++    ..++..+...+...|++++|..++++......-.++    ..
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            3445555556666666666666555442100 11    124555566666667777777766665542111111    34


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCC----CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 040576          490 HYGCMVDLLGRAGLMRDSEELVSKLP----MEAG----PALWGALLSACSTHSNSELGKIVAQHLMELE  550 (641)
Q Consensus       490 ~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  550 (641)
                      .+..+...+...|++++|.+.+++.-    ...+    ...+..+...+...|++++|...+++++++.
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  159 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  159 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHH
Confidence            45566667777777777777666541    1111    2345566667778888888888888877654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.04  E-value=5e-05  Score=77.94  Aligned_cols=123  Identities=9%  Similarity=-0.028  Sum_probs=86.6

Q ss_pred             HHhhccHHHHHHHHHHhHHhhC--C---CCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC---------CCCCCH-HHHHH
Q 040576          462 CTHAGMVLEGWWYFDLMQRIYK--I---EPK-VEHYGCMVDLLGRAGLMRDSEELVSKL---------PMEAGP-ALWGA  525 (641)
Q Consensus       462 ~~~~g~~~~a~~~~~~~~~~~~--~---~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~---------~~~~~~-~~~~~  525 (641)
                      +...|++++|+.++++..+...  +   .|+ ..+++.|..+|...|++++|+.++++.         +..|+. .+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            4456777777776666654221  1   122 456777777777777777777776654         233443 36778


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHh-----cCCCCCc---hHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 040576          526 LLSACSTHSNSELGKIVAQHLME-----LEPRDPG---PYVLLSNIYASEGKWDEVENLRRIMKEKE  584 (641)
Q Consensus       526 l~~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~---~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  584 (641)
                      |...|...|++++|+.+++++++     ++|++|.   ....+..++...|++++|..+++++++..
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~  465 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAA  465 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888889999999999988875     5677764   44567888889999999999999998754

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.04  E-value=2.7e-05  Score=62.66  Aligned_cols=77  Identities=9%  Similarity=0.054  Sum_probs=64.5

Q ss_pred             HHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          506 DSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       506 ~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      +|++.|++. ...| +...+..+...+...|++++|+..++++++.+|+++..|..++.+|...|++++|...+++..+
T Consensus         3 ~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            3 AITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             CHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            355555554 2233 4678888888999999999999999999999999999999999999999999999999999843

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=98.01  E-value=1.9e-05  Score=61.52  Aligned_cols=83  Identities=17%  Similarity=0.227  Sum_probs=57.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCc-hHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccc
Q 040576          526 LLSACSTHSNSELGKIVAQHLMELEPRDPG-PYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESI  604 (641)
Q Consensus       526 l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~-~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~  604 (641)
                      ....+...|++++|+..++++++.+|+++. .+..++.+|...|++++|.+.+++.                        
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a------------------------   61 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSA------------------------   61 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHH------------------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHH------------------------
Confidence            344566777777777777777777777777 7777777777777777777777777                        


Q ss_pred             cccCCCCchhhHH--HHHHHHHHHHHhhhccc
Q 040576          605 VENCPPHRKCIVY--SMLGEIGAQMKMCRRDV  634 (641)
Q Consensus       605 ~~~~p~~~~~~~~--~~l~~l~~~~~~~~~~~  634 (641)
                      .+++|++..  .+  ..++++.....+....-
T Consensus        62 l~~~p~~~~--~~~~~~~~~a~~~~~~~~~~~   91 (99)
T 2kc7_A           62 IELNPDSPA--LQARKMVMDILNFYNKDMYNQ   91 (99)
T ss_dssp             HHHCTTSTH--HHHHHHHHHHHHHHCCTTHHH
T ss_pred             HhcCCCcHH--HHHHHHHHHHHHHHHHHhccC
Confidence            566677776  65  55555555554444433

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.90  E-value=5.8e-05  Score=57.38  Aligned_cols=81  Identities=17%  Similarity=0.167  Sum_probs=67.1

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 040576          488 VEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYA  565 (641)
Q Consensus       488 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  565 (641)
                      ...+..+...+.+.|++++|+..+++. . .+.+...+..+..++...|++++|...++++++++|+++..+..++.++.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~   88 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQ   88 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            456777778888888888888888876 2 22356678888889999999999999999999999999999999998887


Q ss_pred             hcC
Q 040576          566 SEG  568 (641)
Q Consensus       566 ~~g  568 (641)
                      +.|
T Consensus        89 ~~g   91 (91)
T 1na3_A           89 KQG   91 (91)
T ss_dssp             HHC
T ss_pred             hcC
Confidence            654

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.85  E-value=7.4e-05  Score=57.10  Aligned_cols=67  Identities=10%  Similarity=0.121  Sum_probs=59.0

Q ss_pred             CCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 040576          517 EAGPALWGALLSACSTHSN---SELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       517 ~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  583 (641)
                      ..++..+..+..++...++   .++|..+++++++++|+++..+..++..+.+.|++++|+..|+++.+.
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            3567788888888765554   799999999999999999999999999999999999999999999544

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.81  E-value=0.00019  Score=59.84  Aligned_cols=112  Identities=7%  Similarity=-0.156  Sum_probs=68.5

Q ss_pred             ccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHH
Q 040576          466 GMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACST----HSNSELGKI  541 (641)
Q Consensus       466 g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~  541 (641)
                      +++++|.++|++..+ .+ .|+.  .  |...|...+.+++|++.|++.-...++..+..|...|..    .++.++|..
T Consensus         9 ~d~~~A~~~~~~aa~-~g-~~~a--~--lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~   82 (138)
T 1klx_A            9 KDLKKAIQYYVKACE-LN-EMFG--C--LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQ   82 (138)
T ss_dssp             HHHHHHHHHHHHHHH-TT-CTTH--H--HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHH
T ss_pred             cCHHHHHHHHHHHHc-CC-CHhh--h--HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHH
Confidence            455566666666555 33 1222  1  555555555566666666655333455556666666655    667777777


Q ss_pred             HHHHHHhcCCCCCchHHHHHHHHHh----cCChHHHHHHHHHhhhCCC
Q 040576          542 VAQHLMELEPRDPGPYVLLSNIYAS----EGKWDEVENLRRIMKEKEL  585 (641)
Q Consensus       542 ~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~~  585 (641)
                      .|+++.+.  .++..+..|+.+|..    .+++++|.+++++..+.|.
T Consensus        83 ~~~~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           83 YYSKACGL--NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcC--CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            77777665  455667777777777    6777777777777766543

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.71  E-value=0.00017  Score=59.82  Aligned_cols=99  Identities=9%  Similarity=0.004  Sum_probs=78.9

Q ss_pred             HHHHHHHHhC--CCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhcC-C-CCCchHHHHHHHHHhcCChHHHHHHH
Q 040576          505 RDSEELVSKL--PMEAGPALWGALLSACSTHS---NSELGKIVAQHLMELE-P-RDPGPYVLLSNIYASEGKWDEVENLR  577 (641)
Q Consensus       505 ~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~A~~~~  577 (641)
                      ..+.+.|.+.  ...++..+...+..++.+.+   ++++|+.+++.+++.+ | ++...++.|+-+|.+.|++++|++.+
T Consensus        15 ~~~~~~y~~e~~~~~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~   94 (152)
T 1pc2_A           15 LKFEKKFQSEKAAGSVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYV   94 (152)
T ss_dssp             HHHHHHHHHHHHTTCCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHH
T ss_pred             HHHHHHHHHHHccCCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHH
Confidence            3444444433  22467778888888888888   6779999999999988 6 56788999999999999999999999


Q ss_pred             HHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHh
Q 040576          578 RIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKM  629 (641)
Q Consensus       578 ~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~  629 (641)
                      +++                        .+.+|++..  .......+...+.+
T Consensus        95 ~~l------------------------L~ieP~n~Q--A~~Lk~~ie~~~~k  120 (152)
T 1pc2_A           95 RGL------------------------LQTEPQNNQ--AKELERLIDKAMKK  120 (152)
T ss_dssp             HHH------------------------HHHCTTCHH--HHHHHHHHHHHHHH
T ss_pred             HHH------------------------HhcCCCCHH--HHHHHHHHHHHHHH
Confidence            998                        788999999  88888877777755

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.63  E-value=6.2e-05  Score=63.22  Aligned_cols=103  Identities=14%  Similarity=0.087  Sum_probs=77.5

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccH----------HHHHHHHHHhHHhhCCCCc-hHHHHHHH
Q 040576          427 YGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMV----------LEGWWYFDLMQRIYKIEPK-VEHYGCMV  495 (641)
Q Consensus       427 ~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~----------~~a~~~~~~~~~~~~~~p~-~~~~~~li  495 (641)
                      ..+.+++++|...+++..+.... +...|..+..++...+++          ++|+..|++..+   +.|+ ...|..+.
T Consensus        12 ~~r~~~feeA~~~~~~Ai~l~P~-~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~---ldP~~~~A~~~LG   87 (158)
T 1zu2_A           12 FDRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALL---IDPKKDEAVWCIG   87 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHH---hCcCcHHHHHHHH
Confidence            45667899999999999987533 677888888888888765          478888887777   4554 56677777


Q ss_pred             HHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 040576          496 DLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDP  554 (641)
Q Consensus       496 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  554 (641)
                      .+|...|.+            .|+...         ..|++++|+..|+++++++|++.
T Consensus        88 ~ay~~lg~l------------~P~~~~---------a~g~~~eA~~~~~kAl~l~P~~~  125 (158)
T 1zu2_A           88 NAYTSFAFL------------TPDETE---------AKHNFDLATQFFQQAVDEQPDNT  125 (158)
T ss_dssp             HHHHHHHHH------------CCCHHH---------HHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHhccc------------Ccchhh---------hhccHHHHHHHHHHHHHhCCCCH
Confidence            777766643            244321         13789999999999999999985

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.53  E-value=0.00049  Score=70.59  Aligned_cols=122  Identities=10%  Similarity=-0.063  Sum_probs=70.8

Q ss_pred             HHHcCChHHHHHHHHHHHHC---CCCCC----HHHHHHHHHHHHhhccHHHHHHHHHHhHHhh----C-CCCc-hHHHHH
Q 040576          427 YGMHGQGEKALEMFMEMEKR---GPTPN----DATFICVLSACTHAGMVLEGWWYFDLMQRIY----K-IEPK-VEHYGC  493 (641)
Q Consensus       427 ~~~~~~~~~A~~~~~~m~~~---g~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~----~-~~p~-~~~~~~  493 (641)
                      +...|++++|+.++++..+.   -+-|+    ..+++.|...|...|++++|..++++.....    | -.|+ ..+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            34556666666666655442   11122    2356666666777777777777666655421    1 1222 355667


Q ss_pred             HHHHHhhcCCHHHHHHHHHhC---------CCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040576          494 MVDLLGRAGLMRDSEELVSKL---------PMEAGPA-LWGALLSACSTHSNSELGKIVAQHLME  548 (641)
Q Consensus       494 li~~~~~~g~~~~A~~~~~~~---------~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~  548 (641)
                      |...|...|++++|+.++++.         +..|+.. +...+..++...+.+++|+..|+++.+
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777777777777777776654         1223322 233444556677778888888877765

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.49  E-value=0.0015  Score=54.31  Aligned_cols=113  Identities=9%  Similarity=-0.065  Sum_probs=91.7

Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhh----cCCHH
Q 040576          430 HGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGR----AGLMR  505 (641)
Q Consensus       430 ~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~  505 (641)
                      .+++++|+.+|++..+.| .|+..    +...|...+.+++|.++|++..+ .   -+...+..|..+|..    .++++
T Consensus         8 ~~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~-~---g~~~a~~~Lg~~y~~G~g~~~d~~   78 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACE-L---NSGNGCRFLGDFYENGKYVKKDLR   78 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHH-T---TCHHHHHHHHHHHHHCSSSCCCHH
T ss_pred             ccCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHc-C---CCHHHHHHHHHHHHcCCCCCccHH
Confidence            356889999999999887 33443    66777777888889999999987 3   356677788888887    78999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCC
Q 040576          506 DSEELVSKLPMEAGPALWGALLSACST----HSNSELGKIVAQHLMELEP  551 (641)
Q Consensus       506 ~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~p  551 (641)
                      +|+++|++.....++..+..|...|..    .++.++|...++++.+.+.
T Consensus        79 ~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           79 KAAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            999999988445678888888888888    8999999999999988753

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.39  E-value=0.00038  Score=70.10  Aligned_cols=62  Identities=10%  Similarity=0.049  Sum_probs=48.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHh-----cCCCCC---chHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          521 ALWGALLSACSTHSNSELGKIVAQHLME-----LEPRDP---GPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       521 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      .+++.|..+|...|++++|+.+++++++     ++|++|   ..|+.|+.+|..+|++++|..++++..+
T Consensus       341 ~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          341 HMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHHH
Confidence            3566777777778888888888877765     345555   4688899999999999999999999864

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.33  E-value=0.00035  Score=55.95  Aligned_cols=72  Identities=11%  Similarity=0.010  Sum_probs=63.5

Q ss_pred             HHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHH
Q 040576          538 LGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVY  617 (641)
Q Consensus       538 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~  617 (641)
                      .|...++++++.+|+++..+..++.+|...|++++|+..+++.                        .+.+|++..  .+
T Consensus         3 ~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~a------------------------l~~~p~~~~--~~   56 (115)
T 2kat_A            3 AITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAA------------------------LDFDPTYSV--AW   56 (115)
T ss_dssp             CHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH------------------------HHHCTTCHH--HH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHH------------------------HHHCCCcHH--HH
Confidence            4788899999999999999999999999999999999999998                        677888888  88


Q ss_pred             HHHHHHHHHHHhhhcccc
Q 040576          618 SMLGEIGAQMKMCRRDVA  635 (641)
Q Consensus       618 ~~l~~l~~~~~~~~~~~~  635 (641)
                      ..|+.++..+++..++..
T Consensus        57 ~~la~~~~~~g~~~~A~~   74 (115)
T 2kat_A           57 KWLGKTLQGQGDRAGARQ   74 (115)
T ss_dssp             HHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHH
Confidence            889988888877766543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.29  E-value=0.0018  Score=50.65  Aligned_cols=85  Identities=14%  Similarity=0.031  Sum_probs=69.3

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC-------CCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCce
Q 040576          519 GPALWGALLSACSTHSNSELGKIVAQHLMELE-------PRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGS  591 (641)
Q Consensus       519 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~  591 (641)
                      ++..+..++..+...|+++.|...++.+++..       +..+..+..|+.+|.+.|++++|+..++++           
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~a-----------   72 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKL-----------   72 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHH-----------
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHH-----------
Confidence            45556678888899999999999999988753       234567999999999999999999999999           


Q ss_pred             EEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHh
Q 040576          592 SLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKM  629 (641)
Q Consensus       592 ~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~  629 (641)
                                   .+++|++..  +...++.+...+.+
T Consensus        73 -------------l~l~P~~~~--~~~n~~~~~~~~~~   95 (104)
T 2v5f_A           73 -------------LELDPEHQR--ANGNLKYFEYIMAK   95 (104)
T ss_dssp             -------------HHHCTTCHH--HHHHHHHHHHHHHH
T ss_pred             -------------HhcCCCCHH--HHhhHHHHHHHHHh
Confidence                         788999999  87777765555443

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.27  E-value=0.0011  Score=66.91  Aligned_cols=61  Identities=13%  Similarity=0.184  Sum_probs=47.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh-----cCCCCC---chHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          522 LWGALLSACSTHSNSELGKIVAQHLME-----LEPRDP---GPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       522 ~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      +++.+..+|...|++++|+.+++++++     +.|++|   ..++.|+.+|..+|++++|..+++++.+
T Consensus       331 ~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          331 VLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            566667777777777777777777764     345555   4688899999999999999999999864

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.26  E-value=0.00033  Score=54.24  Aligned_cols=79  Identities=14%  Similarity=0.101  Sum_probs=58.3

Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CCCC-CHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCh
Q 040576          494 MVDLLGRAGLMRDSEELVSKL-PMEA-GPA-LWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKW  570 (641)
Q Consensus       494 li~~~~~~g~~~~A~~~~~~~-~~~~-~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  570 (641)
                      ....+.+.|++++|++.+++. ...| +.. .|..+..++...|++++|+..++++++++|+++..+..        +.+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~--------~~~   77 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQAR--------KMV   77 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHH--------HHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHH--------HHH
Confidence            455677788888888888876 2233 456 77888888889999999999999999999998876632        445


Q ss_pred             HHHHHHHHHh
Q 040576          571 DEVENLRRIM  580 (641)
Q Consensus       571 ~~A~~~~~~m  580 (641)
                      .+|...+++.
T Consensus        78 ~~a~~~~~~~   87 (99)
T 2kc7_A           78 MDILNFYNKD   87 (99)
T ss_dssp             HHHHHHHCCT
T ss_pred             HHHHHHHHHH
Confidence            5666666555

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.21  E-value=0.0016  Score=50.47  Aligned_cols=64  Identities=11%  Similarity=0.074  Sum_probs=39.8

Q ss_pred             ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHH
Q 040576          416 NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQR  480 (641)
Q Consensus       416 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  480 (641)
                      +...|..+...|...|++++|+..|++..+.... +...|..+..+|...|++++|.+.|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3455666666666666666666666666664322 344566666666666666666666666654

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.17  E-value=0.0041  Score=60.02  Aligned_cols=64  Identities=14%  Similarity=0.103  Sum_probs=46.3

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          518 AGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       518 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      .++..+..+...+...|++++|...++++++++|+ ...|..++.++.-.|++++|.+.+++...
T Consensus       275 ~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s-~~a~~llG~~~~~~G~~~eA~e~~~~Alr  338 (372)
T 3ly7_A          275 NLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMS-WLNYVLLGKVYEMKGMNREAADAYLTAFN  338 (372)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            45566666666666668888888888888888753 45667778888888888888888877743

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=97.14  E-value=0.033  Score=44.20  Aligned_cols=141  Identities=8%  Similarity=0.058  Sum_probs=105.5

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHH
Q 040576          427 YGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRD  506 (641)
Q Consensus       427 ~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  506 (641)
                      +.-.|..++..++..+....   .+..-|+.+|--....-+-+-..++++.+-+.+.+              ..+|++..
T Consensus        17 ~ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDi--------------s~C~NlKr   79 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL--------------DKCQNLKS   79 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG--------------GGCSCTHH
T ss_pred             HHHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhhcCc--------------HhhhcHHH
Confidence            44568888888888887763   25556777776666667777777777776552222              24666666


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCc
Q 040576          507 SEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELE  586 (641)
Q Consensus       507 A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  586 (641)
                      ....+-.+.  .+...+...+......|.-++-..++..++.-++.+|+.+..++.+|.+.|+..+|.+++.++-++|++
T Consensus        80 Vi~C~~~~n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           80 VVECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhc--chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            666666664  345556667788889999999999999887777888999999999999999999999999999999976

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.09  E-value=0.018  Score=55.55  Aligned_cols=142  Identities=10%  Similarity=-0.033  Sum_probs=91.2

Q ss_pred             CChhHHHHHHHHHH--HcC---ChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHh---hc-----cHHHHHHHHHHhHH
Q 040576          415 KNVVSWNSMIMGYG--MHG---QGEKALEMFMEMEKRGPTPN-DATFICVLSACTH---AG-----MVLEGWWYFDLMQR  480 (641)
Q Consensus       415 ~~~~~~~~li~~~~--~~~---~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~---~g-----~~~~a~~~~~~~~~  480 (641)
                      .+..+|...+.+..  ..+   ...+|..+|++..+.  .|+ ...+..+..++..   .+     ........++....
T Consensus       192 ~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a  269 (372)
T 3ly7_A          192 HRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVT  269 (372)
T ss_dssp             SSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHh
Confidence            35566666655432  223   246788888888875  555 3344443333321   01     11111122222211


Q ss_pred             hhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHH
Q 040576          481 IYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVL  559 (641)
Q Consensus       481 ~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  559 (641)
                      ....+.+..+|..+...+...|++++|+..++++ ...|+...|..+...+...|++++|.+.+++++.++|..+ +|..
T Consensus       270 ~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~-t~~~  348 (372)
T 3ly7_A          270 LPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGAN-TLYW  348 (372)
T ss_dssp             CGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHH-HHHH
T ss_pred             cccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcC-hHHH
Confidence            1122445778888877777789999999999987 3458888888888889999999999999999999999865 4433

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.02  E-value=0.0035  Score=63.06  Aligned_cols=67  Identities=9%  Similarity=-0.011  Sum_probs=39.5

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhC---------CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHh-----cCCCC
Q 040576          489 EHYGCMVDLLGRAGLMRDSEELVSKL---------PMEAGP-ALWGALLSACSTHSNSELGKIVAQHLME-----LEPRD  553 (641)
Q Consensus       489 ~~~~~li~~~~~~g~~~~A~~~~~~~---------~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~p~~  553 (641)
                      .+++.|..+|...|++++|+.++++.         +..|+. .+++.|...|...|++++|+.+++++++     ++|++
T Consensus       341 ~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~H  420 (433)
T 3qww_A          341 HMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAIAIMEVAHGKDH  420 (433)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTC
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHcCCCC
Confidence            44555555555555555555555543         123332 2566677777777777777777777765     45666


Q ss_pred             Cc
Q 040576          554 PG  555 (641)
Q Consensus       554 ~~  555 (641)
                      |.
T Consensus       421 p~  422 (433)
T 3qww_A          421 PY  422 (433)
T ss_dssp             HH
T ss_pred             hH
Confidence            53

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.99  E-value=0.0038  Score=49.70  Aligned_cols=86  Identities=9%  Similarity=0.028  Sum_probs=64.2

Q ss_pred             CCHHHHHHHHHHHHhcCCHHH---HHHHHHHHHhcC-C-CCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceE
Q 040576          518 AGPALWGALLSACSTHSNSEL---GKIVAQHLMELE-P-RDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSS  592 (641)
Q Consensus       518 ~~~~~~~~l~~~~~~~g~~~~---a~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  592 (641)
                      ++..+--.+.+++.+..+...   ++.+++.+.+.+ | ......+.|+-++.+.|++++|++.++.+            
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~l------------  100 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGL------------  100 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH------------
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHH------------
Confidence            666666667777777665544   777777777765 4 34567788888888999999999988888            


Q ss_pred             EEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHh
Q 040576          593 LVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKM  629 (641)
Q Consensus       593 ~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~  629 (641)
                                  .+.+|++..  +..+...+..++.+
T Consensus       101 ------------L~~eP~n~Q--A~~Lk~~i~~~i~k  123 (126)
T 1nzn_A          101 ------------LQTEPQNNQ--AKELERLIDKAMKK  123 (126)
T ss_dssp             ------------HHHCTTCHH--HHHHHHHHHHHHHH
T ss_pred             ------------HHhCCCCHH--HHHHHHHHHHHHHh
Confidence                        778888888  77777777776654

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.99  E-value=0.024  Score=62.76  Aligned_cols=153  Identities=12%  Similarity=0.039  Sum_probs=93.3

Q ss_pred             HHHhCCChHHHHH-HHhhCCCCCchhHHHHHHHHhcCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHh
Q 040576          232 GYVKNREVGFARE-LFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDR  310 (641)
Q Consensus       232 ~~~~~g~~~~A~~-~~~~m~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  310 (641)
                      .....+++++|.+ ++..+.  +......++..+.+.|..+.|.++.+..        ..-.......|++++|.++.+.
T Consensus       608 ~~~~~~~~~~a~~~~l~~i~--~~~~~~~~~~~l~~~~~~~~a~~~~~~~--------~~~f~~~l~~~~~~~A~~~~~~  677 (814)
T 3mkq_A          608 TLTLRGEIEEAIENVLPNVE--GKDSLTKIARFLEGQEYYEEALNISPDQ--------DQKFELALKVGQLTLARDLLTD  677 (814)
T ss_dssp             HHHHTTCHHHHHHHTGGGCC--CHHHHHHHHHHHHHTTCHHHHHHHCCCH--------HHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHhCCHHHHHHHHHhcCC--chHHHHHHHHHHHhCCChHHheecCCCc--------chheehhhhcCCHHHHHHHHHh
Confidence            3445677777766 443321  1222356666667777777777665321        1123445667888888887766


Q ss_pred             cCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHH
Q 040576          311 MCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLST  390 (641)
Q Consensus       311 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  390 (641)
                      +.  +...|..+...+.+.|+++.|.+.|.++..         |..+...+...|+.+...++-+.....|.      ++
T Consensus       678 ~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~~------~~  740 (814)
T 3mkq_A          678 ES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTGK------FN  740 (814)
T ss_dssp             CC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTTC------HH
T ss_pred             hC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcCc------hH
Confidence            53  456788888888888888888888887744         44455555556777666665555555441      23


Q ss_pred             HHHHHHHhcCCHHHHHHHHhh
Q 040576          391 SLLTMYAKCGVMDLARNVFDN  411 (641)
Q Consensus       391 ~li~~~~~~g~~~~A~~~~~~  411 (641)
                      ....+|.+.|++++|.+++.+
T Consensus       741 ~A~~~~~~~g~~~~a~~~~~~  761 (814)
T 3mkq_A          741 LAFNAYWIAGDIQGAKDLLIK  761 (814)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHH
Confidence            334455666777776666544

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.97  E-value=0.0058  Score=61.58  Aligned_cols=96  Identities=4%  Similarity=-0.154  Sum_probs=53.5

Q ss_pred             HHhhccHHHHHHHHHHhHHhh--CCCCc----hHHHHHHHHHHhhcCCHHHHHHHHHhC---------CCCCCH-HHHHH
Q 040576          462 CTHAGMVLEGWWYFDLMQRIY--KIEPK----VEHYGCMVDLLGRAGLMRDSEELVSKL---------PMEAGP-ALWGA  525 (641)
Q Consensus       462 ~~~~g~~~~a~~~~~~~~~~~--~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~---------~~~~~~-~~~~~  525 (641)
                      +.+.|++++|...+++..+..  -+.|+    ..+++.++.+|...|++++|+.++++.         +..|+. .+++.
T Consensus       297 ~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~n  376 (429)
T 3qwp_A          297 LKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMK  376 (429)
T ss_dssp             HHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHH
T ss_pred             HHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHH
Confidence            334455555555555554311  11111    344555666666666666666555543         123332 35666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHh-----cCCCCCchH
Q 040576          526 LLSACSTHSNSELGKIVAQHLME-----LEPRDPGPY  557 (641)
Q Consensus       526 l~~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~~~  557 (641)
                      |...|...|++++|+.+++++++     ++|++|.+-
T Consensus       377 La~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~  413 (429)
T 3qwp_A          377 VGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIE  413 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHH
Confidence            77777778888888887777765     457776443

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.69  E-value=0.0054  Score=56.67  Aligned_cols=83  Identities=10%  Similarity=0.129  Sum_probs=67.2

Q ss_pred             HHHHHHHHHhC-CCCCC---HHHHHHHHHHHHh-----cCCHHHHHHHHHHHHhcCCCC-CchHHHHHHHHHhc-CChHH
Q 040576          504 MRDSEELVSKL-PMEAG---PALWGALLSACST-----HSNSELGKIVAQHLMELEPRD-PGPYVLLSNIYASE-GKWDE  572 (641)
Q Consensus       504 ~~~A~~~~~~~-~~~~~---~~~~~~l~~~~~~-----~g~~~~a~~~~~~~~~~~p~~-~~~~~~l~~~~~~~-g~~~~  572 (641)
                      ..+|...+++. ...|+   ...|..+...|..     -|+.++|.+.|+++++++|+. ..++..++..|+.. |+.++
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            45666666665 34566   4577777777877     499999999999999999975 99999999999985 99999


Q ss_pred             HHHHHHHhhhCCCc
Q 040576          573 VENLRRIMKEKELE  586 (641)
Q Consensus       573 A~~~~~~m~~~~~~  586 (641)
                      |.+.+++.....+.
T Consensus       259 a~~~L~kAL~a~p~  272 (301)
T 3u64_A          259 FDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHcCCCC
Confidence            99999999776543

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.59  E-value=7.5e-05  Score=73.26  Aligned_cols=259  Identities=11%  Similarity=0.089  Sum_probs=138.7

Q ss_pred             CcchHHHHHHHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCC--CCCeeHHHHHHHHH
Q 040576          156 NHYTFPLLGKVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGP--VWDLVTWNSMIDGY  233 (641)
Q Consensus       156 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~  233 (641)
                      ....|..|.++....+.+.+|.+-|   ++   .-|+..|..+|....+.|.+++-.+.+.-..  .+++..=+.|+-+|
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsy---Ik---A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~~IDteLi~ay  126 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSY---IK---ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFAL  126 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSS---CC---CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCSTTTTHHHHHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHH---Hh---CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccHHHHHHHH
Confidence            4456777877777777777766543   12   2355667778888888888888877776422  34555567788888


Q ss_pred             HhCCChHHHHHHHhhCCCCCchhHHHHHHHHhcCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhcCC
Q 040576          234 VKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCM  313 (641)
Q Consensus       234 ~~~g~~~~A~~~~~~m~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  313 (641)
                      ++.++..+-.+++   ..||..-...+.+-|...|.++.|.-+|..+..-     ..|...+.+.|++..|.+.-++  .
T Consensus       127 Ak~~rL~elEefl---~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~-----akLAstLV~L~~yq~AVdaArK--A  196 (624)
T 3lvg_A          127 AKTNRLAELEEFI---NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNF-----GRLASTLVHLGEYQAAVDGARK--A  196 (624)
T ss_dssp             HTSCSSSTTTSTT---SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCC-----TTTSSSSSSCSGGGSSTTTTTT--C
T ss_pred             HhhCcHHHHHHHH---cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccH-----HHHHHHHHHHHHHHHHHHHHHh--c
Confidence            8887765543332   3467767777777888888888877777665421     1111122222333322221111  2


Q ss_pred             CCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHH
Q 040576          314 RNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLL  393 (641)
Q Consensus       314 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  393 (641)
                      .++.+|-.+-.+|...+.+.-|.-.--.+.-   .||  ....++..|-..|.+++.+.+++.-.... .....+|+-|.
T Consensus       197 ns~ktWKeV~~ACvd~~EfrLAqicGLniIv---had--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELa  270 (624)
T 3lvg_A          197 NSTRTWKEVCFACVDGKEFRLAQMCGLHIVV---HAD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELA  270 (624)
T ss_dssp             CSSCSHHHHTHHHHHSCTTTTTTHHHHHHHC---CSS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHH
T ss_pred             CChhHHHHHHHHHhCchHHHHHHHhcchhcc---cHH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHH
Confidence            3455666666666666665554333222221   111  11223344555555555555555444221 23455566666


Q ss_pred             HHHHhcCCHHHHHHHHhhcCC-----------CChhHHHHHHHHHHHcCChHHHH
Q 040576          394 TMYAKCGVMDLARNVFDNMTE-----------KNVVSWNSMIMGYGMHGQGEKAL  437 (641)
Q Consensus       394 ~~~~~~g~~~~A~~~~~~~~~-----------~~~~~~~~li~~~~~~~~~~~A~  437 (641)
                      -.|++- +.++..+.++....           .....|.-++-.|..-.++|.|.
T Consensus       271 ILYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          271 ILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             HHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            566553 23333333322211           23345666666666666666554

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=96.57  E-value=0.048  Score=44.09  Aligned_cols=88  Identities=8%  Similarity=0.011  Sum_probs=71.3

Q ss_pred             CCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCC-CCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceE
Q 040576          517 EAGPALWGALLSACSTHSN---SELGKIVAQHLMELEPR-DPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSS  592 (641)
Q Consensus       517 ~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  592 (641)
                      .|+..+--.+.+++.+..+   ..+++.+++.+.+..|. .....+.|+-++.+.|++++|+++.+.+            
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~l------------  103 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTL------------  103 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHH------------
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHH------------
Confidence            5777777777778777664   56788899999888774 4567888999999999999999999998            


Q ss_pred             EEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhh
Q 040576          593 LVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMC  630 (641)
Q Consensus       593 ~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~  630 (641)
                                  .+.+|+|..  +..+...+..++.+-
T Consensus       104 ------------L~~eP~n~Q--A~~Lk~~Ie~~i~kd  127 (144)
T 1y8m_A          104 ------------FEHERNNKQ--VGALKSMVEDKIQKE  127 (144)
T ss_dssp             ------------HHTCCCCHH--HHHHHHHHHHHHHHT
T ss_pred             ------------HhcCCCcHH--HHHHHHHHHHHHHHh
Confidence                        788999999  888877777777543

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.49  E-value=0.0024  Score=62.97  Aligned_cols=376  Identities=11%  Similarity=0.081  Sum_probs=202.3

Q ss_pred             ChHHHHHhhhcCCCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHHHhcCCCchhHHHHHHHHH
Q 040576          105 SVSLSVLFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKVCAGIRSLREGKKVHARIV  184 (641)
Q Consensus       105 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  184 (641)
                      +++.|.++-++...|  ..|..|..+....|.+.+|++.|-   +    .-|...|..++.++.+.|.+++-...+.-.+
T Consensus        40 ~ldRa~eyA~~~n~p--~VWs~LgkAqL~~~~v~eAIdsyI---k----A~Dps~y~eVi~~A~~~~~~edLv~yL~MaR  110 (624)
T 3lvg_A           40 NLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYI---K----ADDPSSYMEVVQAANTSGNWEELVKYLQMAR  110 (624)
T ss_dssp             CSTTTTTSSSSCCCC--CCSSSHHHHTTTSSSCTTTTTSSC---C----CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTS
T ss_pred             ccHHHHHHHHHhCCc--cHHHHHHHHHHccCchHHHHHHHH---h----CCChHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            344444444444333  457778888888888888877764   1    2366678888888888888888877776655


Q ss_pred             HhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCeeHHHHHHHHHHhCCChHHHHHHHhhC---------------
Q 040576          185 KCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFM---------------  249 (641)
Q Consensus       185 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---------------  249 (641)
                      +..  .+..+-+.|+-+|++.|++.+-.+.+   ..+|..-...+.+-|...|.++.|.-+|..+               
T Consensus       111 k~~--ke~~IDteLi~ayAk~~rL~elEefl---~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~  185 (624)
T 3lvg_A          111 KKA--RESYVETELIFALAKTNRLAELEEFI---NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGE  185 (624)
T ss_dssp             TTC--CSTTTTHHHHHHHHTSCSSSTTTSTT---SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSG
T ss_pred             HHh--cccccHHHHHHHHHhhCcHHHHHHHH---cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            543  34455567888888888766544332   2344444555666666666666666666555               


Q ss_pred             ---------CCCCchhHHHHHHHHhcCCChHHHHH------------------------------HHhhcC---CCCchH
Q 040576          250 ---------PERDIFTWNSMISGYVDVGDMEAANG------------------------------LFDLMP---FRDVVS  287 (641)
Q Consensus       250 ---------~~~~~~~~~~ll~~~~~~g~~~~a~~------------------------------~~~~~~---~~~~~~  287 (641)
                               ...++.||-.+-.+|...+.+..|.-                              +++...   +.....
T Consensus       186 yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIvhadeL~elv~~YE~~G~f~ELIsLlEaglglErAHmGm  265 (624)
T 3lvg_A          186 YQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGM  265 (624)
T ss_dssp             GGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCCSSCCSGGGSSSSTTCCCTTSTTTHHHHTTSTTCCHHH
T ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhcccHHHHHHHHHHHHhCCCHHHHHHHHHHHhCCCchhHHH
Confidence                     11356677777777777766554432                              222221   112456


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhcCC-----------CCcchHHHHHHHHHHcCChHHHHHHH-------------HHHH
Q 040576          288 WNCMIDGYAKIGNVTSARNCFDRMCM-----------RNVVSWNILLALYVRCKDYCECLRLF-------------DRMI  343 (641)
Q Consensus       288 ~~~li~~~~~~~~~~~A~~~~~~~~~-----------~~~~~~~~li~~~~~~g~~~~A~~~~-------------~~m~  343 (641)
                      ++-|.-.|+|- +.++..+.++..-.           .....|.-++-.|.+-.+++.|....             ++..
T Consensus       266 FTELaILYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~ltMi~h~~~Aw~h~~Fkdii  344 (624)
T 3lvg_A          266 FTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDII  344 (624)
T ss_dssp             HHHHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHHTTTSCHHHHCCGGGGTTTG
T ss_pred             HHHHHHHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHHHHHhCChhhccHHHHHHHH
Confidence            77777777775 44554444443311           23457889999999989888775321             1111


Q ss_pred             HCCCCCCHHHHHHHHHHHHc---------------cCCHHHHHHHHHHHHHc----------CCCCchhHHHHHHHHHHh
Q 040576          344 RGDAKPNEASLMSVLTACAN---------------MGVIDIGQWIHSYIQKC----------RIKPDVLLSTSLLTMYAK  398 (641)
Q Consensus       344 ~~g~~p~~~~~~~ll~~~~~---------------~g~~~~a~~~~~~~~~~----------~~~~~~~~~~~li~~~~~  398 (641)
                      ..  ..|...|-..+..|..               .=+...+.+++...-..          .-..+..+-.++-+.|..
T Consensus       345 ~K--VaN~EiyYKAi~FYL~e~P~lL~DLL~vL~prlDh~RvV~~~~k~~~LpLIkpYL~~Vq~~N~~aVNeAln~L~IE  422 (624)
T 3lvg_A          345 TK--VANVELYYRAIQFYLEFKPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNESLNNLFIT  422 (624)
T ss_dssp             GG--CSCSHHHHHHHHHHTTSCCTTSHHHHHHHCTTCCSTTTHHHHHTTTCGGGGTGGGTSCCCSCCHHHHHHHHHHHHH
T ss_pred             HH--cchHHHHHHHHHHHHHhChHHHHHHHHhccccCChHHHHHHHHhcCCchhhHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            10  1233333333333332               22222233332221100          001234445566677777


Q ss_pred             cCCHHHHHHHHhhcCC------------CChhHHHHH-HHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhh
Q 040576          399 CGVMDLARNVFDNMTE------------KNVVSWNSM-IMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHA  465 (641)
Q Consensus       399 ~g~~~~A~~~~~~~~~------------~~~~~~~~l-i~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  465 (641)
                      ..+++.-+.-.+.-..            .+..-|..+ ...|.++++|++++.+.++   .      ..|.-.|......
T Consensus       423 EEDy~~LR~SId~ydNFD~i~LA~rLEkHeL~eFRrIAA~LYkkn~rw~qsi~l~Kk---D------klykDAietAa~S  493 (624)
T 3lvg_A          423 EEDYQALRTSIDAYDNFDNISLAQRLEKHELIEFRRIAAYLFKGNNRWKQSVELCKK---D------SLYKDAMQYASES  493 (624)
T ss_dssp             TTCCHHHHHTTSSCCCSCTTHHHHHHHTCSSHHHHHHHHHHHHTTCHHHHHSSCSST---T------CCTTGGGTTTTTC
T ss_pred             hhhHHHHHHHHHHhccccHHHHHHHHhhCchHHHHHHHHHHHHhcccHHHHHHHHHh---c------ccHHHHHHHHHHc
Confidence            7776655544433222            222333333 3345667777777665432   0      1122233344455


Q ss_pred             ccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHH
Q 040576          466 GMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEEL  510 (641)
Q Consensus       466 g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  510 (641)
                      |+.+-+.++++-..+ .|   +.+.|.+.+-.|...=+++-++++
T Consensus       494 ~~~elaeeLL~yFv~-~g---~~EcF~a~LytCYdLlrpDvVlEl  534 (624)
T 3lvg_A          494 KDTELAEELLQWFLQ-EE---KRECFGACLFTCYDLLRPDVVLET  534 (624)
T ss_dssp             CCTTHHHHHHHHHHH-HC---STHHHHHHHHHTSSSSSCHHHHHH
T ss_pred             CCHHHHHHHHHHHHH-cC---chHHHHHHHHHHhhccChHHHHHH
Confidence            666666666666555 22   233444444444455555666555

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.39  E-value=0.14  Score=56.50  Aligned_cols=155  Identities=11%  Similarity=0.056  Sum_probs=91.1

Q ss_pred             HHHHcCChHHHHH-HHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHH
Q 040576          325 LYVRCKDYCECLR-LFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMD  403 (641)
Q Consensus       325 ~~~~~g~~~~A~~-~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  403 (641)
                      .....+++++|.+ ++..+      ++......++..+.+.|..+.|.++.+.         ..   .-.......|+++
T Consensus       608 ~~~~~~~~~~a~~~~l~~i------~~~~~~~~~~~~l~~~~~~~~a~~~~~~---------~~---~~f~~~l~~~~~~  669 (814)
T 3mkq_A          608 TLTLRGEIEEAIENVLPNV------EGKDSLTKIARFLEGQEYYEEALNISPD---------QD---QKFELALKVGQLT  669 (814)
T ss_dssp             HHHHTTCHHHHHHHTGGGC------CCHHHHHHHHHHHHHTTCHHHHHHHCCC---------HH---HHHHHHHHHTCHH
T ss_pred             HHHHhCCHHHHHHHHHhcC------CchHHHHHHHHHHHhCCChHHheecCCC---------cc---hheehhhhcCCHH
Confidence            3445677777765 44211      1112225556666677777776655421         10   1123456778888


Q ss_pred             HHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhC
Q 040576          404 LARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYK  483 (641)
Q Consensus       404 ~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  483 (641)
                      .|.++.+.+.  +...|..+...+.+.++++.|.+.|.++.+         |..+...+...|+.+...++-+.... .|
T Consensus       670 ~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~-~~  737 (814)
T 3mkq_A          670 LARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAET-TG  737 (814)
T ss_dssp             HHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHH-TT
T ss_pred             HHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHH-cC
Confidence            8888877663  557888888888888888888888887753         23344444446666655554444433 11


Q ss_pred             CCCchHHHHHHHHHHhhcCCHHHHHHHHHhCC
Q 040576          484 IEPKVEHYGCMVDLLGRAGLMRDSEELVSKLP  515 (641)
Q Consensus       484 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  515 (641)
                            .++....+|.+.|++++|++++.++.
T Consensus       738 ------~~~~A~~~~~~~g~~~~a~~~~~~~~  763 (814)
T 3mkq_A          738 ------KFNLAFNAYWIAGDIQGAKDLLIKSQ  763 (814)
T ss_dssp             ------CHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             ------chHHHHHHHHHcCCHHHHHHHHHHcC
Confidence                  12333344556666666666666553

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=96.34  E-value=0.026  Score=44.98  Aligned_cols=90  Identities=8%  Similarity=0.003  Sum_probs=72.7

Q ss_pred             CCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCC-CCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCce
Q 040576          516 MEAGPALWGALLSACSTHSN---SELGKIVAQHLMELEPR-DPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGS  591 (641)
Q Consensus       516 ~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~  591 (641)
                      ..|++.+--.+.+++.+..+   ..+++.+++.+.+.+|. ....++.|+-++.+.|++++|++..+.+           
T Consensus        36 ~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~l-----------  104 (134)
T 3o48_A           36 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTL-----------  104 (134)
T ss_dssp             GGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHH-----------
T ss_pred             CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHH-----------
Confidence            35677776667777777664   56788899999888874 4668889999999999999999999998           


Q ss_pred             EEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhh
Q 040576          592 SLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCR  631 (641)
Q Consensus       592 ~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~  631 (641)
                                   .+.+|+|..  +..+...+..++.+-+
T Consensus       105 -------------L~~eP~N~Q--A~~Lk~~Ie~ki~kd~  129 (134)
T 3o48_A          105 -------------FEHERNNKQ--VGALKSMVEDKIQKEE  129 (134)
T ss_dssp             -------------HTTCTTCHH--HHHHHHHHHHHHHHHH
T ss_pred             -------------HhhCCCCHH--HHHHHHHHHHHHHhhc
Confidence                         788999999  8888888887776543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.34  E-value=0.022  Score=44.22  Aligned_cols=70  Identities=11%  Similarity=0.047  Sum_probs=47.6

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhC-----C----CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHH
Q 040576          492 GCMVDLLGRAGLMRDSEELVSKL-----P----MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLS  561 (641)
Q Consensus       492 ~~li~~~~~~g~~~~A~~~~~~~-----~----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  561 (641)
                      ..++..+.+.|++..|...|+..     +    ..+...++..|..++.+.|+++.|...+++++++.|+++.+...+.
T Consensus         9 ~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~n~~   87 (104)
T 2v5f_A            9 FELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNLK   87 (104)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHhhHH
Confidence            34444555555555555554443     0    1234567788888999999999999999999999999876655554

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=95.96  E-value=0.023  Score=47.00  Aligned_cols=90  Identities=14%  Similarity=-0.048  Sum_probs=57.1

Q ss_pred             cHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcC---CHHHHHHHHHhC-CCC-C--CHHHHHHHHHHHHhcCCHHHH
Q 040576          467 MVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAG---LMRDSEELVSKL-PME-A--GPALWGALLSACSTHSNSELG  539 (641)
Q Consensus       467 ~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~~-~~~-~--~~~~~~~l~~~~~~~g~~~~a  539 (641)
                      ....+.+.|.+... .+. ++..+.-.+.-++++.+   +.++++.++++. ... |  ....+..|.-+|.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~-~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKA-AGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHH-TTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHc-cCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHH
Confidence            34444555555444 222 45555555666666666   455666666655 112 3  234556677778999999999


Q ss_pred             HHHHHHHHhcCCCCCchHH
Q 040576          540 KIVAQHLMELEPRDPGPYV  558 (641)
Q Consensus       540 ~~~~~~~~~~~p~~~~~~~  558 (641)
                      ...++.+++.+|+|..+..
T Consensus        91 ~~y~~~lL~ieP~n~QA~~  109 (152)
T 1pc2_A           91 LKYVRGLLQTEPQNNQAKE  109 (152)
T ss_dssp             HHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHhcCCCCHHHHH
Confidence            9999999999998864433

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.83  E-value=0.29  Score=41.55  Aligned_cols=129  Identities=10%  Similarity=0.090  Sum_probs=76.9

Q ss_pred             HHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHH
Q 040576          394 TMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWW  473 (641)
Q Consensus       394 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~  473 (641)
                      +....+|+++.|.++.+.+  .+...|..|.......|+++-|...|.+..+         |..+.-.|.-.|+.+.-.+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~k   81 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSK   81 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHH
Confidence            3445677888887777665  4566788888888888888888888777643         2334444555566655554


Q ss_pred             HHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 040576          474 YFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHL  546 (641)
Q Consensus       474 ~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  546 (641)
                      +-+.... .|      -++.-...+.-.|+++++++++.+...-|...      ......|..+.|.++.+.+
T Consensus        82 la~iA~~-~g------~~n~af~~~l~lGdv~~~i~lL~~~~r~~eA~------~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           82 MQNIAQT-RE------DFGSMLLNTFYNNSTKERSSIFAEGGSLPLAY------AVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHH-TT------CHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHH------HHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHH-Cc------cHHHHHHHHHHcCCHHHHHHHHHHCCChHHHH------HHHHHcCcHHHHHHHHHHh
Confidence            4444433 12      13333445566788888888877765222111      1223456666666666544

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.79  E-value=0.65  Score=39.41  Aligned_cols=101  Identities=10%  Similarity=0.060  Sum_probs=54.0

Q ss_pred             HHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Q 040576          295 YAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIH  374 (641)
Q Consensus       295 ~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~  374 (641)
                      ....|+++.|.++.+.+  .+...|..|.......|+++-|.+.|.+..+         +..+.-.|.-.|+.+....+-
T Consensus        15 AL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~kla   83 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSKMQ   83 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHHHH
Confidence            34556666666665554  3445666666666666666666666666543         334444455556655555444


Q ss_pred             HHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhc
Q 040576          375 SYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNM  412 (641)
Q Consensus       375 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  412 (641)
                      +.....|      -++.....+...|+++++.++|.+.
T Consensus        84 ~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~  115 (177)
T 3mkq_B           84 NIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG  115 (177)
T ss_dssp             HHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC
Confidence            4444433      1222333444455666655555444

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.74  E-value=0.077  Score=40.05  Aligned_cols=68  Identities=7%  Similarity=-0.049  Sum_probs=47.3

Q ss_pred             CchHHHHHHHHHHhhcCC---HHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 040576          486 PKVEHYGCMVDLLGRAGL---MRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRD  553 (641)
Q Consensus       486 p~~~~~~~li~~~~~~g~---~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  553 (641)
                      .+...+..+..++...++   .++|..++++. ...| +...+..+...+...|++++|+..++++++.+|++
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~~   76 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDPN   76 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCTT
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC
Confidence            456666667776654444   57788877776 2233 35566667777888888888888888888888873

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=95.37  E-value=3.3  Score=43.44  Aligned_cols=114  Identities=16%  Similarity=0.032  Sum_probs=71.7

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHH----HHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHH
Q 040576          431 GQGEKALEMFMEMEKRGPTPNDATF----ICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRD  506 (641)
Q Consensus       431 ~~~~~A~~~~~~m~~~g~~p~~~~~----~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  506 (641)
                      ++.+.|...|......+ ..+....    ..+.......+...++...+.....   ..++.....-.+....+.|+++.
T Consensus       228 ~d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~e~~~r~Alr~~d~~~  303 (618)
T 1qsa_A          228 QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIM---RSQSTSLIERRVRMALGTGDRRG  303 (618)
T ss_dssp             HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHH---TCCCHHHHHHHHHHHHHHTCHHH
T ss_pred             cCHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccc---cCCChHHHHHHHHHHHHCCCHHH
Confidence            47899999998887543 2233322    2233333444534566666666544   22343334445555668899999


Q ss_pred             HHHHHHhCCCCC-C-HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040576          507 SEELVSKLPMEA-G-PALWGALLSACSTHSNSELGKIVAQHLME  548 (641)
Q Consensus       507 A~~~~~~~~~~~-~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  548 (641)
                      |...|+.|+..+ + ....-=+..+....|+.++|..+|+.+.+
T Consensus       304 a~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          304 LNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            999999996432 2 22222344567788999999999999875

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=94.66  E-value=0.062  Score=49.70  Aligned_cols=82  Identities=11%  Similarity=0.104  Sum_probs=47.9

Q ss_pred             HHHHHHHHHHhHHhhCCCCc---hHHHHHHHHHHhh-----cCCHHHHHHHHHhC-CCCCC--HHHHHHHHHHHHh-cCC
Q 040576          468 VLEGWWYFDLMQRIYKIEPK---VEHYGCMVDLLGR-----AGLMRDSEELVSKL-PMEAG--PALWGALLSACST-HSN  535 (641)
Q Consensus       468 ~~~a~~~~~~~~~~~~~~p~---~~~~~~li~~~~~-----~g~~~~A~~~~~~~-~~~~~--~~~~~~l~~~~~~-~g~  535 (641)
                      ...|...++++.+   +.|+   -..|..+...|.+     -|+.++|.+.|++. .+.|+  ...+......++. .|+
T Consensus       179 l~~A~a~lerAle---LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd  255 (301)
T 3u64_A          179 VHAAVMMLERACD---LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNN  255 (301)
T ss_dssp             HHHHHHHHHHHHH---HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTC
T ss_pred             HHHHHHHHHHHHH---hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCC
Confidence            4455555555555   4454   3356666666666     36677777776665 23342  4455555555555 367


Q ss_pred             HHHHHHHHHHHHhcCCC
Q 040576          536 SELGKIVAQHLMELEPR  552 (641)
Q Consensus       536 ~~~a~~~~~~~~~~~p~  552 (641)
                      .+++...+++++...|.
T Consensus       256 ~~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          256 RAGFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHHHcCCCC
Confidence            77777777777776665

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.54  E-value=0.62  Score=36.98  Aligned_cols=96  Identities=14%  Similarity=-0.080  Sum_probs=63.4

Q ss_pred             HHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHH---HHHHHHhCC-CC-C--CHHHHHHHHHHHHhcC
Q 040576          462 CTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRD---SEELVSKLP-ME-A--GPALWGALLSACSTHS  534 (641)
Q Consensus       462 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~---A~~~~~~~~-~~-~--~~~~~~~l~~~~~~~g  534 (641)
                      -........+.+.|..... .+. ++..+--.+..++++..+..+   ++.++++.- .. |  .......|.-++.+.|
T Consensus        11 ~~~~~~l~~~~~~y~~e~~-~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg   88 (126)
T 1nzn_A           11 LVSVEDLLKFEKKFQSEKA-AGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLK   88 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHH-HSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTT
T ss_pred             cCCHHHHHHHHHHHHHHhc-cCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhh
Confidence            3334455555666665554 233 566666666777777776655   777777762 22 3  1234455667789999


Q ss_pred             CHHHHHHHHHHHHhcCCCCCchHHH
Q 040576          535 NSELGKIVAQHLMELEPRDPGPYVL  559 (641)
Q Consensus       535 ~~~~a~~~~~~~~~~~p~~~~~~~~  559 (641)
                      ++++|...++.+++.+|+|..+...
T Consensus        89 ~Y~~A~~~~~~lL~~eP~n~QA~~L  113 (126)
T 1nzn_A           89 EYEKALKYVRGLLQTEPQNNQAKEL  113 (126)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            9999999999999999998654443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.16  E-value=0.25  Score=52.77  Aligned_cols=53  Identities=13%  Similarity=0.032  Sum_probs=50.0

Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          529 ACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       529 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      -|...|+++.|+.+.+++...-|.+..+|..|+.+|...|+|+.|+-.+..+.
T Consensus       346 FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          346 FLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            46788999999999999999999999999999999999999999999999884

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=93.32  E-value=0.13  Score=41.91  Aligned_cols=48  Identities=8%  Similarity=-0.071  Sum_probs=23.7

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          534 SNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       534 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      +|+++|..+|+.++++...-+..|...+.--.++|+.+.|.+++.+..
T Consensus        74 ~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~Ai  121 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAV  121 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHh
Confidence            455555555555554433333344444444445555555555555553

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=93.32  E-value=2.5  Score=33.71  Aligned_cols=140  Identities=9%  Similarity=-0.051  Sum_probs=80.0

Q ss_pred             HHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHH
Q 040576          327 VRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLAR  406 (641)
Q Consensus       327 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  406 (641)
                      .-.|..++..++..+....   .+..-|+.++--....-+-+-..++++.+-+   -.|.          ..+|++....
T Consensus        18 ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGk---iFDi----------s~C~NlKrVi   81 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGS---YFDL----------DKCQNLKSVV   81 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGG---GSCG----------GGCSCTHHHH
T ss_pred             HHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhh---hcCc----------HhhhcHHHHH
Confidence            3345566666666555542   2334444444433333333333333333222   1121          2344555555


Q ss_pred             HHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCC
Q 040576          407 NVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIE  485 (641)
Q Consensus       407 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  485 (641)
                      ..+-.+.. +......-+..+..+|+-|+-.+++..+... .+|++.....+..+|.+.|+..+|.+++.++-+ .|++
T Consensus        82 ~C~~~~n~-~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~-kG~k  157 (172)
T 1wy6_A           82 ECGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACK-KGEK  157 (172)
T ss_dssp             HHHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-TTCH
T ss_pred             HHHHHhcc-hHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHH-hhhH
Confidence            54444432 3344556677777888888888888875442 467777777888888888888888888888877 5653

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=92.08  E-value=1.4  Score=36.07  Aligned_cols=56  Identities=9%  Similarity=-0.076  Sum_probs=34.5

Q ss_pred             CCHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchH
Q 040576          502 GLMRDSEELVSKLP--MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPY  557 (641)
Q Consensus       502 g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  557 (641)
                      ++.++|.++|+.+.  .+.=...|.....--.++|+...|..++.+++.+.|.+...+
T Consensus        74 ~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~l  131 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEML  131 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHH
T ss_pred             cCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHH
Confidence            45555555555441  011155566666666778888888888888888877754333

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=90.98  E-value=1.3  Score=36.86  Aligned_cols=30  Identities=10%  Similarity=0.112  Sum_probs=21.5

Q ss_pred             chHHHHHHHHHHhhcCCHHHHHHHHHhCCC
Q 040576          487 KVEHYGCMVDLLGRAGLMRDSEELVSKLPM  516 (641)
Q Consensus       487 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  516 (641)
                      +.+.--.+..+|.+.|++++|+.+++.+|.
T Consensus       121 e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~  150 (167)
T 3ffl_A          121 EIEVKYKLAECYTVLKQDKDAIAILDGIPS  150 (167)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHTSCG
T ss_pred             hHHHHHHHHHHHHHHCCHHHHHHHHhcCCc
Confidence            344444577778888888888888888753

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=90.81  E-value=7.9  Score=33.88  Aligned_cols=110  Identities=14%  Similarity=0.102  Sum_probs=42.7

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCeeHHHHHHHHHHhCCChHHHHHHHhhCCCCCchhHHHHHHHHhcCCCh
Q 040576          191 DLFVRNSLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDM  270 (641)
Q Consensus       191 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~ll~~~~~~g~~  270 (641)
                      +..+-...+..+.+.|+.+....+.+.+..+|...-...+.++.+.+..+..-.+.+.+..+|...-...+.++.+.|+.
T Consensus        32 ~~~vR~~A~~~L~~~~~~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~~~  111 (211)
T 3ltm_A           32 SYYVRRAAAYALGKIGDERAVEPLIKALKDEDAWVRRAAADALGQIGDERAVEPLIKALKDEDGWVRQSAAVALGQIGDE  111 (211)
T ss_dssp             SHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSCHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCG
T ss_pred             CHHHHHHHHHHHHHhCCccHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCcH
Confidence            33333344444444443222222223333334444444444444444433222233333334444444444444444443


Q ss_pred             HHHHHHHhhcCCCCchHHHHHHHHHHhcCC
Q 040576          271 EAANGLFDLMPFRDVVSWNCMIDGYAKIGN  300 (641)
Q Consensus       271 ~~a~~~~~~~~~~~~~~~~~li~~~~~~~~  300 (641)
                      +....+.+.+..++..+....+.++.+.|.
T Consensus       112 ~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~  141 (211)
T 3ltm_A          112 RAVEPLIKALKDEDWFVRIAAAFALGEIGD  141 (211)
T ss_dssp             GGHHHHHHHTTCSSHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Confidence            333333333333444444444444444443

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=90.45  E-value=14  Score=36.12  Aligned_cols=162  Identities=7%  Similarity=-0.069  Sum_probs=82.0

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHc-CCCC---chhHHHHHHHHHHhc-CCHHHHHHHHhhcCC---CChhHH---
Q 040576          352 ASLMSVLTACANMGVIDIGQWIHSYIQKC-RIKP---DVLLSTSLLTMYAKC-GVMDLARNVFDNMTE---KNVVSW---  420 (641)
Q Consensus       352 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~~~---~~~~~~~li~~~~~~-g~~~~A~~~~~~~~~---~~~~~~---  420 (641)
                      .....+...|.+.|+.++...++...... +.-+   .......+++.+... +..+.-.++..+..+   .+-.+|   
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~   99 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQ   99 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44556667777777777777766655431 1111   233455566666553 223333333333221   111222   


Q ss_pred             ---HHHHHHHHHcCChHHHHHHHHHHHHC--CCCCC---HHHHHHHHHHHHhhccHHHHHHHHHHhHHhh-CCCCchHHH
Q 040576          421 ---NSMIMGYGMHGQGEKALEMFMEMEKR--GPTPN---DATFICVLSACTHAGMVLEGWWYFDLMQRIY-KIEPKVEHY  491 (641)
Q Consensus       421 ---~~li~~~~~~~~~~~A~~~~~~m~~~--g~~p~---~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~p~~~~~  491 (641)
                         ..++..|...|++.+|..++.++.+.  .....   ...|..-+..|...+++.++...+....... .+.+++...
T Consensus       100 ~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~  179 (394)
T 3txn_A          100 SLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQ  179 (394)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHH
Confidence               24566777777777777777776653  11111   1133444555666777777777776665422 121222211


Q ss_pred             ----HHHHHHHh-hcCCHHHHHHHHHh
Q 040576          492 ----GCMVDLLG-RAGLMRDSEELVSK  513 (641)
Q Consensus       492 ----~~li~~~~-~~g~~~~A~~~~~~  513 (641)
                          .+-+..+. ..+++.+|...|-+
T Consensus       180 a~i~~~~Gi~~l~~~rdyk~A~~~F~e  206 (394)
T 3txn_A          180 GALDLQSGILHAADERDFKTAFSYFYE  206 (394)
T ss_dssp             HHHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHhccCHHHHHHHHHH
Confidence                12223344 56777777666654

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=89.72  E-value=13  Score=34.83  Aligned_cols=168  Identities=8%  Similarity=-0.037  Sum_probs=97.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHH----HHHHHHCCCCCCHHHHHHHHHHHHh
Q 040576          389 STSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEM----FMEMEKRGPTPNDATFICVLSACTH  464 (641)
Q Consensus       389 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~----~~~m~~~g~~p~~~~~~~ll~~~~~  464 (641)
                      |.++..=|.+.+++++|.+++..           -...+.+.|+...|.++    .+-..+.+++++......++..+..
T Consensus        36 ~Rtl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~~  104 (312)
T 2wpv_A           36 LRTIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIAE  104 (312)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            34445557777888888877644           23445667776666654    4445556888888877777776654


Q ss_pred             hccHH-HHHHHHHHhHHh---hC--CCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc---CC
Q 040576          465 AGMVL-EGWWYFDLMQRI---YK--IEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTH---SN  535 (641)
Q Consensus       465 ~g~~~-~a~~~~~~~~~~---~~--~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~---g~  535 (641)
                      -..-+ .-.++.+.+.+-   .|  -.-++.....+...|.+.|++.+|...|---. ..++..+..++.-+...   |.
T Consensus       105 ~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~-~~s~~~~a~~l~~w~~~~~~~~  183 (312)
T 2wpv_A          105 LDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGT-HDSMIKYVDLLWDWLCQVDDIE  183 (312)
T ss_dssp             CCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSC-HHHHHHHHHHHHHHHHHTTCCC
T ss_pred             CCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CccHHHHHHHHHHHHHhcCCCC
Confidence            22111 112333333320   12  12356777888899999999999998776321 12355565555554443   44


Q ss_pred             HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          536 SELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       536 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      ..++-...              ...+--|.-.|+...|..+++....
T Consensus       184 ~~e~dlf~--------------~RaVL~yL~l~n~~~A~~~~~~f~~  216 (312)
T 2wpv_A          184 DSTVAEFF--------------SRLVFNYLFISNISFAHESKDIFLE  216 (312)
T ss_dssp             HHHHHHHH--------------HHHHHHHHHTTBHHHHHHHHHHHHH
T ss_pred             cchHHHHH--------------HHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            33322211              1122235667889999888887653

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=89.67  E-value=5.4  Score=36.25  Aligned_cols=122  Identities=15%  Similarity=0.083  Sum_probs=76.6

Q ss_pred             HHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCch----HHHHHHHHHHhhc
Q 040576          426 GYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKV----EHYGCMVDLLGRA  501 (641)
Q Consensus       426 ~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~----~~~~~li~~~~~~  501 (641)
                      ...+.|+.++|+.....-++..+. |...=..++..+|-.|+++.|.+-++...+   +.|+.    ..|..+|.+    
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~P~-da~~R~~LfqLLcv~G~w~RA~~QL~~~a~---l~p~~~~~a~~yr~lI~a----   77 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIK---LFPEYLPGASQLRHLVKA----   77 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCGGGHHHHHHHHHHHHH----
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---hCchhhHHHHHHHHHHHH----
Confidence            455678888888888877776422 555666778888888999999888888876   44553    234444432    


Q ss_pred             CCHHHHH-HHHHhC--C--CCCCHHHHHHHHHH--HHhcCCHHHHHHHHHHHHhcCCCCCchHH
Q 040576          502 GLMRDSE-ELVSKL--P--MEAGPALWGALLSA--CSTHSNSELGKIVAQHLMELEPRDPGPYV  558 (641)
Q Consensus       502 g~~~~A~-~~~~~~--~--~~~~~~~~~~l~~~--~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  558 (641)
                         +... ++|..-  |  ......-...++.+  ....|+.++|..+-..+.+.-|..+....
T Consensus        78 ---E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~ap~~~G~~~  138 (273)
T 1zbp_A           78 ---AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLAN  138 (273)
T ss_dssp             ---HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEET
T ss_pred             ---HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCcccCCCcC
Confidence               1111 233321  1  12223333455555  34568888888888888888877665443

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=88.84  E-value=31  Score=37.85  Aligned_cols=22  Identities=32%  Similarity=0.249  Sum_probs=11.8

Q ss_pred             HHHHHHHHHcCCCchhHHHHHH
Q 040576          124 CNTIMKSFLMLNDPFGALSFYY  145 (641)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~~~~  145 (641)
                      |..+++.+.+.++.+.+.++|.
T Consensus       233 y~~a~~~ai~LnD~~li~~if~  254 (963)
T 4ady_A          233 YLTLNKVVVNLNDAGLALQLFK  254 (963)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHH
Confidence            4444555555555555555555

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=88.72  E-value=1.9  Score=35.94  Aligned_cols=122  Identities=12%  Similarity=0.044  Sum_probs=69.0

Q ss_pred             CCCCCCHH--HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-------hHHHHHHHHHHhhcCCHHHHHHHHHhC--
Q 040576          446 RGPTPNDA--TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-------VEHYGCMVDLLGRAGLMRDSEELVSKL--  514 (641)
Q Consensus       446 ~g~~p~~~--~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-------~~~~~~li~~~~~~g~~~~A~~~~~~~--  514 (641)
                      .|+.|...  ++..-+..+...|.++.|+-+.+.+....+..|+       ..++..+.+++...|++.+|...|++.  
T Consensus        12 ~~~~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq   91 (167)
T 3ffl_A           12 SGLVPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQ   91 (167)
T ss_dssp             ---------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCCCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            35555443  3445567778889999998888876653333333       235566788888899998888888874  


Q ss_pred             -----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          515 -----PMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       515 -----~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                           +..++.  ..++. .  ......        -... +.+.+.-+.++.+|.+.|++++|+.+++.+.
T Consensus        92 ~~k~l~k~~s~--~~~~~-~--~ss~p~--------s~~~-~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip  149 (167)
T 3ffl_A           92 QKKALSKTSKV--RPSTG-N--SASTPQ--------SQCL-PSEIEVKYKLAECYTVLKQDKDAIAILDGIP  149 (167)
T ss_dssp             HHHCC---------------------------------CC-CCHHHHHHHHHHHHHHTTCHHHHHHHHHTSC
T ss_pred             HHHHHhcCCCc--ccccc-c--cCCCcc--------cccc-cchHHHHHHHHHHHHHHCCHHHHHHHHhcCC
Confidence                 111111  11110 0  000000        0011 2234567789999999999999999999874

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=87.94  E-value=23  Score=35.35  Aligned_cols=184  Identities=10%  Similarity=0.064  Sum_probs=108.3

Q ss_pred             CChHHHHHHHHHHHH-----CCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHH----HHHHhcC
Q 040576          330 KDYCECLRLFDRMIR-----GDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLL----TMYAKCG  400 (641)
Q Consensus       330 g~~~~A~~~~~~m~~-----~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li----~~~~~~g  400 (641)
                      |++++|++.+..+.+     ............++..|...|+++...+.+..+.+..-.. ......++    .......
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql-k~ai~~~V~~~~~~l~~~~  108 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL-KLSIQYMIQKVMEYLKSSK  108 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS-HHHHHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh-HHHHHHHHHHHHHHHhcCC
Confidence            455556555544432     1233345556666666777777776666555554332111 11112222    2222222


Q ss_pred             C--HHHHHHHHhhcCC---C-------ChhHHHHHHHHHHHcCChHHHHHHHHHHHHC--CCCCC---HHHHHHHHHHHH
Q 040576          401 V--MDLARNVFDNMTE---K-------NVVSWNSMIMGYGMHGQGEKALEMFMEMEKR--GPTPN---DATFICVLSACT  463 (641)
Q Consensus       401 ~--~~~A~~~~~~~~~---~-------~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~--g~~p~---~~~~~~ll~~~~  463 (641)
                      .  .+.-..+.+....   .       .......|...|...|++.+|..++..+...  |....   ...+...+..|.
T Consensus       109 ~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l  188 (445)
T 4b4t_P          109 SLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSI  188 (445)
T ss_dssp             TTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence            2  2222333333331   1       1123456788899999999999999998653  32222   235666778899


Q ss_pred             hhccHHHHHHHHHHhHHh-hCCC--Cc--hHHHHHHHHHHhhcCCHHHHHHHHHhC
Q 040576          464 HAGMVLEGWWYFDLMQRI-YKIE--PK--VEHYGCMVDLLGRAGLMRDSEELVSKL  514 (641)
Q Consensus       464 ~~g~~~~a~~~~~~~~~~-~~~~--p~--~~~~~~li~~~~~~g~~~~A~~~~~~~  514 (641)
                      ..+++..|..++.++... ....  |+  ...|...+..+...+++.+|...|.++
T Consensus       189 ~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~  244 (445)
T 4b4t_P          189 LKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEI  244 (445)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            999999999999987531 1222  22  356778888899999999998887765

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=87.87  E-value=20  Score=34.99  Aligned_cols=126  Identities=9%  Similarity=-0.028  Sum_probs=63.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcCC--------CChhHHHHHHHHHHHcCC-hHHHHHHHHHHHHCCCCCCHHHH---
Q 040576          388 LSTSLLTMYAKCGVMDLARNVFDNMTE--------KNVVSWNSMIMGYGMHGQ-GEKALEMFMEMEKRGPTPNDATF---  455 (641)
Q Consensus       388 ~~~~li~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~li~~~~~~~~-~~~A~~~~~~m~~~g~~p~~~~~---  455 (641)
                      ....|...|.+.|+.++..+++.....        +.......++..+....+ .+.-.++..+..+..-. +..+|   
T Consensus        21 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~-~~r~flr~   99 (394)
T 3txn_A           21 GILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQ-EKRTFLRQ   99 (394)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHH-TTCHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHH-HHHHHHHH
Confidence            455677788888888888888777653        122344555655554322 23333333333221000 11122   


Q ss_pred             ---HHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc----hHHHHHHHHHHhhcCCHHHHHHHHHhC
Q 040576          456 ---ICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK----VEHYGCMVDLLGRAGLMRDSEELVSKL  514 (641)
Q Consensus       456 ---~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~  514 (641)
                         ..++..|...|++.+|.+++..+.+...-..+    .++|..-+..|...|++.++...+.+.
T Consensus       100 ~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a  165 (394)
T 3txn_A          100 SLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSA  165 (394)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence               13555566666666666666666553221111    233444455555666666555555443

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=87.81  E-value=1.2  Score=43.82  Aligned_cols=67  Identities=12%  Similarity=-0.004  Sum_probs=53.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh-----CCCcccC
Q 040576          523 WGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKE-----KELEKAV  589 (641)
Q Consensus       523 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-----~~~~~~~  589 (641)
                      ...++..+...|+++++...++.+...+|-+...|..++.+|.+.|+..+|++.|++..+     -|+.|.+
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~  245 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGP  245 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCH
Confidence            344666777888999999888988999998888899999999999999999988888644     3555544

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=87.64  E-value=24  Score=35.32  Aligned_cols=184  Identities=9%  Similarity=-0.056  Sum_probs=112.5

Q ss_pred             CCHHHHHHHHHHHHHc-----CCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCC---hhHHHHHHHHH----HHcCC
Q 040576          365 GVIDIGQWIHSYIQKC-----RIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKN---VVSWNSMIMGY----GMHGQ  432 (641)
Q Consensus       365 g~~~~a~~~~~~~~~~-----~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~----~~~~~  432 (641)
                      |+++.|.+.+-.+.+.     +...+......++..|...|+++...+.+..+.+..   ..+...++..+    .....
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~~  109 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSKS  109 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHCT
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCCc
Confidence            5677777666555542     344567778889999999999999877776655321   12233344332    23333


Q ss_pred             hHHHH--HHHHHHHH--CC-CCCC---HHHHHHHHHHHHhhccHHHHHHHHHHhHHhh-CCCCc---hHHHHHHHHHHhh
Q 040576          433 GEKAL--EMFMEMEK--RG-PTPN---DATFICVLSACTHAGMVLEGWWYFDLMQRIY-KIEPK---VEHYGCMVDLLGR  500 (641)
Q Consensus       433 ~~~A~--~~~~~m~~--~g-~~p~---~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~p~---~~~~~~li~~~~~  500 (641)
                      .+...  .+.+....  .| +-..   ......|...+...|++.+|..++..+..+. +....   ...+..-++.|..
T Consensus       110 ~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~  189 (445)
T 4b4t_P          110 LDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSIL  189 (445)
T ss_dssp             THHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH
Confidence            33221  12211111  11 1111   1223457778889999999999999986533 33222   4567778889999


Q ss_pred             cCCHHHHHHHHHhCC-----CCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 040576          501 AGLMRDSEELVSKLP-----MEAGP----ALWGALLSACSTHSNSELGKIVAQHLME  548 (641)
Q Consensus       501 ~g~~~~A~~~~~~~~-----~~~~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~  548 (641)
                      .+++.+|..+++++.     ..+.+    ..+...+..+...+++.+|-..|..+.+
T Consensus       190 ~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          190 KGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            999999999888761     22222    2344555557777888888777776654

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=87.64  E-value=13  Score=32.10  Aligned_cols=80  Identities=15%  Similarity=0.104  Sum_probs=31.0

Q ss_pred             CCeeHHHHHHHHHHhCCChHHHHHHHhhCCCCCchhHHHHHHHHhcCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCC
Q 040576          221 WDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGN  300 (641)
Q Consensus       221 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~  300 (641)
                      +|...-...+.++.+.|..+..-.+.+.+..++...-...+.++.+.|+.+....+...+..++..+-...+.++.+.+.
T Consensus        57 ~~~~vr~~a~~~L~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~  136 (201)
T 3ltj_A           57 EDAWVRRAAADALGQIGDERAVEPLIKALKDEDGWVRQSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIGD  136 (201)
T ss_dssp             SSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHhhCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCC
Confidence            33333333444444444433333333333334444444444444444443322333333333333333344444444333

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=86.87  E-value=4.6  Score=30.27  Aligned_cols=63  Identities=10%  Similarity=0.076  Sum_probs=49.4

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHH
Q 040576          432 QGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVD  496 (641)
Q Consensus       432 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  496 (641)
                      +.-+..+-++.+....+.|++......+.+|.+.+++..|.++|+.++.+.+-.  ..+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~--~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPH--KEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTC--TTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCc--hhhHHHHHH
Confidence            344566667777777889999999999999999999999999999998754433  456766654

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=86.60  E-value=6.2  Score=42.25  Aligned_cols=52  Identities=6%  Similarity=-0.069  Sum_probs=42.6

Q ss_pred             HHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhCC
Q 040576          461 ACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKLP  515 (641)
Q Consensus       461 ~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~  515 (641)
                      -|...|+++-|+++-++...   ..|+ ..+|..|..+|...|+++.|+-.++.+|
T Consensus       346 FLl~K~~~elAL~~Ak~AV~---~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          346 FLLNRGDYELALGVSNTSTE---LALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH---HCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHhccCcHHHHHHHHHHHHh---cCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            35667889999988888877   4454 7888899999999999999998888886

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=86.59  E-value=8.2  Score=28.72  Aligned_cols=86  Identities=13%  Similarity=0.086  Sum_probs=62.4

Q ss_pred             CHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 040576          366 VIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEK  445 (641)
Q Consensus       366 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~  445 (641)
                      ..++|..|-+.+...+.  ...+--+-+..+.+.|++++|..+.+...-||...|-+|-.  .+.|-.+++...+.++..
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~   96 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLGG   96 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHh
Confidence            56777777777777653  33333334456778899999999999999999999987755  467888888888888887


Q ss_pred             CCCCCCHHHHH
Q 040576          446 RGPTPNDATFI  456 (641)
Q Consensus       446 ~g~~p~~~~~~  456 (641)
                      .| .|....|.
T Consensus        97 sg-~p~~q~Fa  106 (115)
T 2uwj_G           97 SS-DPALADFA  106 (115)
T ss_dssp             CS-SHHHHHHH
T ss_pred             CC-CHHHHHHH
Confidence            76 55555554

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=86.21  E-value=8.7  Score=28.64  Aligned_cols=86  Identities=12%  Similarity=0.120  Sum_probs=62.1

Q ss_pred             CHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 040576          366 VIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEK  445 (641)
Q Consensus       366 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~  445 (641)
                      ..++|..|-+.+...+.  ...+--+-+..+.+.|++++|..+.+...-||...|-+|-.  .+.|-.+++...+.++..
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~   97 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRLAR   97 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHh
Confidence            56777777777777653  33333334456778899999999999999999999987755  467888888888878877


Q ss_pred             CCCCCCHHHHH
Q 040576          446 RGPTPNDATFI  456 (641)
Q Consensus       446 ~g~~p~~~~~~  456 (641)
                      .| .|....|.
T Consensus        98 sg-~p~~q~Fa  107 (116)
T 2p58_C           98 SQ-DPRIQTFV  107 (116)
T ss_dssp             CC-CHHHHHHH
T ss_pred             CC-CHHHHHHH
Confidence            76 55555554

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=86.21  E-value=1.8  Score=39.34  Aligned_cols=50  Identities=6%  Similarity=0.120  Sum_probs=26.0

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          531 STHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       531 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                      .+.|+.++|+......++.+|.|...-..|...|+-.|+|+.|.+-++..
T Consensus         8 l~~g~L~~al~~~~~~VR~~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~   57 (273)
T 1zbp_A            8 LSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQS   57 (273)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HhCCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            34455555555555555555555555555555555555555555555544

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=85.48  E-value=18  Score=31.52  Aligned_cols=147  Identities=10%  Similarity=0.012  Sum_probs=84.2

Q ss_pred             hcCCCCCeeHHHHHHHHHHhCCChHHHHHHHhhCCCCCchhHHHHHHHHhcCCChHHHHHHHhhcCCCCchHHHHHHHHH
Q 040576          216 EDGPVWDLVTWNSMIDGYVKNREVGFARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGY  295 (641)
Q Consensus       216 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~  295 (641)
                      +.+..+|...-...+..+.+.|..+..-.+.+.+..+|...-...+.++...++.+....+.+.+..++..+....+.++
T Consensus        26 ~~L~~~~~~vR~~A~~~L~~~~~~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~~~~~~vr~~a~~aL  105 (211)
T 3ltm_A           26 KNLQDDSYYVRRAAAYALGKIGDERAVEPLIKALKDEDAWVRRAAADALGQIGDERAVEPLIKALKDEDGWVRQSAAVAL  105 (211)
T ss_dssp             HHTTCSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSCHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHH
T ss_pred             HHHcCCCHHHHHHHHHHHHHhCCccHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            33445555555566666666666544444555555566666566666666666655555555555566666666777777


Q ss_pred             HhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC
Q 040576          296 AKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGV  366 (641)
Q Consensus       296 ~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~  366 (641)
                      .+.+..+....+.+.+..++...-...+.++...|+.+ +...+.++.+   .++...-...+.++.+.+.
T Consensus       106 ~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~~~-~~~~L~~~l~---d~~~~vr~~a~~aL~~~~~  172 (211)
T 3ltm_A          106 GQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIGDER-AVEPLIKALK---DEDGWVRQSAADALGEIGG  172 (211)
T ss_dssp             HHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGG-GHHHHHHHTT---CSSHHHHHHHHHHHHHHCS
T ss_pred             HHhCcHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHH-HHHHHHHHHc---CCCHHHHHHHHHHHHHhCc
Confidence            77776554444444445555555555566666666543 3444444443   3455555555666666655

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=85.24  E-value=25  Score=33.00  Aligned_cols=180  Identities=11%  Similarity=0.091  Sum_probs=106.0

Q ss_pred             HHhcCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHH----
Q 040576          263 GYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRL----  338 (641)
Q Consensus       263 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----  338 (641)
                      .....|++=+|.+           .|.++..-|.+.+++++|++++..           -...+.+.|++..|-++    
T Consensus        22 ~~I~~G~yYEAhQ-----------~~Rtl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~ll   79 (312)
T 2wpv_A           22 NKIKAGDYYEAHQ-----------TLRTIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYL   79 (312)
T ss_dssp             HHHHHTCHHHHHH-----------HHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHhhccChHHHHH-----------HHHHHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHH
Confidence            3344555555544           345677778888888888887664           23345667777666554    


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHccCC-----HHHHHHHHHHHHHcCC--CCchhHHHHHHHHHHhcCCHHHHHHHHhh
Q 040576          339 FDRMIRGDAKPNEASLMSVLTACANMGV-----IDIGQWIHSYIQKCRI--KPDVLLSTSLLTMYAKCGVMDLARNVFDN  411 (641)
Q Consensus       339 ~~~m~~~g~~p~~~~~~~ll~~~~~~g~-----~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~  411 (641)
                      ++-..+.+++++......++..+.....     .+-.......-.+.|-  .-++.....+...|.+.|++.+|+..|-.
T Consensus        80 vev~~~~~~~~~~~~~~rl~~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~  159 (312)
T 2wpv_A           80 LEVYDLAEVKVDDISVARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFML  159 (312)
T ss_dssp             HHHHHHTTCCCSHHHHHHHHHHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHT
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHh
Confidence            4555567888888888888877665332     1222233333333332  23677888888999999999999888763


Q ss_pred             cCCCChhHHHHHHHHHHHc---CChHHHHHHHHHHHHCCCCCCHHHH-HHHHHHHHhhccHHHHHHHHHHhHH
Q 040576          412 MTEKNVVSWNSMIMGYGMH---GQGEKALEMFMEMEKRGPTPNDATF-ICVLSACTHAGMVLEGWWYFDLMQR  480 (641)
Q Consensus       412 ~~~~~~~~~~~li~~~~~~---~~~~~A~~~~~~m~~~g~~p~~~~~-~~ll~~~~~~g~~~~a~~~~~~~~~  480 (641)
                      -...+...+..++--+...   |...++                ..| ...+--|.-.|+...|..+|+...+
T Consensus       160 ~~~~s~~~~a~~l~~w~~~~~~~~~~e~----------------dlf~~RaVL~yL~l~n~~~A~~~~~~f~~  216 (312)
T 2wpv_A          160 GTHDSMIKYVDLLWDWLCQVDDIEDSTV----------------AEFFSRLVFNYLFISNISFAHESKDIFLE  216 (312)
T ss_dssp             SCHHHHHHHHHHHHHHHHHTTCCCHHHH----------------HHHHHHHHHHHHHTTBHHHHHHHHHHHHH
T ss_pred             CCCccHHHHHHHHHHHHHhcCCCCcchH----------------HHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            3222344443333322222   222221                111 1122234456888888888887765

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=84.85  E-value=27  Score=33.06  Aligned_cols=167  Identities=13%  Similarity=0.054  Sum_probs=97.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHH----HHHHHCCCCCCHHHHHHHHHHHH
Q 040576          287 SWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLF----DRMIRGDAKPNEASLMSVLTACA  362 (641)
Q Consensus       287 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~----~~m~~~g~~p~~~~~~~ll~~~~  362 (641)
                      .|.++..-|.+.+++++|++++..           -...+.+.|+...|-++.    +-..+.++++|......++..+.
T Consensus        37 ~~RTi~~Ry~~~k~y~eAidLL~~-----------GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~  105 (336)
T 3lpz_A           37 ETRLVAARYSKQGNWAAAVDILAS-----------VSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLR  105 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            345666778888888888887654           233455667766655554    44455688888888877777776


Q ss_pred             ccCCHH-HHHHHHHHH----HHcCC--CCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHH
Q 040576          363 NMGVID-IGQWIHSYI----QKCRI--KPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEK  435 (641)
Q Consensus       363 ~~g~~~-~a~~~~~~~----~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  435 (641)
                      ....-+ .-..+.+.+    .+.|-  .-|......+...|.+.+++.+|+..|-.-.++.+..|..|+--+...+..  
T Consensus       106 ~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~~~~--  183 (336)
T 3lpz_A          106 LFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQDES--  183 (336)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHTSCG--
T ss_pred             hCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHhcCC--
Confidence            655321 112233333    33332  236777788889999999999999888432222234454433332222211  


Q ss_pred             HHHHHHHHHHCCCCCCHHHH-HHHHHHHHhhccHHHHHHHHHHhHH
Q 040576          436 ALEMFMEMEKRGPTPNDATF-ICVLSACTHAGMVLEGWWYFDLMQR  480 (641)
Q Consensus       436 A~~~~~~m~~~g~~p~~~~~-~~ll~~~~~~g~~~~a~~~~~~~~~  480 (641)
                                    -+...| ...+--|.-.++...|...++...+
T Consensus       184 --------------~e~dlfiaRaVL~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          184 --------------HTAPLYCARAVLPYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             --------------GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             --------------ccHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence                          111222 1223334556888888887766654

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=83.72  E-value=30  Score=32.73  Aligned_cols=165  Identities=13%  Similarity=0.065  Sum_probs=95.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHH----HHHHHCCCCCCHHHHHHHHHHHHhhc
Q 040576          391 SLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMF----MEMEKRGPTPNDATFICVLSACTHAG  466 (641)
Q Consensus       391 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~----~~m~~~g~~p~~~~~~~ll~~~~~~g  466 (641)
                      ++..=|.+.+++++|.+++..           -...+.+.|+...|.++-    +-..+.++++|......++..+....
T Consensus        40 Ti~~Ry~~~k~y~eAidLL~~-----------GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~~  108 (336)
T 3lpz_A           40 LVAARYSKQGNWAAAVDILAS-----------VSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLFQ  108 (336)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHhhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCC
Confidence            344456777888888777543           234455667766655544    44455677888877777777665443


Q ss_pred             cHH-HHHHHHHHhHH---hhC--CCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 040576          467 MVL-EGWWYFDLMQR---IYK--IEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGK  540 (641)
Q Consensus       467 ~~~-~a~~~~~~~~~---~~~--~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  540 (641)
                      .-+ .=..+.+++.+   +.|  -.-++.....+...|.+.|++.+|...|= ....+.+..+..++.-+...+.     
T Consensus       109 ~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~i-lg~~~s~~~~a~mL~ew~~~~~-----  182 (336)
T 3lpz_A          109 PGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLV-LGTKESPEVLARMEYEWYKQDE-----  182 (336)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHT-TSCTTHHHHHHHHHHHHHHTSC-----
T ss_pred             CCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH-hcCCchHHHHHHHHHHHHHhcC-----
Confidence            211 11222333222   123  22346666778899999999999998884 3333444666666655444432     


Q ss_pred             HHHHHHHhcCCCCCchHHHH-HHHHHhcCChHHHHHHHHHhhh
Q 040576          541 IVAQHLMELEPRDPGPYVLL-SNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       541 ~~~~~~~~~~p~~~~~~~~l-~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                                |.....|..- +--|.-.++...|..+++...+
T Consensus       183 ----------~~e~dlfiaRaVL~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          183 ----------SHTAPLYCARAVLPYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             ----------GGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ----------CccHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence                      2222233322 3336778888888887766554

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=83.56  E-value=57  Score=35.83  Aligned_cols=255  Identities=9%  Similarity=0.071  Sum_probs=133.9

Q ss_pred             HHhcCCChHHHHHHHhhcCC---C-C--chHHHHHHHHHHhcCChHHHHHHHHhcCC-CC----------cchHHHHHHH
Q 040576          263 GYVDVGDMEAANGLFDLMPF---R-D--VVSWNCMIDGYAKIGNVTSARNCFDRMCM-RN----------VVSWNILLAL  325 (641)
Q Consensus       263 ~~~~~g~~~~a~~~~~~~~~---~-~--~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~----------~~~~~~li~~  325 (641)
                      +....|+.++++.++.....   . +  +..-..+.-+...+|..+++..++..... .+          +..-.++.-+
T Consensus       383 GlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLG  462 (963)
T 4ady_A          383 GVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIG  462 (963)
T ss_dssp             HHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHH
T ss_pred             hhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHH
Confidence            45677888888888877664   1 2  22333444455666666667766655422 22          1112233333


Q ss_pred             HHHcCC-hHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHH--HHHhcC
Q 040576          326 YVRCKD-YCECLRLFDRMIRGDAKPNEA--SLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLT--MYAKCG  400 (641)
Q Consensus       326 ~~~~g~-~~~A~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~--~~~~~g  400 (641)
                      ++-.|. -+++.+.+..+....- +...  .-..+...+...|+-+....++..+.+..   +..+...++.  ++...|
T Consensus       463 la~~GS~~eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g  538 (963)
T 4ady_A          463 LAAMGSANIEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYG  538 (963)
T ss_dssp             HHSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTT
T ss_pred             HHhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCC
Confidence            333343 2456666666665321 1111  11123333556678787788877776532   2233333333  334567


Q ss_pred             CHHHHHHHHhhcCC-CChh-HHH---HHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHH
Q 040576          401 VMDLARNVFDNMTE-KNVV-SWN---SMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYF  475 (641)
Q Consensus       401 ~~~~A~~~~~~~~~-~~~~-~~~---~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~  475 (641)
                      +.+.+..+.+.+.. .+.. -|.   ++..+|+..|+......++..+.... ..+......+.-++...|+.+.+.+++
T Consensus       539 ~~e~~~~li~~L~~~~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv  617 (963)
T 4ady_A          539 RQELADDLITKMLASDESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIV  617 (963)
T ss_dssp             CGGGGHHHHHHHHHCSCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHT
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHH
Confidence            77777777666552 3332 232   34566778888766666888877641 212222222222444456666666666


Q ss_pred             HHhHHhhCCCCchHHHHHHHHHHhhcCCH-HHHHHHHHhCCCCCCHHHHH
Q 040576          476 DLMQRIYKIEPKVEHYGCMVDLLGRAGLM-RDSEELVSKLPMEAGPALWG  524 (641)
Q Consensus       476 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~  524 (641)
                      +.+.+  ...|.+..-..+.-+....|.. .+|++++..+...++..+-.
T Consensus       618 ~~L~~--~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D~d~~Vrq  665 (963)
T 4ady_A          618 QLLSK--SHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFVRQ  665 (963)
T ss_dssp             TTGGG--CSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTCSSHHHHH
T ss_pred             HHHHh--cCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccCCCHHHHH
Confidence            65554  2345554444444444444443 67777777775455655443

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=82.27  E-value=17  Score=29.37  Aligned_cols=70  Identities=11%  Similarity=0.034  Sum_probs=41.7

Q ss_pred             CchHHHHHHHHHHhhcCCH---HHHHHHHHhC-CCCC-C-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 040576          486 PKVEHYGCMVDLLGRAGLM---RDSEELVSKL-PMEA-G-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPG  555 (641)
Q Consensus       486 p~~~~~~~li~~~~~~g~~---~~A~~~~~~~-~~~~-~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  555 (641)
                      |+..+--.+..++.+..+.   .+++.++++. ...| + ....--|.-++.+.|++++|....+.+++.+|+|..
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~Q  112 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQ  112 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHH
Confidence            4444444444455544432   3445555444 1122 2 234445666788889999999999999999998853

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=82.12  E-value=31  Score=39.45  Aligned_cols=143  Identities=11%  Similarity=0.016  Sum_probs=89.7

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC--------------------
Q 040576          356 SVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEK--------------------  415 (641)
Q Consensus       356 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--------------------  415 (641)
                      .++..+...+..+.+.++....     +.+....-.+..+|..+|++++|.+.|.+....                    
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~  891 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEK  891 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHT
T ss_pred             HHHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhccccccccc
Confidence            3455566666666665544322     234444445677888899999999999876420                    


Q ss_pred             ------ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH--H--HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCC
Q 040576          416 ------NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPND--A--TFICVLSACTHAGMVLEGWWYFDLMQRIYKIE  485 (641)
Q Consensus       416 ------~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~--~--~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  485 (641)
                            -..-|..++..+.+.|.++.++++-....+....-+.  .  .|..+..++...|++++|...+-.+.. .  .
T Consensus       892 ~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd-~--~  968 (1139)
T 4fhn_B          892 YHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLST-T--P  968 (1139)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHH-S--S
T ss_pred             ccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCC-H--H
Confidence                  0123566777888888888888877766654211121  1  466778888888888888887766654 2  2


Q ss_pred             CchHHHHHHHHHHhhcCCHHH
Q 040576          486 PKVEHYGCMVDLLGRAGLMRD  506 (641)
Q Consensus       486 p~~~~~~~li~~~~~~g~~~~  506 (641)
                      --......|+..++..|..++
T Consensus       969 ~r~~cLr~LV~~lce~~~~~~  989 (1139)
T 4fhn_B          969 LKKSCLLDFVNQLTKQGKINQ  989 (1139)
T ss_dssp             SCHHHHHHHHHHHHHHCCHHH
T ss_pred             HHHHHHHHHHHHHHhCCChhh
Confidence            234556666666666665443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=82.09  E-value=7.3  Score=44.59  Aligned_cols=62  Identities=10%  Similarity=-0.082  Sum_probs=34.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc-----hHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 040576          523 WGALLSACSTHSNSELGKIVAQHLMELEPRDPG-----PYVLLSNIYASEGKWDEVENLRRIMKEKE  584 (641)
Q Consensus       523 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~-----~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  584 (641)
                      |.-++..+.+++.++.+.++.+.+++..+.+..     .|..+...+...|++++|...+-.+.+..
T Consensus       902 Y~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~  968 (1139)
T 4fhn_B          902 YLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTP  968 (1139)
T ss_dssp             HHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSS
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHH
Confidence            444555556666666666666666654432221     35555666666666666666665554433

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=81.45  E-value=55  Score=34.19  Aligned_cols=239  Identities=13%  Similarity=-0.024  Sum_probs=129.2

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHH----HHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHH
Q 040576          330 KDYCECLRLFDRMIRGDAKPNEASLMSVL----TACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLA  405 (641)
Q Consensus       330 g~~~~A~~~~~~m~~~g~~p~~~~~~~ll----~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  405 (641)
                      .+.+.|..++....+.+ ..+......+-    ......+...++...+.......  .+.....-.+....+.|+++.|
T Consensus       228 ~d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~e~~~r~Alr~~d~~~a  304 (618)
T 1qsa_A          228 QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGL  304 (618)
T ss_dssp             HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cCHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccccC--CChHHHHHHHHHHHHCCCHHHH
Confidence            47899999998887543 23433332222    22334442445555555544432  3333344455555677999999


Q ss_pred             HHHHhhcCCCC---hhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhh
Q 040576          406 RNVFDNMTEKN---VVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIY  482 (641)
Q Consensus       406 ~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  482 (641)
                      ...|+.|....   ....-=+..++...|+.++|..+|.++...    .  +|..++.+ .+.|..-..        ...
T Consensus       305 ~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~~----~--~fYg~lAa-~~Lg~~~~~--------~~~  369 (618)
T 1qsa_A          305 NTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQQ----R--GFYPMVAA-QRIGEEYEL--------KID  369 (618)
T ss_dssp             HHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS----C--SHHHHHHH-HHTTCCCCC--------CCC
T ss_pred             HHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhcC----C--ChHHHHHH-HHcCCCCCC--------CCC
Confidence            99999998632   222223455777889999999999998742    2  34333322 223321000        000


Q ss_pred             CCCCc-h---H--HHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC---CC
Q 040576          483 KIEPK-V---E--HYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEP---RD  553 (641)
Q Consensus       483 ~~~p~-~---~--~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p---~~  553 (641)
                      ...+. .   .  .-..-+..+...|...+|...+.......+......+.......|....++....+....+.   .-
T Consensus       370 ~~~~~~~~~~~~~~~~~r~~~L~~~g~~~~a~~ew~~~~~~~~~~~~~~la~~a~~~~~~~~~v~~~~~~~~~~~~~~~~  449 (618)
T 1qsa_A          370 KAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSKSKTEQAQLARYAFNNQWWDLSVQATIAGKLWDHLEERF  449 (618)
T ss_dssp             CCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHTTCTTCHHHHS
T ss_pred             CCChhHHhhhccChHHHHHHHHHHCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhcchhhhC
Confidence            01110 0   0  11123456778899999988777663234544444555556778888887766544322210   11


Q ss_pred             CchHHHHHHHHHhcCChHHHHHHHHHhhhCCCc
Q 040576          554 PGPYVLLSNIYASEGKWDEVENLRRIMKEKELE  586 (641)
Q Consensus       554 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  586 (641)
                      |..|..++.-+.+.-.++.++-.---..|.+..
T Consensus       450 P~~y~~~i~~~a~~~gv~~~ll~Ai~~~ES~f~  482 (618)
T 1qsa_A          450 PLAYNDLFKRYTSGKEIPQSYAMAIARQESAWN  482 (618)
T ss_dssp             CCTTHHHHHHHHTTSSSCHHHHHHHHHHHHTTC
T ss_pred             CcchHHHHHHHHHHcCCCHHHHHHHHHHhCCCC
Confidence            334666666666665566544432223444443

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=81.23  E-value=11  Score=37.00  Aligned_cols=69  Identities=6%  Similarity=0.014  Sum_probs=48.5

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHH----hhCCCCchHH
Q 040576          421 NSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQR----IYKIEPKVEH  490 (641)
Q Consensus       421 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~----~~~~~p~~~~  490 (641)
                      ..++..+...|++++|+..+..+.... +-+...+..++.++...|+..+|.+.|+.+.+    +.|+.|...+
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            445666777788888887777776653 23566777788888888888888887777544    3577777554

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=81.07  E-value=7  Score=31.04  Aligned_cols=62  Identities=11%  Similarity=0.129  Sum_probs=48.9

Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHH
Q 040576          433 GEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVD  496 (641)
Q Consensus       433 ~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  496 (641)
                      .-+..+-++.+....+.|++......+.+|.+.+++..|.++|+-++.+.|  +....|..+++
T Consensus        69 ~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~--~~~~iY~y~lq  130 (152)
T 2y69_E           69 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcC--CchhhHHHHHH
Confidence            345566666777778999999999999999999999999999999987544  33556776664

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	641
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	6e-07

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

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]

 Score = 49.7 bits (117), Expect = 6e-07
 Identities = 32/345 (9%), Positives = 104/345 (30%), Gaps = 25/345 (7%)

Query: 253 DIFTWNSMISGYVDVGDMEAANGLFD----LMPFRDVVSWNCMIDGYAKIGNVTSARNCF 308
           +      + S +     ++ +           P     +++ + + Y + G +  A   +
Sbjct: 32  NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNP-LLAEAYSNLGNVYKERGQLQEAIEHY 90

Query: 309 DRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVID 368
                      +  + L        +        +       +   +          +  
Sbjct: 91  RHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGR 150

Query: 369 IGQWIHSYIQKCRIKPDVLLSTSLL-TMYAKCGVMDLARNVFDNMTE---KNVVSWNSMI 424
           + +    Y++    +P+  ++ S L  ++   G + LA + F+         + ++ ++ 
Sbjct: 151 LEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLG 210

Query: 425 MGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFD----LMQR 480
                    ++A+  ++      P               +   V       D      +R
Sbjct: 211 NVLKEARIFDRAVAAYLRALSLSPNHAVVHG--------NLACVYYEQGLIDLAIDTYRR 262

Query: 481 IYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELG 539
             +++P   + Y  + + L   G + ++E+  +                A        + 
Sbjct: 263 AIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIE 322

Query: 540 KIVA--QHLMELEPRDPGPYVLLSNIYASEGKWDE-VENLRRIMK 581
           + V   +  +E+ P     +  L+++   +GK  E + + +  ++
Sbjct: 323 EAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR 367

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	641
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.93
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.91
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.65
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.57
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.25
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.16
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.15
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.12
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.09
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.08
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.07
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.06
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.03
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.97
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.94
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.86
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.78
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.78
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.77
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.69
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.67
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.65
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.65
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.61
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.61
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.59
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.58
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.58
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.55
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.51
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.46
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.4
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.4
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.38
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.37
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.37
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.32
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	98.22
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.19
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.12
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.09
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.08
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.04
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.0
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.0
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.91
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.9
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.61
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.54
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.53
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.53
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.4
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.24
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.21
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	97.21
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.52
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.86
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.83
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.9
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	94.67
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	91.5
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	86.01
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	85.93

>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=99.93  E-value=8.6e-23  Score=205.07  Aligned_cols=367  Identities=10%  Similarity=0.051  Sum_probs=271.9

Q ss_pred             HHHHhCCChHHHHHHHhhC---CCCCchhHHHHHHHHhcCCChHHHHHHHhhcCC--CC-chHHHHHHHHHHhcCChHHH
Q 040576          231 DGYVKNREVGFARELFDFM---PERDIFTWNSMISGYVDVGDMEAANGLFDLMPF--RD-VVSWNCMIDGYAKIGNVTSA  304 (641)
Q Consensus       231 ~~~~~~g~~~~A~~~~~~m---~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~--~~-~~~~~~li~~~~~~~~~~~A  304 (641)
                      ..+.+.|++++|++.|+++   .+.+...+..+..++.+.|++++|...++++.+  |+ ..++..+...|.+.|++++|
T Consensus         7 ~~~~~~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~~A   86 (388)
T d1w3ba_           7 HREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEA   86 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhcccccc
Confidence            3444555555555555555   222344555555556666666666666665543  22 45666677777777777777


Q ss_pred             HHHHHhcCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcC
Q 040576          305 RNCFDRMCM---RNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCR  381 (641)
Q Consensus       305 ~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  381 (641)
                      +..+.....   .+...+..........+....+............ ................+....+...+.......
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (388)
T d1w3ba_          87 IEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNP-DLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ  165 (388)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCT-TCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccccccchhhhhHHHHHHhhccC
Confidence            777776632   2333444445555556666666665555554332 333344445555667777777777777766654


Q ss_pred             CCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 040576          382 IKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICV  458 (641)
Q Consensus       382 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~l  458 (641)
                       +.+...+..+...+...|++++|...+++..+   .+..+|..+...+...|++++|+..+++....+ ..+...+..+
T Consensus       166 -~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l  243 (388)
T d1w3ba_         166 -PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNL  243 (388)
T ss_dssp             -TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             -cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHH
Confidence             44566777788888889999999998887653   456688889999999999999999999988864 3356677888


Q ss_pred             HHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCC
Q 040576          459 LSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL--PMEAGPALWGALLSACSTHSN  535 (641)
Q Consensus       459 l~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~g~  535 (641)
                      ...+.+.|++++|...|+++.+   +.|+ ...+..+..++...|++++|++.++..  ..+.+...+..+...+...|+
T Consensus       244 ~~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  320 (388)
T d1w3ba_         244 ACVYYEQGLIDLAIDTYRRAIE---LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGN  320 (388)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH---TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCCC
Confidence            8899999999999999999887   4454 678888999999999999999999876  234567788888899999999


Q ss_pred             HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhh
Q 040576          536 SELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCI  615 (641)
Q Consensus       536 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~  615 (641)
                      +++|+..+++++++.|+++.++..++.+|.+.|++++|++.++++                        .+++|++.+  
T Consensus       321 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a------------------------l~l~P~~~~--  374 (388)
T d1w3ba_         321 IEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEA------------------------IRISPTFAD--  374 (388)
T ss_dssp             HHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHH------------------------HTTCTTCHH--
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH------------------------HHhCCCCHH--
Confidence            999999999999999999999999999999999999999999998                        788999999  


Q ss_pred             HHHHHHHHHHHHHh
Q 040576          616 VYSMLGEIGAQMKM  629 (641)
Q Consensus       616 ~~~~l~~l~~~~~~  629 (641)
                      ++..||.++.++++
T Consensus       375 a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         375 AYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHcCC
Confidence            99999999888763

>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=99.91  E-value=2.6e-21  Score=194.02  Aligned_cols=371  Identities=10%  Similarity=0.025  Sum_probs=263.9

Q ss_pred             HHHhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcC---CCCCeeHHHHHHHHHHhCCChHH
Q 040576          165 KVCAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDG---PVWDLVTWNSMIDGYVKNREVGF  241 (641)
Q Consensus       165 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~  241 (641)
                      ..+.+.|++++|.++++.+.+.. +-+..++..+..+|.+.|++++|...|++.   .+.+..+|..+...|.+.|++++
T Consensus         7 ~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~~   85 (388)
T d1w3ba_           7 HREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQE   85 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhccccc
Confidence            34445667777777777666653 234556666666666666666666666652   23344555666666666666666


Q ss_pred             HHHHHhhCCCCCchhHHHHHHHHhcCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhc---CCCCcch
Q 040576          242 ARELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRM---CMRNVVS  318 (641)
Q Consensus       242 A~~~~~~m~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~---~~~~~~~  318 (641)
                      |+..+......+.                            .+..............+....+.......   .......
T Consensus        86 A~~~~~~~~~~~~----------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  137 (388)
T d1w3ba_          86 AIEHYRHALRLKP----------------------------DFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCV  137 (388)
T ss_dssp             HHHHHHHHHHHCT----------------------------TCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHH
T ss_pred             ccccccccccccc----------------------------ccccccccccccccccccccccccccccccccccccccc
Confidence            6665555411110                            11112222222222333333333332222   2233444


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHh
Q 040576          319 WNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAK  398 (641)
Q Consensus       319 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  398 (641)
                      ...........+....+...+.+..... +-+...+..+...+...|+++.|...++...+.. +.+...+..+...|..
T Consensus       138 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~  215 (388)
T d1w3ba_         138 RSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKE  215 (388)
T ss_dssp             HHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             cccccccccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhc
Confidence            5555566667777777777777766532 2345566777777888888888888888887754 3456778888889999


Q ss_pred             cCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHH
Q 040576          399 CGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYF  475 (641)
Q Consensus       399 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~  475 (641)
                      .|++++|...|++...   .+...+..+...+.+.|++++|+..|++..+... -+..++..+...+...|++++|.+.+
T Consensus       216 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~  294 (388)
T d1w3ba_         216 ARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANALKEKGSVAEAEDCY  294 (388)
T ss_dssp             TTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             cccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999887663   5667788899999999999999999999988642 25678888999999999999999999


Q ss_pred             HHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 040576          476 DLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRD  553 (641)
Q Consensus       476 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~  553 (641)
                      +....  ..+.+...+..+...+.+.|++++|++.|++. ...|+ ...+..+..++...|++++|...|+++++++|++
T Consensus       295 ~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~  372 (388)
T d1w3ba_         295 NTALR--LCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTF  372 (388)
T ss_dssp             HHHHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTC
T ss_pred             Hhhhc--cCCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            99887  24456778888999999999999999999986 44555 6678889999999999999999999999999999


Q ss_pred             CchHHHHHHHHHhcCC
Q 040576          554 PGPYVLLSNIYASEGK  569 (641)
Q Consensus       554 ~~~~~~l~~~~~~~g~  569 (641)
                      +.+|..|+.+|.+.||
T Consensus       373 ~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         373 ADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHHcCC
Confidence            9999999999998886

>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=1.1e-14  Score=141.60  Aligned_cols=241  Identities=11%  Similarity=-0.003  Sum_probs=166.3

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC
Q 040576          321 ILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCG  400 (641)
Q Consensus       321 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  400 (641)
                      .....+.+.|++++|+..|+++.+.. +-+..+|..+..++...|+++.|...+..+.+.. +-+...+..+..+|...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            45566777888888888888877742 2235566667777777777777777777776653 234555666666666666


Q ss_pred             CHHHHHHHHhhcCC--CChhH-HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHH
Q 040576          401 VMDLARNVFDNMTE--KNVVS-WNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDL  477 (641)
Q Consensus       401 ~~~~A~~~~~~~~~--~~~~~-~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~  477 (641)
                      ++++|.+.++....  |+... +.......                    ...+.......+..+...+.+.+|.+.|..
T Consensus       102 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  161 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPAYAHLVTPAEEGA--------------------GGAGLGPSKRILGSLLSDSLFLEVKELFLA  161 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTTTGGGCC-----------------------------------CTTHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHhccchHHHHHhhhhhh--------------------hhcccccchhhHHHHHHhhHHHHHHHHHHH
Confidence            66666666665432  11100 00000000                    000011111223334556778889999988


Q ss_pred             hHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 040576          478 MQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPG  555 (641)
Q Consensus       478 ~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~  555 (641)
                      +.+...-.++...+..+...+...|++++|+..+++. ...| +...|..+...+...|++++|+..++++++++|+++.
T Consensus       162 al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~  241 (323)
T d1fcha_         162 AVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIR  241 (323)
T ss_dssp             HHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHH
Confidence            8773333445677888899999999999999999986 2233 4778899999999999999999999999999999999


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 040576          556 PYVLLSNIYASEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       556 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~  583 (641)
                      +|..++.+|.+.|++++|++.+++..+.
T Consensus       242 a~~~lg~~~~~~g~~~~A~~~~~~al~l  269 (323)
T d1fcha_         242 SRYNLGISCINLGAHREAVEHFLEALNM  269 (323)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999998653

>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=99.57  E-value=3.4e-13  Score=130.74  Aligned_cols=264  Identities=11%  Similarity=0.041  Sum_probs=193.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhcCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC
Q 040576          289 NCMIDGYAKIGNVTSARNCFDRMCM---RNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMG  365 (641)
Q Consensus       289 ~~li~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g  365 (641)
                      -.....+.+.|++++|+..|+++.+   .++.+|..+..+|...|++++|+..|++..+.. +-+...+..+...+...|
T Consensus        23 ~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          23 FEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            3567778999999999999999833   356689999999999999999999999998743 234667888888999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCchh-HHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHH
Q 040576          366 VIDIGQWIHSYIQKCRIKPDVL-LSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEME  444 (641)
Q Consensus       366 ~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~  444 (641)
                      ++++|.+.+..+....  |+.. ..........                ..+.......+..+...+.+.+|...|.+..
T Consensus       102 ~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al  163 (323)
T d1fcha_         102 LQRQACEILRDWLRYT--PAYAHLVTPAEEGAG----------------GAGLGPSKRILGSLLSDSLFLEVKELFLAAV  163 (323)
T ss_dssp             CHHHHHHHHHHHHHTS--TTTGGGCC-------------------------------CTTHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHhc--cchHHHHHhhhhhhh----------------hcccccchhhHHHHHHhhHHHHHHHHHHHHH
Confidence            9999999999988754  2211 1100000000                0011111112233445567788888888887


Q ss_pred             HCCC-CCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CH
Q 040576          445 KRGP-TPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GP  520 (641)
Q Consensus       445 ~~g~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~  520 (641)
                      +... .++...+..+...+...|++++|+..|+....   ..| +...|..+..+|.+.|++++|++.|++. ...| +.
T Consensus       164 ~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~  240 (323)
T d1fcha_         164 RLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALS---VRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYI  240 (323)
T ss_dssp             HHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHhhcccccccchhhHHHHHHHHHHhhhhcccccccc---cccccccchhhhhhcccccccchhHHHHHHHHHHHhhccH
Confidence            6432 23566778888899999999999999999987   234 4778888999999999999999999986 3334 46


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch-----------HHHHHHHHHhcCChHHHH
Q 040576          521 ALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGP-----------YVLLSNIYASEGKWDEVE  574 (641)
Q Consensus       521 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~-----------~~~l~~~~~~~g~~~~A~  574 (641)
                      ..|..++.+|...|++++|+..|++++++.|++...           |..+..++...|+.+.+.
T Consensus       241 ~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~  305 (323)
T d1fcha_         241 RSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  305 (323)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            689999999999999999999999999999887653           345666666666665443

>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=99.25  E-value=1.1e-09  Score=106.73  Aligned_cols=261  Identities=9%  Similarity=-0.044  Sum_probs=178.8

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHHcCC----CC-chhHHHHH
Q 040576          322 LLALYVRCKDYCECLRLFDRMIRGDAKPN----EASLMSVLTACANMGVIDIGQWIHSYIQKCRI----KP-DVLLSTSL  392 (641)
Q Consensus       322 li~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~----~~-~~~~~~~l  392 (641)
                      ....+...|++++|++++++..+.....+    ...+..+...+...|++++|...++...+...    .+ ....+..+
T Consensus        18 rA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   97 (366)
T d1hz4a_          18 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   97 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence            34556677777777777777766421111    13455566677777788887777776654211    11 13345556


Q ss_pred             HHHHHhcCCHHHHHHHHhhcCC-------C----ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCC----CCCCHHHHHH
Q 040576          393 LTMYAKCGVMDLARNVFDNMTE-------K----NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRG----PTPNDATFIC  457 (641)
Q Consensus       393 i~~~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g----~~p~~~~~~~  457 (641)
                      ...+...|++..|...+.....       +    ....+..+...+...|+++.+...+.+.....    .......+..
T Consensus        98 ~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  177 (366)
T d1hz4a_          98 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  177 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHH
Confidence            6777788888888877765431       1    11345667778888999999999998877642    2222345556


Q ss_pred             HHHHHHhhccHHHHHHHHHHhHHhhCCCCc-----hHHHHHHHHHHhhcCCHHHHHHHHHhCC-CC-----CCHHHHHHH
Q 040576          458 VLSACTHAGMVLEGWWYFDLMQRIYKIEPK-----VEHYGCMVDLLGRAGLMRDSEELVSKLP-ME-----AGPALWGAL  526 (641)
Q Consensus       458 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~-----~~~~~~~~l  526 (641)
                      ....+...|+...+...+............     ...+..+...+...|++++|.+.+++.. ..     .....+..+
T Consensus       178 ~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l  257 (366)
T d1hz4a_         178 LIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNI  257 (366)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHH
Confidence            666777889999988888877653322211     2345566778889999999999998862 11     123456667


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhc------CCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          527 LSACSTHSNSELGKIVAQHLMEL------EPRDPGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       527 ~~~~~~~g~~~~a~~~~~~~~~~------~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      ..++...|++++|...+++++..      .|.....+..++.+|.+.|++++|.+.+++..+
T Consensus       258 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         258 ARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            88899999999999999988743      345566888999999999999999999998754

>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=99.16  E-value=6.7e-10  Score=106.08  Aligned_cols=194  Identities=8%  Similarity=0.025  Sum_probs=93.2

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC-CHHHHHHHHhhcCC---CChhHHHHHHHHHH
Q 040576          353 SLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCG-VMDLARNVFDNMTE---KNVVSWNSMIMGYG  428 (641)
Q Consensus       353 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~  428 (641)
                      .+..+...+.+.+..++|...++.+++.+ +-+...|+....++...| ++++|+..++...+   .+..+|+.+...+.
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~  123 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVE  123 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHH
Confidence            34444444555556666666666666543 334445555555555544 35555555555442   34455555555555


Q ss_pred             HcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCC----
Q 040576          429 MHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGL----  503 (641)
Q Consensus       429 ~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~----  503 (641)
                      ..|++++|+..++++.+.... +...|..+...+.+.|++++|++.++.+.+   +.| +...|+.+..++.+.|.    
T Consensus       124 ~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~---~~p~n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         124 WLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLK---EDVRNNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             hhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHH---HCCccHHHHHHHHHHHHHccccchh
Confidence            555555555555555554211 344555555555555555555555555555   223 23444444444433332    


Q ss_pred             --HHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 040576          504 --MRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPR  552 (641)
Q Consensus       504 --~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  552 (641)
                        +++|++.+.++ ...| +...|..+...+... ..+++...++.+.++.|+
T Consensus       200 ~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~~-~~~~~~~~~~~~~~l~~~  251 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLVPHNESAWNYLKGILQDR-GLSKYPNLLNQLLDLQPS  251 (315)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTT-CGGGCHHHHHHHHHHTTT
T ss_pred             hhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHhc-ChHHHHHHHHHHHHhCCC
Confidence              34444444433 1122 233444333333222 234444444444444443

>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=99.15  E-value=4.2e-10  Score=107.53  Aligned_cols=190  Identities=10%  Similarity=0.087  Sum_probs=159.0

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCC-hHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 040576          386 VLLSTSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQ-GEKALEMFMEMEKRGPTPNDATFICVLSA  461 (641)
Q Consensus       386 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~-~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  461 (641)
                      ...++.+..++.+.+.+++|++.++++.+   .+..+|+....++...|+ +++|+..+++..+.... +..+|..+...
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~~  121 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhHH
Confidence            45677788888999999999999999874   456788999999888764 89999999999886433 57789999999


Q ss_pred             HHhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCC---
Q 040576          462 CTHAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSN---  535 (641)
Q Consensus       462 ~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~---  535 (641)
                      +.+.|++++|++.++++.+   +.| +...|..+..++...|++++|++.++++ ...| +...|+.+...+...+.   
T Consensus       122 ~~~l~~~~eAl~~~~kal~---~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILN---QDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHhhccHHHHHHHHhhhhh---hhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccch
Confidence            9999999999999999988   344 4788999999999999999999999987 3334 56688877777665554   


Q ss_pred             ---HHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 040576          536 ---SELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       536 ---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  580 (641)
                         .++|...+.++++++|++...|..++.++...| .+++.+.++..
T Consensus       199 ~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~  245 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRG-LSKYPNLLNQL  245 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTC-GGGCHHHHHHH
T ss_pred             hhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHhcC-hHHHHHHHHHH
Confidence               689999999999999999999999998876554 68899988887

>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=99.12  E-value=7.9e-10  Score=102.60  Aligned_cols=89  Identities=18%  Similarity=0.063  Sum_probs=40.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhcc
Q 040576          391 SLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGM  467 (641)
Q Consensus       391 ~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~  467 (641)
                      .+..+|.+.|++++|...|++..+   .++.+|+.+..+|.+.|++++|+..|+++.+.... +..++..+..++...|+
T Consensus        42 ~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~  120 (259)
T d1xnfa_          42 ERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGIALYYGGR  120 (259)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhh-hhhhHHHHHHHHHHHhh
Confidence            334444444444444444444331   23344444455555555555555555554443211 23344444444445555


Q ss_pred             HHHHHHHHHHhHH
Q 040576          468 VLEGWWYFDLMQR  480 (641)
Q Consensus       468 ~~~a~~~~~~~~~  480 (641)
                      +++|...|+...+
T Consensus       121 ~~~A~~~~~~al~  133 (259)
T d1xnfa_         121 DKLAQDDLLAFYQ  133 (259)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            5555555554444

>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=99.09  E-value=9.8e-09  Score=99.68  Aligned_cols=284  Identities=10%  Similarity=-0.025  Sum_probs=169.7

Q ss_pred             HHHHHhcCChHHHHHHHHhcCC--CC------cchHHHHHHHHHHcCChHHHHHHHHHHHHC----CCCCC-HHHHHHHH
Q 040576          292 IDGYAKIGNVTSARNCFDRMCM--RN------VVSWNILLALYVRCKDYCECLRLFDRMIRG----DAKPN-EASLMSVL  358 (641)
Q Consensus       292 i~~~~~~~~~~~A~~~~~~~~~--~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~~~~ll  358 (641)
                      ...+...|++++|++++++...  |+      ...++.+..+|...|++++|+..|++..+.    +..+. ...+..+.
T Consensus        19 A~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~   98 (366)
T d1hz4a_          19 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQS   98 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHH
Confidence            3445556666666666655411  11      124555566666777777777777665542    11111 12344455


Q ss_pred             HHHHccCCHHHHHHHHHHHHHc----CCCC---chhHHHHHHHHHHhcCCHHHHHHHHhhcCC--------CChhHHHHH
Q 040576          359 TACANMGVIDIGQWIHSYIQKC----RIKP---DVLLSTSLLTMYAKCGVMDLARNVFDNMTE--------KNVVSWNSM  423 (641)
Q Consensus       359 ~~~~~~g~~~~a~~~~~~~~~~----~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~l  423 (641)
                      ..+...|++..+...+......    +...   ....+..+...+...|+++.+...+.....        ....++..+
T Consensus        99 ~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (366)
T d1hz4a_          99 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAML  178 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHH
Confidence            5566677777777666655431    1111   123445566777778888888777766542        122345556


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHC--CCCCC----HHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCC--chHHHHHHH
Q 040576          424 IMGYGMHGQGEKALEMFMEMEKR--GPTPN----DATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEP--KVEHYGCMV  495 (641)
Q Consensus       424 i~~~~~~~~~~~A~~~~~~m~~~--g~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p--~~~~~~~li  495 (641)
                      ...+...+++.++...+.+....  .....    ...+..+...+...|++++|...++.......-.+  ....+..+.
T Consensus       179 ~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la  258 (366)
T d1hz4a_         179 IQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIA  258 (366)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHH
Confidence            66777788888888877765542  11111    12344555667788888888888887755111111  134455677


Q ss_pred             HHHhhcCCHHHHHHHHHhC-------CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC---------CchHH
Q 040576          496 DLLGRAGLMRDSEELVSKL-------PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRD---------PGPYV  558 (641)
Q Consensus       496 ~~~~~~g~~~~A~~~~~~~-------~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~---------~~~~~  558 (641)
                      .++...|++++|...+++.       ...|+ ...+..+...+...|++++|...+++++++.+..         ...+.
T Consensus       259 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~  338 (366)
T d1hz4a_         259 RAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEGEAMA  338 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHH
Confidence            8888889999888888765       22233 3356677778889999999999999888765321         12334


Q ss_pred             HHHHHHHhcCChHHHHH
Q 040576          559 LLSNIYASEGKWDEVEN  575 (641)
Q Consensus       559 ~l~~~~~~~g~~~~A~~  575 (641)
                      .+...+...++.+++.+
T Consensus       339 ~~~~~l~~~~~l~e~e~  355 (366)
T d1hz4a_         339 QQLRQLIQLNTLPELEQ  355 (366)
T ss_dssp             HHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHhcCCChHHHH
Confidence            45555667777777654

>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=99.08  E-value=4.1e-10  Score=109.00  Aligned_cols=261  Identities=8%  Similarity=-0.079  Sum_probs=185.1

Q ss_pred             hcCChHHHHHHHHhcCC--CC-cchHHHHHHH----------HHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 040576          297 KIGNVTSARNCFDRMCM--RN-VVSWNILLAL----------YVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACAN  363 (641)
Q Consensus       297 ~~~~~~~A~~~~~~~~~--~~-~~~~~~li~~----------~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~  363 (641)
                      +.+..++|++++++...  |+ ...|+..-..          +...|++++|+..+++..+.. +-+...|..+..++..
T Consensus        41 ~~~~~~~al~~~~~~l~~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~  119 (334)
T d1dcea1          41 AGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSR  119 (334)
T ss_dssp             TTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             cccccHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHH
Confidence            33444777777777633  32 2334432222          334456788999999988743 2345566666666655


Q ss_pred             cC--CHHHHHHHHHHHHHcCCCCchhHH-HHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChHHHH
Q 040576          364 MG--VIDIGQWIHSYIQKCRIKPDVLLS-TSLLTMYAKCGVMDLARNVFDNMTE---KNVVSWNSMIMGYGMHGQGEKAL  437 (641)
Q Consensus       364 ~g--~~~~a~~~~~~~~~~~~~~~~~~~-~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~  437 (641)
                      .+  +++++...+..+.+.. +.+...+ ......+...|.+++|+..++.+.+   .+..+|+.+...+.+.|++++|.
T Consensus       120 ~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~  198 (334)
T d1dcea1         120 LPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSG  198 (334)
T ss_dssp             CSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             hccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHH
Confidence            55  5889999999988875 3344444 4455777888999999999999886   45678999999999999998887


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CC
Q 040576          438 EMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PM  516 (641)
Q Consensus       438 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~  516 (641)
                      ..+.+..+.  .|+.   ..+...+...+..+++...+.....  ..+++...+..++..+...|+.++|.+.+.+. +.
T Consensus       199 ~~~~~~~~~--~~~~---~~~~~~~~~l~~~~~a~~~~~~~l~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  271 (334)
T d1dcea1         199 PQGRLPENV--LLKE---LELVQNAFFTDPNDQSAWFYHRWLL--GRAEPLFRCELSVEKSTVLQSELESCKELQELEPE  271 (334)
T ss_dssp             SCCSSCHHH--HHHH---HHHHHHHHHHCSSCSHHHHHHHHHH--SCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHhHHh--HHHH---HHHHHHHHHhcchhHHHHHHHHHHH--hCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            766654442  1221   2233345556777788888887776  22334555666778888899999999999876 44


Q ss_pred             CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 040576          517 EAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYAS  566 (641)
Q Consensus       517 ~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  566 (641)
                      .|+ ...|..+..++...|+.++|...++++++++|.+...|..|...+.-
T Consensus       272 ~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L~~~~~~  322 (334)
T d1dcea1         272 NKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFLL  322 (334)
T ss_dssp             CHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHHHHHHhH
Confidence            454 45778888899999999999999999999999998888888877764

>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=99.07  E-value=1.7e-09  Score=100.18  Aligned_cols=221  Identities=9%  Similarity=-0.020  Sum_probs=144.4

Q ss_pred             ChHHHHHHHHHHHHCCC-CC--CHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHH
Q 040576          331 DYCECLRLFDRMIRGDA-KP--NEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARN  407 (641)
Q Consensus       331 ~~~~A~~~~~~m~~~g~-~p--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  407 (641)
                      +.+.++.-+++...... .+  ...++..+..+|.+.|++++|...|+..++.. +.+..++..+..+|.+.|++++|.+
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~   92 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYE   92 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhh
Confidence            34555566666655321 11  12355566777888888888888888888764 4467788888999999999999999


Q ss_pred             HHhhcCC---CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCC
Q 040576          408 VFDNMTE---KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKI  484 (641)
Q Consensus       408 ~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~  484 (641)
                      .|+++.+   .+..+|..+..+|...|++++|...|++..+... .+......+..++.+.+..+.+..+......   .
T Consensus        93 ~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~  168 (259)
T d1xnfa_          93 AFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDP-NDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK---S  168 (259)
T ss_dssp             HHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH---S
T ss_pred             hhhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHhhc---c
Confidence            9988874   3566888899999999999999999999888642 2444444444555666666666666555554   2


Q ss_pred             CCchHHHHHHHHHHhhcCC----HHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchH
Q 040576          485 EPKVEHYGCMVDLLGRAGL----MRDSEELVSKL-PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPY  557 (641)
Q Consensus       485 ~p~~~~~~~li~~~~~~g~----~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  557 (641)
                      .+....+. ++..+.....    .+.+...+... ...|+ ..+|..+...+...|++++|...|+++++.+|++...|
T Consensus       169 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  246 (259)
T d1xnfa_         169 DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEH  246 (259)
T ss_dssp             CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHH
T ss_pred             chhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHH
Confidence            22222222 2233322222    22222222211 11122 23566788889999999999999999999999876444

>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=99.06  E-value=1.6e-10  Score=111.92  Aligned_cols=266  Identities=9%  Similarity=-0.084  Sum_probs=193.9

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCCCCHHH-HHH---HHHHHH-------ccCCHHHHHHHHHHHHHcCCCCchhHHH
Q 040576          322 LLALYVRCKDYCECLRLFDRMIRGDAKPNEAS-LMS---VLTACA-------NMGVIDIGQWIHSYIQKCRIKPDVLLST  390 (641)
Q Consensus       322 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~-~~~---ll~~~~-------~~g~~~~a~~~~~~~~~~~~~~~~~~~~  390 (641)
                      ++......+..++|++++++..+  ..|+..+ |+.   ++....       ..|.++++..+++.+.+.. +-+...+.
T Consensus        35 ~~~~~~~~~~~~~al~~~~~~l~--~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~  111 (334)
T d1dcea1          35 VFQKRQAGELDESVLELTSQILG--ANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWH  111 (334)
T ss_dssp             HHHHHHTTCCSHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHHhcccccHHHHHHHHHHHH--HCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHH
Confidence            33333344455899999999987  4576554 322   223332       3445778888888888765 44666777


Q ss_pred             HHHHHHHhcC--CHHHHHHHHhhcCC---CChhHHH-HHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 040576          391 SLLTMYAKCG--VMDLARNVFDNMTE---KNVVSWN-SMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTH  464 (641)
Q Consensus       391 ~li~~~~~~g--~~~~A~~~~~~~~~---~~~~~~~-~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~  464 (641)
                      .+..++...+  ++++|...++++.+   ++...|. .....+...+++++|+..++++.+..+. +...|..+...+..
T Consensus       112 ~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~~a~~~l~~~~~~  190 (334)
T d1dcea1         112 HRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQ  190 (334)
T ss_dssp             HHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHH
T ss_pred             HhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHH
Confidence            7777766665  58999999998763   4555654 4456777889999999999999887543 67788888889999


Q ss_pred             hccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 040576          465 AGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL--PMEAGPALWGALLSACSTHSNSELGKIV  542 (641)
Q Consensus       465 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~  542 (641)
                      .|++++|...++....   +.|+.   ..+...+...+..+++...+...  ...++...+..++..+...|+.++|...
T Consensus       191 ~~~~~~A~~~~~~~~~---~~~~~---~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  264 (334)
T d1dcea1         191 LHPQPDSGPQGRLPEN---VLLKE---LELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESCKE  264 (334)
T ss_dssp             HSCCCCSSSCCSSCHH---HHHHH---HHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHhHH---hHHHH---HHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHHHH
Confidence            9999888776666555   12221   12333455566667777776654  2223344566677778888999999999


Q ss_pred             HHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHH
Q 040576          543 AQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGE  622 (641)
Q Consensus       543 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~  622 (641)
                      +.++.+.+|++...+..++.+|...|++++|++.++++                        .+++|.+..  .|..|+.
T Consensus       265 ~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~a------------------------i~ldP~~~~--y~~~L~~  318 (334)
T d1dcea1         265 LQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTL------------------------KAVDPMRAA--YLDDLRS  318 (334)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHH------------------------HHHCGGGHH--HHHHHHH
T ss_pred             HHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHH------------------------HHHCcccHH--HHHHHHH
Confidence            99999999999999999999999999999999999999                        788898888  8777755


Q ss_pred             H
Q 040576          623 I  623 (641)
Q Consensus       623 l  623 (641)
                      .
T Consensus       319 ~  319 (334)
T d1dcea1         319 K  319 (334)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.03  E-value=2.4e-08  Score=94.97  Aligned_cols=186  Identities=9%  Similarity=0.044  Sum_probs=124.5

Q ss_pred             CHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--C-C-hhHHHHHHHHHHHcCChHHHHHHHH
Q 040576          366 VIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE--K-N-VVSWNSMIMGYGMHGQGEKALEMFM  441 (641)
Q Consensus       366 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~-~~~~~~li~~~~~~~~~~~A~~~~~  441 (641)
                      ..+.+..+++...+...+.+...+...+..+.+.|+++.|..+|+++.+  | + ...|...+..+.+.|+.++|..+|+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            3466777777777654455566777777777778888888888877653  2 2 2357777777777788888888888


Q ss_pred             HHHHCCCCCCHHHHHHHHHH-HHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC----CC
Q 040576          442 EMEKRGPTPNDATFICVLSA-CTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL----PM  516 (641)
Q Consensus       442 ~m~~~g~~p~~~~~~~ll~~-~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~  516 (641)
                      ++.+.+.. +...|...... +...|+.+.|..+|+.+.+.  .+.+...|..+++.+.+.|++++|..+|++.    +.
T Consensus       159 ~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~--~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         159 KAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            87776433 33333333322 33457778888888887763  2334567777777777888888888887765    22


Q ss_pred             CCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 040576          517 EAG--PALWGALLSACSTHSNSELGKIVAQHLMELEPRDP  554 (641)
Q Consensus       517 ~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  554 (641)
                      .|+  ...|...+.--..+|+.+.+..+++++.++.|...
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~~  275 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEY  275 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTT
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcccc
Confidence            222  34677777766777888888888887777777654

>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=98.97  E-value=4e-09  Score=83.88  Aligned_cols=106  Identities=9%  Similarity=0.018  Sum_probs=93.7

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCh
Q 040576          493 CMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKW  570 (641)
Q Consensus       493 ~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  570 (641)
                      .-...+.+.|++++|+..|++. . .+.++..|..+..++...|++++|+..++++++++|+++..|..++.+|...|++
T Consensus         8 ~~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_           8 EKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCH
Confidence            3466788899999999999987 2 2345678999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHH
Q 040576          571 DEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIG  624 (641)
Q Consensus       571 ~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~  624 (641)
                      ++|+..+++.                        .+++|++..  +...++++.
T Consensus        88 ~~A~~~~~~a------------------------~~~~p~~~~--~~~~l~~l~  115 (117)
T d1elwa_          88 EEAKRTYEEG------------------------LKHEANNPQ--LKEGLQNME  115 (117)
T ss_dssp             HHHHHHHHHH------------------------HTTCTTCHH--HHHHHHHHH
T ss_pred             HHHHHHHHHH------------------------HHhCCCCHH--HHHHHHHHh
Confidence            9999999998                        778899999  888888764

>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=98.94  E-value=7.7e-08  Score=91.30  Aligned_cols=184  Identities=9%  Similarity=0.011  Sum_probs=144.6

Q ss_pred             CCHHHHHHHHhhcCC----CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHH
Q 040576          400 GVMDLARNVFDNMTE----KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYF  475 (641)
Q Consensus       400 g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~  475 (641)
                      +..++|..+|++..+    .+...|...+..+...|+.++|..+|+++.+.........|...+..+.+.|+.+.|.++|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            456788888887643    4556788889999999999999999999988644433457888899999999999999999


Q ss_pred             HHhHHhhCCCCchHHHHHHHHH-HhhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 040576          476 DLMQRIYKIEPKVEHYGCMVDL-LGRAGLMRDSEELVSKL--PMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPR  552 (641)
Q Consensus       476 ~~~~~~~~~~p~~~~~~~li~~-~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~  552 (641)
                      +.+.+.  .+.+...|...+.. +...|+.+.|..+|+.+  ....+...|...+..+...|+++.|..+|+++++..|.
T Consensus       158 ~~al~~--~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         158 KKARED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHTS--TTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHHh--CCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            999872  22334455444443 34468999999999987  22345778999999999999999999999999998876


Q ss_pred             CCc----hHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 040576          553 DPG----PYVLLSNIYASEGKWDEVENLRRIMKEKEL  585 (641)
Q Consensus       553 ~~~----~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  585 (641)
                      ++.    .|...+..-...|+.+.+.++.+++.+.-+
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~  272 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFR  272 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTT
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            654    567777776788999999999999866543

>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=98.86  E-value=1.6e-08  Score=85.53  Aligned_cols=109  Identities=12%  Similarity=0.028  Sum_probs=86.0

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCh
Q 040576          493 CMVDLLGRAGLMRDSEELVSKL-PM-EAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKW  570 (641)
Q Consensus       493 ~li~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  570 (641)
                      .....|.+.|++++|++.|++. .. +.+...|..+..+|...|++++|...|+++++++|+++.+|..++.+|...|++
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCH
Confidence            3456677888888888888876 22 234667888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHH
Q 040576          571 DEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQM  627 (641)
Q Consensus       571 ~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~  627 (641)
                      ++|...+++.                        .+++|++..  ++..++.+...+
T Consensus        95 ~eA~~~~~~a------------------------~~~~p~~~~--~~~~l~~~~~~~  125 (159)
T d1a17a_          95 RAALRDYETV------------------------VKVKPHDKD--AKMKYQECNKIV  125 (159)
T ss_dssp             HHHHHHHHHH------------------------HHHSTTCHH--HHHHHHHHHHHH
T ss_pred             HHHHHHHHHH------------------------HHcCCCCHH--HHHHHHHHHHHH
Confidence            8888888888                        677788888  777777665443

>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=98.78  E-value=5.5e-08  Score=81.33  Aligned_cols=86  Identities=9%  Similarity=0.007  Sum_probs=79.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeee
Q 040576          521 ALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFA  600 (641)
Q Consensus       521 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~  600 (641)
                      .++..+..+|.+.|++++|+..++++++++|.+..+|..++.+|...|++++|+..+++.                    
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~a--------------------  127 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKA--------------------  127 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH--------------------
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHH--------------------
Confidence            356778889999999999999999999999999999999999999999999999999998                    


Q ss_pred             cccccccCCCCchhhHHHHHHHHHHHHHhhhc
Q 040576          601 SESIVENCPPHRKCIVYSMLGEIGAQMKMCRR  632 (641)
Q Consensus       601 ~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~  632 (641)
                          .+++|++.+  +...++.+..++++..+
T Consensus       128 ----l~l~P~n~~--~~~~l~~~~~kl~~~~k  153 (153)
T d2fbna1         128 ----ASLNPNNLD--IRNSYELCVNKLKEARK  153 (153)
T ss_dssp             ----HHHSTTCHH--HHHHHHHHHHHHHHHHC
T ss_pred             ----HHhCCCCHH--HHHHHHHHHHHHHHHCc
Confidence                788999999  99999999999887653

>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=98.78  E-value=4.9e-08  Score=83.27  Aligned_cols=133  Identities=6%  Similarity=-0.032  Sum_probs=97.4

Q ss_pred             HHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 040576          454 TFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTH  533 (641)
Q Consensus       454 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~  533 (641)
                      .+......+.+.|++++|+..|.++.......+....            ........+       ...++..+..+|.+.
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~------------~~~~~~~~~-------~~~~~~nla~~y~k~   75 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSN------------EEAQKAQAL-------RLASHLNLAMCHLKL   75 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCS------------HHHHHHHHH-------HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccch------------HHHhhhchh-------HHHHHHHHHHHHHhh
Confidence            3444555677777777777777777662221111000            000000000       123566678889999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCCCCch
Q 040576          534 SNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCPPHRK  613 (641)
Q Consensus       534 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~  613 (641)
                      |++++|+..++++++++|+++.+|..++.+|...|++++|+..+++.                        .+++|++..
T Consensus        76 ~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~a------------------------l~l~P~n~~  131 (170)
T d1p5qa1          76 QAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKV------------------------LQLYPNNKA  131 (170)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH------------------------HHHCSSCHH
T ss_pred             hhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHH------------------------HHhCCCCHH
Confidence            99999999999999999999999999999999999999999999998                        788999999


Q ss_pred             hhHHHHHHHHHHHHHhhh
Q 040576          614 CIVYSMLGEIGAQMKMCR  631 (641)
Q Consensus       614 ~~~~~~l~~l~~~~~~~~  631 (641)
                        +...|+.+...+++..
T Consensus       132 --~~~~l~~~~~~~~~~~  147 (170)
T d1p5qa1         132 --AKTQLAVCQQRIRRQL  147 (170)
T ss_dssp             --HHHHHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHHHH
Confidence              9999999887776544

>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=98.77  E-value=8.5e-08  Score=90.09  Aligned_cols=190  Identities=11%  Similarity=-0.015  Sum_probs=128.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCC-----CC----hhHHHHHHHHHHHcCChHHHHHHHHHHHHCCC---CCC--HHHHH
Q 040576          391 SLLTMYAKCGVMDLARNVFDNMTE-----KN----VVSWNSMIMGYGMHGQGEKALEMFMEMEKRGP---TPN--DATFI  456 (641)
Q Consensus       391 ~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~---~p~--~~~~~  456 (641)
                      ....+|...|++++|.+.|.+..+     .+    ..+|..+..+|.+.|++++|+..+++..+.-.   .+.  ..++.
T Consensus        42 ~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  121 (290)
T d1qqea_          42 QAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKF  121 (290)
T ss_dssp             HHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHH
Confidence            345677788888888888876653     12    24788888899999999999999887655211   111  33555


Q ss_pred             HHHHHHHh-hccHHHHHHHHHHhHHhh---CCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC----CCCC----CH-HH
Q 040576          457 CVLSACTH-AGMVLEGWWYFDLMQRIY---KIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL----PMEA----GP-AL  522 (641)
Q Consensus       457 ~ll~~~~~-~g~~~~a~~~~~~~~~~~---~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~~----~~-~~  522 (641)
                      .+...|.. .|++++|++.++++.+..   +..+. ..++..++..|...|++++|++.|+++    +..+    .. ..
T Consensus       122 ~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~  201 (290)
T d1qqea_         122 ELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDY  201 (290)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHH
T ss_pred             HHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHH
Confidence            66666644 699999999999886522   11121 355778899999999999999999886    1111    11 23


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc-----hHHHHHHHHHh--cCChHHHHHHHHHh
Q 040576          523 WGALLSACSTHSNSELGKIVAQHLMELEPRDPG-----PYVLLSNIYAS--EGKWDEVENLRRIM  580 (641)
Q Consensus       523 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~-----~~~~l~~~~~~--~g~~~~A~~~~~~m  580 (641)
                      +...+..+...|+++.|...++++.+.+|..+.     .+..++.++..  .+.+++|+..++++
T Consensus       202 ~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~  266 (290)
T d1qqea_         202 FLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            344555677899999999999999999886443     33455566554  34688888888766

>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=98.69  E-value=2.8e-08  Score=79.02  Aligned_cols=87  Identities=7%  Similarity=-0.021  Sum_probs=42.1

Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhcCCCC--CchHHHHHHHHHh
Q 040576          494 MVDLLGRAGLMRDSEELVSKL-PM-EAGPALWGALLSACSTHS---NSELGKIVAQHLMELEPRD--PGPYVLLSNIYAS  566 (641)
Q Consensus       494 li~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~~~  566 (641)
                      +++.+...+++++|++.|++. .. +.++.++..+..++.+.+   ++++|+.+++++++.+|.+  ..++..|+.+|.+
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~~   84 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYR   84 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHH
Confidence            344444444555555555443 11 223344444444444322   3334555555555555433  2345555666666


Q ss_pred             cCChHHHHHHHHHh
Q 040576          567 EGKWDEVENLRRIM  580 (641)
Q Consensus       567 ~g~~~~A~~~~~~m  580 (641)
                      .|++++|++.++++
T Consensus        85 ~g~~~~A~~~~~~a   98 (122)
T d1nzna_          85 LKEYEKALKYVRGL   98 (122)
T ss_dssp             TTCHHHHHHHHHHH
T ss_pred             HhhhHHHHHHHHHH
Confidence            66666666666655

>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=98.67  E-value=5.9e-07  Score=78.08  Aligned_cols=141  Identities=6%  Similarity=-0.122  Sum_probs=95.6

Q ss_pred             HHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHH
Q 040576          393 LTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGW  472 (641)
Q Consensus       393 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~  472 (641)
                      ...+...|+++.|++.|+++..++...|..+..+|...|++++|+..|++..+.... +...|..+..++.+.|++++|.
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHHhhccHHHHH
Confidence            445677888888888888888888888888888888888888888888888875422 4567788888888888888888


Q ss_pred             HHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 040576          473 WYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEP  551 (641)
Q Consensus       473 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p  551 (641)
                      ..|++....  .+.+...      .+...|.           ..+.+ ..++..+..++...|++++|...+++++++.|
T Consensus        91 ~~~~kAl~~--~~~n~~~------~~~~~~~-----------~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~  151 (192)
T d1hh8a_          91 KDLKEALIQ--LRGNQLI------DYKILGL-----------QFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  151 (192)
T ss_dssp             HHHHHHHHT--TTTCSEE------ECGGGTB-----------CCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHh--CccCchH------HHHHhhh-----------hcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            888887651  1111100      0000000           00111 23445566667777777777777777777776


Q ss_pred             CC
Q 040576          552 RD  553 (641)
Q Consensus       552 ~~  553 (641)
                      ..
T Consensus       152 ~~  153 (192)
T d1hh8a_         152 EP  153 (192)
T ss_dssp             SG
T ss_pred             Cc
Confidence            64

>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=98.65  E-value=7.3e-08  Score=84.98  Aligned_cols=122  Identities=6%  Similarity=-0.213  Sum_probs=87.5

Q ss_pred             CCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHH
Q 040576          450 PNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG-PALWGALL  527 (641)
Q Consensus       450 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~  527 (641)
                      |+...+......+.+.|++++|+..|+++...  .+.+...|..+..+|.+.|++++|+..|+++ ...|+ ...|..+.
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
Confidence            66777777788888888888888888887761  2234667777888888888888888888876 44454 55777788


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHH
Q 040576          528 SACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEV  573 (641)
Q Consensus       528 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  573 (641)
                      .+|...|++++|...|+++++++|++...+...+..+...++...+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~l~~~~~~~~  125 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKKKRW  125 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHhHH
Confidence            8888888888888888888887776665555555555544443333

>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=98.65  E-value=1.8e-07  Score=73.99  Aligned_cols=106  Identities=12%  Similarity=-0.017  Sum_probs=86.6

Q ss_pred             HHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCC
Q 040576          458 VLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSN  535 (641)
Q Consensus       458 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~  535 (641)
                      -...+...|++++|+..|+.+.+.  -+-+...|..+..+|...|++++|+..+++. . .+.++..|..+..++...|+
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccC
Confidence            455677888999999999988871  2334677888888999999999999988876 2 23557788899999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 040576          536 SELGKIVAQHLMELEPRDPGPYVLLSNIYA  565 (641)
Q Consensus       536 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  565 (641)
                      +++|+..++++++++|+++..+..+.++-.
T Consensus        87 ~~~A~~~~~~a~~~~p~~~~~~~~l~~l~~  116 (117)
T d1elwa_          87 FEEAKRTYEEGLKHEANNPQLKEGLQNMEA  116 (117)
T ss_dssp             HHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHhC
Confidence            999999999999999999988888877644

>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=98.61  E-value=9.9e-08  Score=81.38  Aligned_cols=87  Identities=9%  Similarity=0.037  Sum_probs=79.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeee
Q 040576          520 PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEF  599 (641)
Q Consensus       520 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~  599 (641)
                      ...+..+..++.+.|++++|+..++++++++|+++.+|..++.+|...|++++|++.++++                   
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~a-------------------  137 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKA-------------------  137 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH-------------------
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHH-------------------
Confidence            4467778888999999999999999999999999999999999999999999999999999                   


Q ss_pred             ecccccccCCCCchhhHHHHHHHHHHHHHhhhc
Q 040576          600 ASESIVENCPPHRKCIVYSMLGEIGAQMKMCRR  632 (641)
Q Consensus       600 ~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~  632 (641)
                           .+++|++.+  +...|+.+..++++..+
T Consensus       138 -----l~l~p~n~~--~~~~l~~~~~~l~~~~~  163 (169)
T d1ihga1         138 -----QEIAPEDKA--IQAELLKVKQKIKAQKD  163 (169)
T ss_dssp             -----HHHCTTCHH--HHHHHHHHHHHHHHHHH
T ss_pred             -----HHhCCCCHH--HHHHHHHHHHHHHHHHH
Confidence                 788999999  99999999888766543

>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=98.61  E-value=5e-07  Score=78.55  Aligned_cols=117  Identities=8%  Similarity=-0.010  Sum_probs=80.9

Q ss_pred             HHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCCHHH
Q 040576          461 ACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKL-PME-AGPALWGALLSACSTHSNSEL  538 (641)
Q Consensus       461 ~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~g~~~~  538 (641)
                      .+...|+++.|++.|+.+     .+|+..+|..+..+|...|++++|++.|++. ... ..+..|..+..++.+.|++++
T Consensus        14 ~~~~~~d~~~Al~~~~~i-----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHH
Confidence            345566677776666543     2355566666677777777777777777665 222 335567777777777777777


Q ss_pred             HHHHHHHHHhcCCCCC----------------chHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          539 GKIVAQHLMELEPRDP----------------GPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       539 a~~~~~~~~~~~p~~~----------------~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      |...|+++++..|.+.                ..+..++.+|.+.|++++|.+.+++...
T Consensus        89 A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~  148 (192)
T d1hh8a_          89 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  148 (192)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            7777777776554432                3567889999999999999999998844

>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=98.59  E-value=3.7e-07  Score=77.52  Aligned_cols=84  Identities=6%  Similarity=-0.044  Sum_probs=75.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeec
Q 040576          522 LWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFAS  601 (641)
Q Consensus       522 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~  601 (641)
                      .+..+..+|...|++++|+..++++++++|+++.+|..++.+|...|++++|+..++++                     
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~a---------------------  124 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKV---------------------  124 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH---------------------
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHH---------------------
Confidence            45667778899999999999999999999999999999999999999999999999998                     


Q ss_pred             ccccccCCCCchhhHHHHHHHHHHHHHhhh
Q 040576          602 ESIVENCPPHRKCIVYSMLGEIGAQMKMCR  631 (641)
Q Consensus       602 ~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~  631 (641)
                         ..++|++.+  +...++.+...+++..
T Consensus       125 ---l~l~P~n~~--~~~~l~~~~~~~~~~~  149 (168)
T d1kt1a1         125 ---LEVNPQNKA--ARLQIFMCQKKAKEHN  149 (168)
T ss_dssp             ---HHSCTTCHH--HHHHHHHHHHHHHHHH
T ss_pred             ---HHhCCCCHH--HHHHHHHHHHHHHhHH
Confidence               788999999  9999999887776554

>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=98.58  E-value=3.9e-07  Score=76.62  Aligned_cols=117  Identities=6%  Similarity=-0.031  Sum_probs=94.5

Q ss_pred             HHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc
Q 040576          457 CVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTH  533 (641)
Q Consensus       457 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~  533 (641)
                      .....|.+.|++++|+..|+++.+   +.|+ ...|..+..+|...|++++|++.|+++ ...| +...|..++.++...
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~   91 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIE---LNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMAL   91 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHhhhccc---cchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHc
Confidence            345567788999999999999988   3344 778888999999999999999999987 3334 467899999999999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCchHHHHHHHH--HhcCChHHHHHH
Q 040576          534 SNSELGKIVAQHLMELEPRDPGPYVLLSNIY--ASEGKWDEVENL  576 (641)
Q Consensus       534 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~--~~~g~~~~A~~~  576 (641)
                      |++++|...++++++++|+++..+..+..+.  ...+.+++|...
T Consensus        92 g~~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          92 GKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            9999999999999999999998888776653  444556666654

>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=98.58  E-value=1.3e-07  Score=83.37  Aligned_cols=96  Identities=4%  Similarity=-0.139  Sum_probs=75.4

Q ss_pred             CChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHH
Q 040576          415 KNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGC  493 (641)
Q Consensus       415 ~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~  493 (641)
                      |+...+...+..|.+.|++++|+..|.+..+..+ -+...|..+..+|.+.|++++|+..|+.+.+   +.|+ ...|..
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p-~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~---l~p~~~~a~~~   77 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALE---LDGQSVKAHFF   77 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SCTTCHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH---hCCCcHHHHHH
Confidence            4555666777888888888888888888887642 2566788888888888888888888888866   5565 677888


Q ss_pred             HHHHHhhcCCHHHHHHHHHhC
Q 040576          494 MVDLLGRAGLMRDSEELVSKL  514 (641)
Q Consensus       494 li~~~~~~g~~~~A~~~~~~~  514 (641)
                      ++.+|.+.|++++|+..|+++
T Consensus        78 lg~~~~~l~~~~~A~~~~~~a   98 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRA   98 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHH
Confidence            888888888888888888865

>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=98.55  E-value=1.4e-07  Score=73.99  Aligned_cols=88  Identities=14%  Similarity=0.072  Sum_probs=79.6

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCh
Q 040576          493 CMVDLLGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKW  570 (641)
Q Consensus       493 ~li~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  570 (641)
                      .+...+.+.|++++|+..|++. ...| ++..|..+..++...|++++|+..++++++++|+++..+..++.+|...|++
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCCH
Confidence            4567788999999999999987 3344 4778999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHh
Q 040576          571 DEVENLRRIM  580 (641)
Q Consensus       571 ~~A~~~~~~m  580 (641)
                      ++|.+.+++.
T Consensus       101 ~~A~~~l~~~  110 (112)
T d1hxia_         101 NAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999999885

>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=2e-06  Score=80.32  Aligned_cols=173  Identities=6%  Similarity=-0.032  Sum_probs=130.4

Q ss_pred             CHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhhccHHHHHHHH
Q 040576          401 VMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKR----GPTPN-DATFICVLSACTHAGMVLEGWWYF  475 (641)
Q Consensus       401 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~----g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~  475 (641)
                      ++++|.++|.+           ....|...|++++|...|.++.+.    +-.++ ..+|..+..+|.+.|++++|.+.+
T Consensus        32 ~~~~Aa~~y~~-----------aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~  100 (290)
T d1qqea_          32 KFEEAADLCVQ-----------AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (290)
T ss_dssp             HHHHHHHHHHH-----------HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHH-----------HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHH
Confidence            46777766554           577899999999999999988763    21222 347888899999999999999999


Q ss_pred             HHhHHhhCCCCc----hHHHHHHHHHHhh-cCCHHHHHHHHHhCC----CCCC----HHHHHHHHHHHHhcCCHHHHHHH
Q 040576          476 DLMQRIYKIEPK----VEHYGCMVDLLGR-AGLMRDSEELVSKLP----MEAG----PALWGALLSACSTHSNSELGKIV  542 (641)
Q Consensus       476 ~~~~~~~~~~p~----~~~~~~li~~~~~-~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~g~~~~a~~~  542 (641)
                      +.......-..+    ..++..+...|.. .|++++|++.+++..    ...+    ..++..+...+...|++++|...
T Consensus       101 ~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~  180 (290)
T d1qqea_         101 ENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDI  180 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHH
Confidence            987763211112    4456667777754 699999999998761    1122    23567788889999999999999


Q ss_pred             HHHHHhcCCCCCc-------hHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 040576          543 AQHLMELEPRDPG-------PYVLLSNIYASEGKWDEVENLRRIMKEKE  584 (641)
Q Consensus       543 ~~~~~~~~p~~~~-------~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  584 (641)
                      ++++....|.++.       .+...+.++...|+++.|.+.+++..+..
T Consensus       181 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~  229 (290)
T d1qqea_         181 YSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSED  229 (290)
T ss_dssp             HHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             HHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            9999998877653       35567778889999999999999986553

>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=98.46  E-value=5.2e-08  Score=99.06  Aligned_cols=170  Identities=11%  Similarity=-0.008  Sum_probs=101.9

Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHH--HHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHH
Q 040576          433 GEKALEMFMEMEKRGPTPNDATFICVLSA--CTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEE  509 (641)
Q Consensus       433 ~~~A~~~~~~m~~~g~~p~~~~~~~ll~~--~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~  509 (641)
                      +..+.+.++...+....++..-....+..  ....+.++.++..+....   ++.|+ ...+..+...+.+.|+.++|..
T Consensus        65 y~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~---~l~~~~~~~~~~lg~~~~~~~~~~~A~~  141 (497)
T d1ya0a1          65 FKNQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVF---NVDLPCRVKSSQLGIISNKQTHTSAIVK  141 (497)
T ss_dssp             THHHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC---------------------------------
T ss_pred             HHHHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---CCChhhHHHHHHhHHHHHhCCCHHHHHH
Confidence            45566677766654434443322222211  223455666665555443   34443 5667778888889999999988


Q ss_pred             HHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCccc
Q 040576          510 LVSKLPMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKA  588 (641)
Q Consensus       510 ~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~  588 (641)
                      .+++.. .++ ...+..++..+...|++++|+..|++++++.|+++..|+.||.+|...|+..+|+..+.+.        
T Consensus       142 ~~~~al-~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ra--------  212 (497)
T d1ya0a1         142 PQSSSC-SYICQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRS--------  212 (497)
T ss_dssp             -CCHHH-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHH--------
T ss_pred             HHHHHh-CCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHH--------
Confidence            776652 122 3467778888999999999999999999999999999999999999999999999999998        


Q ss_pred             CceEEEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHhhhc
Q 040576          589 VGSSLVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKMCRR  632 (641)
Q Consensus       589 ~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~~~  632 (641)
                                      ..+.|....  ++..|+.+..+..+..+
T Consensus       213 ----------------l~~~~~~~~--a~~nL~~~~~~~~~~~~  238 (497)
T d1ya0a1         213 ----------------IAVKFPFPA--ASTNLQKALSKALESRD  238 (497)
T ss_dssp             ----------------HSSSBCCHH--HHHHHHHHHHHHTTSCC
T ss_pred             ----------------HhCCCCCHH--HHHHHHHHHHHhhhhhh
Confidence                            667778888  89999988887765443

>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=98.40  E-value=1.8e-06  Score=68.29  Aligned_cols=106  Identities=16%  Similarity=0.003  Sum_probs=84.8

Q ss_pred             HHHHHHHHhhccHHHHHHHHHHhHHhhCCCC-chHHHHHHHHHHhhcCC---HHHHHHHHHhC-CCCCCH---HHHHHHH
Q 040576          456 ICVLSACTHAGMVLEGWWYFDLMQRIYKIEP-KVEHYGCMVDLLGRAGL---MRDSEELVSKL-PMEAGP---ALWGALL  527 (641)
Q Consensus       456 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~---~~~A~~~~~~~-~~~~~~---~~~~~l~  527 (641)
                      ..+++.+...+++++|.+.|++...   ..| +..++..+..++.+.++   +++|+++++++ ...|++   .+|..+.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~---~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg   79 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKA---AGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLA   79 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH---HSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHh---hCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHH
Confidence            4577888889999999999999988   334 46788888888887554   45799999986 334443   3677888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 040576          528 SACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIY  564 (641)
Q Consensus       528 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  564 (641)
                      .+|...|++++|+..|+++++++|++..+...+..+.
T Consensus        80 ~~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~I~  116 (122)
T d1nzna_          80 VGNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLID  116 (122)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHHHHH
Confidence            9999999999999999999999999987776665443

>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=98.40  E-value=1.6e-06  Score=69.60  Aligned_cols=90  Identities=8%  Similarity=0.049  Sum_probs=74.8

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch-------HHHHH
Q 040576          491 YGCMVDLLGRAGLMRDSEELVSKL-PME-AGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGP-------YVLLS  561 (641)
Q Consensus       491 ~~~li~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~-------~~~l~  561 (641)
                      +..+...+.+.|++++|++.|++. ... .+...+..+..+|...|++++|+..++++++++|+++..       |..++
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
Confidence            455777888899999999998876 223 457788889999999999999999999999999888764       55566


Q ss_pred             HHHHhcCChHHHHHHHHHh
Q 040576          562 NIYASEGKWDEVENLRRIM  580 (641)
Q Consensus       562 ~~~~~~g~~~~A~~~~~~m  580 (641)
                      .++...+++++|++.+++.
T Consensus        87 ~~~~~~~~~~~A~~~~~ka  105 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKS  105 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHH
Confidence            7778888999999999887

>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=98.38  E-value=1.9e-07  Score=76.96  Aligned_cols=121  Identities=8%  Similarity=0.039  Sum_probs=88.7

Q ss_pred             HHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 040576          462 CTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSELGK  540 (641)
Q Consensus       462 ~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  540 (641)
                      |.+.+.+++|+..|+...+   +.|+ ...+..+..+|...+++..+.+                      ..+.+++|+
T Consensus         7 ~~r~~~fe~A~~~~e~al~---~~P~~~~~~~~~g~~l~~~~~~~~~~e----------------------~~~~~~~Ai   61 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYK---SNPLDADNLTRWGGVLLELSQFHSISD----------------------AKQMIQEAI   61 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHHHSCHHH----------------------HHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHh---hCCcchHHHHHHHHHHHHhhhhhhhhH----------------------HHHHHHHHH
Confidence            3455667777777777766   3343 5556666666655554444333                      224567899


Q ss_pred             HHHHHHHhcCCCCCchHHHHHHHHHhcCC-----------hHHHHHHHHHhhhCCCcccCceEEEEeeeeecccccccCC
Q 040576          541 IVAQHLMELEPRDPGPYVLLSNIYASEGK-----------WDEVENLRRIMKEKELEKAVGSSLVHPGEFASESIVENCP  609 (641)
Q Consensus       541 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~-----------~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~p  609 (641)
                      ..++++++++|+++.+|..++.+|...|+           +++|.+.+++.                        .+++|
T Consensus        62 ~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~ka------------------------l~l~P  117 (145)
T d1zu2a1          62 TKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQA------------------------VDEQP  117 (145)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH------------------------HHHCT
T ss_pred             HHHHHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcc------------------------cccCC
Confidence            99999999999999999999999987764           67888888888                        78999


Q ss_pred             CCchhhHHHHHHHHHHHHHhhhcc
Q 040576          610 PHRKCIVYSMLGEIGAQMKMCRRD  633 (641)
Q Consensus       610 ~~~~~~~~~~l~~l~~~~~~~~~~  633 (641)
                      ++..  ....|+...+..+.+.+.
T Consensus       118 ~~~~--~~~~L~~~~ka~~~~~e~  139 (145)
T d1zu2a1         118 DNTH--YLKSLEMTAKAPQLHAEA  139 (145)
T ss_dssp             TCHH--HHHHHHHHHTHHHHHHHH
T ss_pred             CHHH--HHHHHHHHHHHHHHHHHH
Confidence            9999  999999887776655554

>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=98.37  E-value=7e-07  Score=69.74  Aligned_cols=86  Identities=12%  Similarity=-0.079  Sum_probs=79.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceEEEEeeeeeccc
Q 040576          524 GALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSSLVHPGEFASES  603 (641)
Q Consensus       524 ~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~  603 (641)
                      ..+...+.+.|++++|+..++++++.+|+++.+|..++.+|.+.|++++|+..+++.                       
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~a-----------------------   76 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHA-----------------------   76 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH-----------------------
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccc-----------------------
Confidence            345667889999999999999999999999999999999999999999999999998                       


Q ss_pred             ccccCCCCchhhHHHHHHHHHHHHHhhhcccc
Q 040576          604 IVENCPPHRKCIVYSMLGEIGAQMKMCRRDVA  635 (641)
Q Consensus       604 ~~~~~p~~~~~~~~~~l~~l~~~~~~~~~~~~  635 (641)
                       .+++|++..  ++..|+.++..+++..++..
T Consensus        77 -l~~~p~~~~--a~~~la~~y~~~g~~~~A~~  105 (112)
T d1hxia_          77 -RMLDPKDIA--VHAALAVSHTNEHNANAALA  105 (112)
T ss_dssp             -HHHCTTCHH--HHHHHHHHHHHHHHHHHHHH
T ss_pred             -ccccccccc--chHHHHHHHHHCCCHHHHHH
Confidence             788999999  99999999999998877654

>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=98.37  E-value=0.00017  Score=65.69  Aligned_cols=225  Identities=8%  Similarity=-0.091  Sum_probs=131.3

Q ss_pred             cchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCCCchhHHHH
Q 040576          316 VVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACAN----MGVIDIGQWIHSYIQKCRIKPDVLLSTS  391 (641)
Q Consensus       316 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~  391 (641)
                      +..+..|...+.+.+++++|++.|++..+.|   +...+..|...|..    ..+...+...+....+.+          
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~----------   68 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN----------   68 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc----------
Confidence            3345555555666666666666666666554   23333333333332    234444444444444333          


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHH----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----
Q 040576          392 LLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGM----HGQGEKALEMFMEMEKRGPTPNDATFICVLSACT----  463 (641)
Q Consensus       392 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~----  463 (641)
                                              +......+...+..    .++.+.|...+++..+.|..   .....+...+.    
T Consensus        69 ------------------------~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~  121 (265)
T d1ouva_          69 ------------------------YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKV  121 (265)
T ss_dssp             ------------------------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSS
T ss_pred             ------------------------ccchhhccccccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCc
Confidence                                    22233333333322    34566777777777665532   22222222222    


Q ss_pred             hhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhh----cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCC
Q 040576          464 HAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGR----AGLMRDSEELVSKLPMEAGPALWGALLSACST----HSN  535 (641)
Q Consensus       464 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~  535 (641)
                      .......+...+.....    ..+...+..|...|..    ..+...+...++......++.....+...+..    ..+
T Consensus       122 ~~~~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d  197 (265)
T d1ouva_         122 VTRDFKKAVEYFTKACD----LNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKN  197 (265)
T ss_dssp             SCCCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCC
T ss_pred             ccchhHHHHHHhhhhhc----ccccchhhhhhhhhccCCCcccccccchhhhhccccccccccccchhhhcccCcccccc
Confidence            23455666666666554    1344556666666664    44667777777766434566666666666654    568


Q ss_pred             HHHHHHHHHHHHhcCCCCCchHHHHHHHHHh----cCChHHHHHHHHHhhhCCCc
Q 040576          536 SELGKIVAQHLMELEPRDPGPYVLLSNIYAS----EGKWDEVENLRRIMKEKELE  586 (641)
Q Consensus       536 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~~~  586 (641)
                      +++|...|+++.+.+  ++..+..|+.+|.+    ..+.++|.+++++..+.|.+
T Consensus       198 ~~~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         198 FKEALARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             HHHHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             hhhhhhhHhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcCH
Confidence            999999999998875  56688899999886    44899999999999776643

>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=98.32  E-value=4.7e-06  Score=70.54  Aligned_cols=134  Identities=10%  Similarity=-0.039  Sum_probs=98.6

Q ss_pred             hHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHH
Q 040576          418 VSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDL  497 (641)
Q Consensus       418 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~  497 (641)
                      ..+...+..+.+.|++++|+..|.+....-.....              ..+.-......+        ...+|+.+..+
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~--------------~~~~~~~~~~~~--------~~~~~~nla~~   71 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESS--------------FSNEEAQKAQAL--------RLASHLNLAMC   71 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCC--------------CCSHHHHHHHHH--------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccc--------------cchHHHhhhchh--------HHHHHHHHHHH
Confidence            35566778899999999999999998864111000              000000111111        12356778889


Q ss_pred             HhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHH
Q 040576          498 LGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEV  573 (641)
Q Consensus       498 ~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  573 (641)
                      |.+.|++++|+..+++. ...| +...|..+..++...|++++|...|+++++++|+++.+...+..+..+.+...+.
T Consensus        72 y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~~~  149 (170)
T d1p5qa1          72 HLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAR  149 (170)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999886 3344 5778999999999999999999999999999999999999998887766655543

>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=98.22  E-value=3.7e-06  Score=63.12  Aligned_cols=84  Identities=14%  Similarity=0.035  Sum_probs=72.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-------CchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceE
Q 040576          520 PALWGALLSACSTHSNSELGKIVAQHLMELEPRD-------PGPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSS  592 (641)
Q Consensus       520 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  592 (641)
                      ...+-.++..+.+.|++++|+..+++++++.|.+       ..++..|+.+|.+.|++++|+..++++            
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~a------------   72 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKL------------   72 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHH------------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHH------------
Confidence            3445567888999999999999999999876554       346889999999999999999999999            


Q ss_pred             EEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHh
Q 040576          593 LVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKM  629 (641)
Q Consensus       593 ~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~  629 (641)
                                  .+++|++.+  +...|+.+.+.|.+
T Consensus        73 ------------L~l~P~~~~--a~~Nl~~~~~~l~k   95 (95)
T d1tjca_          73 ------------LELDPEHQR--ANGNLKYFEYIMAK   95 (95)
T ss_dssp             ------------HHHCTTCHH--HHHHHHHHHHHHHC
T ss_pred             ------------HHhCcCCHH--HHHHHHHHHHHhCc
Confidence                        788999999  99999988877753

>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=98.19  E-value=1.6e-05  Score=66.96  Aligned_cols=92  Identities=11%  Similarity=-0.057  Sum_probs=75.5

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 040576          489 EHYGCMVDLLGRAGLMRDSEELVSKL-P-MEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYAS  566 (641)
Q Consensus       489 ~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  566 (641)
                      ..|..+..+|.+.|++++|+..+++. . .+.+...|..+..++...|++++|...|+++++++|+++.+...+..+...
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~  144 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKK  144 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            35666888899999999999999987 2 335577899999999999999999999999999999999999999888776


Q ss_pred             cCChHH-HHHHHHHh
Q 040576          567 EGKWDE-VENLRRIM  580 (641)
Q Consensus       567 ~g~~~~-A~~~~~~m  580 (641)
                      .+...+ ..+++.+|
T Consensus       145 ~~~~~e~~kk~~~~~  159 (168)
T d1kt1a1         145 AKEHNERDRRTYANM  159 (168)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHH
Confidence            665543 45555555

>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=98.12  E-value=2.2e-06  Score=68.67  Aligned_cols=60  Identities=12%  Similarity=0.091  Sum_probs=56.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          522 LWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       522 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                      .+..++..+...|++++|+..|+++++++|+++..+..++.+|.+.|+|++|++.++++.
T Consensus         6 ~~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al   65 (128)
T d1elra_           6 KEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAI   65 (128)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHH
Confidence            456678889999999999999999999999999999999999999999999999999993

>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=98.09  E-value=0.0015  Score=59.02  Aligned_cols=94  Identities=11%  Similarity=-0.004  Sum_probs=67.6

Q ss_pred             chHHHHHHHHHHhcCChHHHHHHHHhcCC-CCcchHHHHHHHHHH----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 040576          285 VVSWNCMIDGYAKIGNVTSARNCFDRMCM-RNVVSWNILLALYVR----CKDYCECLRLFDRMIRGDAKPNEASLMSVLT  359 (641)
Q Consensus       285 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~  359 (641)
                      +..+..|...+.+.+++++|++.|++..+ .+...+..|...|..    ..+...|...+......+   +......+..
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~l~~   78 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGN   78 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhcccc
Confidence            45677788888899999999999999843 466677777777776    678899999999888765   2233333333


Q ss_pred             HHH----ccCCHHHHHHHHHHHHHcC
Q 040576          360 ACA----NMGVIDIGQWIHSYIQKCR  381 (641)
Q Consensus       360 ~~~----~~g~~~~a~~~~~~~~~~~  381 (641)
                      .+.    ...+.+.+...+....+.|
T Consensus        79 ~~~~~~~~~~~~~~a~~~~~~a~~~g  104 (265)
T d1ouva_          79 LYYSGQGVSQNTNKALQYYSKACDLK  104 (265)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             ccccccccchhhHHHHHHHhhhhhhh
Confidence            332    2457778888888777765

>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=98.08  E-value=1.5e-05  Score=67.24  Aligned_cols=85  Identities=5%  Similarity=-0.081  Sum_probs=71.8

Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 040576          488 VEHYGCMVDLLGRAGLMRDSEELVSKL-PMEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYA  565 (641)
Q Consensus       488 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  565 (641)
                      ...|..+..+|.+.|++++|+..++++ ...|+ ...|..+..++...|++++|+..|+++++++|+++.++..+..+..
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~  156 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQ  156 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            556778889999999999999999987 44444 6789999999999999999999999999999999988888887766


Q ss_pred             hcCChHH
Q 040576          566 SEGKWDE  572 (641)
Q Consensus       566 ~~g~~~~  572 (641)
                      +.....+
T Consensus       157 ~l~~~~~  163 (169)
T d1ihga1         157 KIKAQKD  163 (169)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5444433

>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=98.04  E-value=4.3e-05  Score=63.08  Aligned_cols=127  Identities=9%  Similarity=-0.112  Sum_probs=89.2

Q ss_pred             hHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHH
Q 040576          418 VSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDL  497 (641)
Q Consensus       418 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~  497 (641)
                      ..+...+..+.+.|++.+|+..|.+....-  |...           ... +..  .......     ....+|..+..+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~--~~~~-----------~~~-~~~--~~~~~~~-----~~~~~~~Nla~~   76 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFF--IHTE-----------EWD-DQI--LLDKKKN-----IEISCNLNLATC   76 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTCT-----------TCC-CHH--HHHHHHH-----HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cchh-----------hhh-hHH--HHHhhhh-----HHHHHHhhHHHH
Confidence            345566677778888888888888776531  1000           000 000  0000000     123467778899


Q ss_pred             HhhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 040576          498 LGRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYA  565 (641)
Q Consensus       498 ~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  565 (641)
                      |.+.|++++|++.++++ ...| +...|..++.++...|++++|...|+++++++|+++.+...+..+.-
T Consensus        77 ~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~  146 (153)
T d2fbna1          77 YNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVN  146 (153)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            99999999999999986 3334 57799999999999999999999999999999999888777766543

>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=98.00  E-value=0.0018  Score=60.20  Aligned_cols=173  Identities=12%  Similarity=0.097  Sum_probs=106.6

Q ss_pred             CChhHHHHHHHHHhhcCCChHHHHHhhhcCCCCCcccHHHHHHHHHcCCCchhHHHHHHHHHHhcCCCCCcchHHHHHHH
Q 040576           87 QDSFAASRVLKKLCTSLSSVSLSVLFFDGIQEPDAFMCNTIMKSFLMLNDPFGALSFYYEKMMAKFVEHNHYTFPLLGKV  166 (641)
Q Consensus        87 ~~~~~~~~ll~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~m~~~~~~~~~~~~~~ll~~  166 (641)
                      |+..-...+.. .|.+.|.++.|..++..+.     -|..++..+.+.+++..|.+.+. ..      -+..+|..+...
T Consensus        12 ~n~~d~~~i~~-~c~~~~lye~A~~lY~~~~-----d~~rl~~~~v~l~~~~~avd~~~-k~------~~~~~~k~~~~~   78 (336)
T d1b89a_          12 PNNAHIQQVGD-RCYDEKMYDAAKLLYNNVS-----NFGRLASTLVHLGEYQAAVDGAR-KA------NSTRTWKEVCFA   78 (336)
T ss_dssp             C-----------------CTTTHHHHHHHTT-----CHHHHHHHHHTTTCHHHHHHHHH-HH------TCHHHHHHHHHH
T ss_pred             CCcCCHHHHHH-HHHHCCCHHHHHHHHHhCC-----CHHHHHHHHHhhccHHHHHHHHH-Hc------CCHHHHHHHHHH
Confidence            34444444445 5678888999999987765     57888888999999999888876 22      255688888888


Q ss_pred             HhcCCCchhHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhcC---CCCCeeHHHHHHHHHHhCCChHHHH
Q 040576          167 CAGIRSLREGKKVHARIVKCGFELDLFVRNSLIHMYSVCGEVLDARKVFEDG---PVWDLVTWNSMIDGYVKNREVGFAR  243 (641)
Q Consensus       167 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~  243 (641)
                      |........+.     +...+...+......++..|-..|.+++...+++..   ...+...++.++..|++.+ .++..
T Consensus        79 l~~~~e~~la~-----i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~~-~~kl~  152 (336)
T d1b89a_          79 CVDGKEFRLAQ-----MCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFK-PQKMR  152 (336)
T ss_dssp             HHHTTCHHHHH-----HTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTC-HHHHH
T ss_pred             HHhCcHHHHHH-----HHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHhC-hHHHH
Confidence            88766554432     223334456666678899999999999999999863   2456667888888888865 44455


Q ss_pred             HHHhhCCCCCchhHHHHHHHHhcCCChHHHHHHHhhc
Q 040576          244 ELFDFMPERDIFTWNSMISGYVDVGDMEAANGLFDLM  280 (641)
Q Consensus       244 ~~~~~m~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~  280 (641)
                      +.++..  .+......++..|-+.+-++++.-++..+
T Consensus       153 e~l~~~--s~~y~~~k~~~~c~~~~l~~elv~Ly~~~  187 (336)
T d1b89a_         153 EHLELF--WSRVNIPKVLRAAEQAHLWAELVFLYDKY  187 (336)
T ss_dssp             HHHHHH--STTSCHHHHHHHHHTTTCHHHHHHHHHHT
T ss_pred             HHHHhc--cccCCHHHHHHHHHHcCChHHHHHHHHhc
Confidence            544443  22334445566666666666555444443

>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=98.00  E-value=0.0054  Score=56.80  Aligned_cols=232  Identities=12%  Similarity=0.095  Sum_probs=95.4

Q ss_pred             HHHHHHhcCCChHHHHHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHH
Q 040576          259 SMISGYVDVGDMEAANGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRL  338 (641)
Q Consensus       259 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  338 (641)
                      .+...|.+.|.++.|..+|..+.     -|..++..+.+.+++..|.+++.+.  .+..+|..+...+.+.....-|   
T Consensus        19 ~i~~~c~~~~lye~A~~lY~~~~-----d~~rl~~~~v~l~~~~~avd~~~k~--~~~~~~k~~~~~l~~~~e~~la---   88 (336)
T d1b89a_          19 QVGDRCYDEKMYDAAKLLYNNVS-----NFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKEFRLA---   88 (336)
T ss_dssp             ----------CTTTHHHHHHHTT-----CHHHHHHHHHTTTCHHHHHHHHHHH--TCHHHHHHHHHHHHHTTCHHHH---
T ss_pred             HHHHHHHHCCCHHHHHHHHHhCC-----CHHHHHHHHHhhccHHHHHHHHHHc--CCHHHHHHHHHHHHhCcHHHHH---
Confidence            33444444444444444444332     2333444444455555554444433  2333455555555554443322   


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCC-C--
Q 040576          339 FDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTE-K--  415 (641)
Q Consensus       339 ~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~--  415 (641)
                        .+...+...+......++..|...|.+++...+++...... ..+...++-++.+|++.+ .++-.+.+..... -  
T Consensus        89 --~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~-~~kl~e~l~~~s~~y~~  164 (336)
T d1b89a_          89 --QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK-PQKMREHLELFWSRVNI  164 (336)
T ss_dssp             --HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC-HHHHHHHHHHHSTTSCH
T ss_pred             --HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC-hHHHHHHHHhccccCCH
Confidence              11122233344444455555555555555555555544321 334445555555555543 2333333332211 0  


Q ss_pred             --------ChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc
Q 040576          416 --------NVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK  487 (641)
Q Consensus       416 --------~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~  487 (641)
                              ....|.-++-.|.+.|++++|..+.-   +.  .++..-....+..+.+.++.+...++......   ..|+
T Consensus       165 ~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i---~~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~---~~p~  236 (336)
T d1b89a_         165 PKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMM---NH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLE---FKPL  236 (336)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHH---HS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHH---HCGG
T ss_pred             HHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHH---Hc--chhhhhHHHHHHHHHccCChHHHHHHHHHHHH---cCHH
Confidence                    11123344444555555555544322   11  11221222334444555555544444444333   1232


Q ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHhC
Q 040576          488 VEHYGCMVDLLGRAGLMRDSEELVSKL  514 (641)
Q Consensus       488 ~~~~~~li~~~~~~g~~~~A~~~~~~~  514 (641)
                        ..+.++......-+..+.++.+++-
T Consensus       237 --~i~~lL~~v~~~~d~~r~V~~~~k~  261 (336)
T d1b89a_         237 --LLNDLLMVLSPRLDHTRAVNYFSKV  261 (336)
T ss_dssp             --GHHHHHHHHGGGCCHHHHHHHHHHT
T ss_pred             --HHHHHHHHhccCCCHHHHHHHHHhc
Confidence              2344455555555555555555443

>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=97.91  E-value=3.2e-05  Score=65.57  Aligned_cols=113  Identities=11%  Similarity=-0.063  Sum_probs=79.8

Q ss_pred             HHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 040576          458 VLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRDSEELVSKLPMEAGPALWGALLSACSTHSNSE  537 (641)
Q Consensus       458 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  537 (641)
                      ........|++++|.+.|......+   +....-     .+....-......-++.    .....+..+..++...|+++
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~---rG~~l~-----~~~~~~w~~~~r~~l~~----~~~~a~~~la~~~~~~g~~~   84 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREW---RGPVLD-----DLRDFQFVEPFATALVE----DKVLAHTAKAEAEIACGRAS   84 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTC---CSSTTG-----GGTTSTTHHHHHHHHHH----HHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhC---cccccc-----cCcchHHHHHHHHHHHH----HHHHHHHHHHHHHHHCCCch
Confidence            3456778889999999998887722   211000     00000000111111111    12346777888999999999


Q ss_pred             HHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 040576          538 LGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKE  582 (641)
Q Consensus       538 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  582 (641)
                      +|+..++++++.+|.+...|..++.+|.+.|++++|++.|+++..
T Consensus        85 ~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~  129 (179)
T d2ff4a2          85 AVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKT  129 (179)
T ss_dssp             HHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999844

>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=97.90  E-value=4.9e-05  Score=62.96  Aligned_cols=63  Identities=11%  Similarity=-0.073  Sum_probs=49.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-----------CchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 040576          521 ALWGALLSACSTHSNSELGKIVAQHLMELEPRD-----------PGPYVLLSNIYASEGKWDEVENLRRIMKEK  583 (641)
Q Consensus       521 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  583 (641)
                      ..|+.+..+|...|++++|...+++++++.|..           ...|+.++.+|...|++++|++.+++..+.
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            456777778888888888888888887654321           225788999999999999999999998543

>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=97.61  E-value=8.5e-05  Score=67.19  Aligned_cols=128  Identities=14%  Similarity=0.005  Sum_probs=91.2

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCc-hHHHHHHHHHHhhcCCHH
Q 040576          427 YGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPK-VEHYGCMVDLLGRAGLMR  505 (641)
Q Consensus       427 ~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~  505 (641)
                      ..+.|++++|+..+++..+..+. |...+..+...++..|++++|.+.++...+   ..|+ ...+..+..++...+..+
T Consensus         6 aL~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~---l~P~~~~~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIK---LFPEYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHhccccH
Confidence            34579999999999999987433 667888999999999999999999999987   4565 445555555555555555


Q ss_pred             HHHHHHHhC--CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHH
Q 040576          506 DSEELVSKL--PMEAGP-ALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYV  558 (641)
Q Consensus       506 ~A~~~~~~~--~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  558 (641)
                      ++..-....  ...|+. ..+......+...|+.++|...++++.+..|..+..+.
T Consensus        82 ~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~~  137 (264)
T d1zbpa1          82 DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLAN  137 (264)
T ss_dssp             HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEET
T ss_pred             HHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCcccc
Confidence            544433322  122322 23334445578889999999999999999998876654

>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=97.54  E-value=0.00019  Score=53.37  Aligned_cols=73  Identities=11%  Similarity=0.045  Sum_probs=54.1

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC----C----CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHH
Q 040576          491 YGCMVDLLGRAGLMRDSEELVSKL----P----MEAG-PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLS  561 (641)
Q Consensus       491 ~~~li~~~~~~g~~~~A~~~~~~~----~----~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  561 (641)
                      +-.++..+.+.|++++|+..|++.    +    ..++ ..++..+..++.+.|++++|+..++++++++|+++.++..+.
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl~   87 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNLK   87 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHHH
Confidence            334556666666666666666554    1    1223 457888999999999999999999999999999998888775


Q ss_pred             HH
Q 040576          562 NI  563 (641)
Q Consensus       562 ~~  563 (641)
                      ..
T Consensus        88 ~~   89 (95)
T d1tjca_          88 YF   89 (95)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=97.53  E-value=7.3e-05  Score=75.23  Aligned_cols=113  Identities=12%  Similarity=-0.025  Sum_probs=55.7

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcCCCCh-hHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHH
Q 040576          385 DVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNV-VSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTP-NDATFICVLSAC  462 (641)
Q Consensus       385 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~  462 (641)
                      +...+..+...+.+.|+.+.|...+.....++. .++..++..+...|++++|...|++..+.  .| +...|+.+...+
T Consensus       119 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~~~  196 (497)
T d1ya0a1         119 CRVKSSQLGIISNKQTHTSAIVKPQSSSCSYICQHCLVHLGDIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQLAILA  196 (497)
T ss_dssp             ------------------------CCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHHHHHH
T ss_pred             hHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHHHHHH
Confidence            344555666666677777777666655443322 35566667777777777777777777764  33 345677777777


Q ss_pred             HhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhc
Q 040576          463 THAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRA  501 (641)
Q Consensus       463 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~  501 (641)
                      ...|+..+|...|.+...  -.+|-..++..|...+.+.
T Consensus       197 ~~~~~~~~A~~~y~ral~--~~~~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         197 SSKGDHLTTIFYYCRSIA--VKFPFPAASTNLQKALSKA  233 (497)
T ss_dssp             HHTTCHHHHHHHHHHHHS--SSBCCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHh--CCCCCHHHHHHHHHHHHHh
Confidence            777777777777777765  2234456666666665443

>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=97.53  E-value=4.1e-05  Score=62.40  Aligned_cols=75  Identities=9%  Similarity=-0.045  Sum_probs=65.3

Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc----------CChHHHHHHHHHhhhCCCcccCceEEEEeeee
Q 040576          530 CSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASE----------GKWDEVENLRRIMKEKELEKAVGSSLVHPGEF  599 (641)
Q Consensus       530 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~----------g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~  599 (641)
                      |.+.+.+++|+..++++++++|+++.++..++.+|...          +.+++|+..++++                   
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kA-------------------   67 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEA-------------------   67 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHH-------------------
T ss_pred             HHHHccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHH-------------------
Confidence            45667799999999999999999999999999999854          4457888888888                   


Q ss_pred             ecccccccCCCCchhhHHHHHHHHHHHHHhh
Q 040576          600 ASESIVENCPPHRKCIVYSMLGEIGAQMKMC  630 (641)
Q Consensus       600 ~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~~  630 (641)
                           .+++|++.+  ++..||.++..+++.
T Consensus        68 -----l~l~P~~~~--a~~~lG~~y~~~g~~   91 (145)
T d1zu2a1          68 -----LLIDPKKDE--AVWCIGNAYTSFAFL   91 (145)
T ss_dssp             -----HHHCTTCHH--HHHHHHHHHHHHHHH
T ss_pred             -----HHhcchhhH--HHhhHHHHHHHcccc
Confidence                 789999999  999999999887654

>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=97.40  E-value=0.00092  Score=54.89  Aligned_cols=94  Identities=10%  Similarity=-0.074  Sum_probs=58.0

Q ss_pred             HHHhhccHHHHHHHHHHhHHhhCCCCc----------hHHHHHHHHHHhhcCCHHHHHHHHHhC--------CCCCC---
Q 040576          461 ACTHAGMVLEGWWYFDLMQRIYKIEPK----------VEHYGCMVDLLGRAGLMRDSEELVSKL--------PMEAG---  519 (641)
Q Consensus       461 ~~~~~g~~~~a~~~~~~~~~~~~~~p~----------~~~~~~li~~~~~~g~~~~A~~~~~~~--------~~~~~---  519 (641)
                      .+.+.|++++|++.|++......-.|+          ...|+.+..+|...|++++|++.+++.        ...++   
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~   97 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGK   97 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccc
Confidence            344455666666666655542222221          234566666677777777666665553        11222   


Q ss_pred             --HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 040576          520 --PALWGALLSACSTHSNSELGKIVAQHLMELEPRDP  554 (641)
Q Consensus       520 --~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~  554 (641)
                        ...+..+..+|...|++++|...|++++++.|...
T Consensus        98 ~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~~  134 (156)
T d2hr2a1          98 LWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERK  134 (156)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCC
T ss_pred             hhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHhh
Confidence              12456678889999999999999999998866443

>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=97.24  E-value=0.00024  Score=64.18  Aligned_cols=70  Identities=11%  Similarity=0.089  Sum_probs=42.1

Q ss_pred             hhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC
Q 040576          499 GRAGLMRDSEELVSKL-PMEA-GPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEG  568 (641)
Q Consensus       499 ~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  568 (641)
                      .+.|++++|++.+++. ...| +...+..+...++..|++++|...++.+.+++|++...+..++.++...+
T Consensus         7 L~~G~l~eAl~~l~~al~~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~   78 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQ   78 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            4556666666666655 2223 34556666666666666666666666666666666666666655554433

>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=97.21  E-value=0.0026  Score=53.29  Aligned_cols=122  Identities=8%  Similarity=0.037  Sum_probs=77.7

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChHHHH
Q 040576          358 LTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLARNVFDNMTEKNVVSWNSMIMGYGMHGQGEKAL  437 (641)
Q Consensus       358 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~  437 (641)
                      .......|++++|...|......-  ++..        +......+-+...-..+.......+..++.++...|++++|+
T Consensus        18 g~~~~~~g~~e~A~~~~~~AL~l~--rG~~--------l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al   87 (179)
T d2ff4a2          18 GVHAAAAGRFEQASRHLSAALREW--RGPV--------LDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVI   87 (179)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTC--CSST--------TGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhC--cccc--------cccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHH
Confidence            345667788888888877777641  1000        000000000011111111123356777888899999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHH----hhCCCCchHH
Q 040576          438 EMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQR----IYKIEPKVEH  490 (641)
Q Consensus       438 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~----~~~~~p~~~~  490 (641)
                      ..++++.+... -+...|..++.+|...|+..+|++.|+.+.+    ..|+.|...+
T Consensus        88 ~~~~~al~~~P-~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          88 AELEALTFEHP-YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHST-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            99999888642 2667888899999999999999998888744    3688888654

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.21  E-value=0.001  Score=50.75  Aligned_cols=87  Identities=8%  Similarity=0.020  Sum_probs=69.1

Q ss_pred             CCCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHhcCCCCC-chHHHHHHHHHhcCChHHHHHHHHHhhhCCCcccCceE
Q 040576          517 EAGPALWGALLSACSTH---SNSELGKIVAQHLMELEPRDP-GPYVLLSNIYASEGKWDEVENLRRIMKEKELEKAVGSS  592 (641)
Q Consensus       517 ~~~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~~p~~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  592 (641)
                      .+...+--...+++.++   .+.++|+.+++.+.+.+|.+. ..++.|+.+|.+.|++++|.+.++.+            
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~------------   99 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTL------------   99 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHH------------
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHH------------
Confidence            35555655666666655   456789999999998888664 68889999999999999999999998            


Q ss_pred             EEEeeeeecccccccCCCCchhhHHHHHHHHHHHHHh
Q 040576          593 LVHPGEFASESIVENCPPHRKCIVYSMLGEIGAQMKM  629 (641)
Q Consensus       593 ~~~~~~~~~~~~~~~~p~~~~~~~~~~l~~l~~~~~~  629 (641)
                                  .+.+|++..  +......+..++.+
T Consensus       100 ------------L~ieP~n~q--A~~L~~~Ie~~~~k  122 (124)
T d2pqrb1         100 ------------FEHERNNKQ--VGALKSMVEDKIQK  122 (124)
T ss_dssp             ------------HHHCTTCHH--HHHHHHHHHHHHHH
T ss_pred             ------------HccCCCcHH--HHHHHHHHHHHHhc
Confidence                        788999999  87777777766653

>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=96.52  E-value=0.095  Score=39.09  Aligned_cols=141  Identities=8%  Similarity=0.064  Sum_probs=103.0

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHH
Q 040576          427 YGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRD  506 (641)
Q Consensus       427 ~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  506 (641)
                      +.-.|..++..++..+....   .+..-|+.++--....-+-+...++++.+-+.+.+.              .++++..
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls--------------~C~Nlk~   74 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLD--------------KCQNLKS   74 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGG--------------GCSCTHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCch--------------hhhcHHH
Confidence            45578888888888888763   255667777776667777777777777775533332              3444444


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCc
Q 040576          507 SEELVSKLPMEAGPALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMKEKELE  586 (641)
Q Consensus       507 A~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  586 (641)
                      ....+-.+.  .+...+...+.....+|.-++-..+++.+++-+..+|+....++.+|-+-|...++-+++.++-++|++
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
Confidence            444444443  344455666777888999999999999988877778889999999999999999999999999999876

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.86  E-value=0.05  Score=42.45  Aligned_cols=82  Identities=7%  Similarity=-0.172  Sum_probs=48.3

Q ss_pred             CCHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHh----cCChHHH
Q 040576          502 GLMRDSEELVSKLPMEAGPALWGALLSACST----HSNSELGKIVAQHLMELEPRDPGPYVLLSNIYAS----EGKWDEV  573 (641)
Q Consensus       502 g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A  573 (641)
                      .+.++|++++++.....++.....|...|..    ..|.++|...|+++.+.+  ++.....|+.+|..    ..+.++|
T Consensus        37 ~~~~~a~~~~~~aa~~g~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g--~~~a~~~Lg~~y~~G~gv~~d~~~A  114 (133)
T d1klxa_          37 INKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN--DQDGCLILGYKQYAGKGVVKNEKQA  114 (133)
T ss_dssp             SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             cCHHHHHHHHhhhhcccchhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC--cchHHHHHHHHHHcCCccCCCHHHH
Confidence            3445555555544222334444444443332    346777777777776653  44567777777775    3577888


Q ss_pred             HHHHHHhhhCCC
Q 040576          574 ENLRRIMKEKEL  585 (641)
Q Consensus       574 ~~~~~~m~~~~~  585 (641)
                      .+++++..+.|.
T Consensus       115 ~~~~~~Aa~~G~  126 (133)
T d1klxa_         115 VKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             HHHHHHHHHCCC
Confidence            888888776664

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=95.83  E-value=0.86  Score=43.67  Aligned_cols=123  Identities=16%  Similarity=0.074  Sum_probs=68.5

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHH----HHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHH
Q 040576          431 GQGEKALEMFMEMEKRGPTPNDATFIC----VLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRD  506 (641)
Q Consensus       431 ~~~~~A~~~~~~m~~~g~~p~~~~~~~----ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  506 (641)
                      .+.+.|..++......... +..-...    +.......+..+.+..++..... .  ..+.......+....+.+++..
T Consensus       228 ~d~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~-~--~~~~~~~~w~~~~al~~~~~~~  303 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIM-R--SQSTSLIERRVRMALGTGDRRG  303 (450)
T ss_dssp             HCHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHH-T--CCCHHHHHHHHHHHHHHTCHHH
T ss_pred             cChhHHHHHHHhhhhcccc-cHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcc-c--ccchHHHHHHHHHHHHcCChHH
Confidence            4667777777776654222 2221211    22223344556667776666654 2  2333334444555566778888


Q ss_pred             HHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHH
Q 040576          507 SEELVSKLPMEAG--PALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLS  561 (641)
Q Consensus       507 A~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  561 (641)
                      +...++.++..+.  ....-=+..++...|+.+.|...|..+.. .+   ..|..|+
T Consensus       304 ~~~~~~~l~~~~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~-~~---~fYG~LA  356 (450)
T d1qsaa1         304 LNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ-QR---GFYPMVA  356 (450)
T ss_dssp             HHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT-SC---SHHHHHH
T ss_pred             HHHHHHhcCcccccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc-CC---ChHHHHH
Confidence            8888888753332  22223355667788888888888887764 22   2555554

>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=94.90  E-value=0.49  Score=35.20  Aligned_cols=141  Identities=9%  Similarity=-0.031  Sum_probs=84.8

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCHHHH
Q 040576          326 YVRCKDYCECLRLFDRMIRGDAKPNEASLMSVLTACANMGVIDIGQWIHSYIQKCRIKPDVLLSTSLLTMYAKCGVMDLA  405 (641)
Q Consensus       326 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  405 (641)
                      +.-.|..++..+++.+....   .+..-|+.++--....-+-+...+.++.+-+.   .|.          ..++++...
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FDl----------s~C~Nlk~v   75 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSV   75 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh---cCc----------hhhhcHHHH
Confidence            34456666666666666552   33444555554444444444444444333221   111          233444444


Q ss_pred             HHHHhhcCCCChhHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCC
Q 040576          406 RNVFDNMTEKNVVSWNSMIMGYGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIE  485 (641)
Q Consensus       406 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  485 (641)
                      ...+-.+. .+...+..-++.+.++|+-++-.++++.+.+.+ +|++.....+..+|.+.|...++.+++.++-+ .|++
T Consensus        76 v~C~~~~n-~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe-~G~K  152 (161)
T d1wy6a1          76 VECGVINN-TLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACK-KGEK  152 (161)
T ss_dssp             HHHHHHTT-CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-TTCH
T ss_pred             HHHHHHhc-chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH-HhHH
Confidence            44443332 233445666778888899888888888877754 77888888888999999999999999988887 5654

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=94.67  E-value=0.24  Score=38.27  Aligned_cols=113  Identities=9%  Similarity=-0.037  Sum_probs=72.9

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhh----cCCHHH
Q 040576          431 GQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGR----AGLMRD  506 (641)
Q Consensus       431 ~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~  506 (641)
                      .++++|+.+|++..+.|-. .  ....+.  .....+.++|.+++++..+ .|   ++.....|...|..    ..+.++
T Consensus         7 kd~~~A~~~~~kaa~~g~~-~--a~~~l~--~~~~~~~~~a~~~~~~aa~-~g---~~~a~~~Lg~~y~~g~~~~~d~~~   77 (133)
T d1klxa_           7 KDLKKAIQYYVKACELNEM-F--GCLSLV--SNSQINKQKLFQYLSKACE-LN---SGNGCRFLGDFYENGKYVKKDLRK   77 (133)
T ss_dssp             HHHHHHHHHHHHHHHTTCT-T--HHHHHH--TCTTSCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHHCCCh-h--hhhhhc--cccccCHHHHHHHHhhhhc-cc---chhhhhhHHHhhhhccccchhhHH
Confidence            3567888888888777622 2  222232  2344677888888888776 33   34445555555553    446788


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCC
Q 040576          507 SEELVSKLPMEAGPALWGALLSACST----HSNSELGKIVAQHLMELEPR  552 (641)
Q Consensus       507 A~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~p~  552 (641)
                      |.++|++.....++.....|...|..    ..|.++|...++++.+.+..
T Consensus        78 A~~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~~  127 (133)
T d1klxa_          78 AAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  127 (133)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCCH
Confidence            88888887434556666666666654    45788888888888776543

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.50  E-value=0.83  Score=34.18  Aligned_cols=64  Identities=13%  Similarity=0.019  Sum_probs=41.4

Q ss_pred             HHHHHHhhcC---CHHHHHHHHHhC-CCCC-CH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCch
Q 040576          493 CMVDLLGRAG---LMRDSEELVSKL-PMEA-GP-ALWGALLSACSTHSNSELGKIVAQHLMELEPRDPGP  556 (641)
Q Consensus       493 ~li~~~~~~g---~~~~A~~~~~~~-~~~~-~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  556 (641)
                      .+.-++++..   +.++++.++++. ...| +. ..+..|.-+|.+.|++++|...++++++++|++..+
T Consensus        40 ~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA  109 (124)
T d2pqrb1          40 NYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  109 (124)
T ss_dssp             HHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHH
Confidence            3344444433   445666666665 1223 22 355667777888888888888888888888888644

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=86.01  E-value=1.9  Score=30.24  Aligned_cols=63  Identities=11%  Similarity=0.131  Sum_probs=49.1

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHH
Q 040576          432 QGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVD  496 (641)
Q Consensus       432 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~  496 (641)
                      +.-++.+-++.+....+.|++....+.+.+|.+.+++..|.++|+.++.+.|  ++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~--~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CcHHHHHHHHH
Confidence            4455666677777778899999999999999999999999999999987544  34456666553

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=85.93  E-value=14  Score=34.57  Aligned_cols=349  Identities=9%  Similarity=-0.035  Sum_probs=189.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCCCCeeHHHHHHHHHHhCCChHHHHHHHhhC---CCCCchhHHHHHHHHhcCCChHHH
Q 040576          197 SLIHMYSVCGEVLDARKVFEDGPVWDLVTWNSMIDGYVKNREVGFARELFDFM---PERDIFTWNSMISGYVDVGDMEAA  273 (641)
Q Consensus       197 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~~~~~~~~ll~~~~~~g~~~~a  273 (641)
                      ..+..+.+.+++......+... +.+...-.....+..+.|+.++|...+...   -.........+...+.+.|.+.  
T Consensus        77 ~~l~~L~~~~~w~~~~~~~~~~-p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~p~~c~~l~~~~~~~~~lt--  153 (450)
T d1qsaa1          77 RFVNELARREDWRGLLAFSPEK-PGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPNACDKLFSVWRASGKQD--  153 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHCCSC-CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCTHHHHHHHHHHHTTCSC--
T ss_pred             HHHHHHHhccCHHHHHHhccCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCCCC--
Confidence            3455566677777666655432 234444445566677777777777766655   1122223333444333333322  


Q ss_pred             HHHHhhcCCCCchHHHHHHHHHHhcCChHHHHHHHHhcCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHH
Q 040576          274 NGLFDLMPFRDVVSWNCMIDGYAKIGNVTSARNCFDRMCMRNVVSWNILLALYVRCKDYCECLRLFDRMIRGDAKPNEAS  353 (641)
Q Consensus       274 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  353 (641)
                                 ...+-.-+......|+...|..+...+...........+.....   ...+......     ..++...
T Consensus       154 -----------~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~---p~~~~~~~~~-----~~~~~~~  214 (450)
T d1qsaa1         154 -----------PLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANN---PNTVLTFART-----TGATDFT  214 (450)
T ss_dssp             -----------HHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHC---GGGHHHHHHH-----SCCCHHH
T ss_pred             -----------HHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhC---hHhHHHHHhc-----CCCChhh
Confidence                       22233344555566777777777777655444444444444322   2222222111     1223333


Q ss_pred             HHHHHHHHHc--cCCHHHHHHHHHHHHHcCCCCchhHH---HHHHHHHHhcCCHHHHHHHHhhcCC--CChhHHHHHHHH
Q 040576          354 LMSVLTACAN--MGVIDIGQWIHSYIQKCRIKPDVLLS---TSLLTMYAKCGVMDLARNVFDNMTE--KNVVSWNSMIMG  426 (641)
Q Consensus       354 ~~~ll~~~~~--~g~~~~a~~~~~~~~~~~~~~~~~~~---~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~  426 (641)
                      ...+..++.+  ..+.+.+..++...............   ..+...+...+..+.+...+.....  .+.....-.+..
T Consensus       215 ~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~~~~  294 (450)
T d1qsaa1         215 RQMAAVAFASVARQDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIERRVRM  294 (450)
T ss_dssp             HHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHhccChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHHHHHHHHH
Confidence            3333333332  24667777777666554322221111   1122222334556666666654432  333333334555


Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHHhHHhhCCCCchHHHHHHHHHHhhcCCHHH
Q 040576          427 YGMHGQGEKALEMFMEMEKRGPTPNDATFICVLSACTHAGMVLEGWWYFDLMQRIYKIEPKVEHYGCMVDLLGRAGLMRD  506 (641)
Q Consensus       427 ~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  506 (641)
                      ....+++..+...+..|... ..-...-...+..++...|+.+.|..+|..+..    .++  .|..|...  +.|..- 
T Consensus       295 al~~~~~~~~~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~----~~~--fYG~LAa~--~Lg~~~-  364 (450)
T d1qsaa1         295 ALGTGDRRGLNTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQ----QRG--FYPMVAAQ--RIGEEY-  364 (450)
T ss_dssp             HHHHTCHHHHHHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT----SCS--HHHHHHHH--HTTCCC-
T ss_pred             HHHcCChHHHHHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc----CCC--hHHHHHHH--HcCCCC-
Confidence            56778999999999887543 222344556788899999999999999998865    233  45544322  222110 


Q ss_pred             HHHH-HHhCCCCCCHH-H---HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 040576          507 SEEL-VSKLPMEAGPA-L---WGALLSACSTHSNSELGKIVAQHLMELEPRDPGPYVLLSNIYASEGKWDEVENLRRIMK  581 (641)
Q Consensus       507 A~~~-~~~~~~~~~~~-~---~~~l~~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  581 (641)
                        .+ ....+..+... .   -...+..+...|....|...+..+.+..  ++.-...++....+.|.++.|+....+..
T Consensus       365 --~~~~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~--~~~~~~~la~lA~~~g~~~~aI~a~~~~~  440 (450)
T d1qsaa1         365 --ELKIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSK--SKTEQAQLARYAFNNQWWDLSVQATIAGK  440 (450)
T ss_dssp             --CCCCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHHHHHHHHTT
T ss_pred             --CCCcCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhCC--CHHHHHHHHHHHHHCCChhHHHHHHHHHH
Confidence              00 00111111111 1   1123445778899999999998887643  34567788999999999999999888764