Citrus Sinensis ID: 005481

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690----
Protein Sequence
MNRVSFSLVSERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQEESKEESLRVHSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDATRFHRFEGGVCSCGDYW
Secondary Structure (PSIPRED)
ccccccccccccccHHHHHHHHHcccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHcccccccccHHHHHHHHHHcccccHHHHHHHHHHHHcccccccccHHHHHHHHccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHccccHHHHHHHHcccccccEEEHHHHHHHHHHcccccHHHHHHHHHHHccccccccHHHHHHHHHccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHcccHHHHHHHHccccccccEEHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccEEHHHHHHHHccccHHHHHHHHcccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHcccccHHHHHHHHHHHcccccccccccccHHHHHHHHHccccHHHHHHHHHHccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHccccccccHHHHHHHHHHHccccHHHHHHHHHHHHccccccccEEEEEEccEEEEEEccccccccHHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHcccHHHHHHHHcccccccccccccEEEEcccccccHHHHHHHHHHHHcccEEEEcccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHcHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEEEEccEEEEEEEcccccccHHHHHHHHHHHHHHHHHHccccccccEEEccccHHHHHHHHHHHHHHHHHHHHHHHccccccccccEEEEEccEEcccHHHHHHHHHHHcccEEEEEccccccccccccEcccccc
Coil and Loop (DISEMBL)
MNRVSFSLVSERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCqmgsssvkpneftlstnikasgvlssvENGMQIHGMCmksgfewnpvvGNSIIDMYSKCGRINEAArmfdvmpakslITWNAMIAGYVLAGYSDKGLLLFRKMQehgeipdeftftstlkacgslgsvgggtqihgflitsgfpysvkTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAakvpsgldtsvsNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCndkrmkprieHYSCIVDSlgragrldEAKNLiesmpvkpsIAIWQTLLSACRVHGDLELGREVGEILLRldgdnpvnYVMMSNihadagswnECERLRKLARSkglkkvagrsWVEVDKEIhffyggddthplTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQEESKEESLRVHSEKLAIGLALVrgglneqpgkVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDAtrfhrfeggvcscgdyw
Flexible Loop (DISEMBL)
mnrvsfslvserQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAakvpsgldtsVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLArskglkkvagrswvevDKEIHFfyggddthplTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQEESKEESLRVHSEKLAIGLAlvrgglneqpGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDATrfhrfeggvcscgdyw
Low Complexity Region (SEG)
MNRVSFSLVSERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLmemekrmkeeLGFVYGVKYALHDIQEESKEESLRVHSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDATRFHRFEGGVCSCGDYW
Disordered region (IsUnstruct)
**************LADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQ*********VHSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDATRFHRFEGGVCSCGDY*
Disordered Region (DISOPRED)
*****FSLVSERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQEESKEESLRVHSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDATRFHRFEGGVCSCGDYW
Disordered Region (DISEMBL)
************QRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLAR*********RSWVEVDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQE*********HSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDATRFHRFEGGVCSCGDYW
Disordered Region (DISPRO)
MN***FSLVSERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQEESKEESLRVHSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDATRFHRFEGGVCSCGDYW
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MNRVSFSLVSERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQEESKEESLRVHSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDATRFHRFEGGVCSCGDYW
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	694	2.2.26 [Sep-21-2011]
P0C898	689	Putative pentatricopeptid	yes	no	0.985	0.992	0.618	0.0
Q9SN39	871	Pentatricopeptide repeat-	no	no	0.946	0.754	0.380	1e-138
Q9SVP7	1064	Pentatricopeptide repeat-	no	no	0.978	0.638	0.372	1e-138
Q9SMZ2	990	Pentatricopeptide repeat-	no	no	0.945	0.662	0.385	1e-137
Q9LFL5	850	Pentatricopeptide repeat-	no	no	0.984	0.803	0.360	1e-134
Q3E6Q1	809	Pentatricopeptide repeat-	no	no	0.962	0.825	0.368	1e-134
Q9FIB2	995	Putative pentatricopeptid	no	no	0.952	0.664	0.368	1e-131
Q9M1V3	960	Pentatricopeptide repeat-	no	no	0.968	0.7	0.369	1e-130
Q5G1T1	850	Pentatricopeptide repeat-	no	no	0.956	0.781	0.365	1e-128
Q9S7F4	825	Putative pentatricopeptid	no	no	0.940	0.791	0.362	1e-128

>sp|P0C898|PP232_ARATH Putative pentatricopeptide repeat-containing protein At3g15130 OS=Arabidopsis thaliana GN=PCMP-H86 PE=3 SV=1

 Score =  879 bits (2270), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 425/687 (61%), Positives = 525/687 (76%), Gaps = 3/687 (0%)

Query: 10  SERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAV 69
           ++RQ L   LR C++  L D G Q+H  L+K G   +L+ +N LIDMY KC E   A  V
Sbjct: 4   NQRQNLVSILRVCTRKGLSDQGGQVHCYLLKSGSGLNLITSNYLIDMYCKCREPLMAYKV 63

Query: 70  FDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSV 129
           FD M ERNVVSW+ALM G + NG+ K  LSLF +MG   + PNEFT STN+KA G+L+++
Sbjct: 64  FDSMPERNVVSWSALMSGHVLNGDLKGSLSLFSEMGRQGIYPNEFTFSTNLKACGLLNAL 123

Query: 130 ENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGY 189
           E G+QIHG C+K GFE    VGNS++DMYSKCGRINEA ++F  +  +SLI+WNAMIAG+
Sbjct: 124 EKGLQIHGFCLKIGFEMMVEVGNSLVDMYSKCGRINEAEKVFRRIVDRSLISWNAMIAGF 183

Query: 190 VLAGYSDKGLLLFRKMQEHG--EIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPY 247
           V AGY  K L  F  MQE    E PDEFT TS LKAC S G +  G QIHGFL+ SGF  
Sbjct: 184 VHAGYGSKALDTFGMMQEANIKERPDEFTLTSLLKACSSTGMIYAGKQIHGFLVRSGFHC 243

Query: 248 SVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQ 307
                I GSLVD YVKCG L  AR+ FD I++K++ISWSSLILGYAQE    EAM LF++
Sbjct: 244 PSSATITGSLVDLYVKCGYLFSARKAFDQIKEKTMISWSSLILGYAQEGEFVEAMGLFKR 303

Query: 308 LRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGL 367
           L+E + Q+D F LSS++GVFADFAL+ QGKQ+ A A K+PSGL+TSV NS+VDMYLKCGL
Sbjct: 304 LQELNSQIDSFALSSIIGVFADFALLRQGKQMQALAVKLPSGLETSVLNSVVDMYLKCGL 363

Query: 368 IDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSA 427
           +DEA + F EM +K+V++WTV+ITGYGKHGL K++V +F +ML  ++EPD V YLAVLSA
Sbjct: 364 VDEAEKCFAEMQLKDVISWTVVITGYGKHGLGKKSVRIFYEMLRHNIEPDEVCYLAVLSA 423

Query: 428 CSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIA 487
           CSHSG+++E +E FS+L     +KPR+EHY+C+VD LGRAGRL EAK+LI++MP+KP++ 
Sbjct: 424 CSHSGMIKEGEELFSKLLETHGIKPRVEHYACVVDLLGRAGRLKEAKHLIDTMPIKPNVG 483

Query: 488 IWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLAR 547
           IWQTLLS CRVHGD+ELG+EVG+ILLR+D  NP NYVMMSN++  AG WNE    R+L  
Sbjct: 484 IWQTLLSLCRVHGDIELGKEVGKILLRIDAKNPANYVMMSNLYGQAGYWNEQGNARELGN 543

Query: 548 SKGLKKVAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYAL 607
            KGLKK AG SWVE+++E+HFF  G+D+HPLT  I + L E E+R++EELG+VYG+K+ L
Sbjct: 544 IKGLKKEAGMSWVEIEREVHFFRSGEDSHPLTPVIQETLKEAERRLREELGYVYGLKHEL 603

Query: 608 HDIQEESKEESLRVHSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKI 667
           HDI +ESKEE+LR HSEKLAIGLAL  GGLN Q GK IRVFKNLRVC DCHEFIKGLSKI
Sbjct: 604 HDIDDESKEENLRAHSEKLAIGLALATGGLN-QKGKTIRVFKNLRVCVDCHEFIKGLSKI 662

Query: 668 LKLVFVVRDATRFHRFEGGVCSCGDYW 694
            K+ +VVRDA RFH FE G CSCGDYW
Sbjct: 663 TKIAYVVRDAVRFHSFEDGCCSCGDYW 689

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SN39|PP320_ARATH Pentatricopeptide repeat-containing protein At4g18750, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H45 PE=2 SV=1

 Score =  493 bits (1269), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 253/665 (38%), Positives = 401/665 (60%), Gaps = 8/665 (1%)

Query: 31  GVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQ 90
           G QLHG ++K GF     + N L+  Y K   ++ A  VFD+M ER+V+SW +++ G++ 
Sbjct: 214 GEQLHGFILKSGFGERNSVGNSLVAFYLKNQRVDSARKVFDEMTERDVISWNSIINGYVS 273

Query: 91  NGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVV 150
           NG A+  LS+F QM  S ++ +  T+ +          +  G  +H + +K+ F      
Sbjct: 274 NGLAEKGLSVFVQMLVSGIEIDLATIVSVFAGCADSRLISLGRAVHSIGVKACFSREDRF 333

Query: 151 GNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGE 210
            N+++DMYSKCG ++ A  +F  M  +S++++ +MIAGY   G + + + LF +M+E G 
Sbjct: 334 CNTLLDMYSKCGDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEMEEEGI 393

Query: 211 IPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEA 270
            PD +T T+ L  C     +  G ++H ++  +   + +   ++ +L+D Y KCG + EA
Sbjct: 394 SPDVYTVTAVLNCCARYRLLDEGKRVHEWIKENDLGFDI--FVSNALMDMYAKCGSMQEA 451

Query: 271 RRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQL-RERSLQVDGFVLSSMMGVFAD 329
             VF  +  K +ISW+++I GY++     EA+ LF  L  E+    D   ++ ++   A 
Sbjct: 452 ELVFSEMRVKDIISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPACAS 511

Query: 330 FALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVI 389
            +  ++G++IH Y  +     D  V+NS+VDMY KCG +  A  LF+++  K++V+WTV+
Sbjct: 512 LSAFDKGREIHGYIMRNGYFSDRHVANSLVDMYAKCGALLLAHMLFDDIASKDLVSWTVM 571

Query: 390 ITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKR 449
           I GYG HG  KEA+ LF +M    +E D ++++++L ACSHSGLV+E   +F+ + ++ +
Sbjct: 572 IAGYGMHGFGKEAIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGWRFFNIMRHECK 631

Query: 450 MKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVG 509
           ++P +EHY+CIVD L R G L +A   IE+MP+ P   IW  LL  CR+H D++L  +V 
Sbjct: 632 IEPTVEHYACIVDMLARTGDLIKAYRFIENMPIPPDATIWGALLCGCRIHHDVKLAEKVA 691

Query: 510 EILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSWVEVDKEIHFF 569
           E +  L+ +N   YV+M+NI+A+A  W + +RLRK    +GL+K  G SW+E+   ++ F
Sbjct: 692 EKVFELEPENTGYYVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIEIKGRVNIF 751

Query: 570 YGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQEESKEESLRVHSEKLAIG 629
             GD ++P TE I   L ++  RM EE G+    KYAL D +E  KEE+L  HSEKLA+ 
Sbjct: 752 VAGDSSNPETENIEAFLRKVRARMIEE-GYSPLTKYALIDAEEMEKEEALCGHSEKLAMA 810

Query: 630 LALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDATRFHRFEGGVCS 689
           L ++  G     GK+IRV KNLRVCGDCHE  K +SK+ +   V+RD+ RFH+F+ G CS
Sbjct: 811 LGIISSG----HGKIIRVTKNLRVCGDCHEMAKFMSKLTRREIVLRDSNRFHQFKDGHCS 866

Query: 690 CGDYW 694
           C  +W
Sbjct: 867 CRGFW 871

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SVP7|PP307_ARATH Pentatricopeptide repeat-containing protein At4g13650 OS=Arabidopsis thaliana GN=PCMP-H42 PE=2 SV=2

 Score =  491 bits (1264), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 256/688 (37%), Positives = 384/688 (55%), Gaps = 9/688 (1%)

Query: 8    LVSERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGAC 67
            L  +   LA  +  CS +  L  G QLH    K+GF+ +  +   L+++YAKC ++  A 
Sbjct: 385  LEPDSNTLASLVVACSADGTLFRGQQLHAYTTKLGFASNNKIEGALLNLYAKCADIETAL 444

Query: 68   AVFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLS 127
              F +    NVV W  ++  +    + +    +F QM    + PN++T  + +K    L 
Sbjct: 445  DYFLETEVENVVLWNVMLVAYGLLDDLRNSFRIFRQMQIEEIVPNQYTYPSILKTCIRLG 504

Query: 128  SVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIA 187
             +E G QIH   +K+ F+ N  V + +IDMY+K G+++ A  +      K +++W  MIA
Sbjct: 505  DLELGEQIHSQIIKTNFQLNAYVCSVLIDMYAKLGKLDTAWDILIRFAGKDVVSWTTMIA 564

Query: 188  GYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPY 247
            GY    + DK L  FR+M + G   DE   T+ + AC  L ++  G QIH     SGF  
Sbjct: 565  GYTQYNFDDKALTTFRQMLDRGIRSDEVGLTNAVSACAGLQALKEGQQIHAQACVSGF-- 622

Query: 248  SVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQ 307
            S       +LV  Y +CG + E+   F+  E    I+W++L+ G+ Q  N  EA+ +F +
Sbjct: 623  SSDLPFQNALVTLYSRCGKIEESYLAFEQTEAGDNIAWNALVSGFQQSGNNEEALRVFVR 682

Query: 308  LRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGL 367
            +    +  + F   S +   ++ A ++QGKQ+HA   K     +T V N+++ MY KCG 
Sbjct: 683  MNREGIDNNNFTFGSAVKAASETANMKQGKQVHAVITKTGYDSETEVCNALISMYAKCGS 742

Query: 368  IDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSA 427
            I +A + F E+  KN V+W  II  Y KHG   EA+  F +M+  +V P+ V  + VLSA
Sbjct: 743  ISDAEKQFLEVSTKNEVSWNAIINAYSKHGFGSEALDSFDQMIHSNVRPNHVTLVGVLSA 802

Query: 428  CSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIA 487
            CSH GLV++   YF  + ++  + P+ EHY C+VD L RAG L  AK  I+ MP+KP   
Sbjct: 803  CSHIGLVDKGIAYFESMNSEYGLSPKPEHYVCVVDMLTRAGLLSRAKEFIQEMPIKPDAL 862

Query: 488  IWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLAR 547
            +W+TLLSAC VH ++E+G      LL L+ ++   YV++SN++A +  W+  +  R+  +
Sbjct: 863  VWRTLLSACVVHKNMEIGEFAAHHLLELEPEDSATYVLLSNLYAVSKKWDARDLTRQKMK 922

Query: 548  SKGLKKVAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYAL 607
             KG+KK  G+SW+EV   IH FY GD  HPL ++IH+   ++ KR   E+G+V      L
Sbjct: 923  EKGVKKEPGQSWIEVKNSIHSFYVGDQNHPLADEIHEYFQDLTKR-ASEIGYVQDCFSLL 981

Query: 608  HDIQEESKEESLRVHSEKLAIGLALVRGGLNEQPGKV-IRVFKNLRVCGDCHEFIKGLSK 666
            +++Q E K+  + +HSEKLAI       GL   P  V I V KNLRVC DCH +IK +SK
Sbjct: 982  NELQHEQKDPIIFIHSEKLAISF-----GLLSLPATVPINVMKNLRVCNDCHAWIKFVSK 1036

Query: 667  ILKLVFVVRDATRFHRFEGGVCSCGDYW 694
            +     +VRDA RFH FEGG CSC DYW
Sbjct: 1037 VSNREIIVRDAYRFHHFEGGACSCKDYW 1064

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SMZ2|PP347_ARATH Pentatricopeptide repeat-containing protein At4g33170 OS=Arabidopsis thaliana GN=PCMP-H53 PE=3 SV=1

 Score =  490 bits (1262), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 259/671 (38%), Positives = 397/671 (59%), Gaps = 15/671 (2%)

Query: 28  LDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCG 87
           L  G Q+H   +K+G    L ++N LI+MY K  +   A  VFD M ER+++SW +++ G
Sbjct: 331 LALGQQVHCMALKLGLDLMLTVSNSLINMYCKLRKFGFARTVFDNMSERDLISWNSVIAG 390

Query: 88  FLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGM----QIHGMCMKSG 143
             QNG     + LF Q+    +KP+++T+++ +KA+   SS+  G+    Q+H   +K  
Sbjct: 391 IAQNGLEVEAVCLFMQLLRCGLKPDQYTMTSVLKAA---SSLPEGLSLSKQVHVHAIKIN 447

Query: 144 FEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFR 203
              +  V  ++ID YS+   + EA  +F+      L+ WNAM+AGY  +    K L LF 
Sbjct: 448 NVSDSFVSTALIDAYSRNRCMKEAEILFERHNF-DLVAWNAMMAGYTQSHDGHKTLKLFA 506

Query: 204 KMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVK 263
            M + GE  D+FT  +  K CG L ++  G Q+H + I SG  Y +   ++  ++D YVK
Sbjct: 507 LMHKQGERSDDFTLATVFKTCGFLFAINQGKQVHAYAIKSG--YDLDLWVSSGILDMYVK 564

Query: 264 CGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSM 323
           CG +  A+  FD I     ++W+++I G  +      A  +F Q+R   +  D F ++++
Sbjct: 565 CGDMSAAQFAFDSIPVPDDVAWTTMISGCIENGEEERAFHVFSQMRLMGVLPDEFTIATL 624

Query: 324 MGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNV 383
               +    +EQG+QIHA A K+    D  V  S+VDMY KCG ID+A  LF  + + N+
Sbjct: 625 AKASSCLTALEQGRQIHANALKLNCTNDPFVGTSLVDMYAKCGSIDDAYCLFKRIEMMNI 684

Query: 384 VTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSR 443
             W  ++ G  +HG  KE + LF++M    ++PD V ++ VLSACSHSGLV E+ ++   
Sbjct: 685 TAWNAMLVGLAQHGEGKETLQLFKQMKSLGIKPDKVTFIGVLSACSHSGLVSEAYKHMRS 744

Query: 444 LCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLE 503
           +  D  +KP IEHYSC+ D+LGRAG + +A+NLIESM ++ S ++++TLL+ACRV GD E
Sbjct: 745 MHGDYGIKPEIEHYSCLADALGRAGLVKQAENLIESMSMEASASMYRTLLAACRVQGDTE 804

Query: 504 LGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSWVEVD 563
            G+ V   LL L+  +   YV++SN++A A  W+E +  R + +   +KK  G SW+EV 
Sbjct: 805 TGKRVATKLLELEPLDSSAYVLLSNMYAAASKWDEMKLARTMMKGHKVKKDPGFSWIEVK 864

Query: 564 KEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQEESKEESLRVHS 623
            +IH F   D ++  TE I++ + +M + +K+E G+V    + L D++EE KE +L  HS
Sbjct: 865 NKIHIFVVDDRSNRQTELIYRKVKDMIRDIKQE-GYVPETDFTLVDVEEEEKERALYYHS 923

Query: 624 EKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDATRFHRF 683
           EKLA+   L    L+  P   IRV KNLRVCGDCH  +K ++K+     V+RDA RFHRF
Sbjct: 924 EKLAVAFGL----LSTPPSTPIRVIKNLRVCGDCHNAMKYIAKVYNREIVLRDANRFHRF 979

Query: 684 EGGVCSCGDYW 694
           + G+CSCGDYW
Sbjct: 980 KDGICSCGDYW 990

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFL5|PP390_ARATH Pentatricopeptide repeat-containing protein At5g16860 OS=Arabidopsis thaliana GN=PCMP-H92 PE=2 SV=1

 Score =  481 bits (1237), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 266/738 (36%), Positives = 406/738 (55%), Gaps = 55/738 (7%)

Query: 5   SFSLVSERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMN 64
           S S   +        + C +   +  G   H   +  GF  ++ + N L+ MY++C  ++
Sbjct: 120 SLSWTPDNYTFPFVFKACGEISSVRCGESAHALSLVTGFISNVFVGNALVAMYSRCRSLS 179

Query: 65  GACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSS-SVKPNEFTLSTNIKAS 123
            A  VFD+M   +VVSW +++  + + G  K  L +F +M +    +P+  TL   +   
Sbjct: 180 DARKVFDEMSVWDVVSWNSIIESYAKLGKPKVALEMFSRMTNEFGCRPDNITLVNVLPPC 239

Query: 124 GVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWN 183
             L +   G Q+H   + S    N  VGN ++DMY+KCG ++EA  +F  M  K +++WN
Sbjct: 240 ASLGTHSLGKQLHCFAVTSEMIQNMFVGNCLVDMYAKCGMMDEANTVFSNMSVKDVVSWN 299

Query: 184 AMIAGYVLAGYSDKGLLLFRKMQEH----------------------------------- 208
           AM+AGY   G  +  + LF KMQE                                    
Sbjct: 300 AMVAGYSQIGRFEDAVRLFEKMQEEKIKMDVVTWSAAISGYAQRGLGYEALGVCRQMLSS 359

Query: 209 GEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVK-------TVIAGSLVDFY 261
           G  P+E T  S L  C S+G++  G +IH + I   +P  ++        ++   L+D Y
Sbjct: 360 GIKPNEVTLISVLSGCASVGALMHGKEIHCYAIK--YPIDLRKNGHGDENMVINQLIDMY 417

Query: 262 VKCGCLVEARRVFDLI--EQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQV--DG 317
            KC  +  AR +FD +  +++ V++W+ +I GY+Q  +  +A+EL  ++ E   Q   + 
Sbjct: 418 AKCKKVDTARAMFDSLSPKERDVVTWTVMIGGYSQHGDANKALELLSEMFEEDCQTRPNA 477

Query: 318 FVLSSMMGVFADFALVEQGKQIHAYAAK-VPSGLDTSVSNSIVDMYLKCGLIDEATELFN 376
           F +S  +   A  A +  GKQIHAYA +   + +   VSN ++DMY KCG I +A  +F+
Sbjct: 478 FTISCALVACASLAALRIGKQIHAYALRNQQNAVPLFVSNCLIDMYAKCGSISDARLVFD 537

Query: 377 EMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEE 436
            M  KN VTWT ++TGYG HG  +EA+G+F +M     + DGV  L VL ACSHSG++++
Sbjct: 538 NMMAKNEVTWTSLMTGYGMHGYGEEALGIFDEMRRIGFKLDGVTLLVVLYACSHSGMIDQ 597

Query: 437 SQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSAC 496
             EYF+R+     + P  EHY+C+VD LGRAGRL+ A  LIE MP++P   +W   LS C
Sbjct: 598 GMEYFNRMKTVFGVSPGPEHYACLVDLLGRAGRLNAALRLIEEMPMEPPPVVWVAFLSCC 657

Query: 497 RVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAG 556
           R+HG +ELG    E +  L  ++  +Y ++SN++A+AG W +  R+R L R KG+KK  G
Sbjct: 658 RIHGKVELGEYAAEKITELASNHDGSYTLLSNLYANAGRWKDVTRIRSLMRHKGVKKRPG 717

Query: 557 RSWVEVDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQEESKE 616
            SWVE  K    F+ GD THP  ++I+QVL++  +R+K ++G+V    +ALHD+ +E K+
Sbjct: 718 CSWVEGIKGTTTFFVGDKTHPHAKEIYQVLLDHMQRIK-DIGYVPETGFALHDVDDEEKD 776

Query: 617 ESLRVHSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRD 676
           + L  HSEK    LAL  G L    G  IR+ KNLRVCGDCH     +S+I+    ++RD
Sbjct: 777 DLLFEHSEK----LALAYGILTTPQGAAIRITKNLRVCGDCHTAFTYMSRIIDHDIILRD 832

Query: 677 ATRFHRFEGGVCSCGDYW 694
           ++RFH F+ G CSC  YW
Sbjct: 833 SSRFHHFKNGSCSCKGYW 850

Arabidopsis thaliana (taxid: 3702)

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

 Score =  480 bits (1235), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 249/676 (36%), Positives = 388/676 (57%), Gaps = 8/676 (1%)

Query: 19  LRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNV 78
           L+ C     L  G ++HG LVK GFS DL     L +MYAKC ++N A  VFD+M ER++
Sbjct: 142 LKVCGDEAELRVGKEIHGLLVKSGFSLDLFAMTGLENMYAKCRQVNEARKVFDRMPERDL 201

Query: 79  VSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGM 138
           VSW  ++ G+ QNG A+  L +   M   ++KP+  T+ + + A   L  +  G +IHG 
Sbjct: 202 VSWNTIVAGYSQNGMARMALEMVKSMCEENLKPSFITIVSVLPAVSALRLISVGKEIHGY 261

Query: 139 CMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKG 198
            M+SGF+    +  +++DMY+KCG +  A ++FD M  +++++WN+MI  YV      + 
Sbjct: 262 AMRSGFDSLVNISTALVDMYAKCGSLETARQLFDGMLERNVVSWNSMIDAYVQNENPKEA 321

Query: 199 LLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLV 258
           +L+F+KM + G  P + +    L AC  LG +  G  IH   +  G   +V  V   SL+
Sbjct: 322 MLIFQKMLDEGVKPTDVSVMGALHACADLGDLERGRFIHKLSVELGLDRNVSVV--NSLI 379

Query: 259 DFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGF 318
             Y KC  +  A  +F  ++ ++++SW+++ILG+AQ     +A+  F Q+R R+++ D F
Sbjct: 380 SMYCKCKEVDTAASMFGKLQSRTLVSWNAMILGFAQNGRPIDALNYFSQMRSRTVKPDTF 439

Query: 319 VLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEM 378
              S++   A+ ++    K IH    +     +  V+ ++VDMY KCG I  A  +F+ M
Sbjct: 440 TYVSVITAIAELSITHHAKWIHGVVMRSCLDKNVFVTTALVDMYAKCGAIMIARLIFDMM 499

Query: 379 PVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQ 438
             ++V TW  +I GYG HG  K A+ LF +M    ++P+GV +L+V+SACSHSGLVE   
Sbjct: 500 SERHVTTWNAMIDGYGTHGFGKAALELFEEMQKGTIKPNGVTFLSVISACSHSGLVEAGL 559

Query: 439 EYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRV 498
           + F  +  +  ++  ++HY  +VD LGRAGRL+EA + I  MPVKP++ ++  +L AC++
Sbjct: 560 KCFYMMKENYSIELSMDHYGAMVDLLGRAGRLNEAWDFIMQMPVKPAVNVYGAMLGACQI 619

Query: 499 HGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRS 558
           H ++    +  E L  L+ D+   +V+++NI+  A  W +  ++R     +GL+K  G S
Sbjct: 620 HKNVNFAEKAAERLFELNPDDGGYHVLLANIYRAASMWEKVGQVRVSMLRQGLRKTPGCS 679

Query: 559 WVEVDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQEESKEES 618
            VE+  E+H F+ G   HP ++KI+  L ++   +KE  G+V      L  ++ + KE+ 
Sbjct: 680 MVEIKNEVHSFFSGSTAHPDSKKIYAFLEKLICHIKEA-GYVPDTNLVL-GVENDVKEQL 737

Query: 619 LRVHSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDAT 678
           L  HSEKLAI   L    LN   G  I V KNLRVC DCH   K +S +     VVRD  
Sbjct: 738 LSTHSEKLAISFGL----LNTTAGTTIHVRKNLRVCADCHNATKYISLVTGREIVVRDMQ 793

Query: 679 RFHRFEGGVCSCGDYW 694
           RFH F+ G CSCGDYW
Sbjct: 794 RFHHFKNGACSCGDYW 809

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FIB2|PP373_ARATH Putative pentatricopeptide repeat-containing protein At5g09950 OS=Arabidopsis thaliana GN=PCMP-H35 PE=3 SV=1

 Score =  468 bits (1204), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 248/673 (36%), Positives = 397/673 (58%), Gaps = 12/673 (1%)

Query: 28  LDYGVQLHGALVKMGF-SFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMC 86
           L  G ++HG ++  G   F + + N L++MYAKCG +  A  VF  M +++ VSW +++ 
Sbjct: 329 LKKGREVHGHVITTGLVDFMVGIGNGLVNMYAKCGSIADARRVFYFMTDKDSVSWNSMIT 388

Query: 87  GFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEW 146
           G  QNG     +  +  M    + P  FTL +++ +   L   + G QIHG  +K G + 
Sbjct: 389 GLDQNGCFIEAVERYKSMRRHDILPGSFTLISSLSSCASLKWAKLGQQIHGESLKLGIDL 448

Query: 147 NPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYS-DKGLLLFRKM 205
           N  V N+++ +Y++ G +NE  ++F  MP    ++WN++I     +  S  + ++ F   
Sbjct: 449 NVSVSNALMTLYAETGYLNECRKIFSSMPEHDQVSWNSIIGALARSERSLPEAVVCFLNA 508

Query: 206 QEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCG 265
           Q  G+  +  TF+S L A  SL     G QIHG  + +       T    +L+  Y KCG
Sbjct: 509 QRAGQKLNRITFSSVLSAVSSLSFGELGKQIHGLALKNNIADEATT--ENALIACYGKCG 566

Query: 266 CLVEARRVFD-LIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMM 324
            +    ++F  + E++  ++W+S+I GY   E LA+A++L   + +   ++D F+ ++++
Sbjct: 567 EMDGCEKIFSRMAERRDNVTWNSMISGYIHNELLAKALDLVWFMLQTGQRLDSFMYATVL 626

Query: 325 GVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVV 384
             FA  A +E+G ++HA + +     D  V +++VDMY KCG +D A   FN MPV+N  
Sbjct: 627 SAFASVATLERGMEVHACSVRACLESDVVVGSALVDMYSKCGRLDYALRFFNTMPVRNSY 686

Query: 385 TWTVIITGYGKHGLAKEAVGLFRKMLLD-DVEPDGVAYLAVLSACSHSGLVEESQEYFSR 443
           +W  +I+GY +HG  +EA+ LF  M LD    PD V ++ VLSACSH+GL+EE  ++F  
Sbjct: 687 SWNSMISGYARHGQGEEALKLFETMKLDGQTPPDHVTFVGVLSACSHAGLLEEGFKHFES 746

Query: 444 LCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSA-CRVHG-D 501
           + +   + PRIEH+SC+ D LGRAG LD+ ++ IE MP+KP++ IW+T+L A CR +G  
Sbjct: 747 MSDSYGLAPRIEHFSCMADVLGRAGELDKLEDFIEKMPMKPNVLIWRTVLGACCRANGRK 806

Query: 502 LELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSWVE 561
            ELG++  E+L +L+ +N VNYV++ N++A  G W +  + RK  +   +KK AG SWV 
Sbjct: 807 AELGKKAAEMLFQLEPENAVNYVLLGNMYAAGGRWEDLVKARKKMKDADVKKEAGYSWVT 866

Query: 562 VDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQEESKEESLRV 621
           +   +H F  GD +HP  + I++ L E+ ++M++  G+V    +AL+D+++E+KEE L  
Sbjct: 867 MKDGVHMFVAGDKSHPDADVIYKKLKELNRKMRDA-GYVPQTGFALYDLEQENKEEILSY 925

Query: 622 HSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDATRFH 681
           HSEKLA+   L     +  P   IR+ KNLRVCGDCH   K +SKI     ++RD+ RFH
Sbjct: 926 HSEKLAVAFVLAAQRSSTLP---IRIMKNLRVCGDCHSAFKYISKIEGRQIILRDSNRFH 982

Query: 682 RFEGGVCSCGDYW 694
            F+ G CSC D+W
Sbjct: 983 HFQDGACSCSDFW 995

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M1V3|PP296_ARATH Pentatricopeptide repeat-containing protein At3g63370 OS=Arabidopsis thaliana GN=PCMP-H83 PE=2 SV=2

 Score =  465 bits (1196), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 252/682 (36%), Positives = 400/682 (58%), Gaps = 10/682 (1%)

Query: 15  LADSLRCCSKNLLLDYGVQLHGALVKMG-FSFDLMLNNDLIDMYAKCGEMNGACAVFDKM 73
           +  +L  C        G ++H +++K    S +L + N LI MY +CG+M  A  +  +M
Sbjct: 287 IVSALTACDGFSYAKLGKEIHASVLKSSTHSSELYVCNALIAMYTRCGKMPQAERILRQM 346

Query: 74  LERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGM 133
              +VV+W +L+ G++QN   K  L  F  M ++  K +E ++++ I ASG LS++  GM
Sbjct: 347 NNADVVTWNSLIKGYVQNLMYKEALEFFSDMIAAGHKSDEVSMTSIIAASGRLSNLLAGM 406

Query: 134 QIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAG 193
           ++H   +K G++ N  VGN++IDMYSKC       R F  M  K LI+W  +IAGY    
Sbjct: 407 ELHAYVIKHGWDSNLQVGNTLIDMYSKCNLTCYMGRAFLRMHDKDLISWTTVIAGYAQND 466

Query: 194 YSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVI 253
              + L LFR + +     DE    S L+A   L S+    +IH  ++  G    + TVI
Sbjct: 467 CHVEALELFRDVAKKRMEIDEMILGSILRASSVLKSMLIVKEIHCHILRKGL---LDTVI 523

Query: 254 AGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSL 313
              LVD Y KC  +  A RVF+ I+ K V+SW+S+I   A   N +EA+ELFR++ E  L
Sbjct: 524 QNELVDVYGKCRNMGYATRVFESIKGKDVVSWTSMISSSALNGNESEAVELFRRMVETGL 583

Query: 314 QVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATE 373
             D   L  ++   A  + + +G++IH Y  +    L+ S++ ++VDMY  CG +  A  
Sbjct: 584 SADSVALLCILSAAASLSALNKGREIHCYLLRKGFCLEGSIAVAVVDMYACCGDLQSAKA 643

Query: 374 LFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGL 433
           +F+ +  K ++ +T +I  YG HG  K AV LF KM  ++V PD +++LA+L ACSH+GL
Sbjct: 644 VFDRIERKGLLQYTSMINAYGMHGCGKAAVELFDKMRHENVSPDHISFLALLYACSHAGL 703

Query: 434 VEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLL 493
           ++E + +   + ++  ++P  EHY C+VD LGRA  + EA   ++ M  +P+  +W  LL
Sbjct: 704 LDEGRGFLKIMEHEYELEPWPEHYVCLVDMLGRANCVVEAFEFVKMMKTEPTAEVWCALL 763

Query: 494 SACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKK 553
           +ACR H + E+G    + LL L+  NP N V++SN+ A+ G WN+ E++R   ++ G++K
Sbjct: 764 AACRSHSEKEIGEIAAQRLLELEPKNPGNLVLVSNVFAEQGRWNDVEKVRAKMKASGMEK 823

Query: 554 VAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQEE 613
             G SW+E+D ++H F   D +HP +++I++ L E+ ++++ E+G+V   K+ LH++ E 
Sbjct: 824 HPGCSWIEMDGKVHKFTARDKSHPESKEIYEKLSEVTRKLEREVGYVADTKFVLHNVDEG 883

Query: 614 SKEESLRVHSEKLAIGLALVRGGLNEQPGKV-IRVFKNLRVCGDCHEFIKGLSKILKLVF 672
            K + L  HSE++AI   L+R      P +  +R+ KNLRVC DCH F K +SK+ +   
Sbjct: 884 EKVQMLHGHSERIAIAYGLLR-----TPDRACLRITKNLRVCRDCHTFCKLVSKLFRRDI 938

Query: 673 VVRDATRFHRFEGGVCSCGDYW 694
           V+RDA RFH FE G+CSCGD W
Sbjct: 939 VMRDANRFHHFESGLCSCGDSW 960

Arabidopsis thaliana (taxid: 3702)

>sp|Q5G1T1|PP272_ARATH Pentatricopeptide repeat-containing protein At3g49170, chloroplastic OS=Arabidopsis thaliana GN=EMB2261 PE=2 SV=1

 Score =  461 bits (1185), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 252/690 (36%), Positives = 397/690 (57%), Gaps = 26/690 (3%)

Query: 19  LRCCSKNLLLDYGVQLHGALVKMG-FSFDLMLNNDLIDMYAKCGE--MNGACAVFDKMLE 75
           +R CS +  +  G    G L+K G F  D+ +   LIDM+ K GE     A  VFDKM E
Sbjct: 173 IRACSNSDFVGVGRVTLGFLMKTGHFESDVCVGCSLIDMFVK-GENSFENAYKVFDKMSE 231

Query: 76  RNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQI 135
            NVV+WT ++   +Q G  +  +  F  M  S  + ++FTLS+   A   L ++  G Q+
Sbjct: 232 LNVVTWTLMITRCMQMGFPREAIRFFLDMVLSGFESDKFTLSSVFSACAELENLSLGKQL 291

Query: 136 HGMCMKSGFEWNPVVGNSIIDMYSKC---GRINEAARMFDVMPAKSLITWNAMIAGYVL- 191
           H   ++SG   +  V  S++DMY+KC   G +++  ++FD M   S+++W A+I GY+  
Sbjct: 292 HSWAIRSGLVDD--VECSLVDMYAKCSADGSVDDCRKVFDRMEDHSVMSWTALITGYMKN 349

Query: 192 AGYSDKGLLLFRKMQEHGEI-PDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVK 250
              + + + LF +M   G + P+ FTF+S  KACG+L     G Q+ G     G   +  
Sbjct: 350 CNLATEAINLFSEMITQGHVEPNHFTFSSAFKACGNLSDPRVGKQVLGQAFKRGL--ASN 407

Query: 251 TVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRE 310
           + +A S++  +VK   + +A+R F+ + +K+++S+++ + G  +  N  +A +L  ++ E
Sbjct: 408 SSVANSVISMFVKSDRMEDAQRAFESLSEKNLVSYNTFLDGTCRNLNFEQAFKLLSEITE 467

Query: 311 RSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDE 370
           R L V  F  +S++   A+   + +G+QIH+   K+    +  V N+++ MY KCG ID 
Sbjct: 468 RELGVSAFTFASLLSGVANVGSIRKGEQIHSQVVKLGLSCNQPVCNALISMYSKCGSIDT 527

Query: 371 ATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSH 430
           A+ +FN M  +NV++WT +ITG+ KHG A   +  F +M+ + V+P+ V Y+A+LSACSH
Sbjct: 528 ASRVFNFMENRNVISWTSMITGFAKHGFAIRVLETFNQMIEEGVKPNEVTYVAILSACSH 587

Query: 431 SGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQ 490
            GLV E   +F+ +  D ++KP++EHY+C+VD L RAG L +A   I +MP +  + +W+
Sbjct: 588 VGLVSEGWRHFNSMYEDHKIKPKMEHYACMVDLLCRAGLLTDAFEFINTMPFQADVLVWR 647

Query: 491 TLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKG 550
           T L ACRVH + ELG+     +L LD + P  Y+ +SNI+A AG W E   +R+  + + 
Sbjct: 648 TFLGACRVHSNTELGKLAARKILELDPNEPAAYIQLSNIYACAGKWEESTEMRRKMKERN 707

Query: 551 LKKVAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKE--ELGFVYGVKYALH 608
           L K  G SW+EV  +IH FY GD  HP     HQ+  E+++ + E    G+V      LH
Sbjct: 708 LVKEGGCSWIEVGDKIHKFYVGDTAHP---NAHQIYDELDRLITEIKRCGYVPDTDLVLH 764

Query: 609 DIQEESKEES----LRVHSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGL 664
            ++EE+ E      L  HSEK+A+   L+    +    + +RVFKNLRVCGDCH  +K +
Sbjct: 765 KLEEENDEAEKERLLYQHSEKIAVAFGLI----STSKSRPVRVFKNLRVCGDCHNAMKYI 820

Query: 665 SKILKLVFVVRDATRFHRFEGGVCSCGDYW 694
           S +     V+RD  RFH F+ G CSC DYW
Sbjct: 821 STVSGREIVLRDLNRFHHFKDGKCSCNDYW 850

May play a role in embryogenesis.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9S7F4|PP206_ARATH Putative pentatricopeptide repeat-containing protein At2g01510 OS=Arabidopsis thaliana GN=PCMP-H36 PE=3 SV=1

 Score =  459 bits (1181), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 242/667 (36%), Positives = 379/667 (56%), Gaps = 14/667 (2%)

Query: 33  QLHGALVKMGFSFD--LMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQ 90
           Q+H   VK+GF  +  L ++N L+  Y +   ++ AC +F+++ E++ V++  L+ G+ +
Sbjct: 168 QVHAFAVKLGFDTNPFLTVSNVLLKSYCEVRRLDLACVLFEEIPEKDSVTFNTLITGYEK 227

Query: 91  NGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVV 150
           +G     + LF +M  S  +P++FT S  +KA   L     G Q+H + + +GF  +  V
Sbjct: 228 DGLYTESIHLFLKMRQSGHQPSDFTFSGVLKAVVGLHDFALGQQLHALSVTTGFSRDASV 287

Query: 151 GNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGE 210
           GN I+D YSK  R+ E   +FD MP    +++N +I+ Y  A   +  L  FR+MQ  G 
Sbjct: 288 GNQILDFYSKHDRVLETRMLFDEMPELDFVSYNVVISSYSQADQYEASLHFFREMQCMGF 347

Query: 211 IPDEFTFTSTLKACGSLGSVGGGTQIH--GFLITSGFPYSVKTVIAGSLVDFYVKCGCLV 268
               F F + L    +L S+  G Q+H    L T+     V      SLVD Y KC    
Sbjct: 348 DRRNFPFATMLSIAANLSSLQMGRQLHCQALLATADSILHV----GNSLVDMYAKCEMFE 403

Query: 269 EARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFA 328
           EA  +F  + Q++ +SW++LI GY Q+      ++LF ++R  +L+ D    ++++   A
Sbjct: 404 EAELIFKSLPQRTTVSWTALISGYVQKGLHGAGLKLFTKMRGSNLRADQSTFATVLKASA 463

Query: 329 DFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTV 388
            FA +  GKQ+HA+  +  +  +    + +VDMY KCG I +A ++F EMP +N V+W  
Sbjct: 464 SFASLLLGKQLHAFIIRSGNLENVFSGSGLVDMYAKCGSIKDAVQVFEEMPDRNAVSWNA 523

Query: 389 IITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDK 448
           +I+ +  +G  + A+G F KM+   ++PD V+ L VL+ACSH G VE+  EYF  +    
Sbjct: 524 LISAHADNGDGEAAIGAFAKMIESGLQPDSVSILGVLTACSHCGFVEQGTEYFQAMSPIY 583

Query: 449 RMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREV 508
            + P+ +HY+C++D LGR GR  EA+ L++ MP +P   +W ++L+ACR+H +  L    
Sbjct: 584 GITPKKKHYACMLDLLGRNGRFAEAEKLMDEMPFEPDEIMWSSVLNACRIHKNQSLAERA 643

Query: 509 GEILLRLDG-DNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSWVEVDKEIH 567
            E L  ++   +   YV MSNI+A AG W +   ++K  R +G+KKV   SWVEV+ +IH
Sbjct: 644 AEKLFSMEKLRDAAAYVSMSNIYAAAGEWEKVRDVKKAMRERGIKKVPAYSWVEVNHKIH 703

Query: 568 FFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQEESKEESLRVHSEKLA 627
            F   D THP  ++I + + E+   ++ E G+       + D+ E+ K ESL+ HSE+LA
Sbjct: 704 VFSSNDQTHPNGDEIVRKINELTAEIERE-GYKPDTSSVVQDVDEQMKIESLKYHSERLA 762

Query: 628 IGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDATRFHRFEGGV 687
           +  AL+    +   G  I V KNLR C DCH  IK +SKI+K    VRD +RFH F  GV
Sbjct: 763 VAFALI----STPEGCPIVVMKNLRACRDCHAAIKLISKIVKREITVRDTSRFHHFSEGV 818

Query: 688 CSCGDYW 694
           CSCGDYW
Sbjct: 819 CSCGDYW 825

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	694
225433177	685	PREDICTED: putative pentatricopeptide re	0.987	1.0	0.717	0.0
224092360	653	predicted protein [Populus trichocarpa]	0.940	1.0	0.730	0.0
15232500	689	pentatricopeptide repeat-containing prot	0.985	0.992	0.618	0.0
297834380	1134	hypothetical protein ARALYDRAFT_318289 [	0.938	0.574	0.634	0.0
11994503	1161	unnamed protein product [Arabidopsis tha	0.933	0.558	0.629	0.0
218195864	690	hypothetical protein OsI_18005 [Oryza sa	0.982	0.988	0.570	0.0
90399180	886	H0723C07.12 [Oryza sativa Indica Group]	0.992	0.777	0.563	0.0
115461454	690	Os04g0686500 [Oryza sativa Japonica Grou	0.982	0.988	0.570	0.0
357166812	707	PREDICTED: putative pentatricopeptide re	0.988	0.970	0.551	0.0
356509996	586	PREDICTED: putative pentatricopeptide re	0.815	0.965	0.636	0.0

>gi|225433177|ref|XP_002281549.1| PREDICTED: putative pentatricopeptide repeat-containing protein At3g15130 [Vitis vinifera] gi|296083673|emb|CBI23662.3| unnamed protein product [Vitis vinifera]

 Score = 1046 bits (2705), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 492/686 (71%), Positives = 584/686 (85%), Gaps = 1/686 (0%)

Query: 9   VSERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACA 68
           +SERQRLA  LR CSKN L D G+Q+H A V MGF FDL++NNDLIDMY KC  ++ AC+
Sbjct: 1   MSERQRLAKLLRNCSKNGLFDQGLQVHAAAVNMGFGFDLIMNNDLIDMYGKCSRVDLACS 60

Query: 69  VFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSS 128
           VFD+MLERNVVSWTALMCG+LQ GNAK  L+L C+MG S VKPNEFT ST++KA G L  
Sbjct: 61  VFDRMLERNVVSWTALMCGYLQEGNAKGSLALLCEMGYSGVKPNEFTFSTSLKACGALGV 120

Query: 129 VENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAG 188
           VENGMQIHGMC+KSGFEW  VVGN+ IDMYSKCGRI  A ++F+ MP ++L++WNAMIAG
Sbjct: 121 VENGMQIHGMCVKSGFEWVSVVGNATIDMYSKCGRIGMAEQVFNKMPFRNLVSWNAMIAG 180

Query: 189 YVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYS 248
           +   G   K L+LF++MQ  GE+PDEFTFTSTLKACG+LG++ GGTQIH  LIT GFP S
Sbjct: 181 HTHEGNGRKSLVLFQRMQGQGEVPDEFTFTSTLKACGALGAIRGGTQIHASLITRGFPIS 240

Query: 249 VKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQL 308
           ++ +IA ++VD Y KCG L EA++VFD IEQK++ISWS+LI G+AQE NL EAM+LFRQL
Sbjct: 241 IRNIIASAIVDLYAKCGYLFEAQKVFDRIEQKNLISWSALIQGFAQEGNLLEAMDLFRQL 300

Query: 309 RERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLI 368
           RE    VDGFVLS MMGVFAD ALVEQGKQ+H Y  KVPSGLD SV+NSI+DMYLKCGL 
Sbjct: 301 RESVSNVDGFVLSIMMGVFADLALVEQGKQMHCYILKVPSGLDISVANSIIDMYLKCGLT 360

Query: 369 DEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSAC 428
           +EA  LF+EM V+NVV+WTV+ITGYGKHGL ++A+ LF +M LD +E D VAYLA+LSAC
Sbjct: 361 EEAERLFSEMQVRNVVSWTVMITGYGKHGLGEKAIHLFNRMQLDGIELDEVAYLALLSAC 420

Query: 429 SHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAI 488
           SHSGL+ ESQEYFSRLCN+ +MKP IEHY+C+VD LGRAG+L EAKNLIE+M +KP+  I
Sbjct: 421 SHSGLIRESQEYFSRLCNNHQMKPNIEHYACMVDILGRAGQLKEAKNLIENMKLKPNEGI 480

Query: 489 WQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARS 548
           WQTLLSACRVHG+LE+GREVGEIL R+D DNPVNYVMMSNI+A+AG W ECER+RKL ++
Sbjct: 481 WQTLLSACRVHGNLEIGREVGEILFRMDTDNPVNYVMMSNIYAEAGYWKECERVRKLVKA 540

Query: 549 KGLKKVAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYALH 608
           KGLKK AG+SWVE++KEIHFFYGGDDTHPLTEKIH++L EME+R+KEE+G+ YG+++ALH
Sbjct: 541 KGLKKEAGQSWVEINKEIHFFYGGDDTHPLTEKIHEMLKEMERRVKEEVGYAYGLRFALH 600

Query: 609 DIQEESKEESLRVHSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKIL 668
           D++EESKEE+LRVHSEKLAIGLALV  G+ E+ G VIRVFKNLRVCGDCHEFIKGLSKIL
Sbjct: 601 DVEEESKEENLRVHSEKLAIGLALVCDGM-EKKGGVIRVFKNLRVCGDCHEFIKGLSKIL 659

Query: 669 KLVFVVRDATRFHRFEGGVCSCGDYW 694
           K VFVVRDA RFHRFE G+CSCGDYW
Sbjct: 660 KKVFVVRDANRFHRFEDGLCSCGDYW 685

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224092360|ref|XP_002309575.1| predicted protein [Populus trichocarpa] gi|222855551|gb|EEE93098.1| predicted protein [Populus trichocarpa]

 Score = 1004 bits (2597), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 478/654 (73%), Positives = 560/654 (85%), Gaps = 1/654 (0%)

Query: 41  MGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSL 100
           MGF FDLML+NDLI MY KCG +  AC VFD+ML+RNVVSWTALMCG +QNGN    L L
Sbjct: 1   MGFGFDLMLSNDLIVMYGKCGRLGVACDVFDRMLKRNVVSWTALMCGHIQNGNPLESLLL 60

Query: 101 FCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSK 160
           F +MG S VKPN+FT STN+KA G+L+ ++ G QIH +C+K+GF+   VVGNSIIDMYSK
Sbjct: 61  FSKMGLSGVKPNDFTFSTNLKACGLLNGLDIGRQIHDICVKTGFDMVNVVGNSIIDMYSK 120

Query: 161 CGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTST 220
           CGRINEAA MF+VMP ++LI+WNAMIAGY +AG+ +K L+LF+KMQE G   DEFTFTST
Sbjct: 121 CGRINEAACMFEVMPVRNLISWNAMIAGYTVAGFCEKALVLFQKMQEVGGFLDEFTFTST 180

Query: 221 LKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQK 280
           LKAC  LG++  G QIH FLIT GF YSV T +AG+L+D YVKCG L  ARRVF  IE+K
Sbjct: 181 LKACSDLGAIKEGNQIHAFLITGGFLYSVNTAVAGALIDLYVKCGKLFMARRVFSHIEEK 240

Query: 281 SVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIH 340
            VISW++LILGYAQE NLAE+MELFRQLRE S+QVDGF+LSSMMGVFADFALV+QGKQ+H
Sbjct: 241 HVISWTALILGYAQEGNLAESMELFRQLRESSIQVDGFILSSMMGVFADFALVQQGKQMH 300

Query: 341 AYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAK 400
           A+A KVPSG+D SV NSI+DMYLKCG+I+EA  LF+EMP +NV++WTV+ITGYGKHGL K
Sbjct: 301 AFAIKVPSGVDISVCNSILDMYLKCGMINEAERLFSEMPARNVISWTVMITGYGKHGLGK 360

Query: 401 EAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCI 460
           EA+ LF +M LD  EPD V YLAVL  CSHSGLVE+ QEYFSRLC+   +K R+EHY+C+
Sbjct: 361 EAIRLFDEMQLDSTEPDDVTYLAVLLGCSHSGLVEKGQEYFSRLCSYHGIKARVEHYACM 420

Query: 461 VDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNP 520
           VD LGRAGRL EAKNL++SMP++ ++ IWQTLLSACRVHGDLELG+EVG ILLRLD +NP
Sbjct: 421 VDLLGRAGRLKEAKNLVDSMPLEANVGIWQTLLSACRVHGDLELGKEVGGILLRLDSENP 480

Query: 521 VNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSWVEVDKEIHFFYGGDDTHPLTE 580
           VNYVMMSNI+ADAG W ECER+R+L +SK LKK AGRSWVE+DKE+HFFYGGDDTHPLTE
Sbjct: 481 VNYVMMSNIYADAGYWKECERIRELVKSKKLKKEAGRSWVEIDKEVHFFYGGDDTHPLTE 540

Query: 581 KIHQVLMEMEKRMKEELGFVYGVKYALHDIQEESKEESLRVHSEKLAIGLALVRGGLNEQ 640
           KIH++L EME+RMKEELG+VYGVKYALHD++EESK ++LRVHSEKLAIGLALV GGL E+
Sbjct: 541 KIHEILKEMERRMKEELGYVYGVKYALHDVEEESKMDNLRVHSEKLAIGLALVCGGL-EE 599

Query: 641 PGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDATRFHRFEGGVCSCGDYW 694
             KVIRVFKNLRVCGDCHEFIKGLSKIL++VFVVRDA RFHRFE G+CSC DYW
Sbjct: 600 GRKVIRVFKNLRVCGDCHEFIKGLSKILRVVFVVRDANRFHRFEDGLCSCRDYW 653

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15232500|ref|NP_188131.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|218546753|sp|P0C898.1|PP232_ARATH RecName: Full=Putative pentatricopeptide repeat-containing protein At3g15130 gi|332642102|gb|AEE75623.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  879 bits (2270), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 425/687 (61%), Positives = 525/687 (76%), Gaps = 3/687 (0%)

Query: 10  SERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAV 69
           ++RQ L   LR C++  L D G Q+H  L+K G   +L+ +N LIDMY KC E   A  V
Sbjct: 4   NQRQNLVSILRVCTRKGLSDQGGQVHCYLLKSGSGLNLITSNYLIDMYCKCREPLMAYKV 63

Query: 70  FDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSV 129
           FD M ERNVVSW+ALM G + NG+ K  LSLF +MG   + PNEFT STN+KA G+L+++
Sbjct: 64  FDSMPERNVVSWSALMSGHVLNGDLKGSLSLFSEMGRQGIYPNEFTFSTNLKACGLLNAL 123

Query: 130 ENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGY 189
           E G+QIHG C+K GFE    VGNS++DMYSKCGRINEA ++F  +  +SLI+WNAMIAG+
Sbjct: 124 EKGLQIHGFCLKIGFEMMVEVGNSLVDMYSKCGRINEAEKVFRRIVDRSLISWNAMIAGF 183

Query: 190 VLAGYSDKGLLLFRKMQEHG--EIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPY 247
           V AGY  K L  F  MQE    E PDEFT TS LKAC S G +  G QIHGFL+ SGF  
Sbjct: 184 VHAGYGSKALDTFGMMQEANIKERPDEFTLTSLLKACSSTGMIYAGKQIHGFLVRSGFHC 243

Query: 248 SVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQ 307
                I GSLVD YVKCG L  AR+ FD I++K++ISWSSLILGYAQE    EAM LF++
Sbjct: 244 PSSATITGSLVDLYVKCGYLFSARKAFDQIKEKTMISWSSLILGYAQEGEFVEAMGLFKR 303

Query: 308 LRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGL 367
           L+E + Q+D F LSS++GVFADFAL+ QGKQ+ A A K+PSGL+TSV NS+VDMYLKCGL
Sbjct: 304 LQELNSQIDSFALSSIIGVFADFALLRQGKQMQALAVKLPSGLETSVLNSVVDMYLKCGL 363

Query: 368 IDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSA 427
           +DEA + F EM +K+V++WTV+ITGYGKHGL K++V +F +ML  ++EPD V YLAVLSA
Sbjct: 364 VDEAEKCFAEMQLKDVISWTVVITGYGKHGLGKKSVRIFYEMLRHNIEPDEVCYLAVLSA 423

Query: 428 CSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIA 487
           CSHSG+++E +E FS+L     +KPR+EHY+C+VD LGRAGRL EAK+LI++MP+KP++ 
Sbjct: 424 CSHSGMIKEGEELFSKLLETHGIKPRVEHYACVVDLLGRAGRLKEAKHLIDTMPIKPNVG 483

Query: 488 IWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLAR 547
           IWQTLLS CRVHGD+ELG+EVG+ILLR+D  NP NYVMMSN++  AG WNE    R+L  
Sbjct: 484 IWQTLLSLCRVHGDIELGKEVGKILLRIDAKNPANYVMMSNLYGQAGYWNEQGNARELGN 543

Query: 548 SKGLKKVAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYAL 607
            KGLKK AG SWVE+++E+HFF  G+D+HPLT  I + L E E+R++EELG+VYG+K+ L
Sbjct: 544 IKGLKKEAGMSWVEIEREVHFFRSGEDSHPLTPVIQETLKEAERRLREELGYVYGLKHEL 603

Query: 608 HDIQEESKEESLRVHSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKI 667
           HDI +ESKEE+LR HSEKLAIGLAL  GGLN Q GK IRVFKNLRVC DCHEFIKGLSKI
Sbjct: 604 HDIDDESKEENLRAHSEKLAIGLALATGGLN-QKGKTIRVFKNLRVCVDCHEFIKGLSKI 662

Query: 668 LKLVFVVRDATRFHRFEGGVCSCGDYW 694
            K+ +VVRDA RFH FE G CSCGDYW
Sbjct: 663 TKIAYVVRDAVRFHSFEDGCCSCGDYW 689

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297834380|ref|XP_002885072.1| hypothetical protein ARALYDRAFT_318289 [Arabidopsis lyrata subsp. lyrata] gi|297330912|gb|EFH61331.1| hypothetical protein ARALYDRAFT_318289 [Arabidopsis lyrata subsp. lyrata]

 Score =  861 bits (2225), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 415/654 (63%), Positives = 510/654 (77%), Gaps = 3/654 (0%)

Query: 42   GFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLF 101
            G   +L+ +N LIDMY KC E   A  VFD M ERNVVSWTALM G + NG+    LSLF
Sbjct: 399  GSGLNLITSNYLIDMYCKCREQLIAYKVFDSMPERNVVSWTALMSGHVLNGDLNGSLSLF 458

Query: 102  CQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKC 161
             +MG   + PNEFT STN+KA G+L+++E G+QIHG C+K GFE    VGNS++DMYSKC
Sbjct: 459  TEMGRQGIYPNEFTFSTNLKACGLLNALEKGLQIHGFCLKIGFEMMVEVGNSLVDMYSKC 518

Query: 162  GRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHG--EIPDEFTFTS 219
            GRINEA ++F  M  +SLI+WNAMIAGYV AGY  + L  F  MQE    E PDEFT TS
Sbjct: 519  GRINEAEKVFRWMVGRSLISWNAMIAGYVHAGYGSRALATFGMMQEAKIKERPDEFTLTS 578

Query: 220  TLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQ 279
             LKAC S G +  G QIHGFL+ SGF       I GSLVD YVKCG L  AR+ FD I++
Sbjct: 579  LLKACSSTGMIYAGKQIHGFLVRSGFHCPSSATITGSLVDLYVKCGNLFSARKAFDQIKE 638

Query: 280  KSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQI 339
            K++ISWSSLILGYAQE +  EAM LF++L+E S Q+D FVLSS++GVFADFAL++QGKQ+
Sbjct: 639  KTMISWSSLILGYAQEGDFVEAMGLFKRLQELSSQIDSFVLSSIIGVFADFALLQQGKQM 698

Query: 340  HAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLA 399
             A   K+PSGL+TSVSNS+VDMYLKCGL+DEA + F EM +K+V++WTV+ITGYGKHGL 
Sbjct: 699  QALVVKLPSGLETSVSNSLVDMYLKCGLVDEAEKCFAEMQLKDVISWTVMITGYGKHGLG 758

Query: 400  KEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSC 459
            K+AV +F KML  ++EPD V YLAVLSACSHSG+++E +E FS+L   + +KPR+EHY+C
Sbjct: 759  KKAVSIFNKMLRHNIEPDEVCYLAVLSACSHSGMIKEGEELFSKLLETQGIKPRVEHYAC 818

Query: 460  IVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDN 519
            +VD LGRAGRL EAK+L+++MP+KP++ IWQTLLS CRVHGD+ELG+EVG+ILLR+DG N
Sbjct: 819  VVDLLGRAGRLKEAKHLVDTMPIKPNVGIWQTLLSLCRVHGDIELGKEVGKILLRIDGKN 878

Query: 520  PVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSWVEVDKEIHFFYGGDDTHPLT 579
            P NYVMMSN++  AG WNE    R+L   KGL+K AG SWVE+++E+HFF  G+D+HPLT
Sbjct: 879  PANYVMMSNLYGQAGYWNEQGNARELGSIKGLQKEAGMSWVEIEREVHFFRSGEDSHPLT 938

Query: 580  EKIHQVLMEMEKRMKEELGFVYGVKYALHDIQEESKEESLRVHSEKLAIGLALVRGGLNE 639
              I + L E+E+R++EELG+VYG+K+ LHDI +ESKEE+LR HSEKLAIGLAL  GGLN 
Sbjct: 939  LVIQETLKEVERRLREELGYVYGLKHELHDIDDESKEENLRAHSEKLAIGLALATGGLN- 997

Query: 640  QPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDATRFHRFEGGVCSCGDY 693
            Q GK IRVFKNLRVC DCHEFIKGLSKI K+ +VVRDA RFH FE G CSCGDY
Sbjct: 998  QKGKTIRVFKNLRVCVDCHEFIKGLSKITKIAYVVRDAVRFHSFEDGCCSCGDY 1051

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|11994503|dbj|BAB02568.1| unnamed protein product [Arabidopsis thaliana]

 Score =  850 bits (2197), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 410/651 (62%), Positives = 504/651 (77%), Gaps = 3/651 (0%)

Query: 45   FDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQM 104
             +L+ +N LIDMY KC E   A  VFD M ERNVVSW+ALM G + NG+ K  LSLF +M
Sbjct: 410  LNLITSNYLIDMYCKCREPLMAYKVFDSMPERNVVSWSALMSGHVLNGDLKGSLSLFSEM 469

Query: 105  GSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRI 164
            G   + PNEFT STN+KA G+L+++E G+QIHG C+K GFE    VGNS++DMYSKCGRI
Sbjct: 470  GRQGIYPNEFTFSTNLKACGLLNALEKGLQIHGFCLKIGFEMMVEVGNSLVDMYSKCGRI 529

Query: 165  NEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHG--EIPDEFTFTSTLK 222
            NEA ++F  +  +SLI+WNAMIAG+V AGY  K L  F  MQE    E PDEFT TS LK
Sbjct: 530  NEAEKVFRRIVDRSLISWNAMIAGFVHAGYGSKALDTFGMMQEANIKERPDEFTLTSLLK 589

Query: 223  ACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSV 282
            AC S G +  G QIHGFL+ SGF       I GSLVD YVKCG L  AR+ FD I++K++
Sbjct: 590  ACSSTGMIYAGKQIHGFLVRSGFHCPSSATITGSLVDLYVKCGYLFSARKAFDQIKEKTM 649

Query: 283  ISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAY 342
            ISWSSLILGYAQE    EAM LF++L+E + Q+D F LSS++GVFADFAL+ QGKQ+ A 
Sbjct: 650  ISWSSLILGYAQEGEFVEAMGLFKRLQELNSQIDSFALSSIIGVFADFALLRQGKQMQAL 709

Query: 343  AAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEA 402
            A K+PSGL+TSV NS+VDMYLKCGL+DEA + F EM +K+V++WTV+ITGYGKHGL K++
Sbjct: 710  AVKLPSGLETSVLNSVVDMYLKCGLVDEAEKCFAEMQLKDVISWTVVITGYGKHGLGKKS 769

Query: 403  VGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVD 462
            V +F +ML  ++EPD V YLAVLSACSHSG+++E +E FS+L     +KPR+EHY+C+VD
Sbjct: 770  VRIFYEMLRHNIEPDEVCYLAVLSACSHSGMIKEGEELFSKLLETHGIKPRVEHYACVVD 829

Query: 463  SLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVN 522
             LGRAGRL EAK+LI++MP+KP++ IWQTLLS CRVHGD+ELG+EVG+ILLR+D  NP N
Sbjct: 830  LLGRAGRLKEAKHLIDTMPIKPNVGIWQTLLSLCRVHGDIELGKEVGKILLRIDAKNPAN 889

Query: 523  YVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSWVEVDKEIHFFYGGDDTHPLTEKI 582
            YVMMSN++  AG WNE    R+L   KGLKK AG SWVE+++E+HFF  G+D+HPLT  I
Sbjct: 890  YVMMSNLYGQAGYWNEQGNARELGNIKGLKKEAGMSWVEIEREVHFFRSGEDSHPLTPVI 949

Query: 583  HQVLMEMEKRMKEELGFVYGVKYALHDIQEESKEESLRVHSEKLAIGLALVRGGLNEQPG 642
             + L E E+R++EELG+VYG+K+ LHDI +ESKEE+LR HSEKLAIGLAL  GGLN Q G
Sbjct: 950  QETLKEAERRLREELGYVYGLKHELHDIDDESKEENLRAHSEKLAIGLALATGGLN-QKG 1008

Query: 643  KVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDATRFHRFEGGVCSCGDY 693
            K IRVFKNLRVC DCHEFIKGLSKI K+ +VVRDA RFH FE G CSCGDY
Sbjct: 1009 KTIRVFKNLRVCVDCHEFIKGLSKITKIAYVVRDAVRFHSFEDGCCSCGDY 1059

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|218195864|gb|EEC78291.1| hypothetical protein OsI_18005 [Oryza sativa Indica Group]

 Score =  798 bits (2061), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 394/691 (57%), Positives = 504/691 (72%), Gaps = 9/691 (1%)

Query: 11  ERQRL-ADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAV 69
           ER+R+ AD LR  ++   L  GVQLH AL+K+GF  D MLNN+LIDMYAKCG+++ A  V
Sbjct: 2   ERRRMIADLLRASARGSSLRGGVQLHAALMKLGFGSDTMLNNNLIDMYAKCGKLHMAGEV 61

Query: 70  FDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSV 129
           FD M ERNVVSWTALM GFL +G A+ CL LF +M  S   PNEFTLS  +KA G     
Sbjct: 62  FDGMPERNVVSWTALMVGFLHHGEARECLRLFGEMRGSGTSPNEFTLSATLKACG--GGT 119

Query: 130 ENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGY 189
             G+QIHG+C+++GFE + VV NS++ MYSK     +A R+FDV+P+++L TWN+MI+GY
Sbjct: 120 RAGVQIHGVCVRTGFEGHDVVANSLVVMYSKGRWTGDARRVFDVIPSRNLATWNSMISGY 179

Query: 190 VLAGYSDKGLLLFRKMQE-HGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYS 248
             AG     LL+FR+MQ  H E PDEFTF S LKAC  LG+   G Q+H  +   G   +
Sbjct: 180 AHAGQGRDSLLVFREMQRRHDEQPDEFTFASLLKACSGLGAAREGAQVHAAMAVRGVSPA 239

Query: 249 VKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQL 308
              ++AG+L+D YVKC  L  A +VFD +E+++ I W+++I+G+AQE  + EAM LFR+ 
Sbjct: 240 SNAILAGALLDVYVKCHRLPVAMQVFDGLERRNAIQWTTVIVGHAQEGQVKEAMCLFRRF 299

Query: 309 RERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLI 368
               ++ DG VLSS++ VFADFALVEQGKQ+H Y AK P+GLD SV+NS+VDMYLKCGL 
Sbjct: 300 WSSGVRADGHVLSSVVAVFADFALVEQGKQVHCYTAKTPAGLDVSVANSLVDMYLKCGLT 359

Query: 369 DEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSAC 428
            EA   F EMP +NVV+WT +I G GKHG  +EA+ LF +M  + VE D VAYLA+LSAC
Sbjct: 360 GEAGRRFREMPARNVVSWTAMINGVGKHGHGREAIDLFEEMQAEGVEADEVAYLALLSAC 419

Query: 429 SHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAI 488
           SHSGLV+E + YFSR+C D+RM+P+ EHY+C+VD LGRAG L EAK LI SMP++P++ +
Sbjct: 420 SHSGLVDECRRYFSRICQDRRMRPKAEHYACMVDLLGRAGELREAKELILSMPMEPTVGV 479

Query: 489 WQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARS 548
           WQTLLSACRVH D+ +GREVG++LL +DGDNPVNYVM+SNI A+AG W EC+ +R   R 
Sbjct: 480 WQTLLSACRVHKDVAVGREVGDVLLAVDGDNPVNYVMLSNILAEAGEWRECQGIRGAMRR 539

Query: 549 KGLKKVAGRSWVEVDKEIHFFY-GGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYAL 607
           KGL+K  G SW EVDKE+HFFY GGDD HP    I + L E+E RM+E LG+    + AL
Sbjct: 540 KGLRKQGGCSWTEVDKEVHFFYGGGDDAHPQAGDIRRALREVEARMRERLGYSGDARCAL 599

Query: 608 HDIQEESKEESLRVHSEKLAIGLALVR----GGLNEQPGKVIRVFKNLRVCGDCHEFIKG 663
           HD+ EES+ ESLR HSE+LA+GL L+R           G+V+RV+KNLRVCGDCHEF+KG
Sbjct: 600 HDVDEESRVESLREHSERLAVGLWLLRDGTGDDGGGGGGEVVRVYKNLRVCGDCHEFLKG 659

Query: 664 LSKILKLVFVVRDATRFHRFEGGVCSCGDYW 694
           LS +++ V VVRDA RFHRF+ G CSC DYW
Sbjct: 660 LSAVVRRVVVVRDANRFHRFQNGACSCRDYW 690

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|90399180|emb|CAJ86042.1| H0723C07.12 [Oryza sativa Indica Group]

 Score =  797 bits (2059), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 393/697 (56%), Positives = 505/697 (72%), Gaps = 8/697 (1%)

Query: 4   VSFSLVSERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEM 63
           + F  +  R+ +AD LR  ++   L  GVQLH AL+K+GF  D MLNN+LIDMYAKCG++
Sbjct: 192 LGFLPMERRRMIADLLRASARGSSLRGGVQLHAALMKLGFGSDTMLNNNLIDMYAKCGKL 251

Query: 64  NGACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKAS 123
           + A  VFD M ERNVVSWTALM GFL +G A+ CL LF +M  S   PNEFTLS  +KA 
Sbjct: 252 HMAGEVFDGMPERNVVSWTALMVGFLHHGEARECLRLFGEMRGSGTSPNEFTLSATLKAC 311

Query: 124 GVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWN 183
           G       G+QIHG+C+++GFE + VV NS++ MYSK     +A R+FDV+P+++L TWN
Sbjct: 312 G--GGTRAGVQIHGVCVRTGFEGHDVVANSLVVMYSKGRWTGDARRVFDVIPSRNLATWN 369

Query: 184 AMIAGYVLAGYSDKGLLLFRKMQE-HGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLIT 242
           +MI+GY  AG     LL+FR+MQ  H E PDEFTF S LKAC  LG+   G Q+H  +  
Sbjct: 370 SMISGYAHAGQGRDSLLVFREMQRRHDEQPDEFTFASLLKACSGLGAAREGAQVHAAMAV 429

Query: 243 SGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAM 302
            G   +   ++AG+L+D YVKC  L  A +VFD +E+++ I W+++I+G+AQE  + EAM
Sbjct: 430 RGVSPASNAILAGALLDVYVKCHRLPVAMQVFDGLERRNAIQWTTVIVGHAQEGQVKEAM 489

Query: 303 ELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMY 362
            LFR+     ++ DG VLSS++ VFADFALVEQGKQ+H Y AK P+GLD SV+NS+VDMY
Sbjct: 490 CLFRRFWSSGVRADGHVLSSVVAVFADFALVEQGKQVHCYTAKTPAGLDVSVANSLVDMY 549

Query: 363 LKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYL 422
           LKCGL  EA   F EMP +NVV+WT +I G GKHG  +EA+ LF +M  + VE D VAYL
Sbjct: 550 LKCGLTGEAGRRFREMPARNVVSWTAMINGVGKHGHGREAIDLFEEMQAEGVEADEVAYL 609

Query: 423 AVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPV 482
           A+LSACSHSGLV+E + YFSR+C D+RM+P+ EHY+C+VD LGRAG L EAK LI SMP+
Sbjct: 610 ALLSACSHSGLVDECRRYFSRICQDRRMRPKAEHYACMVDLLGRAGELREAKELILSMPM 669

Query: 483 KPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERL 542
           +P++ +WQTLLSACRVH D+ +GREVG++LL +DGDNPVNYVM+SNI A+AG W EC+ +
Sbjct: 670 EPTVGVWQTLLSACRVHKDVAVGREVGDVLLAVDGDNPVNYVMLSNILAEAGEWRECQGI 729

Query: 543 RKLARSKGLKKVAGRSWVEVDKEIHFFY-GGDDTHPLTEKIHQVLMEMEKRMKEELGFVY 601
           R   R KGL+K  G SW EVDKE+HFFY GGDD HP    I + L E+E RM+E LG+  
Sbjct: 730 RGAMRRKGLRKQGGCSWTEVDKEVHFFYGGGDDAHPQAGDIRRALREVEARMRERLGYSG 789

Query: 602 GVKYALHDIQEESKEESLRVHSEKLAIGLALVR----GGLNEQPGKVIRVFKNLRVCGDC 657
             + ALHD+ EES+ ESLR HSE+LA+GL L+R           G+V+RV+KNLRVCGDC
Sbjct: 790 DARCALHDVDEESRVESLREHSERLAVGLWLLRDGTGDDGGGGGGEVVRVYKNLRVCGDC 849

Query: 658 HEFIKGLSKILKLVFVVRDATRFHRFEGGVCSCGDYW 694
           HEF+KGLS +++ V VVRDA RFHRF+ G CSC DYW
Sbjct: 850 HEFLKGLSAVVRRVVVVRDANRFHRFQNGACSCRDYW 886

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115461454|ref|NP_001054327.1| Os04g0686500 [Oryza sativa Japonica Group] gi|38345824|emb|CAE01858.2| OSJNBa0070M12.7 [Oryza sativa Japonica Group] gi|113565898|dbj|BAF16241.1| Os04g0686500 [Oryza sativa Japonica Group] gi|215766744|dbj|BAG98972.1| unnamed protein product [Oryza sativa Japonica Group] gi|222629815|gb|EEE61947.1| hypothetical protein OsJ_16704 [Oryza sativa Japonica Group]

 Score =  797 bits (2059), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 394/691 (57%), Positives = 504/691 (72%), Gaps = 9/691 (1%)

Query: 11  ERQRL-ADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAV 69
           ER+R+ AD LR  ++   L  GVQLH AL+K+GF  D MLNN+LIDMYAKCG+++ A  V
Sbjct: 2   ERRRMIADLLRASARGSSLRGGVQLHAALMKLGFGSDTMLNNNLIDMYAKCGKLHMAGEV 61

Query: 70  FDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSV 129
           FD M ERNVVSWTALM GFL +G A+ CL LF +M  S   PNEFTLS  +KA G     
Sbjct: 62  FDGMPERNVVSWTALMVGFLHHGEARECLRLFGEMRGSGTSPNEFTLSATLKACG--GGT 119

Query: 130 ENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGY 189
             G+QIHG+C+++GFE + VV NS++ MYSK     +A R+FDV+P+++L TWN+MI+GY
Sbjct: 120 RAGVQIHGVCVRTGFEGHDVVANSLVVMYSKGRWTGDARRVFDVIPSRNLATWNSMISGY 179

Query: 190 VLAGYSDKGLLLFRKMQE-HGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYS 248
             AG     LL+FR+MQ  H E PDEFTF S LKAC  LG+   G Q+H  +   G   +
Sbjct: 180 AHAGQGRDSLLVFREMQRRHDEQPDEFTFASLLKACSGLGAAREGAQVHAAMAVRGVSPA 239

Query: 249 VKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQL 308
              ++AG+L+D YVKC  L  A +VFD +E+++ I W+++I+G+AQE  + EAM LFR+ 
Sbjct: 240 SNAILAGALLDVYVKCHRLPVAMQVFDGLERRNAIQWTTVIVGHAQEGQVKEAMCLFRRF 299

Query: 309 RERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLI 368
               ++ DG VLSS++ VFADFALVEQGKQ+H Y AK P+GLD SV+NS+VDMYLKCGL 
Sbjct: 300 WSSGVRADGHVLSSVVAVFADFALVEQGKQVHCYTAKTPAGLDVSVANSLVDMYLKCGLT 359

Query: 369 DEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSAC 428
            EA   F EMP +NVV+WT +I G GKHG  +EA+ LF +M  + VE D VAYLA+LSAC
Sbjct: 360 GEAGRRFREMPARNVVSWTAMINGVGKHGHGREAIDLFEEMQEEGVEADEVAYLALLSAC 419

Query: 429 SHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAI 488
           SHSGLV+E + YFSR+C D+RM+P+ EHY+C+VD LGRAG L EAK LI SMP++P++ +
Sbjct: 420 SHSGLVDECRRYFSRICQDRRMRPKAEHYACMVDLLGRAGELREAKELILSMPMEPTVGV 479

Query: 489 WQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARS 548
           WQTLLSACRVH D+ +GREVG++LL +DGDNPVNYVM+SNI A+AG W EC+ +R   R 
Sbjct: 480 WQTLLSACRVHKDVAVGREVGDVLLAVDGDNPVNYVMLSNILAEAGEWRECQGIRGAMRR 539

Query: 549 KGLKKVAGRSWVEVDKEIHFFY-GGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYAL 607
           KGL+K  G SW EVDKE+HFFY GGDD HP    I + L E+E RM+E LG+    + AL
Sbjct: 540 KGLRKQGGCSWTEVDKEVHFFYGGGDDAHPQAGDIRRALREVEARMRERLGYSGDARCAL 599

Query: 608 HDIQEESKEESLRVHSEKLAIGLALVR----GGLNEQPGKVIRVFKNLRVCGDCHEFIKG 663
           HD+ EES+ ESLR HSE+LA+GL L+R           G+V+RV+KNLRVCGDCHEF+KG
Sbjct: 600 HDVDEESRVESLREHSERLAVGLWLLRDGTGDDGGGGGGEVVRVYKNLRVCGDCHEFLKG 659

Query: 664 LSKILKLVFVVRDATRFHRFEGGVCSCGDYW 694
           LS +++ V VVRDA RFHRF+ G CSC DYW
Sbjct: 660 LSAVVRRVVVVRDANRFHRFQNGACSCRDYW 690

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357166812|ref|XP_003580863.1| PREDICTED: putative pentatricopeptide repeat-containing protein At3g15130-like [Brachypodium distachyon]

 Score =  796 bits (2056), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 390/707 (55%), Positives = 508/707 (71%), Gaps = 21/707 (2%)

Query: 9   VSERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACA 68
           +  R+ +AD LR  + +  +  G QLHGAL+K+GF  D ML N+LIDMYAKCGE+  A  
Sbjct: 1   MERRKMIADMLRASAASSAIHGGAQLHGALLKLGFGSDTMLGNNLIDMYAKCGELRMAGE 60

Query: 69  VFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGS-SSVKPNEFTLSTNIKASGVLS 127
           VF  M ERNVVSWTALM GFL++G+A+ CL L   M S S V PNEFTLS ++KA GV+ 
Sbjct: 61  VFGGMPERNVVSWTALMVGFLRHGDARECLRLLGAMRSLSDVAPNEFTLSASLKACGVVG 120

Query: 128 SVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIA 187
            +  G+ IHG C+++GFE + VV NS++ +YSK GRI +A R+FD    ++L+TWNAMI+
Sbjct: 121 DMAAGVWIHGACVRAGFEGHHVVANSLVLLYSKGGRIGDARRVFDGTVFRNLVTWNAMIS 180

Query: 188 GYVLAGYSDKGLLLFRKMQ-----EHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLIT 242
           GY  AG+    LL+FR+MQ     E    PDEFTF S LKACGSLG+   G Q+H  ++ 
Sbjct: 181 GYAHAGHGRDSLLVFREMQQRRQEEEDHQPDEFTFASLLKACGSLGAAREGAQVHAAMVI 240

Query: 243 SGFPYSVKTVIAGSLVDFYVKCGCLVE-ARRVFDLIEQKSVISWSSLILGYAQEENLAEA 301
            G   +   ++AG+L+D YVKC CL+  A +VF+ +EQK+ I W+++I+G+AQE  + EA
Sbjct: 241 RGVSTASNAILAGALLDMYVKCRCLLPMAMQVFNRLEQKNAIQWTTVIVGHAQEGQVKEA 300

Query: 302 MELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDM 361
           MELF +     ++ DG VLSS++GVFADFALVEQG+Q+H Y  K P+GLD SV+NS++DM
Sbjct: 301 MELFGRFWSSGVRADGHVLSSVVGVFADFALVEQGRQVHCYTVKTPAGLDVSVANSLIDM 360

Query: 362 YLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAY 421
           Y KCGL DEA   F E+P +NVV+WT +I G GKHG  +EA+ +F +M  + VEPD VAY
Sbjct: 361 YHKCGLTDEAARRFREVPARNVVSWTAMINGLGKHGHGQEAIHMFEEMRAEGVEPDEVAY 420

Query: 422 LAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMP 481
           LA+LSACSHSGLVEE + YFS + +D+R++PR EHY+C+VD LGRAG L EAK+L+ +MP
Sbjct: 421 LALLSACSHSGLVEECRRYFSAIRHDRRLRPRAEHYACMVDLLGRAGELSEAKDLVATMP 480

Query: 482 VKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECER 541
           + P++ +WQTLLSACRVH ++ +GRE GE LL +DGDNPVNYVM+SNI A+AG W EC+R
Sbjct: 481 MAPTVGVWQTLLSACRVHKNVTVGREAGETLLAIDGDNPVNYVMLSNIFAEAGDWRECQR 540

Query: 542 LRKLARSKGLKKVAGRSWVEVDKEIHFFY-GGDDTHPLTEKIHQVLMEMEKRMKEELGFV 600
           +R   R +GL+K  G SWVEV KE HFFY GGDD+HP    I  VL ++E+ M+E LG+ 
Sbjct: 541 VRGAMRRRGLRKQGGCSWVEVGKEAHFFYGGGDDSHPRAADICCVLRDVERTMRERLGYS 600

Query: 601 YG-----VKYALHDIQEESKEESLRVHSEKLAIGLALV--------RGGLNEQPGKVIRV 647
            G      + ALHD+ EES+ ESLR HSE+LA+GL L+         G    +  +VIRV
Sbjct: 601 PGSSSSSSEAALHDVDEESRAESLRAHSERLAVGLWLLLHHDHDHGEGMGGTKRKEVIRV 660

Query: 648 FKNLRVCGDCHEFIKGLSKILKLVFVVRDATRFHRFEGGVCSCGDYW 694
           +KNLRVCGDCHEF KGLS ++  V VVRDA RFHRFE GVCSC DYW
Sbjct: 661 YKNLRVCGDCHEFFKGLSSVVGRVLVVRDANRFHRFEDGVCSCKDYW 707

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356509996|ref|XP_003523727.1| PREDICTED: putative pentatricopeptide repeat-containing protein At3g15130-like [Glycine max]

 Score =  785 bits (2027), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 361/567 (63%), Positives = 464/567 (81%), Gaps = 1/567 (0%)

Query: 129 VENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAG 188
           ++ G Q+HG+  K GF+   VVGNS+IDMYSKCG + EAAR+F+ +P +++I+WNAMIAG
Sbjct: 20  LDQGKQVHGVVEKLGFDVIXVVGNSMIDMYSKCGMVGEAARVFNTLPVRNVISWNAMIAG 79

Query: 189 YVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYS 248
           Y      ++ L LFR+M+E GE+PD +T++S+LKAC    + G G QIH  LI  GFPY 
Sbjct: 80  YTNERNGEEALNLFREMREKGEVPDGYTYSSSLKACSCADAAGEGMQIHAALIRHGFPYL 139

Query: 249 VKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQL 308
            ++ +AG+LVD YVKC  + EAR+VFD IE+KSV+SWS+LILGYAQE+NL EAM+LFR+L
Sbjct: 140 AQSAVAGALVDLYVKCRRMAEARKVFDRIEEKSVMSWSTLILGYAQEDNLKEAMDLFREL 199

Query: 309 RERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGL-DTSVSNSIVDMYLKCGL 367
           RE   ++DGFVLSS++GVFADFAL+EQGKQ+HAY  KVP GL + SV+NS++DMY+KCGL
Sbjct: 200 RESRHRMDGFVLSSIIGVFADFALLEQGKQMHAYTIKVPYGLLEMSVANSVLDMYMKCGL 259

Query: 368 IDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSA 427
             EA  LF EM  +NVV+WTV+ITGYGKHG+  +AV LF +M  + +EPD V YLAVLSA
Sbjct: 260 TVEADALFREMLERNVVSWTVMITGYGKHGIGNKAVELFNEMQENGIEPDSVTYLAVLSA 319

Query: 428 CSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIA 487
           CSHSGL++E ++YFS LC+++++KP++EHY+C+VD LGR GRL EAKNLIE MP+KP++ 
Sbjct: 320 CSHSGLIKEGKKYFSILCSNQKIKPKVEHYACMVDLLGRGGRLKEAKNLIEKMPLKPNVG 379

Query: 488 IWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLAR 547
           IWQTLLS CR+HGD+E+G++VGEILLR +G+NP NYVM+SN++A AG W E E++R+  +
Sbjct: 380 IWQTLLSVCRMHGDVEMGKQVGEILLRREGNNPANYVMVSNMYAHAGYWKESEKIRETLK 439

Query: 548 SKGLKKVAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYAL 607
            KGLKK AGRSWVE+DKEIH FY GD  HPL E+IH+VL EMEKR+KEE+G+V+ + ++L
Sbjct: 440 RKGLKKEAGRSWVEMDKEIHIFYNGDGMHPLIEEIHEVLKEMEKRVKEEMGYVHSINFSL 499

Query: 608 HDIQEESKEESLRVHSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKI 667
           HD++EESK ESLRVHSEKLAIGL LVR GL  +  +VIR+FKNLRVCGDCH FIKGLSK+
Sbjct: 500 HDVEEESKMESLRVHSEKLAIGLVLVRRGLKLKGERVIRIFKNLRVCGDCHAFIKGLSKV 559

Query: 668 LKLVFVVRDATRFHRFEGGVCSCGDYW 694
           LK+ FVVRDA RFHRFE G+CSCGDYW
Sbjct: 560 LKIAFVVRDANRFHRFENGLCSCGDYW 586

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	694
TAIR|locus:2083631	689	AT3G15130 "AT3G15130" [Arabido	0.985	0.992	0.611	1.3e-228
TAIR|locus:2124137	871	DOT4 "DEFECTIVELY ORGANIZED TR	0.942	0.750	0.378	5.3e-127
TAIR|locus:2119440	1064	AT4G13650 [Arabidopsis thalian	0.978	0.638	0.367	3.4e-125
TAIR|locus:2125899	990	AT4G33170 [Arabidopsis thalian	0.949	0.665	0.380	8.9e-125
TAIR|locus:2178188	995	MEF7 "AT5G09950" [Arabidopsis	0.952	0.664	0.365	6.3e-124
TAIR|locus:2202074	809	CRR22 "CHLORORESPIRATORY REDUC	0.962	0.825	0.365	1.3e-123
TAIR|locus:2082886	850	EMB2261 "embryo defective 2261	0.959	0.783	0.364	2.7e-123
TAIR|locus:2060640	738	OTP81 "ORGANELLE TRANSCRIPT PR	0.625	0.588	0.383	1.7e-120
TAIR|locus:505006130	970	AT1G18485 [Arabidopsis thalian	0.965	0.690	0.361	2e-120
TAIR|locus:2118964	823	EMB2758 "embryo defective 2758	0.974	0.821	0.354	7.7e-119

TAIR|locus:2083631 AT3G15130 "AT3G15130" [Arabidopsis thaliana (taxid:3702)]

 Score = 2206 (781.6 bits), Expect = 1.3e-228, P = 1.3e-228
 Identities = 420/687 (61%), Positives = 517/687 (75%)

Query:    10 SERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAV 69
             ++RQ L   LR C++  L D G Q+H  L+K G   +L+ +N LIDMY KC E   A  V
Sbjct:     4 NQRQNLVSILRVCTRKGLSDQGGQVHCYLLKSGSGLNLITSNYLIDMYCKCREPLMAYKV 63

Query:    70 FDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSV 129
             FD M ERNVVSW+ALM G + NG+ K  LSLF +MG   + PNEFT STN+KA G+L+++
Sbjct:    64 FDSMPERNVVSWSALMSGHVLNGDLKGSLSLFSEMGRQGIYPNEFTFSTNLKACGLLNAL 123

Query:   130 ENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGY 189
             E G+QIHG C+K GFE    VGNS++DMYSKCGRINEA ++F  +  +SLI+WNAMIAG+
Sbjct:   124 EKGLQIHGFCLKIGFEMMVEVGNSLVDMYSKCGRINEAEKVFRRIVDRSLISWNAMIAGF 183

Query:   190 VLAGYSDKGLLLFRKMQEHG--EIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPY 247
             V AGY  K L  F  MQE    E PDEFT TS LKAC S G +  G QIHGFL+ SGF  
Sbjct:   184 VHAGYGSKALDTFGMMQEANIKERPDEFTLTSLLKACSSTGMIYAGKQIHGFLVRSGFHC 243

Query:   248 SVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQ 307
                  I GSLVD YVKCG L  AR+ FD I++K++ISWSSLILGYAQE    EAM LF++
Sbjct:   244 PSSATITGSLVDLYVKCGYLFSARKAFDQIKEKTMISWSSLILGYAQEGEFVEAMGLFKR 303

Query:   308 LRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGL 367
             L+E + Q+D F LSS++GVFADFAL+ QGKQ+ A A K+PSGL+TSV NS+VDMYLKCGL
Sbjct:   304 LQELNSQIDSFALSSIIGVFADFALLRQGKQMQALAVKLPSGLETSVLNSVVDMYLKCGL 363

Query:   368 IDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSA 427
             +DEA + F EM +K+V++WTV+ITGYGKHGL K++V +F +ML  ++EPD V YLAVLSA
Sbjct:   364 VDEAEKCFAEMQLKDVISWTVVITGYGKHGLGKKSVRIFYEMLRHNIEPDEVCYLAVLSA 423

Query:   428 CSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIA 487
             CSHSG+++E +E FS+L     +KPR+EHY+C+VD LGRAGRL EAK+LI++MP+KP++ 
Sbjct:   424 CSHSGMIKEGEELFSKLLETHGIKPRVEHYACVVDLLGRAGRLKEAKHLIDTMPIKPNVG 483

Query:   488 IWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLAR 547
             IWQTLLS CRVHGD+ELG+EVG+ILLR+D  NP NYVMMSN++  AG WNE    R+L  
Sbjct:   484 IWQTLLSLCRVHGDIELGKEVGKILLRIDAKNPANYVMMSNLYGQAGYWNEQGNARELGN 543

Query:   548 SKGLKKVAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLXXXXXXXXXXLGFVYGVKYAL 607
              KGLKK AG SWVE+++E+HFF  G+D+HPLT  I + L          LG+VYG+K+ L
Sbjct:   544 IKGLKKEAGMSWVEIEREVHFFRSGEDSHPLTPVIQETLKEAERRLREELGYVYGLKHEL 603

Query:   608 HDIQEESKEESLRVHSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKI 667
             HDI +ESKEE+LR HSEKLAIGLAL  GGLN Q GK IRVFKNLRVC DCHEFIKGLSKI
Sbjct:   604 HDIDDESKEENLRAHSEKLAIGLALATGGLN-QKGKTIRVFKNLRVCVDCHEFIKGLSKI 662

Query:   668 LKLVFVVRDATRFHRFEGGVCSCGDYW 694
              K+ +VVRDA RFH FE G CSCGDYW
Sbjct:   663 TKIAYVVRDAVRFHSFEDGCCSCGDYW 689

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 1247 (444.0 bits), Expect = 5.3e-127, P = 5.3e-127
 Identities = 253/668 (37%), Positives = 398/668 (59%)

Query:    31 GVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQ 90
             G QLHG ++K GF     + N L+  Y K   ++ A  VFD+M ER+V+SW +++ G++ 
Sbjct:   214 GEQLHGFILKSGFGERNSVGNSLVAFYLKNQRVDSARKVFDEMTERDVISWNSIINGYVS 273

Query:    91 NGNAKACLSLFCQMGSSSVKPNEFTLSTNIKA-SGVLSS--VENGMQIHGMCMKSGFEWN 147
             NG A+  LS+F QM  S +   E  L+T +   +G   S  +  G  +H + +K+ F   
Sbjct:   274 NGLAEKGLSVFVQMLVSGI---EIDLATIVSVFAGCADSRLISLGRAVHSIGVKACFSRE 330

Query:   148 PVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQE 207
                 N+++DMYSKCG ++ A  +F  M  +S++++ +MIAGY   G + + + LF +M+E
Sbjct:   331 DRFCNTLLDMYSKCGDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEMEE 390

Query:   208 HGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCL 267
              G  PD +T T+ L  C     +  G ++H ++  +   + +   ++ +L+D Y KCG +
Sbjct:   391 EGISPDVYTVTAVLNCCARYRLLDEGKRVHEWIKENDLGFDI--FVSNALMDMYAKCGSM 448

Query:   268 VEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQL-RERSLQVDGFVLSSMMGV 326
              EA  VF  +  K +ISW+++I GY++     EA+ LF  L  E+    D   ++ ++  
Sbjct:   449 QEAELVFSEMRVKDIISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPA 508

Query:   327 FADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTW 386
              A  +  ++G++IH Y  +     D  V+NS+VDMY KCG +  A  LF+++  K++V+W
Sbjct:   509 CASLSAFDKGREIHGYIMRNGYFSDRHVANSLVDMYAKCGALLLAHMLFDDIASKDLVSW 568

Query:   387 TVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCN 446
             TV+I GYG HG  KEA+ LF +M    +E D ++++++L ACSHSGLV+E   +F+ + +
Sbjct:   569 TVMIAGYGMHGFGKEAIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGWRFFNIMRH 628

Query:   447 DKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGR 506
             + +++P +EHY+CIVD L R G L +A   IE+MP+ P   IW  LL  CR+H D++L  
Sbjct:   629 ECKIEPTVEHYACIVDMLARTGDLIKAYRFIENMPIPPDATIWGALLCGCRIHHDVKLAE 688

Query:   507 EVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSWVEVDKEI 566
             +V E +  L+ +N   YV+M+NI+A+A  W + +RLRK    +GL+K  G SW+E+   +
Sbjct:   689 KVAEKVFELEPENTGYYVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIEIKGRV 748

Query:   567 HFFYGGDDTHPLTEKIHQVLXXXXXXXXXXLGFVYGVKYALHDIQEESKEESLRVHSEKL 626
             + F  GD ++P TE I   L           G+    KYAL D +E  KEE+L  HSEKL
Sbjct:   749 NIFVAGDSSNPETENIEAFLRKVRARMIEE-GYSPLTKYALIDAEEMEKEEALCGHSEKL 807

Query:   627 AIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDATRFHRFEGG 686
             A+ L ++  G     GK+IRV KNLRVCGDCHE  K +SK+ +   V+RD+ RFH+F+ G
Sbjct:   808 AMALGIISSG----HGKIIRVTKNLRVCGDCHEMAKFMSKLTRREIVLRDSNRFHQFKDG 863

Query:   687 VCSCGDYW 694
              CSC  +W
Sbjct:   864 HCSCRGFW 871

GO:0009507 "chloroplast" evidence=ISM

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

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

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

GO:0048366 "leaf development" evidence=IMP

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

 Score = 1230 (438.0 bits), Expect = 3.4e-125, P = 3.4e-125
 Identities = 253/688 (36%), Positives = 379/688 (55%)

Query:     8 LVSERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGAC 67
             L  +   LA  +  CS +  L  G QLH    K+GF+ +  +   L+++YAKC ++  A 
Sbjct:   385 LEPDSNTLASLVVACSADGTLFRGQQLHAYTTKLGFASNNKIEGALLNLYAKCADIETAL 444

Query:    68 AVFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLS 127
               F +    NVV W  ++  +    + +    +F QM    + PN++T  + +K    L 
Sbjct:   445 DYFLETEVENVVLWNVMLVAYGLLDDLRNSFRIFRQMQIEEIVPNQYTYPSILKTCIRLG 504

Query:   128 SVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIA 187
              +E G QIH   +K+ F+ N  V + +IDMY+K G+++ A  +      K +++W  MIA
Sbjct:   505 DLELGEQIHSQIIKTNFQLNAYVCSVLIDMYAKLGKLDTAWDILIRFAGKDVVSWTTMIA 564

Query:   188 GYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPY 247
             GY    + DK L  FR+M + G   DE   T+ + AC  L ++  G QIH     SGF  
Sbjct:   565 GYTQYNFDDKALTTFRQMLDRGIRSDEVGLTNAVSACAGLQALKEGQQIHAQACVSGF-- 622

Query:   248 SVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQ 307
             S       +LV  Y +CG + E+   F+  E    I+W++L+ G+ Q  N  EA+ +F +
Sbjct:   623 SSDLPFQNALVTLYSRCGKIEESYLAFEQTEAGDNIAWNALVSGFQQSGNNEEALRVFVR 682

Query:   308 LRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGL 367
             +    +  + F   S +   ++ A ++QGKQ+HA   K     +T V N+++ MY KCG 
Sbjct:   683 MNREGIDNNNFTFGSAVKAASETANMKQGKQVHAVITKTGYDSETEVCNALISMYAKCGS 742

Query:   368 IDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSA 427
             I +A + F E+  KN V+W  II  Y KHG   EA+  F +M+  +V P+ V  + VLSA
Sbjct:   743 ISDAEKQFLEVSTKNEVSWNAIINAYSKHGFGSEALDSFDQMIHSNVRPNHVTLVGVLSA 802

Query:   428 CSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIA 487
             CSH GLV++   YF  + ++  + P+ EHY C+VD L RAG L  AK  I+ MP+KP   
Sbjct:   803 CSHIGLVDKGIAYFESMNSEYGLSPKPEHYVCVVDMLTRAGLLSRAKEFIQEMPIKPDAL 862

Query:   488 IWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLAR 547
             +W+TLLSAC VH ++E+G      LL L+ ++   YV++SN++A +  W+  +  R+  +
Sbjct:   863 VWRTLLSACVVHKNMEIGEFAAHHLLELEPEDSATYVLLSNLYAVSKKWDARDLTRQKMK 922

Query:   548 SKGLKKVAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLXXXXXXXXXXLGFVYGVKYAL 607
              KG+KK  G+SW+EV   IH FY GD  HPL ++IH+            +G+V      L
Sbjct:   923 EKGVKKEPGQSWIEVKNSIHSFYVGDQNHPLADEIHEYFQDLTKRASE-IGYVQDCFSLL 981

Query:   608 HDIQEESKEESLRVHSEKLAIGLALVRGGLNEQPGKV-IRVFKNLRVCGDCHEFIKGLSK 666
             +++Q E K+  + +HSEKLAI       GL   P  V I V KNLRVC DCH +IK +SK
Sbjct:   982 NELQHEQKDPIIFIHSEKLAISF-----GLLSLPATVPINVMKNLRVCNDCHAWIKFVSK 1036

Query:   667 ILKLVFVVRDATRFHRFEGGVCSCGDYW 694
             +     +VRDA RFH FEGG CSC DYW
Sbjct:  1037 VSNREIIVRDAYRFHHFEGGACSCKDYW 1064

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2125899 AT4G33170 [Arabidopsis thaliana (taxid:3702)]

 Score = 1226 (436.6 bits), Expect = 8.9e-125, P = 8.9e-125
 Identities = 254/668 (38%), Positives = 387/668 (57%)

Query:    28 LDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCG 87
             L  G Q+H   +K+G    L ++N LI+MY K  +   A  VFD M ER+++SW +++ G
Sbjct:   331 LALGQQVHCMALKLGLDLMLTVSNSLINMYCKLRKFGFARTVFDNMSERDLISWNSVIAG 390

Query:    88 FLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVL-SSVENGMQIHGMCMKSGFEW 146
               QNG     + LF Q+    +KP+++T+++ +KA+  L   +    Q+H   +K     
Sbjct:   391 IAQNGLEVEAVCLFMQLLRCGLKPDQYTMTSVLKAASSLPEGLSLSKQVHVHAIKINNVS 450

Query:   147 NPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQ 206
             +  V  ++ID YS+   + EA  +F+      L+ WNAM+AGY  +    K L LF  M 
Sbjct:   451 DSFVSTALIDAYSRNRCMKEAEILFE-RHNFDLVAWNAMMAGYTQSHDGHKTLKLFALMH 509

Query:   207 EHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGC 266
             + GE  D+FT  +  K CG L ++  G Q+H + I SG  Y +   ++  ++D YVKCG 
Sbjct:   510 KQGERSDDFTLATVFKTCGFLFAINQGKQVHAYAIKSG--YDLDLWVSSGILDMYVKCGD 567

Query:   267 LVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGV 326
             +  A+  FD I     ++W+++I G  +      A  +F Q+R   +  D F ++++   
Sbjct:   568 MSAAQFAFDSIPVPDDVAWTTMISGCIENGEEERAFHVFSQMRLMGVLPDEFTIATLAKA 627

Query:   327 FADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTW 386
              +    +EQG+QIHA A K+    D  V  S+VDMY KCG ID+A  LF  + + N+  W
Sbjct:   628 SSCLTALEQGRQIHANALKLNCTNDPFVGTSLVDMYAKCGSIDDAYCLFKRIEMMNITAW 687

Query:   387 TVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCN 446
               ++ G  +HG  KE + LF++M    ++PD V ++ VLSACSHSGLV E+ ++   +  
Sbjct:   688 NAMLVGLAQHGEGKETLQLFKQMKSLGIKPDKVTFIGVLSACSHSGLVSEAYKHMRSMHG 747

Query:   447 DKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGR 506
             D  +KP IEHYSC+ D+LGRAG + +A+NLIESM ++ S ++++TLL+ACRV GD E G+
Sbjct:   748 DYGIKPEIEHYSCLADALGRAGLVKQAENLIESMSMEASASMYRTLLAACRVQGDTETGK 807

Query:   507 EVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSWVEVDKEI 566
              V   LL L+  +   YV++SN++A A  W+E +  R + +   +KK  G SW+EV  +I
Sbjct:   808 RVATKLLELEPLDSSAYVLLSNMYAAASKWDEMKLARTMMKGHKVKKDPGFSWIEVKNKI 867

Query:   567 HFFYGGDDTHPLTEKIHQVLXXXXXXXXXXLGFVYGVKYALHDIQEESKEESLRVHSEKL 626
             H F   D ++  TE I++ +           G+V    + L D++EE KE +L  HSEKL
Sbjct:   868 HIFVVDDRSNRQTELIYRKVKDMIRDIKQE-GYVPETDFTLVDVEEEEKERALYYHSEKL 926

Query:   627 AIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDATRFHRFEGG 686
             A+   L    L+  P   IRV KNLRVCGDCH  +K ++K+     V+RDA RFHRF+ G
Sbjct:   927 AVAFGL----LSTPPSTPIRVIKNLRVCGDCHNAMKYIAKVYNREIVLRDANRFHRFKDG 982

Query:   687 VCSCGDYW 694
             +CSCGDYW
Sbjct:   983 ICSCGDYW 990

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2178188 MEF7 "AT5G09950" [Arabidopsis thaliana (taxid:3702)]

 Score = 1218 (433.8 bits), Expect = 6.3e-124, P = 6.3e-124
 Identities = 246/673 (36%), Positives = 390/673 (57%)

Query:    28 LDYGVQLHGALVKMGF-SFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMC 86
             L  G ++HG ++  G   F + + N L++MYAKCG +  A  VF  M +++ VSW +++ 
Sbjct:   329 LKKGREVHGHVITTGLVDFMVGIGNGLVNMYAKCGSIADARRVFYFMTDKDSVSWNSMIT 388

Query:    87 GFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEW 146
             G  QNG     +  +  M    + P  FTL +++ +   L   + G QIHG  +K G + 
Sbjct:   389 GLDQNGCFIEAVERYKSMRRHDILPGSFTLISSLSSCASLKWAKLGQQIHGESLKLGIDL 448

Query:   147 NPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYS-DKGLLLFRKM 205
             N  V N+++ +Y++ G +NE  ++F  MP    ++WN++I     +  S  + ++ F   
Sbjct:   449 NVSVSNALMTLYAETGYLNECRKIFSSMPEHDQVSWNSIIGALARSERSLPEAVVCFLNA 508

Query:   206 QEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCG 265
             Q  G+  +  TF+S L A  SL     G QIHG  + +       T    +L+  Y KCG
Sbjct:   509 QRAGQKLNRITFSSVLSAVSSLSFGELGKQIHGLALKNNIADEATT--ENALIACYGKCG 566

Query:   266 CLVEARRVFD-LIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMM 324
              +    ++F  + E++  ++W+S+I GY   E LA+A++L   + +   ++D F+ ++++
Sbjct:   567 EMDGCEKIFSRMAERRDNVTWNSMISGYIHNELLAKALDLVWFMLQTGQRLDSFMYATVL 626

Query:   325 GVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVV 384
               FA  A +E+G ++HA + +     D  V +++VDMY KCG +D A   FN MPV+N  
Sbjct:   627 SAFASVATLERGMEVHACSVRACLESDVVVGSALVDMYSKCGRLDYALRFFNTMPVRNSY 686

Query:   385 TWTVIITGYGKHGLAKEAVGLFRKMLLD-DVEPDGVAYLAVLSACSHSGLVEESQEYFSR 443
             +W  +I+GY +HG  +EA+ LF  M LD    PD V ++ VLSACSH+GL+EE  ++F  
Sbjct:   687 SWNSMISGYARHGQGEEALKLFETMKLDGQTPPDHVTFVGVLSACSHAGLLEEGFKHFES 746

Query:   444 LCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSAC-RVHG-D 501
             + +   + PRIEH+SC+ D LGRAG LD+ ++ IE MP+KP++ IW+T+L AC R +G  
Sbjct:   747 MSDSYGLAPRIEHFSCMADVLGRAGELDKLEDFIEKMPMKPNVLIWRTVLGACCRANGRK 806

Query:   502 LELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSWVE 561
              ELG++  E+L +L+ +N VNYV++ N++A  G W +  + RK  +   +KK AG SWV 
Sbjct:   807 AELGKKAAEMLFQLEPENAVNYVLLGNMYAAGGRWEDLVKARKKMKDADVKKEAGYSWVT 866

Query:   562 VDKEIHFFYGGDDTHPLTEKIHQVLXXXXXXXXXXLGFVYGVKYALHDIQEESKEESLRV 621
             +   +H F  GD +HP  + I++ L           G+V    +AL+D+++E+KEE L  
Sbjct:   867 MKDGVHMFVAGDKSHPDADVIYKKLKELNRKMRDA-GYVPQTGFALYDLEQENKEEILSY 925

Query:   622 HSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDATRFH 681
             HSEKLA+   L     +  P   IR+ KNLRVCGDCH   K +SKI     ++RD+ RFH
Sbjct:   926 HSEKLAVAFVLAAQRSSTLP---IRIMKNLRVCGDCHSAFKYISKIEGRQIILRDSNRFH 982

Query:   682 RFEGGVCSCGDYW 694
              F+ G CSC D+W
Sbjct:   983 HFQDGACSCSDFW 995

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0009451 "RNA modification" evidence=IMP

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

 Score = 1215 (432.8 bits), Expect = 1.3e-123, P = 1.3e-123
 Identities = 247/676 (36%), Positives = 383/676 (56%)

Query:    19 LRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNV 78
             L+ C     L  G ++HG LVK GFS DL     L +MYAKC ++N A  VFD+M ER++
Sbjct:   142 LKVCGDEAELRVGKEIHGLLVKSGFSLDLFAMTGLENMYAKCRQVNEARKVFDRMPERDL 201

Query:    79 VSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGM 138
             VSW  ++ G+ QNG A+  L +   M   ++KP+  T+ + + A   L  +  G +IHG 
Sbjct:   202 VSWNTIVAGYSQNGMARMALEMVKSMCEENLKPSFITIVSVLPAVSALRLISVGKEIHGY 261

Query:   139 CMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKG 198
              M+SGF+    +  +++DMY+KCG +  A ++FD M  +++++WN+MI  YV      + 
Sbjct:   262 AMRSGFDSLVNISTALVDMYAKCGSLETARQLFDGMLERNVVSWNSMIDAYVQNENPKEA 321

Query:   199 LLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLV 258
             +L+F+KM + G  P + +    L AC  LG +  G  IH   +  G   +V  V   SL+
Sbjct:   322 MLIFQKMLDEGVKPTDVSVMGALHACADLGDLERGRFIHKLSVELGLDRNVSVV--NSLI 379

Query:   259 DFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGF 318
               Y KC  +  A  +F  ++ ++++SW+++ILG+AQ     +A+  F Q+R R+++ D F
Sbjct:   380 SMYCKCKEVDTAASMFGKLQSRTLVSWNAMILGFAQNGRPIDALNYFSQMRSRTVKPDTF 439

Query:   319 VLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEM 378
                S++   A+ ++    K IH    +     +  V+ ++VDMY KCG I  A  +F+ M
Sbjct:   440 TYVSVITAIAELSITHHAKWIHGVVMRSCLDKNVFVTTALVDMYAKCGAIMIARLIFDMM 499

Query:   379 PVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQ 438
               ++V TW  +I GYG HG  K A+ LF +M    ++P+GV +L+V+SACSHSGLVE   
Sbjct:   500 SERHVTTWNAMIDGYGTHGFGKAALELFEEMQKGTIKPNGVTFLSVISACSHSGLVEAGL 559

Query:   439 EYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRV 498
             + F  +  +  ++  ++HY  +VD LGRAGRL+EA + I  MPVKP++ ++  +L AC++
Sbjct:   560 KCFYMMKENYSIELSMDHYGAMVDLLGRAGRLNEAWDFIMQMPVKPAVNVYGAMLGACQI 619

Query:   499 HGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRS 558
             H ++    +  E L  L+ D+   +V+++NI+  A  W +  ++R     +GL+K  G S
Sbjct:   620 HKNVNFAEKAAERLFELNPDDGGYHVLLANIYRAASMWEKVGQVRVSMLRQGLRKTPGCS 679

Query:   559 WVEVDKEIHFFYGGDDTHPLTEKIHQVLXXXXXXXXXXLGFVYGVKYALHDIQEESKEES 618
              VE+  E+H F+ G   HP ++KI+  L           G+V      L  ++ + KE+ 
Sbjct:   680 MVEIKNEVHSFFSGSTAHPDSKKIYAFLEKLICHIKEA-GYVPDTNLVL-GVENDVKEQL 737

Query:   619 LRVHSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDAT 678
             L  HSEKLAI   L    LN   G  I V KNLRVC DCH   K +S +     VVRD  
Sbjct:   738 LSTHSEKLAISFGL----LNTTAGTTIHVRKNLRVCADCHNATKYISLVTGREIVVRDMQ 793

Query:   679 RFHRFEGGVCSCGDYW 694
             RFH F+ G CSCGDYW
Sbjct:   794 RFHHFKNGACSCGDYW 809

GO:0005739 "mitochondrion" evidence=ISM

GO:0004519 "endonuclease activity" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

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

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

 Score = 1212 (431.7 bits), Expect = 2.7e-123, P = 2.7e-123
 Identities = 251/688 (36%), Positives = 393/688 (57%)

Query:    19 LRCCSKNLLLDYGVQLHGALVKMG-FSFDLMLNNDLIDMYAKCGE--MNGACAVFDKMLE 75
             +R CS +  +  G    G L+K G F  D+ +   LIDM+ K GE     A  VFDKM E
Sbjct:   173 IRACSNSDFVGVGRVTLGFLMKTGHFESDVCVGCSLIDMFVK-GENSFENAYKVFDKMSE 231

Query:    76 RNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQI 135
              NVV+WT ++   +Q G  +  +  F  M  S  + ++FTLS+   A   L ++  G Q+
Sbjct:   232 LNVVTWTLMITRCMQMGFPREAIRFFLDMVLSGFESDKFTLSSVFSACAELENLSLGKQL 291

Query:   136 HGMCMKSGFEWNPVVGNSIIDMYSKC---GRINEAARMFDVMPAKSLITWNAMIAGYVL- 191
             H   ++SG   +  V  S++DMY+KC   G +++  ++FD M   S+++W A+I GY+  
Sbjct:   292 HSWAIRSGLVDD--VECSLVDMYAKCSADGSVDDCRKVFDRMEDHSVMSWTALITGYMKN 349

Query:   192 AGYSDKGLLLFRKMQEHGEI-PDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVK 250
                + + + LF +M   G + P+ FTF+S  KACG+L     G Q+ G     G   +  
Sbjct:   350 CNLATEAINLFSEMITQGHVEPNHFTFSSAFKACGNLSDPRVGKQVLGQAFKRGL--ASN 407

Query:   251 TVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRE 310
             + +A S++  +VK   + +A+R F+ + +K+++S+++ + G  +  N  +A +L  ++ E
Sbjct:   408 SSVANSVISMFVKSDRMEDAQRAFESLSEKNLVSYNTFLDGTCRNLNFEQAFKLLSEITE 467

Query:   311 RSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDE 370
             R L V  F  +S++   A+   + +G+QIH+   K+    +  V N+++ MY KCG ID 
Sbjct:   468 RELGVSAFTFASLLSGVANVGSIRKGEQIHSQVVKLGLSCNQPVCNALISMYSKCGSIDT 527

Query:   371 ATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSH 430
             A+ +FN M  +NV++WT +ITG+ KHG A   +  F +M+ + V+P+ V Y+A+LSACSH
Sbjct:   528 ASRVFNFMENRNVISWTSMITGFAKHGFAIRVLETFNQMIEEGVKPNEVTYVAILSACSH 587

Query:   431 SGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQ 490
              GLV E   +F+ +  D ++KP++EHY+C+VD L RAG L +A   I +MP +  + +W+
Sbjct:   588 VGLVSEGWRHFNSMYEDHKIKPKMEHYACMVDLLCRAGLLTDAFEFINTMPFQADVLVWR 647

Query:   491 TLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKG 550
             T L ACRVH + ELG+     +L LD + P  Y+ +SNI+A AG W E   +R+  + + 
Sbjct:   648 TFLGACRVHSNTELGKLAARKILELDPNEPAAYIQLSNIYACAGKWEESTEMRRKMKERN 707

Query:   551 LKKVAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLXXXXXXXXXXLGFVYGVKYALHDI 610
             L K  G SW+EV  +IH FY GD  HP   +I+  L           G+V      LH +
Sbjct:   708 LVKEGGCSWIEVGDKIHKFYVGDTAHPNAHQIYDELDRLITEIKR-CGYVPDTDLVLHKL 766

Query:   611 QEES----KEESLRVHSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSK 666
             +EE+    KE  L  HSEK+A+   L+    +    + +RVFKNLRVCGDCH  +K +S 
Sbjct:   767 EEENDEAEKERLLYQHSEKIAVAFGLI----STSKSRPVRVFKNLRVCGDCHNAMKYIST 822

Query:   667 ILKLVFVVRDATRFHRFEGGVCSCGDYW 694
             +     V+RD  RFH F+ G CSC DYW
Sbjct:   823 VSGREIVLRDLNRFHHFKDGKCSCNDYW 850

GO:0009507 "chloroplast" evidence=ISM

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

TAIR|locus:2060640 OTP81 "ORGANELLE TRANSCRIPT PROCESSING 81" [Arabidopsis thaliana (taxid:3702)]

 Score = 823 (294.8 bits), Expect = 1.7e-120, Sum P(2) = 1.7e-120
 Identities = 169/441 (38%), Positives = 260/441 (58%)

Query:   256 SLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLR-ERSLQ 314
             +++D Y        AR V + + QK +++W++LI  Y Q     EA+ +F +L+ +++++
Sbjct:   303 TMLDGYAISEDYEAAREVLNSMPQKDIVAWNALISAYEQNGKPNEALIVFHELQLQKNMK 362

Query:   315 VDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATEL 374
             ++   L S +   A    +E G+ IH+Y  K    ++  V+++++ MY KCG ++++ E+
Sbjct:   363 LNQITLVSTLSACAQVGALELGRWIHSYIKKHGIRMNFHVTSALIHMYSKCGDLEKSREV 422

Query:   375 FNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLV 434
             FN +  ++V  W+ +I G   HG   EAV +F KM   +V+P+GV +  V  ACSH+GLV
Sbjct:   423 FNSVEKRDVFVWSAMIGGLAMHGCGNEAVDMFYKMQEANVKPNGVTFTNVFCACSHTGLV 482

Query:   435 EESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLS 494
             +E++  F ++ ++  + P  +HY+CIVD LGR+G L++A   IE+MP+ PS ++W  LL 
Sbjct:   483 DEAESLFHQMESNYGIVPEEKHYACIVDVLGRSGYLEKAVKFIEAMPIPPSTSVWGALLG 542

Query:   495 ACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKV 554
             AC++H +L L       LL L+  N   +V++SNI+A  G W     LRK  R  GLKK 
Sbjct:   543 ACKIHANLNLAEMACTRLLELEPRNDGAHVLLSNIYAKLGKWENVSELRKHMRVTGLKKE 602

Query:   555 AGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLXXXXXXXXXXLGFVYGVKYALHDIQEES 614
              G S +E+D  IH F  GD+ HP++EK++  L           G+   +   L  I+EE 
Sbjct:   603 PGCSSIEIDGMIHEFLSGDNAHPMSEKVYGKLHEVMEKLKSN-GYEPEISQVLQIIEEEE 661

Query:   615 -KEESLRVHSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFV 673
              KE+SL +HSEKLAI   L+     E P KVIRV KNLRVCGDCH   K +S++     +
Sbjct:   662 MKEQSLNLHSEKLAICYGLIS---TEAP-KVIRVIKNLRVCGDCHSVAKLISQLYDREII 717

Query:   674 VRDATRFHRFEGGVCSCGDYW 694
             VRD  RFH F  G CSC D+W
Sbjct:   718 VRDRYRFHHFRNGQCSCNDFW 738

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:505006130 AT1G18485 [Arabidopsis thaliana (taxid:3702)]

 Score = 1185 (422.2 bits), Expect = 2.0e-120, P = 2.0e-120
 Identities = 248/686 (36%), Positives = 393/686 (57%)

Query:    15 LADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKML 74
             L   L  C++   +  G  +HG  VK+    +L+LNN L+DMY+KCG +  A  +F    
Sbjct:   295 LVTVLPVCAREREIGLGKGVHGWAVKLRLDKELVLNNALMDMYSKCGCITNAQMIFKMNN 354

Query:    75 ERNVVSWTALMCGFLQNGNAKACLSLFCQM--GSSSVKPNEFTLSTNIKASGVLSSVENG 132
              +NVVSW  ++ GF   G+      +  QM  G   VK +E T+   +      S + + 
Sbjct:   355 NKNVVSWNTMVGGFSAEGDTHGTFDVLRQMLAGGEDVKADEVTILNAVPVCFHESFLPSL 414

Query:   133 MQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLA 192
              ++H   +K  F +N +V N+ +  Y+KCG ++ A R+F  + +K++ +WNA+I G+  +
Sbjct:   415 KELHCYSLKQEFVYNELVANAFVASYAKCGSLSYAQRVFHGIRSKTVNSWNALIGGHAQS 474

Query:   193 GYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTV 252
                   L    +M+  G +PD FT  S L AC  L S+  G ++HGF+I +     +   
Sbjct:   475 NDPRLSLDAHLQMKISGLLPDSFTVCSLLSACSKLKSLRLGKEVHGFIIRNWLERDLFVY 534

Query:   253 IAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERS 312
             +  S++  Y+ CG L   + +FD +E KS++SW+++I GY Q      A+ +FRQ+    
Sbjct:   535 L--SVLSLYIHCGELCTVQALFDAMEDKSLVSWNTVITGYLQNGFPDRALGVFRQMVLYG 592

Query:   313 LQVDGFVLSSMMGVFADFALVEQ---GKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLID 369
             +Q+ G    SMM VF   +L+     G++ HAYA K     D  ++ S++DMY K G I 
Sbjct:   593 IQLCGI---SMMPVFGACSLLPSLRLGREAHAYALKHLLEDDAFIACSLIDMYAKNGSIT 649

Query:   370 EATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACS 429
             +++++FN +  K+  +W  +I GYG HGLAKEA+ LF +M      PD + +L VL+AC+
Sbjct:   650 QSSKVFNGLKEKSTASWNAMIMGYGIHGLAKEAIKLFEEMQRTGHNPDDLTFLGVLTACN 709

Query:   430 HSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLI-ESMPVKPSIAI 488
             HSGL+ E   Y  ++ +   +KP ++HY+C++D LGRAG+LD+A  ++ E M  +  + I
Sbjct:   710 HSGLIHEGLRYLDQMKSSFGLKPNLKHYACVIDMLGRAGQLDKALRVVAEEMSEEADVGI 769

Query:   489 WQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARS 548
             W++LLS+CR+H +LE+G +V   L  L+ + P NYV++SN++A  G W +  ++R+    
Sbjct:   770 WKSLLSSCRIHQNLEMGEKVAAKLFELEPEKPENYVLLSNLYAGLGKWEDVRKVRQRMNE 829

Query:   549 KGLKKVAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLXXXXXXXXXXLGFVYGVKYALH 608
               L+K AG SW+E+++++  F  G+      E+I   L          +G+        H
Sbjct:   830 MSLRKDAGCSWIELNRKVFSFVVGERFLDGFEEIKS-LWSILEMKISKMGYRPDTMSVQH 888

Query:   609 DIQEESKEESLRVHSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKIL 668
             D+ EE K E LR HSEKLA+   L++   +E  G  IRV+KNLR+C DCH   K +SK++
Sbjct:   889 DLSEEEKIEQLRGHSEKLALTYGLIK--TSE--GTTIRVYKNLRICVDCHNAAKLISKVM 944

Query:   669 KLVFVVRDATRFHRFEGGVCSCGDYW 694
             +   VVRD  RFH F+ GVCSCGDYW
Sbjct:   945 EREIVVRDNKRFHHFKNGVCSCGDYW 970

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016556 "mRNA modification" evidence=RCA

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

 Score = 1170 (416.9 bits), Expect = 7.7e-119, P = 7.7e-119
 Identities = 246/694 (35%), Positives = 395/694 (56%)

Query:     4 VSFSLVSERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEM 63
             +S  L  + +     L+ C    ++D G ++H   +K GF +D+ +   LI +Y++   +
Sbjct:   145 LSSGLTPDYRTFPSVLKAC--RTVID-GNKIHCLALKFGFMWDVYVAASLIHLYSRYKAV 201

Query:    64 NGACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKP-NEFTLSTNIKA 122
               A  +FD+M  R++ SW A++ G+ Q+GNAK  L+L     S+ ++  +  T+ + + A
Sbjct:   202 GNARILFDEMPVRDMGSWNAMISGYCQSGNAKEALTL-----SNGLRAMDSVTVVSLLSA 256

Query:   123 SGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITW 182
                      G+ IH   +K G E    V N +ID+Y++ GR+ +  ++FD M  + LI+W
Sbjct:   257 CTEAGDFNRGVTIHSYSIKHGLESELFVSNKLIDLYAEFGRLRDCQKVFDRMYVRDLISW 316

Query:   183 NAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLIT 242
             N++I  Y L     + + LF++M+     PD  T  S       LG +     + GF + 
Sbjct:   317 NSIIKAYELNEQPLRAISLFQEMRLSRIQPDCLTLISLASILSQLGDIRACRSVQGFTLR 376

Query:   243 SGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAM 302
              G+ +     I  ++V  Y K G +  AR VF+ +    VISW+++I GYAQ    +EA+
Sbjct:   377 KGW-FLEDITIGNAVVVMYAKLGLVDSARAVFNWLPNTDVISWNTIISGYAQNGFASEAI 435

Query:   303 ELFRQLRERS-LQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDM 361
             E++  + E   +  +     S++   +    + QG ++H    K    LD  V  S+ DM
Sbjct:   436 EMYNIMEEEGEIAANQGTWVSVLPACSQAGALRQGMKLHGRLLKNGLYLDVFVVTSLADM 495

Query:   362 YLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAY 421
             Y KCG +++A  LF ++P  N V W  +I  +G HG  ++AV LF++ML + V+PD + +
Sbjct:   496 YGKCGRLEDALSLFYQIPRVNSVPWNTLIACHGFHGHGEKAVMLFKEMLDEGVKPDHITF 555

Query:   422 LAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMP 481
             + +LSACSHSGLV+E Q  F  +  D  + P ++HY C+VD  GRAG+L+ A   I+SM 
Sbjct:   556 VTLLSACSHSGLVDEGQWCFEMMQTDYGITPSLKHYGCMVDMYGRAGQLETALKFIKSMS 615

Query:   482 VKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECER 541
             ++P  +IW  LLSACRVHG+++LG+   E L  ++ ++   +V++SN++A AG W   + 
Sbjct:   616 LQPDASIWGALLSACRVHGNVDLGKIASEHLFEVEPEHVGYHVLLSNMYASAGKWEGVDE 675

Query:   542 LRKLARSKGLKKVAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLXXXXXXXXXXLGFVY 601
             +R +A  KGL+K  G S +EVD ++  FY G+ THP+ E++++ L          +G+V 
Sbjct:   676 IRSIAHGKGLRKTPGWSSMEVDNKVEVFYTGNQTHPMYEEMYRELTALQAKLKM-IGYVP 734

Query:   602 GVKYALHDIQEESKEESLRVHSEKLAIGLALVRGGLNEQPGKV-IRVFKNLRVCGDCHEF 660
               ++ L D++++ KE  L  HSE+LAI  AL+       P K  IR+FKNLRVCGDCH  
Sbjct:   735 DHRFVLQDVEDDEKEHILMSHSERLAIAFALIA-----TPAKTTIRIFKNLRVCGDCHSV 789

Query:   661 IKGLSKILKLVFVVRDATRFHRFEGGVCSCGDYW 694
              K +SKI +   +VRD+ RFH F+ GVCSCGDYW
Sbjct:   790 TKFISKITEREIIVRDSNRFHHFKNGVCSCGDYW 823

GO:0005739 "mitochondrion" evidence=ISM

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P0C898	PP232_ARATH	No assigned EC number	0.6186	0.9855	0.9927	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00020291001 SubName- Full=Chromosome chr5 scaffold_2, whole genome shotgun sequence; (705 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	694
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-176
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-154
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	9e-75
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	5e-62
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	6e-42
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	7e-41
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	6e-37
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-29
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	6e-17
pfam14432	116	pfam14432, DYW_deaminase, DYW family of nucleic ac	7e-15
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	9e-05
pfam01535	31	pfam01535, PPR, PPR repeat	1e-04
pfam01535	31	pfam01535, PPR, PPR repeat	1e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.004

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

 Score =  524 bits (1352), Expect = e-176
 Identities = 255/674 (37%), Positives = 381/674 (56%), Gaps = 10/674 (1%)

Query: 19  LRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNV 78
           LR C     L  G ++H  +V+ GF  D+ + N LI MY KCG++  A  VFD+M  R+ 
Sbjct: 194 LRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDC 253

Query: 79  VSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGM 138
           +SW A++ G+ +NG     L LF  M   SV P+  T+++ I A  +L     G ++HG 
Sbjct: 254 ISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGY 313

Query: 139 CMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKG 198
            +K+GF  +  V NS+I MY   G   EA ++F  M  K  ++W AMI+GY   G  DK 
Sbjct: 314 VVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKA 373

Query: 199 LLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLV 258
           L  +  M++    PDE T  S L AC  LG +  G ++H      G    V  V+A +L+
Sbjct: 374 LETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYV--VVANALI 431

Query: 259 DFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGF 318
           + Y KC C+ +A  VF  I +K VISW+S+I G        EA+  FRQ+   +L+ +  
Sbjct: 432 EMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSV 490

Query: 319 VLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEM 378
            L + +   A    +  GK+IHA+  +   G D  + N+++D+Y++CG ++ A   FN  
Sbjct: 491 TLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH 550

Query: 379 PVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQ 438
             K+VV+W +++TGY  HG    AV LF +M+   V PD V ++++L ACS SG+V +  
Sbjct: 551 E-KDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGL 609

Query: 439 EYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRV 498
           EYF  +     + P ++HY+C+VD LGRAG+L EA N I  MP+ P  A+W  LL+ACR+
Sbjct: 610 EYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRI 669

Query: 499 HGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRS 558
           H  +ELG    + +  LD ++   Y+++ N++ADAG W+E  R+RK  R  GL    G S
Sbjct: 670 HRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCS 729

Query: 559 WVEVDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQEESKEES 618
           WVEV  ++H F   D++HP  ++I+ VL    ++MK   G       ++ +I E SK++ 
Sbjct: 730 WVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMK-ASGLAGSESSSMDEI-EVSKDDI 787

Query: 619 LRVHSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDAT 678
              HSE+LAI   L+    N  PG  I V KNL +C +CH  +K +SKI++    VRD  
Sbjct: 788 FCGHSERLAIAFGLI----NTVPGMPIWVTKNLYMCENCHNTVKFISKIVRREISVRDTE 843

Query: 679 RFHRFEGGVCSCGD 692
           +FH F+ G CSCGD
Sbjct: 844 QFHHFKDGECSCGD 857

Length = 857

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

 Score =  462 bits (1190), Expect = e-154
 Identities = 215/575 (37%), Positives = 340/575 (59%), Gaps = 7/575 (1%)

Query: 120 IKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSL 179
           ++A   L S+     ++     SGFE +  + N ++ M+ KCG + +A R+FD MP ++L
Sbjct: 130 VEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNL 189

Query: 180 ITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGF 239
            +W  +I G V AG   +   LFR+M E G   +  TF   L+A   LGS   G Q+H  
Sbjct: 190 ASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCC 249

Query: 240 LITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLA 299
           ++ +G      T ++ +L+D Y KCG + +AR VFD + +K+ ++W+S++ GYA      
Sbjct: 250 VLKTGV--VGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSE 307

Query: 300 EAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIV 359
           EA+ L+ ++R+  + +D F  S M+ +F+  AL+E  KQ HA   +    LD   + ++V
Sbjct: 308 EALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALV 367

Query: 360 DMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGV 419
           D+Y K G +++A  +F+ MP KN+++W  +I GYG HG   +AV +F +M+ + V P+ V
Sbjct: 368 DLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHV 427

Query: 420 AYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIES 479
            +LAVLSAC +SGL E+  E F  +  + R+KPR  HY+C+++ LGR G LDEA  +I  
Sbjct: 428 TFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRR 487

Query: 480 MPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNEC 539
            P KP++ +W  LL+ACR+H +LELGR   E L  +  +   NYV++ N++  +G   E 
Sbjct: 488 APFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEA 547

Query: 540 ERLRKLARSKGLKKVAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGF 599
            ++ +  + KGL      +W+EV K+ H F+ GD  HP + +I+Q L E+ K +  E G+
Sbjct: 548 AKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEIS-EYGY 606

Query: 600 VYGVKYALHDIQEESKEESLRVHSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHE 659
           V      L D+ E+ ++ S R HSEKLAI   L+    N      +++ ++ R+C DCH+
Sbjct: 607 VAEENELLPDVDEDEEKVSGRYHSEKLAIAFGLI----NTSEWTPLQITQSHRICKDCHK 662

Query: 660 FIKGLSKILKLVFVVRDATRFHRFEGGVCSCGDYW 694
            IK ++ + K   VVRDA+RFH F+ G CSCGDYW
Sbjct: 663 VIKFIALVTKREIVVRDASRFHHFKLGKCSCGDYW 697

Length = 697

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

 Score =  257 bits (658), Expect = 9e-75
 Identities = 149/486 (30%), Positives = 257/486 (52%), Gaps = 14/486 (2%)

Query: 19  LRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNV 78
            R C     ++ G ++    +    S  + L N ++ M+ + GE+  A  VF KM ER++
Sbjct: 93  FRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDL 152

Query: 79  VSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGM 138
            SW  L+ G+ + G     L L+ +M  + V+P+ +T    ++  G +  +  G ++H  
Sbjct: 153 FSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAH 212

Query: 139 CMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKG 198
            ++ GFE +  V N++I MY KCG +  A  +FD MP +  I+WNAMI+GY   G   +G
Sbjct: 213 VVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEG 272

Query: 199 LLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLV 258
           L LF  M+E    PD  T TS + AC  LG    G ++HG+++ +GF  +V   +  SL+
Sbjct: 273 LELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGF--AVDVSVCNSLI 330

Query: 259 DFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENL--AEAMELFRQLRERSLQVD 316
             Y+  G   EA +VF  +E K  +SW+++I GY  E+N    +A+E +  + + ++  D
Sbjct: 331 QMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGY--EKNGLPDKALETYALMEQDNVSPD 388

Query: 317 GFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFN 376
              ++S++   A    ++ G ++H  A +        V+N++++MY KC  ID+A E+F+
Sbjct: 389 EITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFH 448

Query: 377 EMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEE 436
            +P K+V++WT II G   +    EA+  FR+MLL  ++P+ V  +A LSAC+  G +  
Sbjct: 449 NIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMC 507

Query: 437 SQEYFSRLCNDKRMKPRIEHY--SCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLS 494
            +E  + +    R     + +  + ++D   R GR++ A N   S   +  +  W  LL+
Sbjct: 508 GKEIHAHVL---RTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLT 562

Query: 495 ACRVHG 500
               HG
Sbjct: 563 GYVAHG 568

Length = 857

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

 Score =  219 bits (560), Expect = 5e-62
 Identities = 115/361 (31%), Positives = 189/361 (52%), Gaps = 10/361 (2%)

Query: 42  GFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLF 101
           GF  D  + N ++ M+ KCG +  A  +FD+M ERN+ SW  ++ G +  GN +   +LF
Sbjct: 153 GFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALF 212

Query: 102 CQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKC 161
            +M          T    ++AS  L S   G Q+H   +K+G   +  V  ++IDMYSKC
Sbjct: 213 REMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKC 272

Query: 162 GRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTL 221
           G I +A  +FD MP K+ + WN+M+AGY L GYS++ L L+ +M++ G   D+FTF+  +
Sbjct: 273 GDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMI 332

Query: 222 KACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKS 281
           +    L  +    Q H  LI +GFP  +  V   +LVD Y K G + +AR VFD + +K+
Sbjct: 333 RIFSRLALLEHAKQAHAGLIRTGFPLDI--VANTALVDLYSKWGRMEDARNVFDRMPRKN 390

Query: 282 VISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHA 341
           +ISW++LI GY       +A+E+F ++    +  +     +++       L EQG +I  
Sbjct: 391 LISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQ 450

Query: 342 YAAKV----PSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVT-WTVIITGYGKH 396
             ++     P  +  +    ++++  + GL+DEA  +    P K  V  W  ++T    H
Sbjct: 451 SMSENHRIKPRAMHYAC---MIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIH 507

Query: 397 G 397
            
Sbjct: 508 K 508

Length = 697

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

 Score =  162 bits (411), Expect = 6e-42
 Identities = 96/338 (28%), Positives = 167/338 (49%), Gaps = 13/338 (3%)

Query: 168 ARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHG--EIPDEFTFTSTLKACG 225
           AR+ D    KS ++  + I   V  G   + L LF  ++      +P   T+ + ++AC 
Sbjct: 76  ARLDDTQIRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPAS-TYDALVEACI 134

Query: 226 SLGSVGGGTQIHGFLITSGFP---YSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSV 282
           +L S+     ++  + +SGF    Y +  V+       +VKCG L++ARR+FD + ++++
Sbjct: 135 ALKSIRCVKAVYWHVESSGFEPDQYMMNRVLL-----MHVKCGMLIDARRLFDEMPERNL 189

Query: 283 ISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAY 342
            SW ++I G     N  EA  LFR++ E     +      M+   A       G+Q+H  
Sbjct: 190 ASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCC 249

Query: 343 AAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEA 402
             K     DT VS +++DMY KCG I++A  +F+ MP K  V W  ++ GY  HG ++EA
Sbjct: 250 VLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEA 309

Query: 403 VGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVD 462
           + L+ +M    V  D   +  ++   S   L+E +++  + L         I   + +VD
Sbjct: 310 LCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTG-FPLDIVANTALVD 368

Query: 463 SLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHG 500
              + GR+++A+N+ + MP K  I+ W  L++    HG
Sbjct: 369 LYSKWGRMEDARNVFDRMPRKNLIS-WNALIAGYGNHG 405

Length = 697

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

 Score =  158 bits (402), Expect = 7e-41
 Identities = 76/206 (36%), Positives = 120/206 (58%)

Query: 31  GVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQ 90
           G QLH  ++K G   D  ++  LIDMY+KCG++  A  VFD M E+  V+W +++ G+  
Sbjct: 243 GQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYAL 302

Query: 91  NGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVV 150
           +G ++  L L+ +M  S V  ++FT S  I+    L+ +E+  Q H   +++GF  + V 
Sbjct: 303 HGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVA 362

Query: 151 GNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGE 210
             +++D+YSK GR+ +A  +FD MP K+LI+WNA+IAGY   G   K + +F +M   G 
Sbjct: 363 NTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGV 422

Query: 211 IPDEFTFTSTLKACGSLGSVGGGTQI 236
            P+  TF + L AC   G    G +I
Sbjct: 423 APNHVTFLAVLSACRYSGLSEQGWEI 448

Length = 697

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

 Score =  148 bits (374), Expect = 6e-37
 Identities = 74/219 (33%), Positives = 119/219 (54%), Gaps = 2/219 (0%)

Query: 15  LADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKML 74
           +A  L  C+    LD GV+LH    + G    +++ N LI+MY+KC  ++ A  VF  + 
Sbjct: 392 IASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIP 451

Query: 75  ERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQ 134
           E++V+SWT+++ G   N      L  F QM   ++KPN  TL   + A   + ++  G +
Sbjct: 452 EKDVISWTSIIAGLRLNNRCFEALIFFRQM-LLTLKPNSVTLIAALSACARIGALMCGKE 510

Query: 135 IHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGY 194
           IH   +++G  ++  + N+++D+Y +CGR+N A   F+    K +++WN ++ GYV  G 
Sbjct: 511 IHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGK 569

Query: 195 SDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGG 233
               + LF +M E G  PDE TF S L AC   G V  G
Sbjct: 570 GSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQG 608

Length = 857

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

 Score =  125 bits (315), Expect = 1e-29
 Identities = 88/374 (23%), Positives = 172/374 (45%), Gaps = 13/374 (3%)

Query: 183 NAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLIT 242
           N+ +      G  ++ L L   MQE     DE  + +  + C    +V  G+++    ++
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALS 114

Query: 243 SGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAM 302
           S     V+  +  +++  +V+ G LV A  VF  + ++ + SW+ L+ GYA+     EA+
Sbjct: 115 SHPSLGVR--LGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEAL 172

Query: 303 ELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMY 362
            L+ ++    ++ D +    ++        + +G+++HA+  +    LD  V N+++ MY
Sbjct: 173 CLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMY 232

Query: 363 LKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYL 422
           +KCG +  A  +F+ MP ++ ++W  +I+GY ++G   E + LF  M    V+PD +   
Sbjct: 233 VKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTIT 292

Query: 423 AVLSAC---SHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIES 479
           +V+SAC       L  E   Y  +          +   + ++      G   EA+ +   
Sbjct: 293 SVISACELLGDERLGREMHGYVVK----TGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSR 348

Query: 480 MPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADA--GSWN 537
           M  K +++ W  ++S    +G  +   E    L+  D  +P    + S + A A  G  +
Sbjct: 349 METKDAVS-WTAMISGYEKNGLPDKALETYA-LMEQDNVSPDEITIASVLSACACLGDLD 406

Query: 538 ECERLRKLARSKGL 551
              +L +LA  KGL
Sbjct: 407 VGVKLHELAERKGL 420

Length = 857

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

 Score = 84.5 bits (209), Expect = 6e-17
 Identities = 49/170 (28%), Positives = 84/170 (49%), Gaps = 2/170 (1%)

Query: 19  LRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNV 78
           +R  S+  LL++  Q H  L++ GF  D++ N  L+D+Y+K G M  A  VFD+M  +N+
Sbjct: 332 IRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNL 391

Query: 79  VSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQI-HG 137
           +SW AL+ G+  +G     + +F +M +  V PN  T    + A       E G +I   
Sbjct: 392 ISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQS 451

Query: 138 MCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLIT-WNAMI 186
           M      +   +    +I++  + G ++EA  M    P K  +  W A++
Sbjct: 452 MSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALL 501

Length = 697

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

 Score = 70.9 bits (174), Expect = 7e-15
 Identities = 41/129 (31%), Positives = 57/129 (44%), Gaps = 22/129 (17%)

Query: 562 VDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQEESKEESLRV 621
           V  E      GD +HP          E+ +R+K E G V   K   HD+  E   ++   
Sbjct: 4   VWSEGKKTLSGDGSHP------TSKEELFQRIKVE-GVVPETKEIGHDVDAEEFRDNGIK 56

Query: 622 ------HSEKLAIGLALVRGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVR 675
                 H+EK A    L  G L  +  KV       R+CGDCHEF + ++K      +VR
Sbjct: 57  GKLLASHAEKQA----LAYGLLTTRIIKV-----LKRMCGDCHEFFRYIAKYTGREIIVR 107

Query: 676 DATRFHRFE 684
           D +RFH F+
Sbjct: 108 DPSRFHHFK 116

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

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

 Score = 63.0 bits (153), Expect = 4e-10
 Identities = 46/199 (23%), Positives = 95/199 (47%), Gaps = 11/199 (5%)

Query: 364 KCGLIDEATELFNEMPVK----NVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGV 419
           K G +D   E+F+EM       NV T+  +I G  + G   +A G +  M   +V+PD V
Sbjct: 484 KSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRV 543

Query: 420 AYLAVLSACSHSGLVEESQEYFSRL-CNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIE 478
            + A++SAC  SG V+ + +  + +      + P       ++ +   AG++D AK + +
Sbjct: 544 VFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQ 603

Query: 479 SMP---VKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNP--VNYVMMSNIHADA 533
            +    +K +  ++   +++C   GD +    + + + +  G  P  V +  + ++   A
Sbjct: 604 MIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKK-KGVKPDEVFFSALVDVAGHA 662

Query: 534 GSWNECERLRKLARSKGLK 552
           G  ++   + + AR +G+K
Sbjct: 663 GDLDKAFEILQDARKQGIK 681

Length = 1060

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

 Score = 52.4 bits (127), Expect = 4e-09
 Identities = 15/50 (30%), Positives = 26/50 (52%)

Query: 381 KNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSH 430
            +VVT+  +I GY K G  +EA+ LF +M    ++P+   Y  ++     
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 50.5 bits (122), Expect = 2e-08
 Identities = 13/48 (27%), Positives = 27/48 (56%)

Query: 177 KSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKAC 224
             ++T+N +I GY   G  ++ L LF +M++ G  P+ +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 = 50.1 bits (121), Expect = 2e-08
 Identities = 15/46 (32%), Positives = 25/46 (54%)

Query: 77  NVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKA 122
           +VV++  L+ G+ + G  +  L LF +M    +KPN +T S  I  
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDG 47

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 = 51.4 bits (123), Expect = 2e-06
 Identities = 87/412 (21%), Positives = 159/412 (38%), Gaps = 93/412 (22%)

Query: 37  ALVK-MGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKM----LERNVVSWTALMCGFLQN 91
            LV+  G   D  L   LI   AK G+++    VF +M    +E NV ++ AL+ G  + 
Sbjct: 461 RLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARA 520

Query: 92  GNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVG 151
           G        +  M S +VKP+                                    VV 
Sbjct: 521 GQVAKAFGAYGIMRSKNVKPDR-----------------------------------VVF 545

Query: 152 NSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEI 211
           N++I   S CG+     R FDV                          L   K + H   
Sbjct: 546 NALI---SACGQSGAVDRAFDV--------------------------LAEMKAETHPID 576

Query: 212 PDEFTFTSTLKACGSLGSVGGGTQIHGFLITS---GFPYSVKTVIAGSLVDFYVKCGCLV 268
           PD  T  + +KAC + G V    +++  +      G P  V T+     V+   + G   
Sbjct: 577 PDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTP-EVYTIA----VNSCSQKGDWD 631

Query: 269 EARRVFDLIEQKSV----ISWSSLI--LGYAQEENLAEAMELFRQLRERSLQVDGFVLSS 322
            A  ++D +++K V    + +S+L+   G+A +  L +A E+ +  R++ +++     SS
Sbjct: 632 FALSIYDDMKKKGVKPDEVFFSALVDVAGHAGD--LDKAFEILQDARKQGIKLGTVSYSS 689

Query: 323 MMGVFADFALVEQGKQIHAYAAKVPSGLDTSVS--NSIVDMYLKCGLIDEATELFNEMP- 379
           +MG  ++       K +  Y       L  +VS  N+++    +   + +A E+ +EM  
Sbjct: 690 LMGACSN--AKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKR 747

Query: 380 ---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSAC 428
                N +T+++++    +   A   + L  +   D ++P+ V    +   C
Sbjct: 748 LGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLC 799

Length = 1060

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

 Score = 50.6 bits (121), Expect = 2e-06
 Identities = 78/385 (20%), Positives = 172/385 (44%), Gaps = 26/385 (6%)

Query: 162 GRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTL 221
             + EA R   ++   +L T+N +++    +   D  L + R +QE G   D   +T+ +
Sbjct: 420 RAVKEAFRFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLI 479

Query: 222 KACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKS 281
             C   G V    ++   ++ +G   +V T   G+L+D   + G + +A   + ++  K+
Sbjct: 480 STCAKSGKVDAMFEVFHEMVNAGVEANVHTF--GALIDGCARAGQVAKAFGAYGIMRSKN 537

Query: 282 V----ISWSSLILGYAQEENLAEAMELFRQLRERSLQV--DGFVLSSMMGVFADFALVEQ 335
           V    + +++LI    Q   +  A ++  +++  +  +  D   + ++M   A+   V++
Sbjct: 538 VKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDR 597

Query: 336 GKQ----IHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNV----VTWT 387
            K+    IH Y  K    + T   NS      + G  D A  ++++M  K V    V ++
Sbjct: 598 AKEVYQMIHEYNIKGTPEVYTIAVNSCS----QKGDWDFALSIYDDMKKKGVKPDEVFFS 653

Query: 388 VIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCND 447
            ++   G  G   +A  + +      ++   V+Y +++ ACS++   +++ E +  + + 
Sbjct: 654 ALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSI 713

Query: 448 KRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMP---VKPSIAIWQTLLSACRVHGDLEL 504
           K ++P +   + ++ +L    +L +A  ++  M    + P+   +  LL A     D ++
Sbjct: 714 K-LRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADV 772

Query: 505 GREVGEILLRLDGDNPVNYVMMSNI 529
           G ++     + DG  P N VM   I
Sbjct: 773 GLDLLS-QAKEDGIKP-NLVMCRCI 795

Length = 1060

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

 Score = 45.1 bits (108), Expect = 2e-06
 Identities = 18/44 (40%), Positives = 29/44 (65%), Gaps = 4/44 (9%)

Query: 356 NSIVDMYLKCGLIDEATELFNEMPVK----NVVTWTVIITGYGK 395
           N+++D Y K G ++EA +LFNEM  +    NV T++++I G  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|205109 pfam12854, PPR_1, PPR repeat

 Score = 39.6 bits (94), Expect = 9e-05
 Identities = 11/28 (39%), Positives = 16/28 (57%)

Query: 382 NVVTWTVIITGYGKHGLAKEAVGLFRKM 409
           +VVT+  +I G  + G   EAV L  +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

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

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

Query: 384 VTWTVIITGYGKHGLAKEAVGLFRKMLLDDV 414
           VT+  +I+GY K G  +EA+ LF++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|144943 pfam01535, PPR, PPR repeat

 Score = 39.4 bits (93), Expect = 1e-04
 Identities = 13/30 (43%), Positives = 23/30 (76%)

Query: 180 ITWNAMIAGYVLAGYSDKGLLLFRKMQEHG 209
           +T+N++I+GY  AG  ++ L LF++M+E 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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 39.3 bits (93), Expect = 2e-04
 Identities = 15/42 (35%), Positives = 25/42 (59%), Gaps = 4/42 (9%)

Query: 51 NDLIDMYAKCGEMNGACAVFDKMLER----NVVSWTALMCGF 88
          N LID Y K G++  A  +F++M +R    NV +++ L+ G 
Sbjct: 7  NTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 39.0 bits (92), Expect = 2e-04
 Identities = 14/34 (41%), Positives = 21/34 (61%)

Query: 384 VTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPD 417
           VT+  +I G  K G  +EA+ LF++M    +EPD
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 38.6 bits (91), Expect = 2e-04
 Identities = 14/35 (40%), Positives = 22/35 (62%)

Query: 180 ITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDE 214
           +T+N +I G   AG  ++ L LF++M+E G  PD 
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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 38.2 bits (90), Expect = 4e-04
 Identities = 13/42 (30%), Positives = 25/42 (59%), Gaps = 4/42 (9%)

Query: 152 NSIIDMYSKCGRINEAARMFDVMPAKSL----ITWNAMIAGY 189
           N++ID Y K G++ EA ++F+ M  + +     T++ +I G 
Sbjct: 7   NTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 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 = 38.2 bits (90), Expect = 4e-04
 Identities = 11/50 (22%), Positives = 31/50 (62%)

Query: 280 KSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFAD 329
             V+++++LI GY ++  + EA++LF ++++R ++ + +  S ++     
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 34.7 bits (81), Expect = 0.004
 Identities = 9/35 (25%), Positives = 18/35 (51%)

Query: 79  VSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNE 113
           V++  L+ G  + G  +  L LF +M    ++P+ 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	694
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PF14432	116	DYW_deaminase: DYW family of nucleic acid deaminas	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.94
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.94
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.93
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.91
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.9
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.88
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.85
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.83
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.82
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.82
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.82
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.82
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.78
PRK14574	822	hmsH outer membrane protein; Provisional	99.77
PRK14574	822	hmsH outer membrane protein; Provisional	99.77
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.76
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.75
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.75
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.73
KOG2076	895	consensus RNA polymerase III transcription factor	99.71
KOG2003	840	consensus TPR repeat-containing protein [General f	99.64
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.63
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.61
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.61
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.58
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.54
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.51
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.51
KOG2076	895	consensus RNA polymerase III transcription factor	99.5
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.47
KOG1126	638	consensus DNA-binding cell division cycle control	99.45
KOG1126	638	consensus DNA-binding cell division cycle control	99.45
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.45
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.44
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.43
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.43
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.42
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.41
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.39
KOG2003	840	consensus TPR repeat-containing protein [General f	99.39
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.38
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.33
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.33
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.33
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.29
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.28
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.26
PF13041	50	PPR_2: PPR repeat family	99.26
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.25
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.24
PF13041	50	PPR_2: PPR repeat family	99.23
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.21
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.2
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.17
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.14
PRK12370	553	invasion protein regulator; Provisional	99.14
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.13
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.11
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.09
PRK12370	553	invasion protein regulator; Provisional	99.09
PRK11189	296	lipoprotein NlpI; Provisional	99.09
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.08
KOG1129	478	consensus TPR repeat-containing protein [General f	99.08
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.07
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.04
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.04
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.03
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.98
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.96
PRK11189	296	lipoprotein NlpI; Provisional	98.93
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.89
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.86
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.86
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.83
KOG1129	478	consensus TPR repeat-containing protein [General f	98.83
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.82
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.81
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.8
PRK04841	903	transcriptional regulator MalT; Provisional	98.78
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.77
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.75
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.74
KOG1125	579	consensus TPR repeat-containing protein [General f	98.72
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.71
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.7
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.7
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.7
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.68
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.67
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.66
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.65
PRK15359	144	type III secretion system chaperone protein SscB;	98.63
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.63
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.6
PRK15359	144	type III secretion system chaperone protein SscB;	98.54
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.54
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.52
PF12854	34	PPR_1: PPR repeat	98.52
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.51
PRK04841	903	transcriptional regulator MalT; Provisional	98.5
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.49
KOG1125	579	consensus TPR repeat-containing protein [General f	98.48
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.48
PF12854	34	PPR_1: PPR repeat	98.47
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.46
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.46
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.42
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.38
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.37
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.31
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.31
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.31
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.28
PLN02789	320	farnesyltranstransferase	98.28
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.23
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.22
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.21
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.15
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.14
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.14
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.13
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.09
PLN02789	320	farnesyltranstransferase	98.08
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.06
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.01
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.0
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.99
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.96
KOG0553	304	consensus TPR repeat-containing protein [General f	97.96
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.93
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.91
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.89
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.86
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.85
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.84
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.78
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.78
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.77
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.76
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.73
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.73
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.72
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.72
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.7
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.69
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.66
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.65
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.64
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.63
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.62
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.61
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.61
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.61
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.6
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.56
PRK15331	165	chaperone protein SicA; Provisional	97.54
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.48
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.47
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.47
KOG0553	304	consensus TPR repeat-containing protein [General f	97.45
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.41
PF13371	73	TPR_9: Tetratricopeptide repeat	97.36
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.36
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.33
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.31
PF13431	34	TPR_17: Tetratricopeptide repeat	97.31
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.31
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.3
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.26
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.21
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.21
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.15
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.15
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.13
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.13
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.09
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.05
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.04
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.0
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.99
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.95
PF12688	120	TPR_5: Tetratrico peptide repeat	96.94
PRK10803	263	tol-pal system protein YbgF; Provisional	96.91
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.91
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	96.9
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.88
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	96.87
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	96.83
PF13428	44	TPR_14: Tetratricopeptide repeat	96.81
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.8
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	96.77
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.74
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.74
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.74
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.7
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.68
PF12688	120	TPR_5: Tetratrico peptide repeat	96.68
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.68
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.62
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.62
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.6
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.59
PF13371	73	TPR_9: Tetratricopeptide repeat	96.52
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.48
PRK10803	263	tol-pal system protein YbgF; Provisional	96.42
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.27
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.2
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.09
KOG4555	175	consensus TPR repeat-containing protein [Function	96.06
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.99
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	95.97
KOG1258	577	consensus mRNA processing protein [RNA processing	95.95
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	95.89
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.88
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.86
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.8
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.66
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.63
PRK11906	458	transcriptional regulator; Provisional	95.56
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.54
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.49
PRK11906	458	transcriptional regulator; Provisional	95.26
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.13
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.11
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	95.1
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.02
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	94.87
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.87
PF13512	142	TPR_18: Tetratricopeptide repeat	94.8
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.74
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.61
KOG3941	406	consensus Intermediate in Toll signal transduction	94.55
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	94.5
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.43
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.37
smart00299	140	CLH Clathrin heavy chain repeat homology.	93.99
PF03704	146	BTAD: Bacterial transcriptional activator domain;	93.86
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.77
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	93.74
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	93.73
smart00299	140	CLH Clathrin heavy chain repeat homology.	93.46
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	93.33
KOG2610	491	consensus Uncharacterized conserved protein [Funct	93.33
KOG1585	308	consensus Protein required for fusion of vesicles	93.31
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.25
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	93.23
KOG1941	518	consensus Acetylcholine receptor-associated protei	93.19
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	93.03
PF13512	142	TPR_18: Tetratricopeptide repeat	93.02
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	92.93
COG3118	304	Thioredoxin domain-containing protein [Posttransla	92.91
COG3118	304	Thioredoxin domain-containing protein [Posttransla	92.84
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	92.61
KOG4234	271	consensus TPR repeat-containing protein [General f	92.45
KOG3941	406	consensus Intermediate in Toll signal transduction	92.45
KOG4555	175	consensus TPR repeat-containing protein [Function	92.16
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	92.11
PRK15331	165	chaperone protein SicA; Provisional	92.02
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	91.82
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	91.75
KOG1941	518	consensus Acetylcholine receptor-associated protei	91.6
COG4105	254	ComL DNA uptake lipoprotein [General function pred	91.53
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	91.51
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	91.42
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.21
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.15
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	90.96
COG4105	254	ComL DNA uptake lipoprotein [General function pred	90.82
KOG4648	536	consensus Uncharacterized conserved protein, conta	90.67
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	90.63
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	90.51
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	90.46
KOG2610	491	consensus Uncharacterized conserved protein [Funct	90.4
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	90.05
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	89.97
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	89.63
PRK09687	280	putative lyase; Provisional	88.85
KOG4279	1226	consensus Serine/threonine protein kinase [Signal	88.52
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	88.39
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	88.35
KOG4648	536	consensus Uncharacterized conserved protein, conta	88.25
COG3629	280	DnrI DNA-binding transcriptional activator of the	87.63
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	87.57
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	87.54
PF13428	44	TPR_14: Tetratricopeptide repeat	87.32
PRK10941	269	hypothetical protein; Provisional	87.2
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	86.82
PRK09687	280	putative lyase; Provisional	86.82
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	86.59
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	85.81
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	85.79
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	85.43
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	84.69
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	84.57
COG3629	280	DnrI DNA-binding transcriptional activator of the	84.49
PF04910	360	Tcf25: Transcriptional repressor TCF25; InterPro:	84.04
PRK11619	644	lytic murein transglycosylase; Provisional	83.75
KOG1586	288	consensus Protein required for fusion of vesicles	83.64
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	83.54
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	83.25
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	83.1
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	83.07
KOG4570	418	consensus Uncharacterized conserved protein [Funct	82.94
COG1747	711	Uncharacterized N-terminal domain of the transcrip	82.9
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	82.66
KOG4570	418	consensus Uncharacterized conserved protein [Funct	82.31
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	82.15
KOG3364	149	consensus Membrane protein involved in organellar	81.62
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	81.53
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	81.46
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	80.47
PF04190	260	DUF410: Protein of unknown function (DUF410) ; Int	80.07

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2e-136  Score=1174.71  Aligned_cols=677  Identities=37%  Similarity=0.681  Sum_probs=668.8

Q ss_pred             CCCCCChhHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccCCCCcccHHHHH
Q 005481            6 FSLVSERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALM   85 (694)
Q Consensus         6 ~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li   85 (694)
                      .|+.||.+||+++|++|++.+++..+.++|..+.+.|+.||+.++|+||.+|+++|++++|.++|++|++||+++||+||
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            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChH
Q 005481           86 CGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRIN  165 (694)
Q Consensus        86 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~  165 (694)
                      .+|+++|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|+++|..+.+.|+.||..+||+|+++|+++|+++
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            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCC
Q 005481          166 EAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGF  245 (694)
Q Consensus       166 ~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~  245 (694)
                      +|.++|++|+.+|+++||+||.+|++.|++++|+++|++|.+.|+.||..||++++.+|++.|+++.|.++|+.+.+.|+
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             CCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHH
Q 005481          246 PYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMG  325 (694)
Q Consensus       246 ~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~  325 (694)
                      .  ++..++|+|+++|+++|++++|.++|++|.++|+++||+||.+|+++|+.++|+.+|++|.. +++||..||+++|.
T Consensus       421 ~--~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~  497 (857)
T PLN03077        421 I--SYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALS  497 (857)
T ss_pred             C--cchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHH
Confidence            8  99999999999999999999999999999999999999999999999999999999999986 69999999999999


Q ss_pred             HHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 005481          326 VFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGL  405 (694)
Q Consensus       326 ~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  405 (694)
                      +|++.|+++.+.++|..+.+.|+.++..++|+|+++|+|+|++++|.++|+.+ .+|+++||+||.+|+++|+.++|+++
T Consensus       498 a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~l  576 (857)
T PLN03077        498 ACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVEL  576 (857)
T ss_pred             HHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-CCChhhHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999 99999999999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCC
Q 005481          406 FRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPS  485 (694)
Q Consensus       406 ~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~  485 (694)
                      |++|.+.|+.||.+||+.++.+|++.|++++|.++|+.|.+++|+.|+..+|++|+++|+|+|++++|.+++++|+++||
T Consensus       577 f~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd  656 (857)
T PLN03077        577 FNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPD  656 (857)
T ss_pred             HHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCC
Confidence            99999999999999999999999999999999999999997799999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCCCccCCceeEEEECCE
Q 005481          486 IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSWVEVDKE  565 (694)
Q Consensus       486 ~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~  565 (694)
                      ..+|++|+.+|+.+|+.+.|+.+++++++++|+++..|+.|+++|+..|+|++|.++++.|+++|++|+||+|||+++++
T Consensus       657 ~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~~~~  736 (857)
T PLN03077        657 PAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGK  736 (857)
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEEECCE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEeCCCCCcCcHHHHHHHHHHHHHHHHhcCcccCccccccccchhhhhhcccccchHHHHhhhhhhcCCCCCCCCcE
Q 005481          566 IHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQEESKEESLRVHSEKLAIGLALVRGGLNEQPGKVI  645 (694)
Q Consensus       566 ~~~f~~~~~~~~~~~~i~~~l~~l~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~hse~la~~~~~~~~~~~~~~~~~~  645 (694)
                      +|.|.++|.+||+.++||.+|++|..+|+ +.||+||+..++ ++++++|+..+++||||||+|||||+||    ||.||
T Consensus       737 ~~~f~~~d~~h~~~~~i~~~l~~l~~~~~-~~g~~~~~~~~~-~~~~~~k~~~~~~hse~la~a~~l~~~~----~~~~i  810 (857)
T PLN03077        737 VHAFLTDDESHPQIKEINTVLEGFYEKMK-ASGLAGSESSSM-DEIEVSKDDIFCGHSERLAIAFGLINTV----PGMPI  810 (857)
T ss_pred             EEEEecCCCCCcchHHHHHHHHHHHHHHH-hCCcCCCcchhc-cccHHHHHHHHHhccHHHHHHHhhhcCC----CCCeE
Confidence            99999999999999999999999999999 999999999988 4588999999999999999999999999    99999


Q ss_pred             EEEeeccccCCchhhhhhhhhccCceEEEecCCccccccCccccCCC
Q 005481          646 RVFKNLRVCGDCHEFIKGLSKILKLVFVVRDATRFHRFEGGVCSCGD  692 (694)
Q Consensus       646 ~~~knl~~c~~~h~~~k~~s~~~~~~i~~~d~~~~h~f~~g~csc~~  692 (694)
                      ||+||||||+|||+++|||||+++|+|||||.+|||||+||+|||+|
T Consensus       811 ~i~knlr~c~dch~~~k~~s~~~~r~i~~rd~~rfh~f~~g~csc~d  857 (857)
T PLN03077        811 WVTKNLYMCENCHNTVKFISKIVRREISVRDTEQFHHFKDGECSCGD  857 (857)
T ss_pred             EEeCCCEeCccHHHHHHHHHHHhCeEEEEecCCcceeCCCCcccCCC
Confidence            99999999999999999999999999999999999999999999998

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

Probab=100.00  E-value=2.1e-126  Score=1066.53  Aligned_cols=613  Identities=36%  Similarity=0.647  Sum_probs=605.4

Q ss_pred             CCCcccHHHHHHHHHhCCChHHHHHHHHHhhhCC-CCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHH
Q 005481           75 ERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSS-VKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNS  153 (694)
Q Consensus        75 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~  153 (694)
                      .++.++|+.+|.+|.+.|++++|+++|+.|...+ ..||..||+.++.+|++.++++.|.++|..|.+.|+.||..+||.
T Consensus        84 ~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~  163 (697)
T PLN03081         84 RKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNR  163 (697)
T ss_pred             CCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHH
Confidence            3577899999999999999999999999998764 789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCChHHHHHHHccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHH
Q 005481          154 IIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGG  233 (694)
Q Consensus       154 ll~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a  233 (694)
                      |+++|+++|++++|.++|++|++||+++||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|+..|..+.+
T Consensus       164 Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~  243 (697)
T PLN03081        164 VLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAG  243 (697)
T ss_pred             HHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCC
Q 005481          234 TQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSL  313 (694)
Q Consensus       234 ~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  313 (694)
                      .++|..+.+.|+.  ++..++|+|+++|+++|++++|.++|++|+++|+++||+||.+|++.|++++|+++|++|.+.|+
T Consensus       244 ~~l~~~~~~~g~~--~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~  321 (697)
T PLN03081        244 QQLHCCVLKTGVV--GDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGV  321 (697)
T ss_pred             HHHHHHHHHhCCC--ccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Confidence            9999999999998  89999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHH
Q 005481          314 QVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGY  393 (694)
Q Consensus       314 ~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~  393 (694)
                      .||..||++++.+|++.|.++.|.++|..+.+.|+.+|..++++|+++|+++|++++|.++|++|.++|+++||+||.+|
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             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHH
Q 005481          394 GKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEA  473 (694)
Q Consensus       394 ~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A  473 (694)
                      +++|+.++|+++|++|.+.|+.||.+||++++.+|++.|++++|.++|+.|.+++|+.|+..+|++|+++|+++|++++|
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            99999999999999999999999999999999999999999999999999998899999999999999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCCCcc
Q 005481          474 KNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKK  553 (694)
Q Consensus       474 ~~~~~~~~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~  553 (694)
                      .+++++|+.+|+..+|++|+.+|+.+|+++.|+.+++++++++|++...|..|+++|++.|+|++|.++++.|+++|++|
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             CCceeEEEECCEEEEEEeCCCCCcCcHHHHHHHHHHHHHHHHhcCcccCccccccccchhhhhhcccccchHHHHhhhhh
Q 005481          554 VAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQEESKEESLRVHSEKLAIGLALV  633 (694)
Q Consensus       554 ~~~~s~~~~~~~~~~f~~~~~~~~~~~~i~~~l~~l~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~hse~la~~~~~~  633 (694)
                      .||+||+++++++|.|.+||..||+..+|+.+|++|..+|+ +.||+||+.+++|++++++|+..+++||||||+|||||
T Consensus       562 ~~g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~-~~gy~~~~~~~~~~~~~~~~~~~~~~hsekla~a~~l~  640 (697)
T PLN03081        562 HPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEIS-EYGYVAEENELLPDVDEDEEKVSGRYHSEKLAIAFGLI  640 (697)
T ss_pred             CCCeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHH-HcCCCCCcchhhccccHHHHHHHHHhccHHHHHHhhCc
Confidence            99999999999999999999999999999999999999999 99999999999999999999999999999999999999


Q ss_pred             hcCCCCCCCCcEEEEeeccccCCchhhhhhhhhccCceEEEecCCccccccCccccCCCCC
Q 005481          634 RGGLNEQPGKVIRVFKNLRVCGDCHEFIKGLSKILKLVFVVRDATRFHRFEGGVCSCGDYW  694 (694)
Q Consensus       634 ~~~~~~~~~~~~~~~knl~~c~~~h~~~k~~s~~~~~~i~~~d~~~~h~f~~g~csc~~~w  694 (694)
                      ++|    ||.||||+||||||+|||+|+||||++++|+|||||.+|||||+||+|||+|||
T Consensus       641 ~~~----~~~~i~i~knlr~c~dch~~~k~~s~~~~r~i~~rd~~rfh~f~~g~csc~d~w  697 (697)
T PLN03081        641 NTS----EWTPLQITQSHRICKDCHKVIKFIALVTKREIVVRDASRFHHFKLGKCSCGDYW  697 (697)
T ss_pred             cCC----CCCeEEEecCCEECCCchhhHHHHhhhcceEEEEecCCccccCCCCcccccccC
Confidence            999    999999999999999999999999999999999999999999999999999999

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=6.4e-83  Score=732.42  Aligned_cols=655  Identities=25%  Similarity=0.403  Sum_probs=580.3

Q ss_pred             CCCCCChhHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccCCCCcccHHHHH
Q 005481            6 FSLVSERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALM   85 (694)
Q Consensus         6 ~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li   85 (694)
                      .|+.|+..+|..++++|.+.+.++.|.++|+.+.+.|..+++.++|+|+++|+++|+++.|.++|++|++||+++||++|
T Consensus        80 ~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n~li~~~~~~g~~~~A~~~f~~m~~~d~~~~n~li  159 (857)
T PLN03077         80 LRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLV  159 (857)
T ss_pred             cCCCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHhCCChHHHHHHHhcCCCCCeeEHHHHH
Confidence            57889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChH
Q 005481           86 CGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRIN  165 (694)
Q Consensus        86 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~  165 (694)
                      .+|++.|++++|+++|++|...|+.||.+||+.++++|+..+++..++++|..+++.|+.||..++|+|+.+|+++|+++
T Consensus       160 ~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~  239 (857)
T PLN03077        160 GGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVV  239 (857)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCC
Q 005481          166 EAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGF  245 (694)
Q Consensus       166 ~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~  245 (694)
                      +|.++|++|+++|+++||+||.+|++.|++++|+++|.+|.+.|+.||..||++++.+|++.|+++.|.++|..+.+.|+
T Consensus       240 ~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~  319 (857)
T PLN03077        240 SARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGF  319 (857)
T ss_pred             HHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHH
Q 005481          246 PYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMG  325 (694)
Q Consensus       246 ~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~  325 (694)
                      .  ++..++|+|+++|+++|++++|.++|++|..+|+++||+||.+|++.|++++|+++|++|.+.|+.||..||++++.
T Consensus       320 ~--~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~  397 (857)
T PLN03077        320 A--VDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLS  397 (857)
T ss_pred             c--cchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHH
Confidence            9  99999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 005481          326 VFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGL  405 (694)
Q Consensus       326 ~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  405 (694)
                      +|++.|+++.|.++|+.+.+.|+.++..++|+|+++|+++|++++|.++|++|.++|+++||+||.+|+++|+.++|+.+
T Consensus       398 a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~l  477 (857)
T PLN03077        398 ACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIF  477 (857)
T ss_pred             HHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCC
Q 005481          406 FRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPS  485 (694)
Q Consensus       406 ~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~  485 (694)
                      |++|.. +++||..||+.++.+|++.|.++.+.+++..+.+ .|+.|+..++++|+++|+++|++++|.++|+++  .||
T Consensus       478 f~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~-~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~--~~d  553 (857)
T PLN03077        478 FRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLR-TGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH--EKD  553 (857)
T ss_pred             HHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHH-hCCCccceechHHHHHHHHcCCHHHHHHHHHhc--CCC
Confidence            999986 6999999999999999999999999999999998 899999999999999999999999999999998  899


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHcC--CCCCcchHHHHHhHHHhcCCchHHHHHHHHHH-hCCCccCCceeEEEE
Q 005481          486 IAIWQTLLSACRVHGDLELGREVGEILLRL--DGDNPVNYVMMSNIHADAGSWNECERLRKLAR-SKGLKKVAGRSWVEV  562 (694)
Q Consensus       486 ~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~--~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~-~~g~~~~~~~s~~~~  562 (694)
                      ..+|++++.+|.++|+.++|.++|++|.+.  .|+ ..+|..++.+|.+.|++++|.++++.|. +.|+.+........ 
T Consensus       554 ~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd-~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~l-  631 (857)
T PLN03077        554 VVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPD-EVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACV-  631 (857)
T ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-cccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHH-
Confidence            999999999999999999999999999874  465 6889999999999999999999999998 66776543110000 


Q ss_pred             CCEEEEEEeCCCCCcCcHHHHHHHHHHHHHHHHhcCcccCccccccccchhhhhhcccccchHHH-HhhhhhhcCCCCCC
Q 005481          563 DKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQEESKEESLRVHSEKLA-IGLALVRGGLNEQP  641 (694)
Q Consensus       563 ~~~~~~f~~~~~~~~~~~~i~~~l~~l~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~hse~la-~~~~~~~~~~~~~~  641 (694)
                         +..+.    ..+.       +++..+.++ +.+..||...+-.-+..+...+.+.. -|+.| ..+.+.|..    +
T Consensus       632 ---v~~l~----r~G~-------~~eA~~~~~-~m~~~pd~~~~~aLl~ac~~~~~~e~-~e~~a~~l~~l~p~~----~  691 (857)
T PLN03077        632 ---VDLLG----RAGK-------LTEAYNFIN-KMPITPDPAVWGALLNACRIHRHVEL-GELAAQHIFELDPNS----V  691 (857)
T ss_pred             ---HHHHH----hCCC-------HHHHHHHHH-HCCCCCCHHHHHHHHHHHHHcCChHH-HHHHHHHHHhhCCCC----c
Confidence               00000    0111       123333444 55678887655444444432211100 12222 123343333    4


Q ss_pred             CCcEEEEeeccccCCchhhhhhhhhccCce--------EEEecCCccccccCcccc
Q 005481          642 GKVIRVFKNLRVCGDCHEFIKGLSKILKLV--------FVVRDATRFHRFEGGVCS  689 (694)
Q Consensus       642 ~~~~~~~knl~~c~~~h~~~k~~s~~~~~~--------i~~~d~~~~h~f~~g~cs  689 (694)
                      +..+.+..-....|+..++.+....|-.+.        .|.- .+..|-|..|--|
T Consensus       692 ~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~-~~~~~~f~~~d~~  746 (857)
T PLN03077        692 GYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEV-KGKVHAFLTDDES  746 (857)
T ss_pred             chHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEEE-CCEEEEEecCCCC
Confidence            444322333467899999999887665443        2322 3578888776544

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5.3e-67  Score=588.28  Aligned_cols=504  Identities=16%  Similarity=0.228  Sum_probs=455.8

Q ss_pred             CCCChhhHHHHHHHHHhcCChHHHHHHHhccCCCCccc-----HHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHH
Q 005481           43 FSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVS-----WTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLS  117 (694)
Q Consensus        43 ~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~-----~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  117 (694)
                      ..++...|..+++.|+++|++++|+++|++|++++...     ++.++.+|.+.|..++|+++|+.|..    ||..||+
T Consensus       366 ~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn  441 (1060)
T PLN03218        366 GKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFN  441 (1060)
T ss_pred             CCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHH
Confidence            35677788888899999999999999999998776554     45566778999999999999999874    8999999


Q ss_pred             HHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCC----CCCcccHHHHHHHHHhcC
Q 005481          118 TNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMP----AKSLITWNAMIAGYVLAG  193 (694)
Q Consensus       118 ~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~----~~~~~~~~~li~~~~~~g  193 (694)
                      .+|.+|++.|+++.|.++|+.|.+.|+.||..+|++||.+|+++|++++|.++|++|.    .||.++||+||.+|++.|
T Consensus       442 ~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G  521 (1060)
T PLN03218        442 MLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAG  521 (1060)
T ss_pred             HHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCc
Confidence            9999999999999999999999999999999999999999999999999999999997    478999999999999999


Q ss_pred             ChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHH--hCCCCCcchhhHHHHHHHHHHcCCHHHHH
Q 005481          194 YSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLIT--SGFPYSVKTVIAGSLVDFYVKCGCLVEAR  271 (694)
Q Consensus       194 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~--~g~~~~~~~~~~~~li~~y~~~g~~~~A~  271 (694)
                      ++++|+++|++|.+.|+.||..||+.+|.+|++.|++++|.++|+.|.+  .|+.  ++..+|++|+.+|+++|++++|.
T Consensus       522 ~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~--PD~vTynaLI~ay~k~G~ldeA~  599 (1060)
T PLN03218        522 QVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPID--PDHITVGALMKACANAGQVDRAK  599 (1060)
T ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCC--CcHHHHHHHHHHHHHCCCHHHHH
Confidence            9999999999999999999999999999999999999999999999987  4566  88999999999999999999999


Q ss_pred             HHHhhcCC----CChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcC
Q 005481          272 RVFDLIEQ----KSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVP  347 (694)
Q Consensus       272 ~~f~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~  347 (694)
                      ++|+.|.+    ++..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.+++..|.+.|
T Consensus       600 elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G  679 (1060)
T PLN03218        600 EVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQG  679 (1060)
T ss_pred             HHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcC
Confidence            99999975    46689999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCchHHHHHhhhhhhcCCHHHHHHHHccCC----CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 005481          348 SGLDTSVSNSIVDMYLKCGLIDEATELFNEMP----VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLA  423 (694)
Q Consensus       348 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~  423 (694)
                      +.|+..+|++||++|+++|++++|.++|++|.    .||..+||+||.+|++.|++++|+++|++|...|+.||..||+.
T Consensus       680 ~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~s  759 (1060)
T PLN03218        680 IKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSI  759 (1060)
T ss_pred             CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            99999999999999999999999999999995    68999999999999999999999999999999999999999999


Q ss_pred             HHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHH----hc-------------------CChHHHHHHHHhC
Q 005481          424 VLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLG----RA-------------------GRLDEAKNLIESM  480 (694)
Q Consensus       424 ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~----~~-------------------g~~~~A~~~~~~~  480 (694)
                      ++.+|.+.|++++|.++|+.|.+ .|+.||..+|++|++++.    ++                   +..++|..+|++|
T Consensus       760 LL~a~~k~G~le~A~~l~~~M~k-~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM  838 (1060)
T PLN03218        760 LLVASERKDDADVGLDLLSQAKE-DGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRET  838 (1060)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHH
Confidence            99999999999999999999988 899999999999997643    22                   2346899999999


Q ss_pred             ---CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHc-CCCCCcchHHHHHhHHHhcCCc-hHHHHHHHHHHhCCCccCC
Q 005481          481 ---PVKPSIAIWQTLLSACRVHGDLELGREVGEILLR-LDGDNPVNYVMMSNIHADAGSW-NECERLRKLARSKGLKKVA  555 (694)
Q Consensus       481 ---~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~-~~p~~~~~~~~l~~~~~~~g~~-~~a~~~~~~m~~~g~~~~~  555 (694)
                         ++.||..+|++++.++...+..+.+..+++.+.. -.+.+..+|..|++.+   |++ ++|..++++|.+.|+.+..
T Consensus       839 ~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~---~~~~~~A~~l~~em~~~Gi~p~~  915 (1060)
T PLN03218        839 ISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGF---GEYDPRAFSLLEEAASLGVVPSV  915 (1060)
T ss_pred             HHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhh---ccChHHHHHHHHHHHHcCCCCCc
Confidence               7999999999999877788888888888877642 2345678999999987   433 6899999999999998765


Q ss_pred             c
Q 005481          556 G  556 (694)
Q Consensus       556 ~  556 (694)
                      .
T Consensus       916 ~  916 (1060)
T PLN03218        916 S  916 (1060)
T ss_pred             c
Confidence            4

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

Probab=100.00  E-value=9.6e-68  Score=592.75  Aligned_cols=441  Identities=28%  Similarity=0.460  Sum_probs=418.9

Q ss_pred             CCCCCChhHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccCCCCcccHHHHH
Q 005481            6 FSLVSERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALM   85 (694)
Q Consensus         6 ~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li   85 (694)
                      .+..||..||+++|.+|++.++++.|.++|..|.+.|+.||+.++|.|+++|+++|++++|+++|++|++||+++||++|
T Consensus       117 ~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li  196 (697)
T PLN03081        117 CPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTII  196 (697)
T ss_pred             CCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHH
Confidence            45779999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChH
Q 005481           86 CGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRIN  165 (694)
Q Consensus        86 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~  165 (694)
                      .+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+.+.++++|..+.+.|+.||..++|+|+++|+++|+++
T Consensus       197 ~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~  276 (697)
T PLN03081        197 GGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIE  276 (697)
T ss_pred             HHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCC
Q 005481          166 EAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGF  245 (694)
Q Consensus       166 ~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~  245 (694)
                      +|.++|++|+++|+++||+||.+|++.|+.++|+++|++|.+.|+.||..||++++.+|++.|+++.|.++|..+.+.|+
T Consensus       277 ~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~  356 (697)
T PLN03081        277 DARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGF  356 (697)
T ss_pred             HHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHH
Q 005481          246 PYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMG  325 (694)
Q Consensus       246 ~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~  325 (694)
                      .  ++..++++|+++|+++|++++|.++|++|.++|+++||+||.+|++.|+.++|+++|++|.+.|+.||..||++++.
T Consensus       357 ~--~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~  434 (697)
T PLN03081        357 P--LDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLS  434 (697)
T ss_pred             C--CCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHH
Confidence            8  99999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhccHHHHHHHHHHHHh-cCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCC-CCChhhHHHHHHHHHhcCCHHHHH
Q 005481          326 VFADFALVEQGKQIHAYAAK-VPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMP-VKNVVTWTVIITGYGKHGLAKEAV  403 (694)
Q Consensus       326 ~~~~~~~~~~a~~i~~~~~~-~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~  403 (694)
                      +|++.|.+++|.++|..|.+ .|+.|+..+|+.++++|++.|++++|.++|++|+ .|+..+|++|+.+|..+|+.+.|.
T Consensus       435 a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~  514 (697)
T PLN03081        435 ACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGR  514 (697)
T ss_pred             HHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHH
Confidence            99999999999999999976 6999999999999999999999999999999887 578888888888888888888888


Q ss_pred             HHHHHHHHCCCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCC
Q 005481          404 GLFRKMLLDDVEPD-GVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMK  451 (694)
Q Consensus       404 ~~~~~m~~~g~~pd-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~  451 (694)
                      .+++++.+  +.|+ ..+|..+++.|++.|++++|.++++.|.+ .|+.
T Consensus       515 ~~~~~l~~--~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~-~g~~  560 (697)
T PLN03081        515 LAAEKLYG--MGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKR-KGLS  560 (697)
T ss_pred             HHHHHHhC--CCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHH-cCCc
Confidence            88888764  5564 45788888888888888888888888876 5554

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=4.3e-64  Score=564.77  Aligned_cols=461  Identities=18%  Similarity=0.257  Sum_probs=421.2

Q ss_pred             CChhHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccC----CCCcccHHHHH
Q 005481           10 SERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKML----ERNVVSWTALM   85 (694)
Q Consensus        10 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~----~~~~~~~~~li   85 (694)
                      ||..||+.+|.+|++.|+++.|.++|+.|.+.|+.||..+||+||++|+++|++++|.++|++|.    .||.++||.||
T Consensus       435 pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI  514 (1060)
T PLN03218        435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALI  514 (1060)
T ss_pred             CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999996    58999999999


Q ss_pred             HHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHH--hCCCCChhHHHHHHHHHHhcCC
Q 005481           86 CGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMK--SGFEWNPVVGNSIIDMYSKCGR  163 (694)
Q Consensus        86 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~--~g~~~~~~~~~~ll~~y~~~g~  163 (694)
                      .+|++.|++++|+++|++|.+.|+.||..||+.+|.+|++.|+++.|.++|+.|.+  .|+.||..+|++|+.+|+++|+
T Consensus       515 ~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~  594 (1060)
T PLN03218        515 DGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQ  594 (1060)
T ss_pred             HHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCC
Confidence            99999999999999999999999999999999999999999999999999999987  6789999999999999999999


Q ss_pred             hHHHHHHHccCCC----CCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHH
Q 005481          164 INEAARMFDVMPA----KSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGF  239 (694)
Q Consensus       164 ~~~A~~~f~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~  239 (694)
                      +++|.++|+.|.+    ++..+||++|.+|++.|++++|+++|++|.+.|+.||..||++++.+|++.|++++|.++++.
T Consensus       595 ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~e  674 (1060)
T PLN03218        595 VDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQD  674 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            9999999999976    466899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcC----CCChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCcc
Q 005481          240 LITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIE----QKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQV  315 (694)
Q Consensus       240 ~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  315 (694)
                      |.+.|+.  ++..+|++||.+|+++|++++|.++|++|.    .||+++||+||.+|++.|++++|+++|++|...|+.|
T Consensus       675 M~k~G~~--pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~P  752 (1060)
T PLN03218        675 ARKQGIK--LGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCP  752 (1060)
T ss_pred             HHHcCCC--CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC
Confidence            9999998  999999999999999999999999999995    5899999999999999999999999999999999999


Q ss_pred             CccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhh----hcCCHHHHHHHHccCCCCChhhHHHHHH
Q 005481          316 DGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYL----KCGLIDEATELFNEMPVKNVVTWTVIIT  391 (694)
Q Consensus       316 d~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~----~~g~~~~A~~~~~~~~~~~~~~~~~li~  391 (694)
                      |..||++++.+|++.|+++.|.++|..|.+.|+.||..+|++|+.++.    +++...++...|+.+...+...|     
T Consensus       753 d~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w-----  827 (1060)
T PLN03218        753 NTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKW-----  827 (1060)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccch-----
Confidence            999999999999999999999999999999999999999999998743    34444444444444333343444     


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChH
Q 005481          392 GYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLD  471 (694)
Q Consensus       392 ~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~  471 (694)
                             .++|+.+|++|++.|+.||..||+.++.++...+..+.+..+++.|.. .+..|+..+|++||+++++.  .+
T Consensus       828 -------~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~-~~~~~~~~~y~~Li~g~~~~--~~  897 (1060)
T PLN03218        828 -------TSWALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGI-SADSQKQSNLSTLVDGFGEY--DP  897 (1060)
T ss_pred             -------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhcc-CCCCcchhhhHHHHHhhccC--hH
Confidence                   456999999999999999999999999877788888888888888765 56778889999999988543  46


Q ss_pred             HHHHHHHhC---CCCCCHH
Q 005481          472 EAKNLIESM---PVKPSIA  487 (694)
Q Consensus       472 ~A~~~~~~~---~~~p~~~  487 (694)
                      +|..++++|   ++.|+..
T Consensus       898 ~A~~l~~em~~~Gi~p~~~  916 (1060)
T PLN03218        898 RAFSLLEEAASLGVVPSVS  916 (1060)
T ss_pred             HHHHHHHHHHHcCCCCCcc
Confidence            899999998   6777754

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

Probab=100.00  E-value=1.1e-30  Score=306.63  Aligned_cols=527  Identities=13%  Similarity=0.061  Sum_probs=377.2

Q ss_pred             ChhHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccCC---CCcccHHHHHHH
Q 005481           11 ERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLE---RNVVSWTALMCG   87 (694)
Q Consensus        11 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~   87 (694)
                      +...+..+...+...|+++.|.+.+..+.+.. +.+...++.+...|.+.|++++|.+.|+++.+   .+...|..+...
T Consensus       328 ~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  406 (899)
T TIGR02917       328 SHQARRLLASIQLRLGRVDEAIATLSPALGLD-PDDPAALSLLGEAYLALGDFEKAAEYLAKATELDPENAAARTQLGIS  406 (899)
T ss_pred             ChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            34456666677778888888888888887765 45677788888888888888888888887743   244567777788


Q ss_pred             HHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHH
Q 005481           88 FLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEA  167 (694)
Q Consensus        88 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A  167 (694)
                      +...|++++|++.|+.+.+.... +......++..+.+.|+++.|..++..+.+.. +++..++..+...|...|++++|
T Consensus       407 ~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  484 (899)
T TIGR02917       407 KLSQGDPSEAIADLETAAQLDPE-LGRADLLLILSYLRSGQFDKALAAAKKLEKKQ-PDNASLHNLLGAIYLGKGDLAKA  484 (899)
T ss_pred             HHhCCChHHHHHHHHHHHhhCCc-chhhHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHHhCCCHHHH
Confidence            88888888888888888764322 23344556667777888888888888777643 45667777788888888888888


Q ss_pred             HHHHccCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhC
Q 005481          168 ARMFDVMPA---KSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSG  244 (694)
Q Consensus       168 ~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g  244 (694)
                      ...|+++.+   .+...+..+...+...|++++|.+.|+++...+. .+..++..+...+...|+.+++...+..+.+.+
T Consensus       485 ~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  563 (899)
T TIGR02917       485 REAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDP-KNLRAILALAGLYLRTGNEEEAVAWLEKAAELN  563 (899)
T ss_pred             HHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            888877643   3455677777777888888888888888776532 345567777777777888888888888777765


Q ss_pred             CCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchH
Q 005481          245 FPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQ---KSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLS  321 (694)
Q Consensus       245 ~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~  321 (694)
                      +   .+...+..++..|.+.|++++|..+++.+.+   .+...|..+...|...|++++|+..|+++.+.. +.+...+.
T Consensus       564 ~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  639 (899)
T TIGR02917       564 P---QEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALL  639 (899)
T ss_pred             c---cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHH
Confidence            4   4556667777888888888888888877653   355677778888888888888888888777642 22445566


Q ss_pred             HHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCC---CChhhHHHHHHHHHhcCC
Q 005481          322 SMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPV---KNVVTWTVIITGYGKHGL  398 (694)
Q Consensus       322 ~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~  398 (694)
                      .+...+...|+++.|..++..+.+... .+...+..++..+.+.|++++|.++++.+..   .+...|..+...+...|+
T Consensus       640 ~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~  718 (899)
T TIGR02917       640 LLADAYAVMKNYAKAITSLKRALELKP-DNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKD  718 (899)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCC
Confidence            666777777888888888777776542 2456677777777777888888777777752   355567777777777777


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHH
Q 005481          399 AKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIE  478 (694)
Q Consensus       399 ~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  478 (694)
                      +++|++.|+++...  .|+..++..+..++.+.|++++|.+.++.+.+.  .+.+...+..+...|.+.|++++|.+.|+
T Consensus       719 ~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~  794 (899)
T TIGR02917       719 YPAAIQAYRKALKR--APSSQNAIKLHRALLASGNTAEAVKTLEAWLKT--HPNDAVLRTALAELYLAQKDYDKAIKHYR  794 (899)
T ss_pred             HHHHHHHHHHHHhh--CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            77787777777764  355566666777777777777777777777662  23346667777777777777777777777


Q ss_pred             hC--CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCCC
Q 005481          479 SM--PVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGL  551 (694)
Q Consensus       479 ~~--~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  551 (694)
                      ++  ..+++..+++.+...+...|+ ++|+..+++++++.|+++..+..++.+|...|++++|.++++++.+.+.
T Consensus       795 ~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~  868 (899)
T TIGR02917       795 TVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAP  868 (899)
T ss_pred             HHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            76  223346667777777777777 6677777777777777777777777777777777777777777766543

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=3e-30  Score=303.04  Aligned_cols=519  Identities=10%  Similarity=-0.012  Sum_probs=427.4

Q ss_pred             HHHHHhhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccCC---CCcccHHHHHHHHHhCCC
Q 005481           17 DSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLE---RNVVSWTALMCGFLQNGN   93 (694)
Q Consensus        17 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~   93 (694)
                      .+-..+...|+++.|...+..+.+.. +.+...+..+...+.+.|++++|...++.+..   .+...|+.+...+.+.|+
T Consensus       300 ~~~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  378 (899)
T TIGR02917       300 LAGASEYQLGNLEQAYQYLNQILKYA-PNSHQARRLLASIQLRLGRVDEAIATLSPALGLDPDDPAALSLLGEAYLALGD  378 (899)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCCC
Confidence            33445667899999999999888865 45667778888899999999999999988754   345678888899999999


Q ss_pred             hHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHcc
Q 005481           94 AKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDV  173 (694)
Q Consensus        94 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~  173 (694)
                      +++|.++|+++.+.. +.+...+..+...+...|+.+.|...+..+.+... ........++..|.+.|++++|..+++.
T Consensus       379 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~  456 (899)
T TIGR02917       379 FEKAAEYLAKATELD-PENAAARTQLGISKLSQGDPSEAIADLETAAQLDP-ELGRADLLLILSYLRSGQFDKALAAAKK  456 (899)
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCC-cchhhHHHHHHHHHhcCCHHHHHHHHHH
Confidence            999999999987653 22455667777778888999999999999887652 2345566778889999999999999988


Q ss_pred             CCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcc
Q 005481          174 MPA---KSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVK  250 (694)
Q Consensus       174 ~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~  250 (694)
                      +..   .+..+|+.+...|...|++++|.+.|+++.+.. +.+...+..+...+...|++++|.+.++.+.+..+   .+
T Consensus       457 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~---~~  532 (899)
T TIGR02917       457 LEKKQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDP---KN  532 (899)
T ss_pred             HHHhCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc---Cc
Confidence            864   356788999999999999999999999988753 23345677777888889999999999999988775   56


Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHH
Q 005481          251 TVIAGSLVDFYVKCGCLVEARRVFDLIEQ---KSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVF  327 (694)
Q Consensus       251 ~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~  327 (694)
                      ..++..+...|.+.|+.++|...|+++..   .+...+..++..|...|++++|+.+++++.... +.+..++..+...+
T Consensus       533 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  611 (899)
T TIGR02917       533 LRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQ  611 (899)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHH
Confidence            77888899999999999999999988753   355678888899999999999999999987653 34566788888899


Q ss_pred             hhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCC---CCChhhHHHHHHHHHhcCCHHHHHH
Q 005481          328 ADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMP---VKNVVTWTVIITGYGKHGLAKEAVG  404 (694)
Q Consensus       328 ~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~  404 (694)
                      ...|+++.|...+..+.+... .+...+..+...|.+.|++++|..+|+++.   ..+..+|..++..+...|++++|..
T Consensus       612 ~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  690 (899)
T TIGR02917       612 LAAGDLNKAVSSFKKLLALQP-DSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKK  690 (899)
T ss_pred             HHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999998887653 356677888999999999999999998876   3467789999999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC--CC
Q 005481          405 LFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM--PV  482 (694)
Q Consensus       405 ~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~  482 (694)
                      +++.+...+ +++...+..+...+...|++++|.+.|+.+..   ..|+...+..++.++.+.|++++|.+.++++  ..
T Consensus       691 ~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  766 (899)
T TIGR02917       691 IAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALK---RAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH  766 (899)
T ss_pred             HHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            999998864 44567778888888999999999999999877   4566678888999999999999999998887  33


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          483 KPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       483 ~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      +.+..++..+...|...|+.++|...++++++..|+++..+..++.+|...|+ .+|..+++.+.+.
T Consensus       767 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~  832 (899)
T TIGR02917       767 PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKL  832 (899)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhh
Confidence            34577788888889999999999999999999999999999999999999999 8899999888765

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

>PF14432 DYW_deaminase: DYW family of nucleic acid deaminases

Probab=100.00  E-value=1.5e-33  Score=232.62  Aligned_cols=106  Identities=57%  Similarity=0.904  Sum_probs=96.4

Q ss_pred             ceeEEEECCEEEEEEeCCCCCcCcHHHHHHHHHHHHHHHHhcCcccCccccccccchhhh--------hhcccccchHHH
Q 005481          556 GRSWVEVDKEIHFFYGGDDTHPLTEKIHQVLMEMEKRMKEELGFVYGVKYALHDIQEESK--------EESLRVHSEKLA  627 (694)
Q Consensus       556 ~~s~~~~~~~~~~f~~~~~~~~~~~~i~~~l~~l~~~~~~~~g~~~~~~~~~~~~~~~~~--------~~~~~~hse~la  627 (694)
                      |+||+++    |.|.+||.+||+.        ++..++. ..||.|++..+.|+++++++        +..+++||||||
T Consensus         2 ~~~w~~~----h~F~sgd~shp~~--------~~~~~~~-~~~~~~~~~~~~~~~~~e~~~~~d~~~~~~~~~~HSEKlA   68 (116)
T PF14432_consen    2 GCSWIEV----HSFVSGDRSHPQS--------ELINKMK-EEGYVPDTKEVGHDVDEEEKHDYDEEEKEESLCYHSEKLA   68 (116)
T ss_pred             CCCccce----EEEEeCCCcCccH--------HHHHHHH-HcCCcchhhhhCCCchhhhhhhcccccchhhhhccHHHHH
Confidence            7899987    9999999999987        4456666 88999999999998888766        568899999999


Q ss_pred             HhhhhhhcCCCCCCCCcEEEEeec-cccCCchhhhhhhhhccCceEEEecCCcccccc
Q 005481          628 IGLALVRGGLNEQPGKVIRVFKNL-RVCGDCHEFIKGLSKILKLVFVVRDATRFHRFE  684 (694)
Q Consensus       628 ~~~~~~~~~~~~~~~~~~~~~knl-~~c~~~h~~~k~~s~~~~~~i~~~d~~~~h~f~  684 (694)
                      +||||+++          ||+||+ |||+|||+|+|+||++++|+|||||++|||||+
T Consensus        69 iafgli~~----------~vvkn~~RvC~DCH~~~K~iS~~~~ReIiVRD~~rfHhFk  116 (116)
T PF14432_consen   69 IAFGLINT----------RVVKNLKRVCGDCHSFIKFISKITGREIIVRDSNRFHHFK  116 (116)
T ss_pred             HHhcccce----------eEEecCCccchHHHHHHHHHHHHHCeEEEEeCCCeeeeCC
Confidence            99999875          799999 999999999999999999999999999999997

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.94  E-value=6e-22  Score=233.70  Aligned_cols=520  Identities=12%  Similarity=0.053  Sum_probs=283.6

Q ss_pred             HHHHHHHhhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccCC--CCcc-cH----------
Q 005481           15 LADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLE--RNVV-SW----------   81 (694)
Q Consensus        15 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~--~~~~-~~----------   81 (694)
                      +..-.+.+-..++.+.|.+.+..+.... +.++.++..+...+.+.|+.++|.+.+++..+  |+.. .+          
T Consensus        31 Ll~q~~~~~~~~~~d~a~~~l~kl~~~~-p~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~~~~~~~~~~~~~~~~  109 (1157)
T PRK11447         31 LLEQVRLGEATHREDLVRQSLYRLELID-PNNPDVIAARFRLLLRQGDSDGAQKLLDRLSQLAPDSNAYRSSRTTMLLST  109 (1157)
T ss_pred             HHHHHHHHHhhCChHHHHHHHHHHHccC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHhcC
Confidence            3444455556667777777777666553 44566666677777777777777777777643  2211 11          


Q ss_pred             ------HHHHHHHHhCCChHHHHHHHHHhhhCCCCCCcee-HHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHH
Q 005481           82 ------TALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFT-LSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSI  154 (694)
Q Consensus        82 ------~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t-~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  154 (694)
                            ..+...+.+.|++++|++.|+.+.+.. +|+... ...........++.++|...++.+++.. +.+...+..+
T Consensus       110 ~~~~~~l~~A~ll~~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~L  187 (1157)
T PRK11447        110 PEGRQALQQARLLATTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTL  187 (1157)
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence                  222335666777777777777776542 222211 1111111223466777777777777663 3345566666


Q ss_pred             HHHHHhcCChHHHHHHHccCCCCCc------cc-----------------H-----------------------------
Q 005481          155 IDMYSKCGRINEAARMFDVMPAKSL------IT-----------------W-----------------------------  182 (694)
Q Consensus       155 l~~y~~~g~~~~A~~~f~~~~~~~~------~~-----------------~-----------------------------  182 (694)
                      ...+...|+.++|+..|+++.....      ..                 +                             
T Consensus       188 A~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~d  267 (1157)
T PRK11447        188 ALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLAD  267 (1157)
T ss_pred             HHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccC
Confidence            6777777777777777665432100      00                 0                             


Q ss_pred             -----HHHHHHHHhcCChhHHHHHHHHHHHCCCCC-ChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhH--
Q 005481          183 -----NAMIAGYVLAGYSDKGLLLFRKMQEHGEIP-DEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIA--  254 (694)
Q Consensus       183 -----~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~--  254 (694)
                           ......+...|++++|+..|++..+..  | +...+..+..++.+.|++++|...++.+++..+.. .....+  
T Consensus       268 p~~~~~~~G~~~~~~g~~~~A~~~l~~aL~~~--P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~-~~~~~~~~  344 (1157)
T PRK11447        268 PAFRARAQGLAAVDSGQGGKAIPELQQAVRAN--PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHS-SNRDKWES  344 (1157)
T ss_pred             cchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCc-cchhHHHH
Confidence                 011233455677777777777776642  3 44566666667777777777777777777655431 111111  


Q ss_pred             ----------HHHHHHHHHcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCc-cch
Q 005481          255 ----------GSLVDFYVKCGCLVEARRVFDLIEQ---KSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDG-FVL  320 (694)
Q Consensus       255 ----------~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~t~  320 (694)
                                ..+...+.+.|++++|...|+++..   .+...+..+...+...|++++|++.|++..+.  .|+. ..+
T Consensus       345 ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~--~p~~~~a~  422 (1157)
T PRK11447        345 LLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRM--DPGNTNAV  422 (1157)
T ss_pred             HHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHH
Confidence                      1223455667777777777776543   23455666667777777777777777777653  2332 222


Q ss_pred             HHHHHH------------------------------------------HhhhccHHHHHHHHHHHHhcCCCCCchHHHHH
Q 005481          321 SSMMGV------------------------------------------FADFALVEQGKQIHAYAAKVPSGLDTSVSNSI  358 (694)
Q Consensus       321 ~~ll~~------------------------------------------~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~l  358 (694)
                      ..+...                                          +...|++++|.+.++.+++.... ++.++..+
T Consensus       423 ~~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~L  501 (1157)
T PRK11447        423 RGLANLYRQQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRL  501 (1157)
T ss_pred             HHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            222222                                          22334445555555544443322 33344444


Q ss_pred             hhhhhhcCCHHHHHHHHccCCC---CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH---------HHHHHHH
Q 005481          359 VDMYLKCGLIDEATELFNEMPV---KNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGV---------AYLAVLS  426 (694)
Q Consensus       359 i~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~---------t~~~ll~  426 (694)
                      ...|.+.|++++|...|+++..   .+...+..+...+...|+.++|+..++++......++..         .+..+..
T Consensus       502 A~~~~~~G~~~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~  581 (1157)
T PRK11447        502 AQDLRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETAN  581 (1157)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHH
Confidence            5555555555555555554321   122233333333334444444444444332211111110         0112233


Q ss_pred             HHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChHH
Q 005481          427 ACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLEL  504 (694)
Q Consensus       427 a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~  504 (694)
                      .+...|+.++|..+++.      .+++...+..+.+.|.+.|++++|++.|++. ...|+ ...+..+...+...|++++
T Consensus       582 ~l~~~G~~~eA~~~l~~------~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~e  655 (1157)
T PRK11447        582 RLRDSGKEAEAEALLRQ------QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAA  655 (1157)
T ss_pred             HHHHCCCHHHHHHHHHh------CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHH
Confidence            44455555555555541      1233445566667777777777777777665 33343 5566667777777777777


Q ss_pred             HHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          505 GREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       505 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      |+..++++++..|+++..+..++.++...|++++|.++++.+...
T Consensus       656 A~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        656 ARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             HHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            777777777777776666777777777777777777777766553

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.94  E-value=1.2e-21  Score=231.12  Aligned_cols=513  Identities=12%  Similarity=0.056  Sum_probs=371.6

Q ss_pred             HHHHhhcCCChHHHHHHHHHHHHhCCCCChhhHH-HHHHHHHhcCChHHHHHHHhccCC--C-CcccHHHHHHHHHhCCC
Q 005481           18 SLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNN-DLIDMYAKCGEMNGACAVFDKMLE--R-NVVSWTALMCGFLQNGN   93 (694)
Q Consensus        18 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~-~li~~~~~~g~~~~A~~~f~~~~~--~-~~~~~~~li~~~~~~g~   93 (694)
                      +.+.+...|++++|.+.+..+.+.. +++..... .+.......|+.++|++.|+++.+  | +...+..+...+...|+
T Consensus       118 ~A~ll~~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~~~~~~LA~ll~~~g~  196 (1157)
T PRK11447        118 QARLLATTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNTGLRNTLALLLFSSGR  196 (1157)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHccCC
Confidence            3345678899999999999998764 34432211 112222345999999999999865  3 44568888889999999


Q ss_pred             hHHHHHHHHHhhhCCC------------------C--------------CCceeHH---------------------HHH
Q 005481           94 AKACLSLFCQMGSSSV------------------K--------------PNEFTLS---------------------TNI  120 (694)
Q Consensus        94 ~~~A~~~~~~m~~~g~------------------~--------------p~~~t~~---------------------~ll  120 (694)
                      .++|+..|+++.+...                  .              |+.....                     ...
T Consensus       197 ~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~G  276 (1157)
T PRK11447        197 RDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQG  276 (1157)
T ss_pred             HHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHHH
Confidence            9999999998754321                  0              1100000                     011


Q ss_pred             HHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCCC--CCc---ccHHHH----------
Q 005481          121 KASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPA--KSL---ITWNAM----------  185 (694)
Q Consensus       121 ~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~--~~~---~~~~~l----------  185 (694)
                      .++...|++++|...++.+++.. +.+...+..|...|.+.|++++|+..|++..+  |+.   ..|..+          
T Consensus       277 ~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~  355 (1157)
T PRK11447        277 LAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLI  355 (1157)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHH
Confidence            23445677888888888887763 33567777778888888888888888877654  211   122222          


Q ss_pred             --HHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHH
Q 005481          186 --IAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVK  263 (694)
Q Consensus       186 --i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~  263 (694)
                        ...+.+.|++++|+..|++..+... .+...+..+...+...|++++|.+.++.+++..+   .+...+..+...|. 
T Consensus       356 ~~g~~~~~~g~~~eA~~~~~~Al~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p---~~~~a~~~L~~l~~-  430 (1157)
T PRK11447        356 QQGDAALKANNLAQAERLYQQARQVDN-TDSYAVLGLGDVAMARKDYAAAERYYQQALRMDP---GNTNAVRGLANLYR-  430 (1157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHH-
Confidence              2345677888888888888877532 2344556667777788888888888888887665   34455566666664 


Q ss_pred             cCCHHHHHHHHhhcCCCC------------hhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCc-cchHHHHHHHhhh
Q 005481          264 CGCLVEARRVFDLIEQKS------------VISWSSLILGYAQEENLAEAMELFRQLRERSLQVDG-FVLSSMMGVFADF  330 (694)
Q Consensus       264 ~g~~~~A~~~f~~~~~~~------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~~~~~~  330 (694)
                      .++.++|...++.+....            ...+..+...+...|++++|++.|++..+.  .|+. ..+..+...+...
T Consensus       431 ~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~--~P~~~~~~~~LA~~~~~~  508 (1157)
T PRK11447        431 QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLAL--DPGSVWLTYRLAQDLRQA  508 (1157)
T ss_pred             hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHc
Confidence            456788887777665321            123445667788899999999999999885  4543 4566777789999


Q ss_pred             ccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCC----Ch---------hhHHHHHHHHHhcC
Q 005481          331 ALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVK----NV---------VTWTVIITGYGKHG  397 (694)
Q Consensus       331 ~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~----~~---------~~~~~li~~~~~~g  397 (694)
                      |++++|...++.+.+.... +......+...+.+.|+.++|...++.++..    +.         ..+..+...+...|
T Consensus       509 G~~~~A~~~l~~al~~~P~-~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G  587 (1157)
T PRK11447        509 GQRSQADALMRRLAQQKPN-DPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSG  587 (1157)
T ss_pred             CCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCC
Confidence            9999999999998875533 4444555566678899999999999998632    11         11234567788999


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCC-ChhHHHHHHHHHHhcCChHHHHHH
Q 005481          398 LAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKP-RIEHYSCIVDSLGRAGRLDEAKNL  476 (694)
Q Consensus       398 ~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~  476 (694)
                      +.++|+.+++.     .+++...+..+...+...|++++|+..|+.+.+   ..| +...+..++.+|...|++++|++.
T Consensus       588 ~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~---~~P~~~~a~~~la~~~~~~g~~~eA~~~  659 (1157)
T PRK11447        588 KEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLT---REPGNADARLGLIEVDIAQGDLAAARAQ  659 (1157)
T ss_pred             CHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            99999999872     234556677888899999999999999999988   345 477889999999999999999999


Q ss_pred             HHhC-CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcc------hHHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          477 IESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPV------NYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       477 ~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~------~~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      ++.. ...|+ ...+..+..++...|++++|.+.++++++..|+++.      .+..++.++...|++++|...++....
T Consensus       660 l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        660 LAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             HHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            9987 34454 556777888899999999999999999998776543      556679999999999999999998753

>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=3.3e-22  Score=199.46  Aligned_cols=447  Identities=13%  Similarity=0.129  Sum_probs=364.0

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHh
Q 005481           81 WTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSK  160 (694)
Q Consensus        81 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~  160 (694)
                      -..|..-..+.|++++|.+.-...-+.. +.+......+-..+.+..+++...+--...++.. +.-..+|+.+.+.+-.
T Consensus        51 ~l~lah~~yq~gd~~~a~~h~nmv~~~d-~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~-~q~ae~ysn~aN~~ke  128 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKN-PQGAEAYSNLANILKE  128 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhcc-chHHHHHHHHHHHHHH
Confidence            3445556678899999988765543332 1222333333344555555655544444444432 3346789999999999


Q ss_pred             cCChHHHHHHHccCCCC---CcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHH-HHHHcccCCchHHHHH
Q 005481          161 CGRINEAARMFDVMPAK---SLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTST-LKACGSLGSVGGGTQI  236 (694)
Q Consensus       161 ~g~~~~A~~~f~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l-l~a~~~~~~~~~a~~~  236 (694)
                      .|++++|+.+++.+.+.   .+..|..+..++...|+.+.|.+.|.+..+  +.|+.+...+- -......|++.+|...
T Consensus       129 rg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alq--lnP~l~ca~s~lgnLlka~Grl~ea~~c  206 (966)
T KOG4626|consen  129 RGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQ--LNPDLYCARSDLGNLLKAEGRLEEAKAC  206 (966)
T ss_pred             hchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHh--cCcchhhhhcchhHHHHhhcccchhHHH
Confidence            99999999999988753   567999999999999999999999999887  45776654443 3344457899999999


Q ss_pred             HHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCC---hhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCC
Q 005481          237 HGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKS---VISWSSLILGYAQEENLAEAMELFRQLRERSL  313 (694)
Q Consensus       237 ~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  313 (694)
                      +..+++..+   .-..+|+.|...+-..|+...|+..|++...-|   ..+|-.|...|...+.+++|+..|.+....  
T Consensus       207 YlkAi~~qp---~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~l--  281 (966)
T KOG4626|consen  207 YLKAIETQP---CFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNL--  281 (966)
T ss_pred             HHHHHhhCC---ceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhc--
Confidence            999998775   456789999999999999999999999987543   367889999999999999999999988764  


Q ss_pred             ccC-ccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCC--CC-ChhhHHHH
Q 005481          314 QVD-GFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMP--VK-NVVTWTVI  389 (694)
Q Consensus       314 ~pd-~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~--~~-~~~~~~~l  389 (694)
                      .|+ .+.+..+...|...|.++.|..-++..++.... -+..|+.|..++-..|++.+|.+.+.+..  .| ...+.+.|
T Consensus       282 rpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NL  360 (966)
T KOG4626|consen  282 RPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNL  360 (966)
T ss_pred             CCcchhhccceEEEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHH
Confidence            565 456777777788999999999999999886533 35688999999999999999999999887  23 46688999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHHHHHHHhc
Q 005481          390 ITGYGKHGLAKEAVGLFRKMLLDDVEPDG-VAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLGRA  467 (694)
Q Consensus       390 i~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~  467 (694)
                      ...|...|.+++|..+|....+  +.|.- ..++.|...|-+.|++++|+..|+++++   |.|+ ...|+.|...|-..
T Consensus       361 gni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr---I~P~fAda~~NmGnt~ke~  435 (966)
T KOG4626|consen  361 GNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR---IKPTFADALSNMGNTYKEM  435 (966)
T ss_pred             HHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh---cCchHHHHHHhcchHHHHh
Confidence            9999999999999999999988  77776 5799999999999999999999999987   8898 66899999999999


Q ss_pred             CChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHH
Q 005481          468 GRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERL  542 (694)
Q Consensus       468 g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  542 (694)
                      |+.+.|.+.+.+. .+.|. ....+.|.+.+...|+..+|++.|+.+++++||.|.+|..++.++.-..+|.+--+.
T Consensus       436 g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~vcdw~D~d~~  512 (966)
T KOG4626|consen  436 GDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIVCDWTDYDKR  512 (966)
T ss_pred             hhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHHhcccchHHH
Confidence            9999999999987 67776 667899999999999999999999999999999999999999988888888774333

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.91  E-value=4.1e-19  Score=200.27  Aligned_cols=508  Identities=10%  Similarity=0.013  Sum_probs=331.7

Q ss_pred             CCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccCCCCc--ccHHHHHHHHHhCCChHHHHHHHH
Q 005481           25 NLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNV--VSWTALMCGFLQNGNAKACLSLFC  102 (694)
Q Consensus        25 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~--~~~~~li~~~~~~g~~~~A~~~~~  102 (694)
                      .|++++|...+..+++.. +.+..++..|...|.+.|+.++|+..+++..+.++  ..|..++..+   +++.+|..+|+
T Consensus        57 ~Gd~~~A~~~l~~Al~~d-P~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~n~~~~~~La~i---~~~~kA~~~ye  132 (987)
T PRK09782         57 NNDEATAIREFEYIHQQV-PDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPGDARLERSLAAI---PVEVKSVTTVE  132 (987)
T ss_pred             CCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHh---ccChhHHHHHH
Confidence            366667777777666654 33456666666777777777777766666643221  1122222211   55555555555


Q ss_pred             HhhhCC--------------------------------------CCCCceeHHHH-HHHhcccCChHHHHHHHHHHHHhC
Q 005481          103 QMGSSS--------------------------------------VKPNEFTLSTN-IKASGVLSSVENGMQIHGMCMKSG  143 (694)
Q Consensus       103 ~m~~~g--------------------------------------~~p~~~t~~~l-l~a~~~~~~~~~a~~~~~~~~~~g  143 (694)
                      ++....                                      ..|+..+.... .+.+.+.++++.+..++..+.+.+
T Consensus       133 ~l~~~~P~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~  212 (987)
T PRK09782        133 ELLAQQKACDAVPTLRCRSEVGQNALRLAQLPVARAQLNDATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQN  212 (987)
T ss_pred             HHHHhCCCChhHHHHHHHHhhccchhhhhhHHHHHHHHHHhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcC
Confidence            554421                                      12222223333 566667777888888888888776


Q ss_pred             CCCChhHHHHHHHHHHh-cCChHHHHHHHccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCC-CChhhHHHHH
Q 005481          144 FEWNPVVGNSIIDMYSK-CGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEI-PDEFTFTSTL  221 (694)
Q Consensus       144 ~~~~~~~~~~ll~~y~~-~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~t~~~ll  221 (694)
                       +.+..-...|...|.. .++ +.|..+++...+.+...+..+...|.+.|+.++|.++++++...-.. |+..++.-++
T Consensus       213 -pl~~~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l  290 (987)
T PRK09782        213 -TLSAAERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLL  290 (987)
T ss_pred             -CCCHHHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHH
Confidence             3334445566667776 366 77777776554567888889999999999999999999987654222 3333333222


Q ss_pred             ------------------------------HHHcccCCchHHHHHH-----------------------------HHHHH
Q 005481          222 ------------------------------KACGSLGSVGGGTQIH-----------------------------GFLIT  242 (694)
Q Consensus       222 ------------------------------~a~~~~~~~~~a~~~~-----------------------------~~~~~  242 (694)
                                                    ..+.+.++++.+.++.                             ..+.+
T Consensus       291 ~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~  370 (987)
T PRK09782        291 SKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRLARLLYQ  370 (987)
T ss_pred             HhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHh
Confidence                                          2222333333222221                             11111


Q ss_pred             hCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCC-C-C----hhhHHHHHHHHHhCCC---HHHHHHH---------
Q 005481          243 SGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQ-K-S----VISWSSLILGYAQEEN---LAEAMEL---------  304 (694)
Q Consensus       243 ~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~-~-~----~~~~~~li~~~~~~g~---~~~A~~~---------  304 (694)
                      ...   .+....--+.-...+.|+.++|.++|+...+ + +    ...-+-++..|...+.   ..+++.+         
T Consensus       371 ~~~---~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~  447 (987)
T PRK09782        371 QEP---ANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQ  447 (987)
T ss_pred             cCC---CCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchh
Confidence            101   1222222233344567888888888887654 1 1    2233456666766655   3344333         


Q ss_pred             -------------HHHHHh-cCCccC---ccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCC
Q 005481          305 -------------FRQLRE-RSLQVD---GFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGL  367 (694)
Q Consensus       305 -------------~~~m~~-~g~~pd---~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~  367 (694)
                                   +..... .+..|+   ...+..+..++.. +..++|...+.......  |+......+...+...|+
T Consensus       448 ~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr  524 (987)
T PRK09782        448 RQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVED  524 (987)
T ss_pred             HHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCC
Confidence                         111111 112233   3334444444444 78888888777666554  343333344555568999


Q ss_pred             HHHHHHHHccCCC--CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHccCcHHHHHHHHHHH
Q 005481          368 IDEATELFNEMPV--KNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGV-AYLAVLSACSHSGLVEESQEYFSRL  444 (694)
Q Consensus       368 ~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~a~~~~g~~~~a~~~~~~m  444 (694)
                      +++|...|+++..  ++...+..+...+.+.|+.++|...|++.++..  |+.. .+..+.......|++++|...+++.
T Consensus       525 ~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~--P~~~~l~~~La~~l~~~Gr~~eAl~~~~~A  602 (987)
T PRK09782        525 YATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG--LGDNALYWWLHAQRYIPGQPELALNDLTRS  602 (987)
T ss_pred             HHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            9999999997763  445567777888899999999999999998854  5443 3334444555679999999999999


Q ss_pred             hhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcch
Q 005481          445 CNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVN  522 (694)
Q Consensus       445 ~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~  522 (694)
                      .+   +.|+...|..+..++.+.|++++|++.+++. ...|+ ...+..+..++...|+.++|+..++++++++|+++..
T Consensus       603 L~---l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a  679 (987)
T PRK09782        603 LN---IAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPAL  679 (987)
T ss_pred             HH---hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHH
Confidence            87   5688889999999999999999999999987 55665 5667888889999999999999999999999999999


Q ss_pred             HHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          523 YVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       523 ~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      +..++.+|...|++++|...++...+.
T Consensus       680 ~~nLA~al~~lGd~~eA~~~l~~Al~l  706 (987)
T PRK09782        680 IRQLAYVNQRLDDMAATQHYARLVIDD  706 (987)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            999999999999999999999998764

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

Probab=99.90  E-value=4.8e-21  Score=191.22  Aligned_cols=420  Identities=13%  Similarity=0.113  Sum_probs=337.9

Q ss_pred             HHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCCC---CCcccHHHHHHHHHhcCC
Q 005481          118 TNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPA---KSLITWNAMIAGYVLAGY  194 (694)
Q Consensus       118 ~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~  194 (694)
                      .+..-..+.|++.+|++--..+-... +.+....-.+-..|....+.+....--....+   .-..+|..+...+-..|+
T Consensus        53 ~lah~~yq~gd~~~a~~h~nmv~~~d-~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~~q~ae~ysn~aN~~kerg~  131 (966)
T KOG4626|consen   53 ELAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKERGQ  131 (966)
T ss_pred             HHHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHhch
Confidence            34444556788888877555443332 12222222233455556565554433222222   245689999999999999


Q ss_pred             hhHHHHHHHHHHHCCCCCC-hhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHH
Q 005481          195 SDKGLLLFRKMQEHGEIPD-EFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRV  273 (694)
Q Consensus       195 ~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~  273 (694)
                      .++|+.+|+.|.+.  +|+ ...|..+..++...|+.+.|.+.+...++..+   ....+.+-+....-..|++.+|...
T Consensus       132 ~~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alqlnP---~l~ca~s~lgnLlka~Grl~ea~~c  206 (966)
T KOG4626|consen  132 LQDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQLNP---DLYCARSDLGNLLKAEGRLEEAKAC  206 (966)
T ss_pred             HHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCc---chhhhhcchhHHHHhhcccchhHHH
Confidence            99999999999884  454 45899999999999999999999999998775   3445556677777788999999998


Q ss_pred             HhhcCC--CC-hhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCc-cchHHHHHHHhhhccHHHHHHHHHHHHhcCCC
Q 005481          274 FDLIEQ--KS-VISWSSLILGYAQEENLAEAMELFRQLRERSLQVDG-FVLSSMMGVFADFALVEQGKQIHAYAAKVPSG  349 (694)
Q Consensus       274 f~~~~~--~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~  349 (694)
                      +.+..+  +. .+.|+.|...+-..|+...|+..|++....  .|+- ..|-.+...+...+.++.|...+..+......
T Consensus       207 YlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn  284 (966)
T KOG4626|consen  207 YLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLRPN  284 (966)
T ss_pred             HHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCc
Confidence            887654  32 378999999999999999999999998873  5553 46677777777778888888777776654432


Q ss_pred             CCchHHHHHhhhhhhcCCHHHHHHHHccCC--CCC-hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHH
Q 005481          350 LDTSVSNSIVDMYLKCGLIDEATELFNEMP--VKN-VVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDG-VAYLAVL  425 (694)
Q Consensus       350 ~~~~~~~~li~~y~~~g~~~~A~~~~~~~~--~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~t~~~ll  425 (694)
                       ...++..|...|...|.+|-|+..+++..  +|+ ...|+.|..++...|+..+|...|.+.+.  +.|+. .+.+.|.
T Consensus       285 -~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~--l~p~hadam~NLg  361 (966)
T KOG4626|consen  285 -HAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALR--LCPNHADAMNNLG  361 (966)
T ss_pred             -chhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHH--hCCccHHHHHHHH
Confidence             45667778889999999999999999987  343 56899999999999999999999999998  66776 6889999


Q ss_pred             HHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCh
Q 005481          426 SACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDL  502 (694)
Q Consensus       426 ~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~  502 (694)
                      ..+...|.+++|..+|....+   +.|. ...++.|...|-.+|++++|+..+++. .++|+ ...++.+...|...|+.
T Consensus       362 ni~~E~~~~e~A~~ly~~al~---v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v  438 (966)
T KOG4626|consen  362 NIYREQGKIEEATRLYLKALE---VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDV  438 (966)
T ss_pred             HHHHHhccchHHHHHHHHHHh---hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhH
Confidence            999999999999999999977   6676 557899999999999999999999987 88888 56799999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCCC
Q 005481          503 ELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGL  551 (694)
Q Consensus       503 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  551 (694)
                      +.|.+.+.+++..+|.-+.++..|+.+|-.+|+..+|+.-++...+...
T Consensus       439 ~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkP  487 (966)
T KOG4626|consen  439 SAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKP  487 (966)
T ss_pred             HHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCC
Confidence            9999999999999999999999999999999999999999999876543

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.88  E-value=6.1e-18  Score=190.88  Aligned_cols=519  Identities=9%  Similarity=0.025  Sum_probs=371.4

Q ss_pred             CCChhHHHHH-HHHhhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHh-cCChHHHHHHHhccCCCCcccHHHHHH
Q 005481            9 VSERQRLADS-LRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAK-CGEMNGACAVFDKMLERNVVSWTALMC   86 (694)
Q Consensus         9 ~p~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~-~g~~~~A~~~f~~~~~~~~~~~~~li~   86 (694)
                      .|++.++... .+.+...++++.+..++..+.+.+ +.+......|-.+|.. .++ +.|..+++...+.++..+..+..
T Consensus       178 ~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~-pl~~~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~  255 (987)
T PRK09782        178 SPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQN-TLSAAERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYAT  255 (987)
T ss_pred             CCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHH
Confidence            3445554444 788899999999999999999987 4455556777778887 477 88888887655668888999999


Q ss_pred             HHHhCCChHHHHHHHHHhhhCCCC-CCceeHHHHHHHhcccCChH-HHHHHHHHHHHhCCCCC-hhHHHHHHHHHHhcCC
Q 005481           87 GFLQNGNAKACLSLFCQMGSSSVK-PNEFTLSTNIKASGVLSSVE-NGMQIHGMCMKSGFEWN-PVVGNSIIDMYSKCGR  163 (694)
Q Consensus        87 ~~~~~g~~~~A~~~~~~m~~~g~~-p~~~t~~~ll~a~~~~~~~~-~a~~~~~~~~~~g~~~~-~~~~~~ll~~y~~~g~  163 (694)
                      .|.+.|+.++|.++++++...-.. |...++.-++   .+.+... .+..-+..  +  +.++ ....-.++..+.+.++
T Consensus       256 ~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l---~r~~~~~~~~~~~~~~--~--~~~~~~~~~~~~~~~~~~~~~  328 (987)
T PRK09782        256 ALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLL---SKYSANPVQALANYTV--Q--FADNRQYVVGATLPVLLKEGQ  328 (987)
T ss_pred             HHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHH---HhccCchhhhccchhh--h--hHHHHHHHHHHHHHHHHhccH
Confidence            999999999999999998654332 5555554443   3333322 11111111  0  1111 1233445788999999


Q ss_pred             hHHHHHHHccCCCCCcccHHHHHHH--HHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHH
Q 005481          164 INEAARMFDVMPAKSLITWNAMIAG--YVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLI  241 (694)
Q Consensus       164 ~~~A~~~f~~~~~~~~~~~~~li~~--~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~  241 (694)
                      ++.|.++.+ ....+..   ..+..  ....+...++.+....|.+.. .-+....--+--...+.|+.++|.+++....
T Consensus       329 ~~~~~~~~~-~~~~~~~---~~~r~~~~~~~~~~~~~~~~~~~~y~~~-~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~  403 (987)
T PRK09782        329 YDAAQKLLA-TLPANEM---LEERYAVSVATRNKAEALRLARLLYQQE-PANLTRLDQLTWQLMQNGQSREAADLLLQRY  403 (987)
T ss_pred             HHHHHHHhc-CCCcchH---HHHHHhhccccCchhHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHhc
Confidence            998888854 3222332   22222  223466677777777776641 1123333333333457788999999998887


Q ss_pred             HhCCCCCcchhhHHHHHHHHHHcCCH---HHHHHH-------------------------HhhcCC---C--ChhhHHHH
Q 005481          242 TSGFPYSVKTVIAGSLVDFYVKCGCL---VEARRV-------------------------FDLIEQ---K--SVISWSSL  288 (694)
Q Consensus       242 ~~g~~~~~~~~~~~~li~~y~~~g~~---~~A~~~-------------------------f~~~~~---~--~~~~~~~l  288 (694)
                      .....-..+....+-|+..|.+.+.+   .++..+                         +.....   .  +...|..+
T Consensus       404 ~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~L  483 (987)
T PRK09782        404 PFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRL  483 (987)
T ss_pred             CCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHH
Confidence            74221113445566788888888763   233222                         111111   2  45677888


Q ss_pred             HHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCH
Q 005481          289 ILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLI  368 (694)
Q Consensus       289 i~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~  368 (694)
                      ..++.. +++++|+..|.+....  .|+......+..++...|+++.|...+..+....  |+...+..+...+.+.|+.
T Consensus       484 G~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~--p~~~a~~~la~all~~Gd~  558 (987)
T PRK09782        484 AKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLHD--MSNEDLLAAANTAQAAGNG  558 (987)
T ss_pred             HHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhccC--CCcHHHHHHHHHHHHCCCH
Confidence            888776 8999999988887765  4666554444555578999999999999876553  3344456777888999999


Q ss_pred             HHHHHHHccCCCCChhhHHH---HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHh
Q 005481          369 DEATELFNEMPVKNVVTWTV---IITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLC  445 (694)
Q Consensus       369 ~~A~~~~~~~~~~~~~~~~~---li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~  445 (694)
                      ++|...|++....+...++.   +.......|++++|+..|++.++  ..|+...+..+..++.+.|++++|...|+++.
T Consensus       559 ~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~--l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL  636 (987)
T PRK09782        559 AARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLN--IAPSANAYVARATIYRQRHNVPAAVSDLRAAL  636 (987)
T ss_pred             HHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHH--hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            99999999877543333332   33334455999999999999998  56788889999999999999999999999998


Q ss_pred             hccCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcch
Q 005481          446 NDKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVN  522 (694)
Q Consensus       446 ~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~  522 (694)
                      .   +.|+ ...+..+...+...|++++|++.+++. ...|+ ...+..+..++...|++++|+..++++++++|++...
T Consensus       637 ~---l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~~a~i  713 (987)
T PRK09782        637 E---LEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDIDNQALI  713 (987)
T ss_pred             H---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCchh
Confidence            8   4565 667888999999999999999999987 45554 6789999999999999999999999999999999999


Q ss_pred             HHHHHhHHHhcCCchHHHHHHHHHHhCCC
Q 005481          523 YVMMSNIHADAGSWNECERLRKLARSKGL  551 (694)
Q Consensus       523 ~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  551 (694)
                      ....+++.....+++.+.+-++..-..++
T Consensus       714 ~~~~g~~~~~~~~~~~a~~~~~r~~~~~~  742 (987)
T PRK09782        714 TPLTPEQNQQRFNFRRLHEEVGRRWTFSF  742 (987)
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHhhcCc
Confidence            99999999999999999888777655444

>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=1.5e-17  Score=184.58  Aligned_cols=413  Identities=12%  Similarity=0.016  Sum_probs=258.1

Q ss_pred             HHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCCCC---CcccHHHHHHHHHhcCChh
Q 005481          120 IKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAK---SLITWNAMIAGYVLAGYSD  196 (694)
Q Consensus       120 l~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~---~~~~~~~li~~~~~~g~~~  196 (694)
                      ...+.+.|+++.|...|..+++.  .|+...|..+..+|.+.|++++|...++...+.   +...|..+..+|...|+++
T Consensus       134 G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~~lg~~~  211 (615)
T TIGR00990       134 GNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDGLGKYA  211 (615)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHH
Confidence            34455556666666666666553  345556666666666666666666666655432   3345666666666666666


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhh
Q 005481          197 KGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDL  276 (694)
Q Consensus       197 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~  276 (694)
                      +|+.-|......+-. +......++.....    ..+........+...   .+...+..+.. |........+..-++.
T Consensus       212 eA~~~~~~~~~~~~~-~~~~~~~~~~~~l~----~~a~~~~~~~l~~~~---~~~~~~~~~~~-~~~~~~~~~~~~~~~~  282 (615)
T TIGR00990       212 DALLDLTASCIIDGF-RNEQSAQAVERLLK----KFAESKAKEILETKP---ENLPSVTFVGN-YLQSFRPKPRPAGLED  282 (615)
T ss_pred             HHHHHHHHHHHhCCC-ccHHHHHHHHHHHH----HHHHHHHHHHHhcCC---CCCCCHHHHHH-HHHHccCCcchhhhhc
Confidence            666666554332111 11111111111000    111122222222221   11112222211 2211111111111111


Q ss_pred             cCCCCh---hhHHHHHHHH---HhCCCHHHHHHHHHHHHhcC-CccC-ccchHHHHHHHhhhccHHHHHHHHHHHHhcCC
Q 005481          277 IEQKSV---ISWSSLILGY---AQEENLAEAMELFRQLRERS-LQVD-GFVLSSMMGVFADFALVEQGKQIHAYAAKVPS  348 (694)
Q Consensus       277 ~~~~~~---~~~~~li~~~---~~~g~~~~A~~~~~~m~~~g-~~pd-~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~  348 (694)
                      ..+-+.   ..+..+...+   ...+++++|++.|++....+ ..|+ ...+..+...+...|+++.|...+..+++...
T Consensus       283 ~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P  362 (615)
T TIGR00990       283 SNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDP  362 (615)
T ss_pred             ccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Confidence            111111   1111111111   22467778888888877654 2333 23455555566677888888888887776542


Q ss_pred             CCCchHHHHHhhhhhhcCCHHHHHHHHccCC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHH
Q 005481          349 GLDTSVSNSIVDMYLKCGLIDEATELFNEMP---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPD-GVAYLAV  424 (694)
Q Consensus       349 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~l  424 (694)
                      . ....+..+...|...|++++|...|+++.   ..+...|..+...+...|++++|+..|++.++  +.|+ ...+..+
T Consensus       363 ~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~--l~P~~~~~~~~l  439 (615)
T TIGR00990       363 R-VTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSID--LDPDFIFSHIQL  439 (615)
T ss_pred             C-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--cCccCHHHHHHH
Confidence            2 34566777888888999999999988765   34677888999999999999999999999988  4455 4567778


Q ss_pred             HHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCCH-H-------HHHHHHH
Q 005481          425 LSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPSI-A-------IWQTLLS  494 (694)
Q Consensus       425 l~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~-~-------~~~~ll~  494 (694)
                      ..++...|++++|...|+...+   ..|+ ...++.+..+|...|++++|++.|++. ...|+. .       .++..+.
T Consensus       440 a~~~~~~g~~~eA~~~~~~al~---~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~  516 (615)
T TIGR00990       440 GVTQYKEGSIASSMATFRRCKK---NFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALA  516 (615)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHH
Confidence            8888999999999999999987   3454 678889999999999999999999886 444431 1       1222222


Q ss_pred             HHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          495 ACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       495 a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      .+...|++++|+..++++++++|++..++..++.+|...|++++|.+.++...+.
T Consensus       517 ~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       517 LFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            3445699999999999999999999889999999999999999999999988654

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.83  E-value=1.8e-18  Score=182.22  Aligned_cols=289  Identities=12%  Similarity=0.105  Sum_probs=194.9

Q ss_pred             HHHcCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccC---ccchHHHHHHHhhhccHH
Q 005481          261 YVKCGCLVEARRVFDLIEQK---SVISWSSLILGYAQEENLAEAMELFRQLRERSLQVD---GFVLSSMMGVFADFALVE  334 (694)
Q Consensus       261 y~~~g~~~~A~~~f~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd---~~t~~~ll~~~~~~~~~~  334 (694)
                      +...|++++|...|.++.+.   +..+|..+...+...|++++|+.+++.+...+..++   ..++..+...+...|+++
T Consensus        45 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~  124 (389)
T PRK11788         45 FLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLD  124 (389)
T ss_pred             HHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHH
Confidence            33445555555555554321   223444555555555555555555555544321111   123344444455555555


Q ss_pred             HHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCC--C------hhhHHHHHHHHHhcCCHHHHHHHH
Q 005481          335 QGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVK--N------VVTWTVIITGYGKHGLAKEAVGLF  406 (694)
Q Consensus       335 ~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~--~------~~~~~~li~~~~~~g~~~~A~~~~  406 (694)
                      .|..++..+.+.. +.+..+++.++.+|.+.|++++|.+.|+.+...  +      ...|..++..+...|++++|...|
T Consensus       125 ~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  203 (389)
T PRK11788        125 RAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALL  203 (389)
T ss_pred             HHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            5555555554432 224455666666677777777777777666421  1      123556777788889999999999


Q ss_pred             HHHHHCCCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC--hhHHHHHHHHHHhcCChHHHHHHHHhC-CC
Q 005481          407 RKMLLDDVEPD-GVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR--IEHYSCIVDSLGRAGRLDEAKNLIESM-PV  482 (694)
Q Consensus       407 ~~m~~~g~~pd-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~-~~  482 (694)
                      +++.+.  .|+ ..++..+...+.+.|++++|.++|+++.+   ..|+  ...+..++.+|.+.|++++|.+.++++ ..
T Consensus       204 ~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~---~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  278 (389)
T PRK11788        204 KKALAA--DPQCVRASILLGDLALAQGDYAAAIEALERVEE---QDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE  278 (389)
T ss_pred             HHHHhH--CcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---HChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            998874  344 45777788888899999999999999876   2344  456788899999999999999999987 55


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHh---cCCchHHHHHHHHHHhCCCccCCc
Q 005481          483 KPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHAD---AGSWNECERLRKLARSKGLKKVAG  556 (694)
Q Consensus       483 ~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~---~g~~~~a~~~~~~m~~~g~~~~~~  556 (694)
                      .|+...+..+...+...|++++|...++++++..|+++ .+..+...+..   .|+.+++..+++.|.+++++++|.
T Consensus       279 ~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~-~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        279 YPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLR-GFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHH-HHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            67777778888899999999999999999999999875 44444544443   569999999999999999988886

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.82  E-value=5.4e-17  Score=179.41  Aligned_cols=350  Identities=11%  Similarity=0.027  Sum_probs=276.3

Q ss_pred             hcCChHHHHHHHccCCCC------CcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHH
Q 005481          160 KCGRINEAARMFDVMPAK------SLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGG  233 (694)
Q Consensus       160 ~~g~~~~A~~~f~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a  233 (694)
                      +..+++.-.-+|..-++.      +......++..+.+.|++++|+.++.........+. ..+..+..++...|+++.|
T Consensus        17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~-~~l~~l~~~~l~~g~~~~A   95 (656)
T PRK15174         17 KQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKNGR-DLLRRWVISPLASSQPDAV   95 (656)
T ss_pred             hhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCch-hHHHHHhhhHhhcCCHHHH
Confidence            455666666666666542      333455677888899999999999999887654433 3444455666679999999


Q ss_pred             HHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 005481          234 TQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQ---KSVISWSSLILGYAQEENLAEAMELFRQLRE  310 (694)
Q Consensus       234 ~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  310 (694)
                      ...++.+.+..+   .+...+..+...|...|++++|...|++...   .+...|..+...+.+.|++++|...++.+..
T Consensus        96 ~~~l~~~l~~~P---~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~  172 (656)
T PRK15174         96 LQVVNKLLAVNV---CQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQ  172 (656)
T ss_pred             HHHHHHHHHhCC---CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHH
Confidence            999999998876   5677788899999999999999999998764   3567888899999999999999999998876


Q ss_pred             cCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCC---CCChhhHH
Q 005481          311 RSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMP---VKNVVTWT  387 (694)
Q Consensus       311 ~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~  387 (694)
                      ..  |+.......+..+...|++++|...+..+.+....++......+...+.+.|++++|...|+++.   ..+...+.
T Consensus       173 ~~--P~~~~a~~~~~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~  250 (656)
T PRK15174        173 EV--PPRGDMIATCLSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRR  250 (656)
T ss_pred             hC--CCCHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHH
Confidence            53  33333322334577889999999999988776544445555566778889999999999999876   34667888


Q ss_pred             HHHHHHHhcCCHHH----HHHHHHHHHHCCCCCCH-HHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHHH
Q 005481          388 VIITGYGKHGLAKE----AVGLFRKMLLDDVEPDG-VAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIV  461 (694)
Q Consensus       388 ~li~~~~~~g~~~~----A~~~~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li  461 (694)
                      .+...|...|++++    |+..|++..+  ..|+. ..+..+...+...|++++|...++++.+   +.|+ ...+..+.
T Consensus       251 ~Lg~~l~~~G~~~eA~~~A~~~~~~Al~--l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~---l~P~~~~a~~~La  325 (656)
T PRK15174        251 SLGLAYYQSGRSREAKLQAAEHWRHALQ--FNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLA---THPDLPYVRAMYA  325 (656)
T ss_pred             HHHHHHHHcCCchhhHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHH
Confidence            89999999999986    8999999998  45654 6788889999999999999999999987   4555 55677889


Q ss_pred             HHHHhcCChHHHHHHHHhC-CCCCCHHHHH-HHHHHHHhcCChHHHHHHHHHHHcCCCCCc
Q 005481          462 DSLGRAGRLDEAKNLIESM-PVKPSIAIWQ-TLLSACRVHGDLELGREVGEILLRLDGDNP  520 (694)
Q Consensus       462 ~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~-~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~  520 (694)
                      .+|.+.|++++|.+.++++ ...|+...+. .+..++...|+.++|...++++++.+|++.
T Consensus       326 ~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~  386 (656)
T PRK15174        326 RALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHL  386 (656)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhc
Confidence            9999999999999999987 4567654444 345678899999999999999999999864

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.82  E-value=1.1e-17  Score=176.08  Aligned_cols=294  Identities=17%  Similarity=0.125  Sum_probs=221.1

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCC-hhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCC-CcchhhHHHHHHHHH
Q 005481          185 MIAGYVLAGYSDKGLLLFRKMQEHGEIPD-EFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPY-SVKTVIAGSLVDFYV  262 (694)
Q Consensus       185 li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~-~~~~~~~~~li~~y~  262 (694)
                      ....+...|++++|+..|.++.+.+  |+ ..++..+...+...|+++.|..+++.+.+....+ .....++..++..|.
T Consensus        41 ~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~  118 (389)
T PRK11788         41 KGLNFLLNEQPDKAIDLFIEMLKVD--PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYL  118 (389)
T ss_pred             HHHHHHhcCChHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence            3445667888999999999998753  43 4467777778888888888888888877653220 011245677777788


Q ss_pred             HcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHH
Q 005481          263 KCGCLVEARRVFDLIEQ---KSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQI  339 (694)
Q Consensus       263 ~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i  339 (694)
                      +.|++++|.++|+++.+   .+..+++.++..+.+.|++++|++.++.+.+.+..++...                    
T Consensus       119 ~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~--------------------  178 (389)
T PRK11788        119 KAGLLDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVE--------------------  178 (389)
T ss_pred             HCCCHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHH--------------------
Confidence            88888888888877754   3456777777778888888888888777766432221100                    


Q ss_pred             HHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCC---CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 005481          340 HAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPV---KNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEP  416 (694)
Q Consensus       340 ~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  416 (694)
                                 ....+..+...|.+.|++++|...|+++.+   .+...+..+...|.+.|++++|+++|+++...+..+
T Consensus       179 -----------~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~  247 (389)
T PRK11788        179 -----------IAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEY  247 (389)
T ss_pred             -----------HHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhh
Confidence                       011234566777888899999888888752   345678888899999999999999999999753222


Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCCHHHHHHHHHH
Q 005481          417 DGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPSIAIWQTLLSA  495 (694)
Q Consensus       417 d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~a  495 (694)
                      ...++..+..++...|++++|.+.++.+.+   ..|+...+..++..+.+.|++++|.++++++ ...|+...+..++..
T Consensus       248 ~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~---~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~  324 (389)
T PRK11788        248 LSEVLPKLMECYQALGDEAEGLEFLRRALE---EYPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDY  324 (389)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHH
Confidence            245678889999999999999999999987   4677777889999999999999999999876 667999999988887


Q ss_pred             HHh---cCChHHHHHHHHHHHc
Q 005481          496 CRV---HGDLELGREVGEILLR  514 (694)
Q Consensus       496 ~~~---~g~~~~a~~~~~~~~~  514 (694)
                      +..   +|+.+++...++++++
T Consensus       325 ~~~~~~~g~~~~a~~~~~~~~~  346 (389)
T PRK11788        325 HLAEAEEGRAKESLLLLRDLVG  346 (389)
T ss_pred             hhhccCCccchhHHHHHHHHHH
Confidence            664   5688888888888775

>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=99.82  E-value=1.6e-16  Score=176.40  Aligned_cols=437  Identities=12%  Similarity=0.002  Sum_probs=302.0

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHh
Q 005481           81 WTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSK  160 (694)
Q Consensus        81 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~  160 (694)
                      +......+.+.|++++|+..|++..+  +.|+...|..+..++.+.|+++.|...+..+++.. +.+...+..+...|..
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~--~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIE--CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh--cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            44566788899999999999999886  56787888888899999999999999999999874 3356688889999999


Q ss_pred             cCChHHHHHHHccCCCCC---cccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHH
Q 005481          161 CGRINEAARMFDVMPAKS---LITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIH  237 (694)
Q Consensus       161 ~g~~~~A~~~f~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~  237 (694)
                      .|++++|...|......+   ......++..+..    ..+........+.. .++...+..+ ..+...........-+
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~-~~~~~~~~~~~~~~~~  280 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQSAQAVERLLK----KFAESKAKEILETK-PENLPSVTFV-GNYLQSFRPKPRPAGL  280 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHH-HHHHHHccCCcchhhh
Confidence            999999998776543211   1111112211111    22223333332221 1111122221 1111111111111111


Q ss_pred             HHHHHhCCCCCcchhhHHHHHHHH------HHcCCHHHHHHHHhhcCCC------ChhhHHHHHHHHHhCCCHHHHHHHH
Q 005481          238 GFLITSGFPYSVKTVIAGSLVDFY------VKCGCLVEARRVFDLIEQK------SVISWSSLILGYAQEENLAEAMELF  305 (694)
Q Consensus       238 ~~~~~~g~~~~~~~~~~~~li~~y------~~~g~~~~A~~~f~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~  305 (694)
                      ....+      .+......++..+      ...+++++|.+.|+...+.      ....|+.+...+...|++++|+..|
T Consensus       281 ~~~~~------~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~  354 (615)
T TIGR00990       281 EDSNE------LDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADL  354 (615)
T ss_pred             hcccc------cccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            11111      1111111111111      2346788999999887532      3456888888899999999999999


Q ss_pred             HHHHhcCCccC-ccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCC---C
Q 005481          306 RQLRERSLQVD-GFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPV---K  381 (694)
Q Consensus       306 ~~m~~~g~~pd-~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~  381 (694)
                      ++....  .|+ ...|..+...+...|+++.|...+..+++... .+..++..+...|...|++++|...|++...   .
T Consensus       355 ~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~  431 (615)
T TIGR00990       355 SKSIEL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNS-EDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPD  431 (615)
T ss_pred             HHHHHc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCcc
Confidence            998874  455 34677777788889999999999998887653 3577888899999999999999999998863   3


Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCCh-h----
Q 005481          382 NVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPD-GVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRI-E----  455 (694)
Q Consensus       382 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~-~----  455 (694)
                      +...|..+...+.+.|++++|+..|++.+..  .|+ ...+..+..++...|++++|...|+...+   +.|+. .    
T Consensus       432 ~~~~~~~la~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~---l~p~~~~~~~~  506 (615)
T TIGR00990       432 FIFSHIQLGVTQYKEGSIASSMATFRRCKKN--FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIE---LEKETKPMYMN  506 (615)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHh---cCCcccccccc
Confidence            5677888999999999999999999999873  454 57888889999999999999999999877   34431 1    


Q ss_pred             ---HHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHH
Q 005481          456 ---HYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIH  530 (694)
Q Consensus       456 ---~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  530 (694)
                         .++.....+...|++++|.+++++. ...|+ ...+..+...+...|++++|...+++++++.+.....        
T Consensus       507 ~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~~~~e~--------  578 (615)
T TIGR00990       507 VLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAELARTEGEL--------  578 (615)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhccHHHH--------
Confidence               1222233344579999999999986 55665 4568889999999999999999999999988754332        


Q ss_pred             HhcCCchHHHHHHHHHHh
Q 005481          531 ADAGSWNECERLRKLARS  548 (694)
Q Consensus       531 ~~~g~~~~a~~~~~~m~~  548 (694)
                      .....|.+|.++....++
T Consensus       579 ~~a~~~~~a~~~~~~~~~  596 (615)
T TIGR00990       579 VQAISYAEATRTQIQVQE  596 (615)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            123345566666555544

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.82  E-value=4.8e-16  Score=175.70  Aligned_cols=389  Identities=9%  Similarity=0.016  Sum_probs=209.9

Q ss_pred             hcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCCC---CCcccHHHHHHHHHhcCChhHHH
Q 005481          123 SGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPA---KSLITWNAMIAGYVLAGYSDKGL  199 (694)
Q Consensus       123 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~  199 (694)
                      ....|+.++|.+++....... +.+...+..+...+.+.|++++|..+|++...   .+...+..++..+...|++++|+
T Consensus        25 a~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~~eA~  103 (765)
T PRK10049         25 ALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQYDEAL  103 (765)
T ss_pred             HHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            334444455554444444311 22333455555555555555555555555321   23344555555556666666666


Q ss_pred             HHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCC
Q 005481          200 LLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQ  279 (694)
Q Consensus       200 ~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~  279 (694)
                      ..+++..+.  .|+...+..+..++...|+.++|...++.+.+..+   .+..++..+...+.+.|..+.|.+.++....
T Consensus       104 ~~l~~~l~~--~P~~~~~~~la~~l~~~g~~~~Al~~l~~al~~~P---~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~  178 (765)
T PRK10049        104 VKAKQLVSG--APDKANLLALAYVYKRAGRHWDELRAMTQALPRAP---QTQQYPTEYVQALRNNRLSAPALGAIDDANL  178 (765)
T ss_pred             HHHHHHHHh--CCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC---CCHHHHHHHHHHHHHCCChHHHHHHHHhCCC
Confidence            666665543  22222244444555555666666666666665554   3444444566666666777777777766554


Q ss_pred             CChh--------hHHHHHHHHH-----hCCCH---HHHHHHHHHHHhc-CCccCccc-hHHHHHHHhhhccHHHHHHHHH
Q 005481          280 KSVI--------SWSSLILGYA-----QEENL---AEAMELFRQLRER-SLQVDGFV-LSSMMGVFADFALVEQGKQIHA  341 (694)
Q Consensus       280 ~~~~--------~~~~li~~~~-----~~g~~---~~A~~~~~~m~~~-g~~pd~~t-~~~ll~~~~~~~~~~~a~~i~~  341 (694)
                       ++.        ....++....     ..+++   ++|++.++.+.+. ...|+... +..                   
T Consensus       179 -~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~-------------------  238 (765)
T PRK10049        179 -TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQR-------------------  238 (765)
T ss_pred             -CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHH-------------------
Confidence             111        1111111111     11122   4455555555432 11222110 000                   


Q ss_pred             HHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCCC--hh--hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-
Q 005481          342 YAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKN--VV--TWTVIITGYGKHGLAKEAVGLFRKMLLDDVEP-  416 (694)
Q Consensus       342 ~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~--~~--~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-  416 (694)
                                  .....+.++...|++++|...|+++...+  ..  .-..+...|...|++++|+..|+++....... 
T Consensus       239 ------------a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~  306 (765)
T PRK10049        239 ------------ARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIA  306 (765)
T ss_pred             ------------HHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCC
Confidence                        00000112234466666666666665321  11  11113556666777777777777765532111 


Q ss_pred             --CHHHHHHHHHHHHccCcHHHHHHHHHHHhhccC----------CCCC---hhHHHHHHHHHHhcCChHHHHHHHHhC-
Q 005481          417 --DGVAYLAVLSACSHSGLVEESQEYFSRLCNDKR----------MKPR---IEHYSCIVDSLGRAGRLDEAKNLIESM-  480 (694)
Q Consensus       417 --d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~----------~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~~-  480 (694)
                        .......+..++...|++++|.++++.+.+...          -.|+   ...+..+..++...|++++|++.++++ 
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              123344455566677777777777776655211          0122   224456667777788888888888776 


Q ss_pred             CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          481 PVKP-SIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       481 ~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      ...| +...+..+...+...|++++|+..++++++++|+++..+..++..+...|+|++|..+++.+.+.
T Consensus       387 ~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~  456 (765)
T PRK10049        387 YNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAR  456 (765)
T ss_pred             HhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            2233 35667777777778888888888888888888888778888888888888888888888777653

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.78  E-value=7.3e-16  Score=170.48  Aligned_cols=326  Identities=13%  Similarity=0.023  Sum_probs=267.2

Q ss_pred             ChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCC---CChhhHHHHH
Q 005481          213 DEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQ---KSVISWSSLI  289 (694)
Q Consensus       213 ~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li  289 (694)
                      +......++..+.+.|+.+.|..++...+...+.   +......++......|++++|...|+++..   .+...|..+.
T Consensus        41 ~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~---~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la  117 (656)
T PRK15174         41 NEQNIILFAIACLRKDETDVGLTLLSDRVLTAKN---GRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVA  117 (656)
T ss_pred             cccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCC---chhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHH
Confidence            3344566778888999999999999999998874   455555666777789999999999999864   3557888899


Q ss_pred             HHHHhCCCHHHHHHHHHHHHhcCCccC-ccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCH
Q 005481          290 LGYAQEENLAEAMELFRQLRERSLQVD-GFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLI  368 (694)
Q Consensus       290 ~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~  368 (694)
                      ..+.+.|++++|+..|+++...  .|+ ...+..+...+...|+++.|...+..+......+.. .+..+. .+.+.|++
T Consensus       118 ~~l~~~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~~~-a~~~~~-~l~~~g~~  193 (656)
T PRK15174        118 SVLLKSKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPRGD-MIATCL-SFLNKSRL  193 (656)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCCHH-HHHHHH-HHHHcCCH
Confidence            9999999999999999999874  555 456677788899999999999999988776544333 333333 47889999


Q ss_pred             HHHHHHHccCCCC----ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCcHHH----HHH
Q 005481          369 DEATELFNEMPVK----NVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPD-GVAYLAVLSACSHSGLVEE----SQE  439 (694)
Q Consensus       369 ~~A~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~ll~a~~~~g~~~~----a~~  439 (694)
                      ++|...++.+...    +...+..+...+...|++++|+..|+++.+..  |+ ...+..+..++...|++++    |..
T Consensus       194 ~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~--p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~  271 (656)
T PRK15174        194 PEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG--LDGAALRRSLGLAYYQSGRSREAKLQAAE  271 (656)
T ss_pred             HHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHcCCchhhHHHHHH
Confidence            9999999987642    33344556778889999999999999999853  44 4677788889999999986    899


Q ss_pred             HHHHHhhccCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCC
Q 005481          440 YFSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLD  516 (694)
Q Consensus       440 ~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~  516 (694)
                      .|+++.+   +.|+ ...+..+..+|.+.|++++|+..+++. ...|+ ...+..+..++...|++++|...++++++.+
T Consensus       272 ~~~~Al~---l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~  348 (656)
T PRK15174        272 HWRHALQ---FNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREK  348 (656)
T ss_pred             HHHHHHh---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            9999987   4565 668899999999999999999999987 44555 5567888889999999999999999999999


Q ss_pred             CCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCC
Q 005481          517 GDNPVNYVMMSNIHADAGSWNECERLRKLARSKG  550 (694)
Q Consensus       517 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  550 (694)
                      |+++..+..++.++...|++++|...++...+..
T Consensus       349 P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~  382 (656)
T PRK15174        349 GVTSKWNRYAAAALLQAGKTSEAESVFEHYIQAR  382 (656)
T ss_pred             ccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            9987777778899999999999999999987654

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.77  E-value=1.6e-14  Score=160.11  Aligned_cols=435  Identities=8%  Similarity=0.022  Sum_probs=283.0

Q ss_pred             HHHhcCChHHHHHHHhccCCCCcc---cHHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHH-H--HHHhcccCCh
Q 005481           56 MYAKCGEMNGACAVFDKMLERNVV---SWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLST-N--IKASGVLSSV  129 (694)
Q Consensus        56 ~~~~~g~~~~A~~~f~~~~~~~~~---~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~-l--l~a~~~~~~~  129 (694)
                      ...+.|+++.|+..|++..+.++.   ....++..+...|+.++|+..+++..    .|+...+.. +  ...+...|++
T Consensus        43 i~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~----~p~n~~~~~llalA~ly~~~gdy  118 (822)
T PRK14574         43 IRARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQ----SSMNISSRGLASAARAYRNEKRW  118 (822)
T ss_pred             HHHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhc----cCCCCCHHHHHHHHHHHHHcCCH
Confidence            456889999999999988653333   23378888888899999999998886    343333332 2  3466677899


Q ss_pred             HHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCCCCCcccHHHHHHHHHh--cCChhHHHHHHHHHHH
Q 005481          130 ENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVL--AGYSDKGLLLFRKMQE  207 (694)
Q Consensus       130 ~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~--~g~~~~A~~~~~~m~~  207 (694)
                      +.|.++++.+++.. +.++..+..++..|...++.++|++.++++...+......+..+|..  .++..+|++.++++.+
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            99999999988875 33456667778888888888889888888876544433334444444  4555568888888887


Q ss_pred             CCCCCC-hhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCChhhHH
Q 005481          208 HGEIPD-EFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWS  286 (694)
Q Consensus       208 ~g~~p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~  286 (694)
                      ..  |+ ...+..+..++.+.|-...|.++...-.        +.+.-......     +.+.|.+..+....++.    
T Consensus       198 ~~--P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p--------~~f~~~~~~~l-----~~~~~a~~vr~a~~~~~----  258 (822)
T PRK14574        198 LA--PTSEEVLKNHLEILQRNRIVEPALRLAKENP--------NLVSAEHYRQL-----ERDAAAEQVRMAVLPTR----  258 (822)
T ss_pred             hC--CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCc--------cccCHHHHHHH-----HHHHHHHHHhhcccccc----
Confidence            53  44 4455666667777776666665544321        11111100000     01111111111100000    


Q ss_pred             HHHHHHHhCCC---HHHHHHHHHHHHh-cCCccCccc-h----HHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHH
Q 005481          287 SLILGYAQEEN---LAEAMELFRQLRE-RSLQVDGFV-L----SSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNS  357 (694)
Q Consensus       287 ~li~~~~~~g~---~~~A~~~~~~m~~-~g~~pd~~t-~----~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~  357 (694)
                            ...++   .+.|+.-++.+.. .+-.|.... |    .-.+-++...++...+.+.++.+...+.+....+-.+
T Consensus       259 ------~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a  332 (822)
T PRK14574        259 ------SETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRW  332 (822)
T ss_pred             ------cchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHH
Confidence                  00111   2445555555443 122232211 1    1234466677777888888888777776666667778


Q ss_pred             HhhhhhhcCCHHHHHHHHccCCCC---------ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC-------------CC
Q 005481          358 IVDMYLKCGLIDEATELFNEMPVK---------NVVTWTVIITGYGKHGLAKEAVGLFRKMLLDD-------------VE  415 (694)
Q Consensus       358 li~~y~~~g~~~~A~~~~~~~~~~---------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-------------~~  415 (694)
                      +.++|...++.++|..+|+.+...         +......|.-+|...+++++|..+++++.+..             ..
T Consensus       333 ~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn  412 (822)
T PRK14574        333 AASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPN  412 (822)
T ss_pred             HHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCC
Confidence            888888888888888888876421         22234667888888888888888888888731             12


Q ss_pred             CCHH-HHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-HHHHHHH
Q 005481          416 PDGV-AYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTL  492 (694)
Q Consensus       416 pd~~-t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l  492 (694)
                      ||-. .+..+...+...|++.+|++.++.+...  -+-|......+.+++...|++.+|++.++.. ...|+ ..+....
T Consensus       413 ~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~--aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~  490 (822)
T PRK14574        413 DDWIEGQTLLVQSLVALNDLPTAQKKLEDLSST--APANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQ  490 (822)
T ss_pred             ccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHH
Confidence            3333 3444556678889999999999999762  2336778888999999999999999999776 45565 4455666


Q ss_pred             HHHHHhcCChHHHHHHHHHHHcCCCCCcch
Q 005481          493 LSACRVHGDLELGREVGEILLRLDGDNPVN  522 (694)
Q Consensus       493 l~a~~~~g~~~~a~~~~~~~~~~~p~~~~~  522 (694)
                      +.+....+++++|..+.+.+++..|+++..
T Consensus       491 ~~~al~l~e~~~A~~~~~~l~~~~Pe~~~~  520 (822)
T PRK14574        491 AETAMALQEWHQMELLTDDVISRSPEDIPS  520 (822)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHhhCCCchhH
Confidence            777788899999999999999999988643

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.77  E-value=2.1e-14  Score=159.12  Aligned_cols=435  Identities=11%  Similarity=0.059  Sum_probs=291.0

Q ss_pred             HHhCCChHHHHHHHHHhhhCCCCCCce-eHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHH
Q 005481           88 FLQNGNAKACLSLFCQMGSSSVKPNEF-TLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINE  166 (694)
Q Consensus        88 ~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~  166 (694)
                      ..+.|++..|++.|++..+.  .|+.. ....++..+...|+.++|...++..+.. -........++...|...|++++
T Consensus        44 ~~r~Gd~~~Al~~L~qaL~~--~P~~~~av~dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd~  120 (822)
T PRK14574         44 RARAGDTAPVLDYLQEESKA--GPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWDQ  120 (822)
T ss_pred             HHhCCCHHHHHHHHHHHHhh--CccchhhHHHHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHHH
Confidence            45788888888888888764  45431 2226667777778888888888877711 11122233333556777788888


Q ss_pred             HHHHHccCCCC---CcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHh
Q 005481          167 AARMFDVMPAK---SLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITS  243 (694)
Q Consensus       167 A~~~f~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~  243 (694)
                      |.++|+++.+.   +...+..++..|...++.++|++.+.++...  .|+...+..++..+...++..+|.+.++.+++.
T Consensus       121 Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~  198 (822)
T PRK14574        121 ALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVRL  198 (822)
T ss_pred             HHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHh
Confidence            88888877653   3455666777778888888888888887664  355555544433443445554577777777777


Q ss_pred             CCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCC-ChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHH
Q 005481          244 GFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQK-SVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSS  322 (694)
Q Consensus       244 g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~  322 (694)
                      .+   .+...+..++....+.|-...|.++...-++- +...+.-+        +.+.|.+..    +.+..|+..-   
T Consensus       199 ~P---~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l--------~~~~~a~~v----r~a~~~~~~~---  260 (822)
T PRK14574        199 AP---TSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQL--------ERDAAAEQV----RMAVLPTRSE---  260 (822)
T ss_pred             CC---CCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHH--------HHHHHHHHH----hhcccccccc---
Confidence            65   46666666777777777777777766654421 11111000        011121111    1111111100   


Q ss_pred             HHHHHhhhccHHHHHHHHHHHHhc-CCCCC--chHHHHH---hhhhhhcCCHHHHHHHHccCCCCC----hhhHHHHHHH
Q 005481          323 MMGVFADFALVEQGKQIHAYAAKV-PSGLD--TSVSNSI---VDMYLKCGLIDEATELFNEMPVKN----VVTWTVIITG  392 (694)
Q Consensus       323 ll~~~~~~~~~~~a~~i~~~~~~~-~~~~~--~~~~~~l---i~~y~~~g~~~~A~~~~~~~~~~~----~~~~~~li~~  392 (694)
                          -.+..-.+.+..-++.+... +..|.  .....+.   +-++.+.|+..++.+.|+.+..+.    ..+-.++..+
T Consensus       261 ----~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~ada  336 (822)
T PRK14574        261 ----TERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASA  336 (822)
T ss_pred             ----hhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHH
Confidence                00111234444444444432 22222  1112333   346678899999999999998432    2345578899


Q ss_pred             HHhcCCHHHHHHHHHHHHHCC-----CCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccC----------CCCC---h
Q 005481          393 YGKHGLAKEAVGLFRKMLLDD-----VEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKR----------MKPR---I  454 (694)
Q Consensus       393 ~~~~g~~~~A~~~~~~m~~~g-----~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~----------~~p~---~  454 (694)
                      |...+++++|+.+|+++....     ..++......|..++...+++++|..+++.+.+...          -.|+   .
T Consensus       337 yl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~  416 (822)
T PRK14574        337 YIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWI  416 (822)
T ss_pred             HHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHH
Confidence            999999999999999997643     122334457889999999999999999999987321          0133   2


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHh
Q 005481          455 EHYSCIVDSLGRAGRLDEAKNLIESM--PVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHAD  532 (694)
Q Consensus       455 ~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  532 (694)
                      ..+..++..+...|++.+|++.++++  .-+-|...+..+...++..|++..|+..++.+..++|++..+....+..+..
T Consensus       417 ~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~  496 (822)
T PRK14574        417 EGQTLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMA  496 (822)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHh
Confidence            34566788899999999999999998  3334688899999999999999999999999999999999999999999999


Q ss_pred             cCCchHHHHHHHHHHhC
Q 005481          533 AGSWNECERLRKLARSK  549 (694)
Q Consensus       533 ~g~~~~a~~~~~~m~~~  549 (694)
                      .|+|.+|.++.+...+.
T Consensus       497 l~e~~~A~~~~~~l~~~  513 (822)
T PRK14574        497 LQEWHQMELLTDDVISR  513 (822)
T ss_pred             hhhHHHHHHHHHHHHhh
Confidence            99999999999877654

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

Probab=99.76  E-value=1.6e-14  Score=152.88  Aligned_cols=515  Identities=13%  Similarity=0.099  Sum_probs=370.8

Q ss_pred             HHHHHhh--cCCChHHHHHHHHHHHHh--CCCCChhhHHHHHHHHHhcCChHHHHHHHhccCCCCcccHHHHHHHHH---
Q 005481           17 DSLRCCS--KNLLLDYGVQLHGALVKM--GFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFL---   89 (694)
Q Consensus        17 ~ll~~~~--~~~~~~~a~~~~~~~~~~--g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~---   89 (694)
                      -|.+||.  ..+++..|..+|..++..  ...||+.+...  ..+.++|+.+.|+..|.+..+-|+..-++++....   
T Consensus       167 LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~rIgig--~Cf~kl~~~~~a~~a~~ralqLdp~~v~alv~L~~~~l  244 (1018)
T KOG2002|consen  167 LLGKARIAYNKKDYRGALKYYKKALRINPACKADVRIGIG--HCFWKLGMSEKALLAFERALQLDPTCVSALVALGEVDL  244 (1018)
T ss_pred             HHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCccchhh--hHHHhccchhhHHHHHHHHHhcChhhHHHHHHHHHHHH
Confidence            3445554  466899999999986664  35566654332  45678999999999999997766655555544221   


Q ss_pred             hC---CChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCC--ChhHHHHHHHHHHhcCCh
Q 005481           90 QN---GNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEW--NPVVGNSIIDMYSKCGRI  164 (694)
Q Consensus        90 ~~---g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~--~~~~~~~ll~~y~~~g~~  164 (694)
                      ..   ..+..++.++...-... .-|+...+.|.+-+.-.|++..+..+...++......  -...|--+..+|...|++
T Consensus       245 ~~~d~~s~~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~  323 (1018)
T KOG2002|consen  245 NFNDSDSYKKGVQLLQRAYKEN-NENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDF  323 (1018)
T ss_pred             HccchHHHHHHHHHHHHHHhhc-CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccH
Confidence            22   23455666665554322 2366778888888889999999999999888765221  123466788999999999


Q ss_pred             HHHHHHHccCCCC---C-cccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChh-hHHHHHHHHcccC----CchHHHH
Q 005481          165 NEAARMFDVMPAK---S-LITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEF-TFTSTLKACGSLG----SVGGGTQ  235 (694)
Q Consensus       165 ~~A~~~f~~~~~~---~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~~----~~~~a~~  235 (694)
                      +.|...|......   + +..+--+...|...|+++.+...|+...+.  .||.. |...+...|+..+    ..+.|..
T Consensus       324 ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~--~p~~~etm~iLG~Lya~~~~~~~~~d~a~~  401 (1018)
T KOG2002|consen  324 EKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQ--LPNNYETMKILGCLYAHSAKKQEKRDKASN  401 (1018)
T ss_pred             HHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHh--CcchHHHHHHHHhHHHhhhhhhHHHHHHHH
Confidence            9999999776542   2 445666788999999999999999998774  35544 6666666666654    4566777


Q ss_pred             HHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhc--------CCCChhhHHHHHHHHHhCCCHHHHHHHHHH
Q 005481          236 IHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLI--------EQKSVISWSSLILGYAQEENLAEAMELFRQ  307 (694)
Q Consensus       236 ~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~--------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  307 (694)
                      +.....+..+   .|...|-.+..+|-...-+.. +.+|...        ....+...|.+...+...|++.+|...|..
T Consensus       402 ~l~K~~~~~~---~d~~a~l~laql~e~~d~~~s-L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~  477 (1018)
T KOG2002|consen  402 VLGKVLEQTP---VDSEAWLELAQLLEQTDPWAS-LDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKS  477 (1018)
T ss_pred             HHHHHHhccc---ccHHHHHHHHHHHHhcChHHH-HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHH
Confidence            7777777664   677778777777765544332 4444332        234567789999999999999999999999


Q ss_pred             HHhc---CCccCcc-----c-hHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhc-------CCHHHH
Q 005481          308 LRER---SLQVDGF-----V-LSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKC-------GLIDEA  371 (694)
Q Consensus       308 m~~~---g~~pd~~-----t-~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~-------g~~~~A  371 (694)
                      ....   -..+|..     | --.+....-..++.+.|.+++..+++..+        ..|++|.+.       +...+|
T Consensus       478 A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp--------~YId~ylRl~~ma~~k~~~~ea  549 (1018)
T KOG2002|consen  478 ALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHP--------GYIDAYLRLGCMARDKNNLYEA  549 (1018)
T ss_pred             HhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCc--------hhHHHHHHhhHHHHhccCcHHH
Confidence            8765   2334442     1 22233344556788999999999887643        245555555       567788


Q ss_pred             HHHHccCC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHcc------------CcHH
Q 005481          372 TELFNEMP---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDD-VEPDGVAYLAVLSACSHS------------GLVE  435 (694)
Q Consensus       372 ~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~pd~~t~~~ll~a~~~~------------g~~~  435 (694)
                      ...+....   ..++..|+-+...+.....+..|.+-|....+.- ..+|..+..+|.+.|...            +..+
T Consensus       550 ~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~  629 (1018)
T KOG2002|consen  550 SLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQE  629 (1018)
T ss_pred             HHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHH
Confidence            88888776   4577788888888888888888888777666532 337888888888866532            4577


Q ss_pred             HHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 005481          436 ESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM--PVKPSIAIWQTLLSACRVHGDLELGREVGEILL  513 (694)
Q Consensus       436 ~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~  513 (694)
                      .|+++|..+.+.  -+.|...-+-+.-.++..|++.+|.++|.+.  ....+..+|-.+...|...|++-.|.++|+..+
T Consensus       630 KAlq~y~kvL~~--dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~l  707 (1018)
T KOG2002|consen  630 KALQLYGKVLRN--DPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCL  707 (1018)
T ss_pred             HHHHHHHHHHhc--CcchhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888772  2345667778888999999999999999887  222345679999999999999999999999988


Q ss_pred             cC-C-CCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCC
Q 005481          514 RL-D-GDNPVNYVMMSNIHADAGSWNECERLRKLARSKG  550 (694)
Q Consensus       514 ~~-~-p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  550 (694)
                      +. . .+++.....|+.++.+.|+|.+|.+.....+...
T Consensus       708 kkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~  746 (1018)
T KOG2002|consen  708 KKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLA  746 (1018)
T ss_pred             HHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            64 2 3567888999999999999999999988877543

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.75  E-value=3.9e-14  Score=160.29  Aligned_cols=405  Identities=10%  Similarity=-0.016  Sum_probs=279.5

Q ss_pred             CChhHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccCC--C-CcccHHHHHH
Q 005481           10 SERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLE--R-NVVSWTALMC   86 (694)
Q Consensus        10 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~--~-~~~~~~~li~   86 (694)
                      .++......+......|+.++|.+++....... +.+...+..+..++.+.|++++|..+|++..+  | +...+..+..
T Consensus        13 ~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~   91 (765)
T PRK10049         13 LSNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLIL   91 (765)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            455566777788888999999999998887633 45566788999999999999999999999633  3 4556788888


Q ss_pred             HHHhCCChHHHHHHHHHhhhCCCCC-CceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChH
Q 005481           87 GFLQNGNAKACLSLFCQMGSSSVKP-NEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRIN  165 (694)
Q Consensus        87 ~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~  165 (694)
                      .+...|++++|+..+++..+.  .| +.. +..+..++...|+.+.|...++.+++.. +.+...+..+...+...|..+
T Consensus        92 ~l~~~g~~~eA~~~l~~~l~~--~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e  167 (765)
T PRK10049         92 TLADAGQYDEALVKAKQLVSG--APDKAN-LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSA  167 (765)
T ss_pred             HHHHCCCHHHHHHHHHHHHHh--CCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChH
Confidence            899999999999999999875  34 444 7777788888999999999999999874 335556667788888889999


Q ss_pred             HHHHHHccCCCCCcc--------cHHHHHHHHH-----hcCCh---hHHHHHHHHHHHC-CCCCChh-hHH----HHHHH
Q 005481          166 EAARMFDVMPAKSLI--------TWNAMIAGYV-----LAGYS---DKGLLLFRKMQEH-GEIPDEF-TFT----STLKA  223 (694)
Q Consensus       166 ~A~~~f~~~~~~~~~--------~~~~li~~~~-----~~g~~---~~A~~~~~~m~~~-g~~p~~~-t~~----~ll~a  223 (694)
                      .|.+.++.... ++.        ....++....     ..+++   ++|++.++.+.+. ...|+.. .+.    ..+.+
T Consensus       168 ~Al~~l~~~~~-~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~  246 (765)
T PRK10049        168 PALGAIDDANL-TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGA  246 (765)
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHH
Confidence            99999987775 211        1122222221     12233   6778888888753 2223321 111    11334


Q ss_pred             HcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCC-------hhhHHHHHHHHHhCC
Q 005481          224 CGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKS-------VISWSSLILGYAQEE  296 (694)
Q Consensus       224 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~-------~~~~~~li~~~~~~g  296 (694)
                      +...|++++|...++.+.+.+.+  ........+...|...|++++|...|+++.+.+       ...+..+..++.+.|
T Consensus       247 Ll~~g~~~eA~~~~~~ll~~~~~--~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g  324 (765)
T PRK10049        247 LLARDRYKDVISEYQRLKAEGQI--IPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESE  324 (765)
T ss_pred             HHHhhhHHHHHHHHHHhhccCCC--CCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcc
Confidence            45567778888888887776532  111222225667777788888888777764322       123455556677778


Q ss_pred             CHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCC---chHHHHHhhhhhhcCCHHHHHH
Q 005481          297 NLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLD---TSVSNSIVDMYLKCGLIDEATE  373 (694)
Q Consensus       297 ~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~---~~~~~~li~~y~~~g~~~~A~~  373 (694)
                      ++++|..+++.+...  .|.......+                      ....|+   ......+...+...|++++|++
T Consensus       325 ~~~eA~~~l~~~~~~--~P~~~~~~~~----------------------~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~  380 (765)
T PRK10049        325 NYPGALTVTAHTINN--SPPFLRLYGS----------------------PTSIPNDDWLQGQSLLSQVAKYSNDLPQAEM  380 (765)
T ss_pred             cHHHHHHHHHHHhhc--CCceEeecCC----------------------CCCCCCchHHHHHHHHHHHHHHcCCHHHHHH
Confidence            888888877777654  2221110000                      001222   2244566777888899999999


Q ss_pred             HHccCC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHccCcHHHHHHHHHHHhhcc
Q 005481          374 LFNEMP---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDG-VAYLAVLSACSHSGLVEESQEYFSRLCNDK  448 (694)
Q Consensus       374 ~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~  448 (694)
                      +|+++.   ..+...+..++..+...|++++|++.+++.+.  ..||. ..+......+...|++++|..+++.+++..
T Consensus       381 ~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~--l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~  457 (765)
T PRK10049        381 RARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEV--LEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVARE  457 (765)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh--hCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            988876   33667888888999999999999999998887  55765 455566667788899999999999998843

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

Probab=99.75  E-value=4.2e-14  Score=149.73  Aligned_cols=537  Identities=12%  Similarity=0.064  Sum_probs=373.7

Q ss_pred             cccCCCCCChhHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhc---CChHHHHHHHhcc---CCC
Q 005481            3 RVSFSLVSERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKC---GEMNGACAVFDKM---LER   76 (694)
Q Consensus         3 ~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~---g~~~~A~~~f~~~---~~~   76 (694)
                      |++-..+||+..-..  .++.+.++.+.|+..|.+..+.. +.++.++-.|--+-...   ..+..+..++...   ...
T Consensus       192 ~inp~~~aD~rIgig--~Cf~kl~~~~~a~~a~~ralqLd-p~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n~~  268 (1018)
T KOG2002|consen  192 RINPACKADVRIGIG--HCFWKLGMSEKALLAFERALQLD-PTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKENNE  268 (1018)
T ss_pred             hcCcccCCCccchhh--hHHHhccchhhHHHHHHHHHhcC-hhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhcCC
Confidence            344555666654222  45578899999999999998865 22222222222111122   3345566666554   235


Q ss_pred             CcccHHHHHHHHHhCCChHHHHHHHHHhhhCCCC--CCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHH
Q 005481           77 NVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVK--PNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSI  154 (694)
Q Consensus        77 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  154 (694)
                      |++..|.|-+-|.-.|++..+..+...+......  .-...|-.+.+++-..|+++.|...|....+..-...+..+-.|
T Consensus       269 nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~Gl  348 (1018)
T KOG2002|consen  269 NPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGL  348 (1018)
T ss_pred             CcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccch
Confidence            7888999999999999999999999998764311  12344777888899999999999999988876422223445568


Q ss_pred             HHHHHhcCChHHHHHHHccCCCC---CcccHHHHHHHHHhcC----ChhHHHHHHHHHHHCCCCCChhhHHHHHHHHccc
Q 005481          155 IDMYSKCGRINEAARMFDVMPAK---SLITWNAMIAGYVLAG----YSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSL  227 (694)
Q Consensus       155 l~~y~~~g~~~~A~~~f~~~~~~---~~~~~~~li~~~~~~g----~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  227 (694)
                      ..+|.+.|+++.+...|+.+...   +..+...+...|...+    ..+.|..++.+..+.- .-|...|..+-..+-..
T Consensus       349 gQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~  427 (1018)
T KOG2002|consen  349 GQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQT  427 (1018)
T ss_pred             hHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhc
Confidence            89999999999999999988653   3445556666666665    4466666666665532 23555666665555544


Q ss_pred             CCchHHHHHHHHH----HHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCC-------Ch------hhHHHHHH
Q 005481          228 GSVGGGTQIHGFL----ITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQK-------SV------ISWSSLIL  290 (694)
Q Consensus       228 ~~~~~a~~~~~~~----~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~-------~~------~~~~~li~  290 (694)
                       +.......+..+    ...+..  ..+.+.|.+...+...|.++.|...|++....       |.      .+-..+..
T Consensus       428 -d~~~sL~~~~~A~d~L~~~~~~--ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlar  504 (1018)
T KOG2002|consen  428 -DPWASLDAYGNALDILESKGKQ--IPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLAR  504 (1018)
T ss_pred             -ChHHHHHHHHHHHHHHHHcCCC--CCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHH
Confidence             333335555444    345555  77889999999999999999999999876422       22      12233555


Q ss_pred             HHHhCCCHHHHHHHHHHHHhcCCccCccc-hHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHH
Q 005481          291 GYAQEENLAEAMELFRQLRERSLQVDGFV-LSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLID  369 (694)
Q Consensus       291 ~~~~~g~~~~A~~~~~~m~~~g~~pd~~t-~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~  369 (694)
                      .+-..++++.|.+.|..+...  .|.-+. |..++-..-..++..+|...+..+.... ..++.+++-+.+.|.+...+.
T Consensus       505 l~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~  581 (1018)
T KOG2002|consen  505 LLEELHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWK  581 (1018)
T ss_pred             HHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhc
Confidence            666778999999999999886  454333 2222212223456778888888777654 236666767777888888888


Q ss_pred             HHHHHHccCC-----CCChhhHHHHHHHHHh------------cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC
Q 005481          370 EATELFNEMP-----VKNVVTWTVIITGYGK------------HGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSG  432 (694)
Q Consensus       370 ~A~~~~~~~~-----~~~~~~~~~li~~~~~------------~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g  432 (694)
                      .|.+-|..+.     .+|..+.-+|.+.|.+            .+..++|+++|.+.++.. +-|...-+.+.-.++..|
T Consensus       582 ~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg  660 (1018)
T KOG2002|consen  582 PAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKG  660 (1018)
T ss_pred             ccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhcc
Confidence            8888665554     2355555555554432            245788999999988742 234466777777889999


Q ss_pred             cHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC----CCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 005481          433 LVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM----PVKPSIAIWQTLLSACRVHGDLELGREV  508 (694)
Q Consensus       433 ~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~~~~~~~ll~a~~~~g~~~~a~~~  508 (694)
                      ++.+|..+|.+..+..  .-...+|-.+...|..+|++-.|+++|+..    .-+.+..+.+.|..++...|.+.+|.+.
T Consensus       661 ~~~~A~dIFsqVrEa~--~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~  738 (1018)
T KOG2002|consen  661 RFSEARDIFSQVREAT--SDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEA  738 (1018)
T ss_pred             CchHHHHHHHHHHHHH--hhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHH
Confidence            9999999999998732  234567888999999999999999999876    2234677889999999999999999999


Q ss_pred             HHHHHcCCCCCcchHHHHHhHH-------------------HhcCCchHHHHHHHHHHhCCCc
Q 005481          509 GEILLRLDGDNPVNYVMMSNIH-------------------ADAGSWNECERLRKLARSKGLK  552 (694)
Q Consensus       509 ~~~~~~~~p~~~~~~~~l~~~~-------------------~~~g~~~~a~~~~~~m~~~g~~  552 (694)
                      +..+..+.|.++..-..++-+.                   ...+..++|.++|..+.+.+-+
T Consensus       739 ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  739 LLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             HHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            9999999999987776665433                   3346678888999998876543

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.73  E-value=2.4e-13  Score=131.17  Aligned_cols=421  Identities=11%  Similarity=0.081  Sum_probs=243.6

Q ss_pred             hHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHh--cCCh-------------------------HH
Q 005481           13 QRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAK--CGEM-------------------------NG   65 (694)
Q Consensus        13 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~--~g~~-------------------------~~   65 (694)
                      .|=++|++.- ..|.+..+--+++.|.+.|.+.+..+--.|+..-+-  ..++                         +-
T Consensus       117 ~~E~nL~kmI-S~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~v  195 (625)
T KOG4422|consen  117 ETENNLLKMI-SSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGAV  195 (625)
T ss_pred             cchhHHHHHH-hhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccccccH
Confidence            3456666654 567889999999999999988888777766654321  1111                         11


Q ss_pred             HHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCC
Q 005481           66 ACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFE  145 (694)
Q Consensus        66 A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~  145 (694)
                      |.-+|+..| ++..+|..||.|+++-...+.|.+++++-.....+.+..+||.+|.+-+    +..++.+..+|+...+.
T Consensus       196 AdL~~E~~P-KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S----~~~~K~Lv~EMisqkm~  270 (625)
T KOG4422|consen  196 ADLLFETLP-KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASS----YSVGKKLVAEMISQKMT  270 (625)
T ss_pred             HHHHHhhcC-CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHH----hhccHHHHHHHHHhhcC
Confidence            222333322 3445778888888887778888888888777767777778887776643    23347777788877778


Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHc
Q 005481          146 WNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACG  225 (694)
Q Consensus       146 ~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  225 (694)
                      ||..|+|++++..++.|+++.|++.                           |++++.+|++-|+.|...+|..+|..+.
T Consensus       271 Pnl~TfNalL~c~akfg~F~~ar~a---------------------------alqil~EmKeiGVePsLsSyh~iik~f~  323 (625)
T KOG4422|consen  271 PNLFTFNALLSCAAKFGKFEDARKA---------------------------ALQILGEMKEIGVEPSLSSYHLIIKNFK  323 (625)
T ss_pred             CchHhHHHHHHHHHHhcchHHHHHH---------------------------HHHHHHHHHHhCCCcchhhHHHHHHHhc
Confidence            8888888888888888877776654                           3455555666666666666666666555


Q ss_pred             ccCCchH-HHHHHHHHHHh----CCC--CCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCC-----------ChhhHHH
Q 005481          226 SLGSVGG-GTQIHGFLITS----GFP--YSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQK-----------SVISWSS  287 (694)
Q Consensus       226 ~~~~~~~-a~~~~~~~~~~----g~~--~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~-----------~~~~~~~  287 (694)
                      +.++..+ +..+...+...    .+.  .+.+...+.+-++.+....+.+-|.++-.-....           ..+-|..
T Consensus       324 re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~  403 (625)
T KOG4422|consen  324 RESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRK  403 (625)
T ss_pred             ccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHH
Confidence            5555433 22222222221    111  1123333344444444555555555544333211           1233555


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCC
Q 005481          288 LILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGL  367 (694)
Q Consensus       288 li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~  367 (694)
                      +....++....+.-+..|+.|.-.-.-|+..+...++++....+.++...+++..++..|.........-++..+++.. 
T Consensus       404 ~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k-  482 (625)
T KOG4422|consen  404 FFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDK-  482 (625)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCC-
Confidence            6677788888888888888888877888888888899988888888888888888887775443333322222222211 


Q ss_pred             HHHHHHHHccCCCCChhhHHHHHHHHHhc-CCH-HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHh
Q 005481          368 IDEATELFNEMPVKNVVTWTVIITGYGKH-GLA-KEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLC  445 (694)
Q Consensus       368 ~~~A~~~~~~~~~~~~~~~~~li~~~~~~-g~~-~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~  445 (694)
                                 +.|+...-.-+-...++. -++ +.....-.+|.+....|..  .+.++..+.+.|..++|.++|..+.
T Consensus       483 -----------~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~~t~--l~~ia~Ll~R~G~~qkA~e~l~l~~  549 (625)
T KOG4422|consen  483 -----------LHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQDWPATS--LNCIAILLLRAGRTQKAWEMLGLFL  549 (625)
T ss_pred             -----------CCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCChhH--HHHHHHHHHHcchHHHHHHHHHHHH
Confidence                       012111111111111110 011 1112222344444444433  3333334566777777777777765


Q ss_pred             hccCCCCChhHHH---HHHHHHHhcCChHHHHHHHHhC
Q 005481          446 NDKRMKPRIEHYS---CIVDSLGRAGRLDEAKNLIESM  480 (694)
Q Consensus       446 ~~~~~~p~~~~~~---~li~~~~~~g~~~~A~~~~~~~  480 (694)
                      +..+-.|.....+   -+++.-.+....-.|...++-|
T Consensus       550 ~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a  587 (625)
T KOG4422|consen  550 RKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLA  587 (625)
T ss_pred             hcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            4444444444444   3344445566666666666655

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

Probab=99.71  E-value=2.5e-12  Score=135.75  Aligned_cols=345  Identities=13%  Similarity=0.102  Sum_probs=234.8

Q ss_pred             hhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhcc---CCCCcccHHHHHHHHHhCCChHHHH
Q 005481           22 CSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKM---LERNVVSWTALMCGFLQNGNAKACL   98 (694)
Q Consensus        22 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~---~~~~~~~~~~li~~~~~~g~~~~A~   98 (694)
                      ....|+++.|..++..+++.. +.....|-.|-..|-..|+.+++...+-..   ...|..-|-.+-....+.|++.+|.
T Consensus       149 lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~  227 (895)
T KOG2076|consen  149 LFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQAR  227 (895)
T ss_pred             HHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHH
Confidence            334499999999999999876 667788999999999999999998876544   3346677988888889999999999


Q ss_pred             HHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHH----HHHHHHhcCChHHHHHHHccC
Q 005481           99 SLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNS----IIDMYSKCGRINEAARMFDVM  174 (694)
Q Consensus        99 ~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~----ll~~y~~~g~~~~A~~~f~~~  174 (694)
                      -.|.+..+.. +++...+---...|-+.|+...|..-+.++.....+.|..-...    .++.|...++-+.|.+.++..
T Consensus       228 ~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~  306 (895)
T KOG2076|consen  228 YCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGA  306 (895)
T ss_pred             HHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            9999998753 33433333344567788999999999999988754333333333    345566677778888888776


Q ss_pred             CC--C---CcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChh----------------------hHH----HHHHH
Q 005481          175 PA--K---SLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEF----------------------TFT----STLKA  223 (694)
Q Consensus       175 ~~--~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----------------------t~~----~ll~a  223 (694)
                      ..  .   +...+|.++..|.+...++.|......+......+|..                      .|.    -+.-+
T Consensus       307 ~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~ic  386 (895)
T KOG2076|consen  307 LSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMIC  386 (895)
T ss_pred             HhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhh
Confidence            54  2   44578899999999999999999888887622222221                      111    12223


Q ss_pred             HcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCC----CChhhHHHHHHHHHhCCCHH
Q 005481          224 CGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQ----KSVISWSSLILGYAQEENLA  299 (694)
Q Consensus       224 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~----~~~~~~~~li~~~~~~g~~~  299 (694)
                      +......+....+...+.+....++.++..+.-+.++|...|++.+|.++|..+..    .+...|--+..+|...|.++
T Consensus       387 L~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e  466 (895)
T KOG2076|consen  387 LVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYE  466 (895)
T ss_pred             hhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHH
Confidence            34455555566666666666655446677777788888888888888888877764    24567777888888888888


Q ss_pred             HHHHHHHHHHhcCCccCc-cchHHHHHHHhhhccHHHHHHHHHHHH--------hcCCCCCchHHHHHhhhhhhcCCHHH
Q 005481          300 EAMELFRQLRERSLQVDG-FVLSSMMGVFADFALVEQGKQIHAYAA--------KVPSGLDTSVSNSIVDMYLKCGLIDE  370 (694)
Q Consensus       300 ~A~~~~~~m~~~g~~pd~-~t~~~ll~~~~~~~~~~~a~~i~~~~~--------~~~~~~~~~~~~~li~~y~~~g~~~~  370 (694)
                      +|++.|...+..  .|+. ..-.+|-+.+.+.|+.++|.+.+..+.        ..+..|+..+.--..+.|.+.|+.++
T Consensus       467 ~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  467 EAIEFYEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREE  544 (895)
T ss_pred             HHHHHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHH
Confidence            888888777764  4433 223333444556677777766666533        22233444444445556666666555

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

Probab=99.64  E-value=1.6e-13  Score=133.04  Aligned_cols=469  Identities=13%  Similarity=0.095  Sum_probs=289.8

Q ss_pred             CCCChhhHHHHHHHHHhcCChHHHHHHHhccCC----CCcc-cHHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHH
Q 005481           43 FSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLE----RNVV-SWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLS  117 (694)
Q Consensus        43 ~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~----~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  117 (694)
                      +..+..+...|.+-|.......+|+..++-+.+    ||.- .--.+...+.+...+.+|+++|+.....-...+..+-.
T Consensus       197 ldltfsvl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~ri  276 (840)
T KOG2003|consen  197 LDLTFSVLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRI  276 (840)
T ss_pred             ccchHHHHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHH
Confidence            344445555666666666677777776665543    2221 11123345566667777777776665542222333333


Q ss_pred             HHH----HHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCCC----------------C
Q 005481          118 TNI----KASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPA----------------K  177 (694)
Q Consensus       118 ~ll----~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~----------------~  177 (694)
                      -++    -.+.+.|+++.|..-|+...+.  .|+..+.-.|+-.+..-|+-++..+.|.+|..                |
T Consensus       277 kil~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp  354 (840)
T KOG2003|consen  277 KILNNIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDP  354 (840)
T ss_pred             HHHhhcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCc
Confidence            333    3356777777777777777765  46666555566666666777777777766642                1


Q ss_pred             CcccHHHHH-----HHHHhcC--ChhHHHHHHHHHHHCCCCCChhh-HHHHHHHHcccCCchHHHHHHHHHHHhCCCCCc
Q 005481          178 SLITWNAMI-----AGYVLAG--YSDKGLLLFRKMQEHGEIPDEFT-FTSTLKACGSLGSVGGGTQIHGFLITSGFPYSV  249 (694)
Q Consensus       178 ~~~~~~~li-----~~~~~~g--~~~~A~~~~~~m~~~g~~p~~~t-~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~  249 (694)
                      +....|.-|     .-.-+..  +.++++-.-.++..--+.||-.. |.-.+...-.....+       ...        
T Consensus       355 ~~~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~-------la~--------  419 (840)
T KOG2003|consen  355 DDNLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAE-------LAI--------  419 (840)
T ss_pred             chHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhh-------hhh--------
Confidence            222222222     1111111  11122222222222122222110 100011100000000       000        


Q ss_pred             chhhHHHHHHHHHHcCCHHHHHHHHhhcCCCChhhHHH----HH-HHHHh-CCCHHHHHHHHHHHHhcCCccCccchHHH
Q 005481          250 KTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSS----LI-LGYAQ-EENLAEAMELFRQLRERSLQVDGFVLSSM  323 (694)
Q Consensus       250 ~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~----li-~~~~~-~g~~~~A~~~~~~m~~~g~~pd~~t~~~l  323 (694)
                      +  .--.-..-|.+.|+++.|.+++.-...+|..+-++    |- --|.+ ..++.+|.+.-+..+... +-+....+.-
T Consensus       420 d--lei~ka~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nk  496 (840)
T KOG2003|consen  420 D--LEINKAGELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNK  496 (840)
T ss_pred             h--hhhhHHHHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcC
Confidence            0  00112334778999999988888777665433222    21 12233 335666666655544321 1111111111


Q ss_pred             HHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCC---CCChhhHHHHHHHHHhcCCHH
Q 005481          324 MGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMP---VKNVVTWTVIITGYGKHGLAK  400 (694)
Q Consensus       324 l~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~  400 (694)
                      -......|++++|.+.+..++...-......|| +.-.+-+.|++++|++.|-++.   ..++.....+.+.|-...+..
T Consensus       497 gn~~f~ngd~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~a  575 (840)
T KOG2003|consen  497 GNIAFANGDLDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPA  575 (840)
T ss_pred             CceeeecCcHHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHH
Confidence            122334688999999999888765544444444 3345778899999999998765   457777777888999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC
Q 005481          401 EAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM  480 (694)
Q Consensus       401 ~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  480 (694)
                      +|++++.+.... ++.|...+.-|...|-+.|+-.+|.+++..--+ + ++.+.++...|..-|....-+++|+.+|++.
T Consensus       576 qaie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr-y-fp~nie~iewl~ayyidtqf~ekai~y~eka  652 (840)
T KOG2003|consen  576 QAIELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR-Y-FPCNIETIEWLAAYYIDTQFSEKAINYFEKA  652 (840)
T ss_pred             HHHHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc-c-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            999999877652 444557788888999999999999998776544 2 5567899999999999999999999999998


Q ss_pred             -CCCCCHHHHHHHHHHH-HhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCC
Q 005481          481 -PVKPSIAIWQTLLSAC-RVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGS  535 (694)
Q Consensus       481 -~~~p~~~~~~~ll~a~-~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  535 (694)
                       -++|+.+-|..++..| ++.|++..|...|+.....-|.+....-.|+.+....|.
T Consensus       653 aliqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  653 ALIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HhcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence             5789999999999876 678999999999999999999999988888888888875

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.63  E-value=8.3e-12  Score=120.69  Aligned_cols=417  Identities=15%  Similarity=0.136  Sum_probs=277.3

Q ss_pred             cccHHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHh--cccCChHHH-HHHHHHHHHhCCCCChhHHHHH
Q 005481           78 VVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKAS--GVLSSVENG-MQIHGMCMKSGFEWNPVVGNSI  154 (694)
Q Consensus        78 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~--~~~~~~~~a-~~~~~~~~~~g~~~~~~~~~~l  154 (694)
                      +++=|.|+.. ...|..+.+.-+|+.|.+.|+..+...-..++...  -...++--+ .+.|-.|.+.|-. +..+|   
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-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGED-STSSW---  190 (625)
T ss_pred             hcchhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccc-ccccc---
Confidence            4566777664 45788999999999999998776665555554432  222232222 2233334433321 22222   


Q ss_pred             HHHHHhcCChHHHHHHHccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHH
Q 005481          155 IDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGT  234 (694)
Q Consensus       155 l~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~  234 (694)
                           |.|.+.+   ++-+...+...++..||.|+++--..+.|.+++++-.....+.+..+|+.+|.+-+    +..++
T Consensus       191 -----K~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S----~~~~K  258 (625)
T KOG4422|consen  191 -----KSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASS----YSVGK  258 (625)
T ss_pred             -----ccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHH----hhccH
Confidence                 3455444   44455556778999999999999999999999999988888899999999998754    44458


Q ss_pred             HHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhh----cC----CCChhhHHHHHHHHHhCCCHHH-HHHHH
Q 005481          235 QIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDL----IE----QKSVISWSSLILGYAQEENLAE-AMELF  305 (694)
Q Consensus       235 ~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~----~~----~~~~~~~~~li~~~~~~g~~~~-A~~~~  305 (694)
                      ++..+|+.....  ||..++|+++....+.|+++.|++.+-+    |.    +|...+|..+|..+.+.+++.+ |..++
T Consensus       259 ~Lv~EMisqkm~--Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i  336 (625)
T KOG4422|consen  259 KLVAEMISQKMT--PNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWI  336 (625)
T ss_pred             HHHHHHHHhhcC--CchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHH
Confidence            999999999998  9999999999999999999888766544    33    5788999999999999888755 55555


Q ss_pred             HHHHh----cCCcc----CccchHHHHHHHhhhccHHHHHHHHHHHHhcC----CCC---CchHHHHHhhhhhhcCCHHH
Q 005481          306 RQLRE----RSLQV----DGFVLSSMMGVFADFALVEQGKQIHAYAAKVP----SGL---DTSVSNSIVDMYLKCGLIDE  370 (694)
Q Consensus       306 ~~m~~----~g~~p----d~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~----~~~---~~~~~~~li~~y~~~g~~~~  370 (694)
                      .+++.    +.++|    |...|.+.++.|.+..+.+.|.++++......    +.+   ...-|..+.+..+....++.
T Consensus       337 ~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~  416 (625)
T KOG4422|consen  337 NDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDV  416 (625)
T ss_pred             HHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55544    22333    44568889999999999999999998775431    122   23345667788888888999


Q ss_pred             HHHHHccCCC----CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC-c------------
Q 005481          371 ATELFNEMPV----KNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSG-L------------  433 (694)
Q Consensus       371 A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g-~------------  433 (694)
                      -..+|+.|..    |+..+-..++.+....|+++-.-.++..|...|..-+...-.-++.-.++.. .            
T Consensus       417 ~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~  496 (625)
T KOG4422|consen  417 TLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVA  496 (625)
T ss_pred             HHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHH
Confidence            9999998873    5656666677777778888877778877777664333332222222222221 0            


Q ss_pred             -------HHHH-HHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-------CCCCCHHHHHHHHHHHHh
Q 005481          434 -------VEES-QEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-------PVKPSIAIWQTLLSACRV  498 (694)
Q Consensus       434 -------~~~a-~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~~~~~~~ll~a~~~  498 (694)
                             +.++ ...-.++.   .........++..-++.|.|+.++|.+++.-.       +..|......-|+.+-..
T Consensus       497 ~ak~aad~~e~~e~~~~R~r---~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~  573 (625)
T KOG4422|consen  497 FAKCAADIKEAYESQPIRQR---AQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKV  573 (625)
T ss_pred             HHHHHHHHHHHHHhhHHHHH---hccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHh
Confidence                   0000 01111121   12334455677777777888888887776544       333444444455555556


Q ss_pred             cCChHHHHHHHHHHHcCC
Q 005481          499 HGDLELGREVGEILLRLD  516 (694)
Q Consensus       499 ~g~~~~a~~~~~~~~~~~  516 (694)
                      .++.-.|..+++-+.+.+
T Consensus       574 ~~spsqA~~~lQ~a~~~n  591 (625)
T KOG4422|consen  574 SNSPSQAIEVLQLASAFN  591 (625)
T ss_pred             cCCHHHHHHHHHHHHHcC
Confidence            666666666666665443

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

Probab=99.61  E-value=2.7e-10  Score=116.02  Aligned_cols=508  Identities=12%  Similarity=0.052  Sum_probs=373.8

Q ss_pred             CCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccCC---CCcccHHH------------HHHHHH
Q 005481           25 NLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLE---RNVVSWTA------------LMCGFL   89 (694)
Q Consensus        25 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~---~~~~~~~~------------li~~~~   89 (694)
                      .+++..|+.++..+.+.+ +.++..|-+-...=-..|.+..|+.+..+--+   ++...|-.            +|.--+
T Consensus       264 l~DikKaR~llKSvretn-P~hp~gWIAsArLEEvagKl~~Ar~~I~~GCe~cprSeDvWLeaiRLhp~d~aK~vvA~Av  342 (913)
T KOG0495|consen  264 LEDIKKARLLLKSVRETN-PKHPPGWIASARLEEVAGKLSVARNLIMKGCEECPRSEDVWLEAIRLHPPDVAKTVVANAV  342 (913)
T ss_pred             HHHHHHHHHHHHHHHhcC-CCCCchHHHHHHHHHHhhHHHHHHHHHHHHHhhCCchHHHHHHHHhcCChHHHHHHHHHHH
Confidence            457888999999999887 34444444444444455677777666544311   11112211            111111


Q ss_pred             -----------hC----CChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHH
Q 005481           90 -----------QN----GNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSI  154 (694)
Q Consensus        90 -----------~~----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  154 (694)
                                 +.    .+...=.++++..++.  -|+.+   .|=++.....+.+.|+.++..+++.- +.+...|.  
T Consensus       343 r~~P~Sv~lW~kA~dLE~~~~~K~RVlRKALe~--iP~sv---~LWKaAVelE~~~darilL~rAvecc-p~s~dLwl--  414 (913)
T KOG0495|consen  343 RFLPTSVRLWLKAADLESDTKNKKRVLRKALEH--IPRSV---RLWKAAVELEEPEDARILLERAVECC-PQSMDLWL--  414 (913)
T ss_pred             HhCCCChhhhhhHHhhhhHHHHHHHHHHHHHHh--CCchH---HHHHHHHhccChHHHHHHHHHHHHhc-cchHHHHH--
Confidence                       11    1122223344444443  23322   22344455566677888888888763 33444444  


Q ss_pred             HHHHHhcCChHHHHHHHccCCC---CCcccHHHHHHHHHhcCChhHHHHHHHH----HHHCCCCCChhhHHHHHHHHccc
Q 005481          155 IDMYSKCGRINEAARMFDVMPA---KSLITWNAMIAGYVLAGYSDKGLLLFRK----MQEHGEIPDEFTFTSTLKACGSL  227 (694)
Q Consensus       155 l~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~----m~~~g~~p~~~t~~~ll~a~~~~  227 (694)
                        +|++...++.|..++....+   .+...|.+-...--.+|+.+...++.++    +...|+..+...|..=..+|-..
T Consensus       415 --AlarLetYenAkkvLNkaRe~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~a  492 (913)
T KOG0495|consen  415 --ALARLETYENAKKVLNKAREIIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDA  492 (913)
T ss_pred             --HHHHHHHHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhc
Confidence              45666778888888876654   4777888777777788999888888765    45679999999999989999999


Q ss_pred             CCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHH
Q 005481          228 GSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQ---KSVISWSSLILGYAQEENLAEAMEL  304 (694)
Q Consensus       228 ~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~  304 (694)
                      |..-....|...++..|.+......+|+.-.+.+.+.+.++-|+.+|....+   .+...|...+..--..|..++...+
T Consensus       493 gsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Al  572 (913)
T KOG0495|consen  493 GSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEAL  572 (913)
T ss_pred             CChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHH
Confidence            9999999999999999987656678899999999999999999999987764   3567898888888888999999999


Q ss_pred             HHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCC--CCC
Q 005481          305 FRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMP--VKN  382 (694)
Q Consensus       305 ~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~--~~~  382 (694)
                      |++....- +-....+.......-..|++..|+.++..+.+.... +..++-+-+..-.....++.|..+|.+..  .+.
T Consensus       573 lqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~~sgT  650 (913)
T KOG0495|consen  573 LQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARSISGT  650 (913)
T ss_pred             HHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhccCCc
Confidence            99998762 223334444445556679999999999999887655 77788888899999999999999999876  467


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHH
Q 005481          383 VVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDG-VAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCI  460 (694)
Q Consensus       383 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~l  460 (694)
                      ...|.--+...-..+..++|++++++.++  .-|+. ..|..+...+-+.++++.|++.|..-.+   .-|+ +..|-.|
T Consensus       651 eRv~mKs~~~er~ld~~eeA~rllEe~lk--~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k---~cP~~ipLWllL  725 (913)
T KOG0495|consen  651 ERVWMKSANLERYLDNVEEALRLLEEALK--SFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTK---KCPNSIPLWLLL  725 (913)
T ss_pred             chhhHHHhHHHHHhhhHHHHHHHHHHHHH--hCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccc---cCCCCchHHHHH
Confidence            77887777777778999999999999888  45776 4677778888899999999998887665   3454 5678888


Q ss_pred             HHHHHhcCChHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCC-------------------
Q 005481          461 VDSLGRAGRLDEAKNLIESM--PVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDN-------------------  519 (694)
Q Consensus       461 i~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~-------------------  519 (694)
                      .++=-+.|.+-.|..++++.  ..+.+...|-..+..-.++|+.+.|..+..++++--|.+                   
T Consensus       726 akleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTk  805 (913)
T KOG0495|consen  726 AKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTK  805 (913)
T ss_pred             HHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchH
Confidence            88888999999999999987  334567889999999999999999999888888755443                   


Q ss_pred             -----------cchHHHHHhHHHhcCCchHHHHHHHHHHhCC
Q 005481          520 -----------PVNYVMMSNIHADAGSWNECERLRKLARSKG  550 (694)
Q Consensus       520 -----------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  550 (694)
                                 +......+.++....+++.|++.|....+.+
T Consensus       806 s~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d  847 (913)
T KOG0495|consen  806 SIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKD  847 (913)
T ss_pred             HHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccC
Confidence                       4455566777888888899999888887654

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

Probab=99.61  E-value=3.2e-10  Score=115.54  Aligned_cols=507  Identities=11%  Similarity=0.061  Sum_probs=372.2

Q ss_pred             HHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccCC--C-CcccHHHHHHHHHhCCChHHHHHHHHHhhhCC
Q 005481           32 VQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLE--R-NVVSWTALMCGFLQNGNAKACLSLFCQMGSSS  108 (694)
Q Consensus        32 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  108 (694)
                      .+++...++. ++.++..|...+.    ....++|+.++.+..+  | ++..|.    +|++..-++.|..+++..++. 
T Consensus       366 ~RVlRKALe~-iP~sv~LWKaAVe----lE~~~darilL~rAveccp~s~dLwl----AlarLetYenAkkvLNkaRe~-  435 (913)
T KOG0495|consen  366 KRVLRKALEH-IPRSVRLWKAAVE----LEEPEDARILLERAVECCPQSMDLWL----ALARLETYENAKKVLNKAREI-  435 (913)
T ss_pred             HHHHHHHHHh-CCchHHHHHHHHh----ccChHHHHHHHHHHHHhccchHHHHH----HHHHHHHHHHHHHHHHHHHhh-
Confidence            4455555444 3566666665554    4566667777777654  2 233343    445556677788888877764 


Q ss_pred             CCCCceeHHHHHHHhcccCChHHHHHHHHHHH----HhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCCC------CC
Q 005481          109 VKPNEFTLSTNIKASGVLSSVENGMQIHGMCM----KSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPA------KS  178 (694)
Q Consensus       109 ~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~----~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~------~~  178 (694)
                      ++.+...|.+....=-..|+.+....+.+..+    ..|+..+..-|-.=...+-+.|..-.+..+......      .-
T Consensus       436 iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~  515 (913)
T KOG0495|consen  436 IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDR  515 (913)
T ss_pred             CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchh
Confidence            56677777777666667777777777765544    346777776666666666677776666666655432      12


Q ss_pred             cccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHH
Q 005481          179 LITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLV  258 (694)
Q Consensus       179 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li  258 (694)
                      ..+|+.-...|.+.+.++-|..+|...++. .+-+...|..+...--..|..+....+++.++..-+   .....|-...
T Consensus       516 ~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~p---kae~lwlM~a  591 (913)
T KOG0495|consen  516 KSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCP---KAEILWLMYA  591 (913)
T ss_pred             HhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCC---cchhHHHHHH
Confidence            347888888888888888888888877763 223444555555555566778888888888877665   4556666667


Q ss_pred             HHHHHcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHH
Q 005481          259 DFYVKCGCLVEARRVFDLIEQ---KSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQ  335 (694)
Q Consensus       259 ~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~  335 (694)
                      ..+-+.|++..|+.++...-+   .+...|-+-+..-..+.+++.|..+|.+....  .|+...|.--+..---+++.++
T Consensus       592 ke~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~ee  669 (913)
T KOG0495|consen  592 KEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEE  669 (913)
T ss_pred             HHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHH
Confidence            777788899999888877653   35567888888888899999999999887764  5565555555555556788899


Q ss_pred             HHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCC--C-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005481          336 GKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPV--K-NVVTWTVIITGYGKHGLAKEAVGLFRKMLLD  412 (694)
Q Consensus       336 a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  412 (694)
                      |.++++..++.- +.-...|..+.+.|-+.++++.|.+.|..-.+  | .+..|-.+...--+.|+..+|..++++....
T Consensus       670 A~rllEe~lk~f-p~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlk  748 (913)
T KOG0495|consen  670 ALRLLEEALKSF-PDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLK  748 (913)
T ss_pred             HHHHHHHHHHhC-CchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhc
Confidence            999988877753 22456778888899999999999999877653  4 4557888888888889999999999999886


Q ss_pred             CCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHH
Q 005481          413 DVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTL  492 (694)
Q Consensus       413 g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l  492 (694)
                      + +-|...|...+..=.+.|+.++|..+..++.++  .+.+...|..-|.+..+.++-..+.+.+++..-  |+.+.-++
T Consensus       749 N-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe--cp~sg~LWaEaI~le~~~~rkTks~DALkkce~--dphVllai  823 (913)
T KOG0495|consen  749 N-PKNALLWLESIRMELRAGNKEQAELLMAKALQE--CPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEH--DPHVLLAI  823 (913)
T ss_pred             C-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccchhHHHHHHhccCcccchHHHHHHHhccC--CchhHHHH
Confidence            5 235578899999999999999999999998874  345567888999999999998888888888743  55556666


Q ss_pred             HHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCCCccCCceeEEEE
Q 005481          493 LSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSWVEV  562 (694)
Q Consensus       493 l~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~~~~  562 (694)
                      ...+.....++.|...|+++++.+|++..+|..+-..+...|.-++-.++++......  +.-|..|..+
T Consensus       824 a~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~~E--P~hG~~W~av  891 (913)
T KOG0495|consen  824 AKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCETAE--PTHGELWQAV  891 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCCCcHHHHH
Confidence            6777888899999999999999999999999999999999999999999998876542  3445556543

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

Probab=99.58  E-value=5.6e-15  Score=147.35  Aligned_cols=254  Identities=17%  Similarity=0.173  Sum_probs=114.1

Q ss_pred             HHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHH-HHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCH
Q 005481          290 LGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMG-VFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLI  368 (694)
Q Consensus       290 ~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~-~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~  368 (694)
                      ..+.+.|++++|++++++.......|+...|-.++. .+...++.+.|.+.+..+...+.. ++..+..++.. ...+++
T Consensus        16 ~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~~   93 (280)
T PF13429_consen   16 RLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGDP   93 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-cccccc
Confidence            344455555555555544333322233333333222 333455555566555555554433 45556666666 678889


Q ss_pred             HHHHHHHccCC--CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHccCcHHHHHHHHHHHh
Q 005481          369 DEATELFNEMP--VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDD-VEPDGVAYLAVLSACSHSGLVEESQEYFSRLC  445 (694)
Q Consensus       369 ~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~  445 (694)
                      ++|.+++...-  .++...+..++..+...|+++++..+++++.... .+++...|..+...+.+.|+.++|.+.++++.
T Consensus        94 ~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al  173 (280)
T PF13429_consen   94 EEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKAL  173 (280)
T ss_dssp             ------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             cccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99988887664  3566778888889999999999999999987643 34566778888888999999999999999998


Q ss_pred             hccCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcch
Q 005481          446 NDKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIESM--PVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVN  522 (694)
Q Consensus       446 ~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~  522 (694)
                      +   ..|+ ......++..+...|+.+++.++++..  ..+.|+..|..+..++...|+.++|...++++++..|+|+..
T Consensus       174 ~---~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~  250 (280)
T PF13429_consen  174 E---LDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLW  250 (280)
T ss_dssp             H---H-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHH
T ss_pred             H---cCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccccccccccc
Confidence            8   5675 778889999999999999988888776  224456788999999999999999999999999999999999


Q ss_pred             HHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          523 YVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       523 ~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      ...+++++...|+.++|.++++...+
T Consensus       251 ~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  251 LLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHHT-----------------
T ss_pred             cccccccccccccccccccccccccc
Confidence            99999999999999999999987643

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.54  E-value=2.9e-11  Score=127.06  Aligned_cols=526  Identities=11%  Similarity=0.006  Sum_probs=290.0

Q ss_pred             cCCCCCChhHHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccCCCCcccHHHH
Q 005481            5 SFSLVSERQRLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTAL   84 (694)
Q Consensus         5 ~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~l   84 (694)
                      ..|+.||++||.+++..|+..|+.+.|- +|..|.-...+....+++.++......++.+.+.       +|...+|+.|
T Consensus        18 ~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~aDtyt~L   89 (1088)
T KOG4318|consen   18 ISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPLADTYTNL   89 (1088)
T ss_pred             HhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCchhHHHHH
Confidence            3689999999999999999999999988 9999988888888899999999988888887765       6788899999


Q ss_pred             HHHHHhCCChHHHHHHHHH-hhh-------CCCCCCceeHHHHHHHhcccC-C------hHHHHHHHHHHHHhCC-CCCh
Q 005481           85 MCGFLQNGNAKACLSLFCQ-MGS-------SSVKPNEFTLSTNIKASGVLS-S------VENGMQIHGMCMKSGF-EWNP  148 (694)
Q Consensus        85 i~~~~~~g~~~~A~~~~~~-m~~-------~g~~p~~~t~~~ll~a~~~~~-~------~~~a~~~~~~~~~~g~-~~~~  148 (694)
                      ..+|.+.|+... ++..++ |..       .|+.--..-+-..+.+|-..- +      ..--+.+++..++.+. .|..
T Consensus        90 l~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvs  168 (1088)
T KOG4318|consen   90 LKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVS  168 (1088)
T ss_pred             HHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcc
Confidence            999999998765 333333 211       222111111222222221110 0      0111123333333331 1111


Q ss_pred             hHHHHH---HHHHHh-cCChHHHHHHHccCCC-CCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 005481          149 VVGNSI---IDMYSK-CGRINEAARMFDVMPA-KSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKA  223 (694)
Q Consensus       149 ~~~~~l---l~~y~~-~g~~~~A~~~f~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  223 (694)
                      .-++..   +.-... ...+++-...-....+ ++..++.+.+..-..+|+.+.|..++.+|++.|++.+..-|..++-+
T Consensus       169 a~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g  248 (1088)
T KOG4318|consen  169 AWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG  248 (1088)
T ss_pred             cccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc
Confidence            111111   111111 1122333333333333 68888888888888899999999999999999988888877777655


Q ss_pred             HcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCH-----
Q 005481          224 CGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENL-----  298 (694)
Q Consensus       224 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~-----  298 (694)
                         .++......+..-|...|+.  |+..++.--+-...++|....+....+.-.--....+..+..+...+.+.     
T Consensus       249 ---~~~~q~~e~vlrgmqe~gv~--p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAavrsaa~rg~~a~k~l~~nl~  323 (1088)
T KOG4318|consen  249 ---INAAQVFEFVLRGMQEKGVQ--PGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAVRSAACRGLLANKRLRQNLR  323 (1088)
T ss_pred             ---CccchHHHHHHHHHHHhcCC--CCcchhHHHHHhhhcchhhhhcccccchhhhhhHHHHHHHhcccHhHHHHHHHHH
Confidence               77778888888888888888  66666665555555544422222111000000011222222221111111     


Q ss_pred             HHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccC
Q 005481          299 AEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEM  378 (694)
Q Consensus       299 ~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~  378 (694)
                      .-....+++..-.|+......|..... ....|.-+...++-..+.......+    +.-+++|.     +.+.+.|.+.
T Consensus       324 ~~v~~s~k~~fLlg~d~~~aiws~c~~-l~hQgk~e~veqlvg~l~npt~r~s----~~~V~a~~-----~~lrqyFrr~  393 (1088)
T KOG4318|consen  324 KSVIGSTKKLFLLGTDILEAIWSMCEK-LRHQGKGEEVEQLVGQLLNPTLRDS----GQNVDAFG-----ALLRQYFRRI  393 (1088)
T ss_pred             HHHHHHhhHHHHhccccchHHHHHHHH-HHHcCCCchHHHHHhhhcCCccccC----cchHHHHH-----HHHHHHHHHH
Confidence            112222222222333322222222222 2224555555555544432211111    11111111     2234455554


Q ss_pred             CCCChhhHHHHHHHHHh---cCCHHHHHHHHHHH------------HH----CCCCC-------CHHHHHHHHHHHHccC
Q 005481          379 PVKNVVTWTVIITGYGK---HGLAKEAVGLFRKM------------LL----DDVEP-------DGVAYLAVLSACSHSG  432 (694)
Q Consensus       379 ~~~~~~~~~~li~~~~~---~g~~~~A~~~~~~m------------~~----~g~~p-------d~~t~~~ll~a~~~~g  432 (694)
                      ..+....-.-.-.+...   ..+..+..++....            ..    .-..|       =...-+.++..|...-
T Consensus       394 e~~~~~~i~~~~qgls~~l~se~tp~vsell~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~se~  473 (1088)
T KOG4318|consen  394 ERHICSRIYYAGQGLSLNLNSEDTPRVSELLENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNSEY  473 (1088)
T ss_pred             HhhHHHHHHHHHHHHHhhhchhhhHHHHHHHHHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHHHH
Confidence            43322211111122221   11111111211111            00    00111       0112233444555444


Q ss_pred             cHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-----CCCCHHHHHHHHHHHHhcCChHHHHH
Q 005481          433 LVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMP-----VKPSIAIWQTLLSACRVHGDLELGRE  507 (694)
Q Consensus       433 ~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~p~~~~~~~ll~a~~~~g~~~~a~~  507 (694)
                      +..++...-+.... .-+ |  ..|..||+.+....+.++|..+.++..     +.-|..-+..+.+...+++....+..
T Consensus       474 n~lK~l~~~ekye~-~lf-~--g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~t  549 (1088)
T KOG4318|consen  474 NKLKILCDEEKYED-LLF-A--GLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLST  549 (1088)
T ss_pred             HHHHHHHHHHHHHH-HHh-h--hHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHH
Confidence            44555443333322 211 2  578999999999999999999999873     22345557788888888998888888


Q ss_pred             HHHHHHc---CCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCCCccCCceeE
Q 005481          508 VGEILLR---LDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSW  559 (694)
Q Consensus       508 ~~~~~~~---~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~  559 (694)
                      +.+++.+   ..|.-......+.+..+..|+-+...++.+-+...|+.. .|.-|
T Consensus       550 iL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~e-tgPl~  603 (1088)
T KOG4318|consen  550 ILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSE-TGPLW  603 (1088)
T ss_pred             HHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhh-cccce
Confidence            8887765   334445566677888889999999999999999888765 34444

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

Probab=99.51  E-value=5.1e-11  Score=117.40  Aligned_cols=403  Identities=13%  Similarity=0.068  Sum_probs=241.4

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHhhhCCCCCC-ceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCC-hhHHHHHHHHH
Q 005481           81 WTALMCGFLQNGNAKACLSLFCQMGSSSVKPN-EFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWN-PVVGNSIIDMY  158 (694)
Q Consensus        81 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~-~~~~~~ll~~y  158 (694)
                      +-....-|.++|.+++|++.|.+.++  ..|| ...|...-.+|...|+++.+.+--...++.  .|+ +-.+..-.+++
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~--l~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl--~P~Y~KAl~RRA~A~  193 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIE--LCPDEPIFYSNRAACYESLGDWEKVIEDCTKALEL--NPDYVKALLRRASAH  193 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHh--cCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhc--CcHHHHHHHHHHHHH
Confidence            34445668899999999999999987  5788 777888888888999999998877777765  444 34566666788


Q ss_pred             HhcCChHHHHHHHccCCCCCcccHHHHHHHHHhcCChhHHHHHHHH--------HHH-C--CCCCChhhHHHHHHHHccc
Q 005481          159 SKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRK--------MQE-H--GEIPDEFTFTSTLKACGSL  227 (694)
Q Consensus       159 ~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~--------m~~-~--g~~p~~~t~~~ll~a~~~~  227 (694)
                      -..|++++|+.=         +|-.++..++....-.--+.+++..        -.+ .  .+.|+.....+.+..+...
T Consensus       194 E~lg~~~eal~D---------~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~  264 (606)
T KOG0547|consen  194 EQLGKFDEALFD---------VTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHAD  264 (606)
T ss_pred             HhhccHHHHHHh---------hhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhcccc
Confidence            888888887632         2333344443333322223333322        111 1  2345555544444443211


Q ss_pred             CCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHc-CCHHHHHHHHhhc-------CCCC---------hhhHHHHHH
Q 005481          228 GSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKC-GCLVEARRVFDLI-------EQKS---------VISWSSLIL  290 (694)
Q Consensus       228 ~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~-g~~~~A~~~f~~~-------~~~~---------~~~~~~li~  290 (694)
                      -..        .+...+..  .|...-..+=..|... ..+..|...+.+-       ...+         ..+...-..
T Consensus       265 ~~~--------~~~~~~~k--sDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gt  334 (606)
T KOG0547|consen  265 PKP--------LFDNKSDK--SDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGT  334 (606)
T ss_pred             ccc--------cccCCCcc--chhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhh
Confidence            000        00000000  1111112222222211 1233333332221       1111         111111122


Q ss_pred             HHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHH
Q 005481          291 GYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDE  370 (694)
Q Consensus       291 ~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~  370 (694)
                      .+.-.|+..+|...|+........++.. |--                                   +..+|....+.++
T Consensus       335 F~fL~g~~~~a~~d~~~~I~l~~~~~~l-yI~-----------------------------------~a~~y~d~~~~~~  378 (606)
T KOG0547|consen  335 FHFLKGDSLGAQEDFDAAIKLDPAFNSL-YIK-----------------------------------RAAAYADENQSEK  378 (606)
T ss_pred             hhhhcCCchhhhhhHHHHHhcCcccchH-HHH-----------------------------------HHHHHhhhhccHH
Confidence            2334555566666666655543222221 322                                   3334555555555


Q ss_pred             HHHHHccCC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHccCcHHHHHHHHHHHhh
Q 005481          371 ATELFNEMP---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDG-VAYLAVLSACSHSGLVEESQEYFSRLCN  446 (694)
Q Consensus       371 A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~  446 (694)
                      -...|+...   ..|..+|..-...+.-.+++++|..=|++.++  +.|+. ..|..+.-+..+.+.++++...|+..++
T Consensus       379 ~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~--L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk  456 (606)
T KOG0547|consen  379 MWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAIS--LDPENAYAYIQLCCALYRQHKIAESMKTFEEAKK  456 (606)
T ss_pred             HHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhh--cChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555443   22444555555555566778888888888877  55655 5677777777788889999999998887


Q ss_pred             ccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC---------HHHHHHHHHHHHhcCChHHHHHHHHHHHcCC
Q 005481          447 DKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS---------IAIWQTLLSACRVHGDLELGREVGEILLRLD  516 (694)
Q Consensus       447 ~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~---------~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~  516 (694)
                      ++  +.-++.|+-....+..++++++|.+.|+.. .+.|+         +.+...++-. +-.+++..|+.+++++++++
T Consensus       457 kF--P~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~-qwk~d~~~a~~Ll~KA~e~D  533 (606)
T KOG0547|consen  457 KF--PNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVL-QWKEDINQAENLLRKAIELD  533 (606)
T ss_pred             hC--CCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhh-chhhhHHHHHHHHHHHHccC
Confidence            54  344678888888999999999999998876 44443         2233333332 23489999999999999999


Q ss_pred             CCCcchHHHHHhHHHhcCCchHHHHHHHHHH
Q 005481          517 GDNPVNYVMMSNIHADAGSWNECERLRKLAR  547 (694)
Q Consensus       517 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  547 (694)
                      |....+|..|+.+-...|+.++|.++|+...
T Consensus       534 pkce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  534 PKCEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             chHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            9988999999999999999999999999764

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

Probab=99.51  E-value=1.4e-10  Score=113.63  Aligned_cols=325  Identities=11%  Similarity=0.048  Sum_probs=226.9

Q ss_pred             CChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCChh-hHHHHHH
Q 005481          212 PDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVI-SWSSLIL  290 (694)
Q Consensus       212 p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~-~~~~li~  290 (694)
                      -|.+-+-.........|..+.|...+...+..-+      ..|.+-+....-..+.+.+..+-...+..+.. .=-.+..
T Consensus       162 ~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~P------~~W~AWleL~~lit~~e~~~~l~~~l~~~~h~M~~~F~~~  235 (559)
T KOG1155|consen  162 KDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRYP------WFWSAWLELSELITDIEILSILVVGLPSDMHWMKKFFLKK  235 (559)
T ss_pred             chhHHHHHHHHHHHhhchHHHHHHHHHHHHhcCC------cchHHHHHHHHhhchHHHHHHHHhcCcccchHHHHHHHHH
Confidence            3433333333344556667777777666655332      33333333333334444444444444432211 1112345


Q ss_pred             HHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCC--CchHHHHHhhhhhhcCCH
Q 005481          291 GYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGL--DTSVSNSIVDMYLKCGLI  368 (694)
Q Consensus       291 ~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~--~~~~~~~li~~y~~~g~~  368 (694)
                      +|....+.++++.-.......|+.-+...-+....+.-...++++|..+|+.+.+..+-.  |..+|+.++-.--.+.++
T Consensus       236 a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skL  315 (559)
T KOG1155|consen  236 AYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKL  315 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHH
Confidence            565666778888877777777765554444444445566778899999999988874321  455665554222222222


Q ss_pred             HH-HHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHccCcHHHHHHHHHHHhh
Q 005481          369 DE-ATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDG-VAYLAVLSACSHSGLVEESQEYFSRLCN  446 (694)
Q Consensus       369 ~~-A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~  446 (694)
                      .- |..++ .+.+--+.|...+.+-|...++.++|...|++.++  +.|.. ..|+.+..-|....+...|.+-++.+++
T Consensus       316 s~LA~~v~-~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALk--LNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd  392 (559)
T KOG1155|consen  316 SYLAQNVS-NIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALK--LNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVD  392 (559)
T ss_pred             HHHHHHHH-HhccCCccceeeehhHHHHHHhHHHHHHHHHHHHh--cCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHh
Confidence            21 22222 22333455666677788888999999999999998  55666 5788888889999999999999999987


Q ss_pred             ccCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchH
Q 005481          447 DKRMKP-RIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKP-SIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNY  523 (694)
Q Consensus       447 ~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~  523 (694)
                         +.| |-..|-.|..+|.-.+...-|+-+|+++ ..+| |...|.+|+..|.+.++.++|+..|++++.....+..+|
T Consensus       393 ---i~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l  469 (559)
T KOG1155|consen  393 ---INPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSAL  469 (559)
T ss_pred             ---cCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHH
Confidence               556 5678999999999999999999999998 5666 578899999999999999999999999999988888999


Q ss_pred             HHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          524 VMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       524 ~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      ..|+++|.+.++.++|.+.+++-.+
T Consensus       470 ~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  470 VRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            9999999999999999999988765

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

Probab=99.50  E-value=5.6e-11  Score=125.69  Aligned_cols=331  Identities=14%  Similarity=0.126  Sum_probs=199.9

Q ss_pred             CChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHH
Q 005481          193 GYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARR  272 (694)
Q Consensus       193 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~  272 (694)
                      |+.++|.+++.+..+... -+...|.+|...|-+.|+.+++...+-.+-...+   .|...|..+.+...+.|.++.|.-
T Consensus       153 g~~eeA~~i~~EvIkqdp-~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p---~d~e~W~~ladls~~~~~i~qA~~  228 (895)
T KOG2076|consen  153 GDLEEAEEILMEVIKQDP-RNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNP---KDYELWKRLADLSEQLGNINQARY  228 (895)
T ss_pred             CCHHHHHHHHHHHHHhCc-cchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCC---CChHHHHHHHHHHHhcccHHHHHH
Confidence            777777777777766432 2445666666677777766666665544444443   444666667777777777777777


Q ss_pred             HHhhcCCCChhhHH---HHHHHHHhCCCHHHHHHHHHHHHhcCCccCcc----chHHHHHHHhhhccHHHHHHHHHHHHh
Q 005481          273 VFDLIEQKSVISWS---SLILGYAQEENLAEAMELFRQLRERSLQVDGF----VLSSMMGVFADFALVEQGKQIHAYAAK  345 (694)
Q Consensus       273 ~f~~~~~~~~~~~~---~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~----t~~~ll~~~~~~~~~~~a~~i~~~~~~  345 (694)
                      .|.+..+.++.-|-   --+..|-+.|+...|+.-|.++.+...+.|..    +.-.++..+...+.-+.|.+++.....
T Consensus       229 cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s  308 (895)
T KOG2076|consen  229 CYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALS  308 (895)
T ss_pred             HHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            77666543332232   23455666677777777777666642211111    111222223333333444433333222


Q ss_pred             -cCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC------------
Q 005481          346 -VPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLD------------  412 (694)
Q Consensus       346 -~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------------  412 (694)
                       .+-..+..                               .++.++..|.+...++.|......+...            
T Consensus       309 ~~~~~~~~e-------------------------------d~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~  357 (895)
T KOG2076|consen  309 KEKDEASLE-------------------------------DLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTD  357 (895)
T ss_pred             hcccccccc-------------------------------HHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhh
Confidence             11122233                               3444555555555555555555444441            


Q ss_pred             ---------------CCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCC--ChhHHHHHHHHHHhcCChHHHHH
Q 005481          413 ---------------DVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKP--RIEHYSCIVDSLGRAGRLDEAKN  475 (694)
Q Consensus       413 ---------------g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p--~~~~~~~li~~~~~~g~~~~A~~  475 (694)
                                     ++.++...+. +.-+..+....+....+...... ..+.|  +...|.-+.++|...|++.+|++
T Consensus       358 ~~~~~~~~~~~~~~~~~s~~l~v~r-l~icL~~L~~~e~~e~ll~~l~~-~n~~~~d~~dL~~d~a~al~~~~~~~~Al~  435 (895)
T KOG2076|consen  358 ERRREEPNALCEVGKELSYDLRVIR-LMICLVHLKERELLEALLHFLVE-DNVWVSDDVDLYLDLADALTNIGKYKEALR  435 (895)
T ss_pred             hhccccccccccCCCCCCccchhHh-HhhhhhcccccchHHHHHHHHHH-hcCChhhhHHHHHHHHHHHHhcccHHHHHH
Confidence                           1222322211 11122333333332223333333 44333  46789999999999999999999


Q ss_pred             HHHhCC---CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCCCc
Q 005481          476 LIESMP---VKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLK  552 (694)
Q Consensus       476 ~~~~~~---~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~  552 (694)
                      +|..+.   .--+..+|--+...|...|.+++|.+.|++++.+.|++..+-..|+.+|...|+.++|.+.+..+..-+-+
T Consensus       436 ~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~  515 (895)
T KOG2076|consen  436 LLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGR  515 (895)
T ss_pred             HHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCcc
Confidence            999882   22246789999999999999999999999999999999999999999999999999999999987644444


Q ss_pred             cCCceeEE
Q 005481          553 KVAGRSWV  560 (694)
Q Consensus       553 ~~~~~s~~  560 (694)
                      +.++++|-
T Consensus       516 ~~e~~a~~  523 (895)
T KOG2076|consen  516 NAEACAWE  523 (895)
T ss_pred             chhhcccc
Confidence            44566664

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.47  E-value=5.9e-09  Score=102.59  Aligned_cols=491  Identities=12%  Similarity=0.088  Sum_probs=346.0

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHhccCC---CCcccHHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhc
Q 005481           48 MLNNDLIDMYAKCGEMNGACAVFDKMLE---RNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASG  124 (694)
Q Consensus        48 ~~~~~li~~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  124 (694)
                      ..|-.....=-..+++..|+.+|++...   ++...|-..+..=.++.....|..+++.....=...|.. |---+-.=-
T Consensus        74 ~~WikYaqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdql-WyKY~ymEE  152 (677)
T KOG1915|consen   74 QVWIKYAQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQL-WYKYIYMEE  152 (677)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHH-HHHHHHHHH
Confidence            3343333333446778889999998854   667778888888889999999999999887632222332 222233334


Q ss_pred             ccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCC--CCCcccHHHHHHHHHhcCChhHHHHHH
Q 005481          125 VLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMP--AKSLITWNAMIAGYVLAGYSDKGLLLF  202 (694)
Q Consensus       125 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~  202 (694)
                      ..|++..|+++|+.-.+  ..|+...|++.|++=.+...++.|+.++++..  .|++.+|--...-=.+.|+...|..+|
T Consensus       153 ~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~Vy  230 (677)
T KOG1915|consen  153 MLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVY  230 (677)
T ss_pred             HhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            56889999999998876  48999999999999999999999999998864  588889988888888899999999999


Q ss_pred             HHHHHCCCCCChhhHHHHHHHHc----ccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHH-----
Q 005481          203 RKMQEHGEIPDEFTFTSTLKACG----SLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRV-----  273 (694)
Q Consensus       203 ~~m~~~g~~p~~~t~~~ll~a~~----~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~-----  273 (694)
                      ....+.  ..|...-..++.+++    +...++.|.-++..++..-+. +.....+..++..=-+-|+.......     
T Consensus       231 erAie~--~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk-~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KR  307 (677)
T KOG1915|consen  231 ERAIEF--LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPK-GRAEELYKKYTAFEKQFGDKEGIEDAIVGKR  307 (677)
T ss_pred             HHHHHH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHHhcchhhhHHHHhhhh
Confidence            887653  123333334444443    456678888899988877553 12245555555555555654333222     


Q ss_pred             ---HhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCc-------cchHHHHHHH---hhhccHHHHH
Q 005481          274 ---FDLIEQK---SVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDG-------FVLSSMMGVF---ADFALVEQGK  337 (694)
Q Consensus       274 ---f~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-------~t~~~ll~~~---~~~~~~~~a~  337 (694)
                         ++.+...   |-.+|--.+..--..|+.+...++|++.... ++|-.       ..|.-+=-+|   ....+.+.++
T Consensus       308 k~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr  386 (677)
T KOG1915|consen  308 KFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTR  386 (677)
T ss_pred             hhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence               2222222   4568888888888889999999999998875 44422       1222221222   3567899999


Q ss_pred             HHHHHHHhcCCCCCchHHHHHhhhhh----hcCCHHHHHHHHccCC--CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005481          338 QIHAYAAKVPSGLDTSVSNSIVDMYL----KCGLIDEATELFNEMP--VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLL  411 (694)
Q Consensus       338 ~i~~~~~~~~~~~~~~~~~~li~~y~----~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  411 (694)
                      +++...++ -++....++..+=-+|+    ++.++..|.+++....  .|-..++-.-|..=.+.+.++.+..+|++.++
T Consensus       387 ~vyq~~l~-lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle  465 (677)
T KOG1915|consen  387 QVYQACLD-LIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLE  465 (677)
T ss_pred             HHHHHHHh-hcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            99999888 34456667666655555    6789999999998876  56777888888888899999999999999998


Q ss_pred             CCCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCCHHHH
Q 005481          412 DDVEPD-GVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPSIAIW  489 (694)
Q Consensus       412 ~g~~pd-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~  489 (694)
                      -  .|. ..+|......=...|+.+.|+.+|.-++....+.--...|-+.|+-=...|.++.|..+++.+ ...+...+|
T Consensus       466 ~--~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~kvW  543 (677)
T KOG1915|consen  466 F--SPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHVKVW  543 (677)
T ss_pred             c--ChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccchHH
Confidence            4  454 478888777778889999999999999884433334556788888888999999999999987 444556688


Q ss_pred             HHHHHHHH-----hcC-----------ChHHHHHHHHHHHc----CCCCCc--chHHHHHhHHHhcCCchHHHHHHHHHH
Q 005481          490 QTLLSACR-----VHG-----------DLELGREVGEILLR----LDGDNP--VNYVMMSNIHADAGSWNECERLRKLAR  547 (694)
Q Consensus       490 ~~ll~a~~-----~~g-----------~~~~a~~~~~~~~~----~~p~~~--~~~~~l~~~~~~~g~~~~a~~~~~~m~  547 (694)
                      -++..--.     +.+           +...|..+|+++..    .+|...  ...-..-++=...|...+...+-+.|.
T Consensus       544 isFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~~~k~~~~KeeR~~LLEaw~~~E~~~G~~~d~~~V~s~mP  623 (677)
T KOG1915|consen  544 ISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERANTYLKESTPKEERLMLLEAWKNMEETFGTEGDVERVQSKMP  623 (677)
T ss_pred             HhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCchhhHHHHHHhcc
Confidence            77765332     334           56678888888764    334221  122223344456677777777777665


Q ss_pred             h
Q 005481          548 S  548 (694)
Q Consensus       548 ~  548 (694)
                      +
T Consensus       624 k  624 (677)
T KOG1915|consen  624 K  624 (677)
T ss_pred             H
Confidence            4

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

Probab=99.45  E-value=1e-11  Score=127.22  Aligned_cols=274  Identities=15%  Similarity=0.039  Sum_probs=214.3

Q ss_pred             CHHHHHHHHhhcCC--CChh-hHHHHHHHHHhCCCHHHHHHHHHHHHhcC-C-ccCccchHHHHHHHhhhccHHHHHHHH
Q 005481          266 CLVEARRVFDLIEQ--KSVI-SWSSLILGYAQEENLAEAMELFRQLRERS-L-QVDGFVLSSMMGVFADFALVEQGKQIH  340 (694)
Q Consensus       266 ~~~~A~~~f~~~~~--~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~-~pd~~t~~~ll~~~~~~~~~~~a~~i~  340 (694)
                      +..+|...|..+++  .|+. ....+..+|...+++++|.++|+.+.+.. . .-+..+|+++|..+-+.-    +...+
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 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEV----ALSYL  409 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhH----HHHHH
Confidence            46789999988664  2433 33456788999999999999999998742 1 125567888776543321    11122


Q ss_pred             H-HHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCC---ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 005481          341 A-YAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVK---NVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEP  416 (694)
Q Consensus       341 ~-~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  416 (694)
                      . .+++. -+..+.+|-++.++|.-.++.+.|++.|++..+-   ...+|+.+..-+.....+|.|...|+..+.  +.|
T Consensus       410 aq~Li~~-~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~--~~~  486 (638)
T KOG1126|consen  410 AQDLIDT-DPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALG--VDP  486 (638)
T ss_pred             HHHHHhh-CCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhc--CCc
Confidence            2 12222 2346889999999999999999999999998853   456888888888889999999999999886  666


Q ss_pred             CH-HHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhC-CCCC-CHHHHHHH
Q 005481          417 DG-VAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIESM-PVKP-SIAIWQTL  492 (694)
Q Consensus       417 d~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l  492 (694)
                      .. ..|-.+...|.+.++++.|.-.|+.+.+   +.|. .....++...+-+.|+.|+|+++++++ ...| |+..--.-
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            65 5788889999999999999999999977   7775 556778888999999999999999998 3333 33333334


Q ss_pred             HHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          493 LSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       493 l~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      ...+...+++++|.+.++++.++-|++...|..++.+|-+.|+.+.|..-+..|.+.
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~l  620 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDL  620 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcC
Confidence            455667799999999999999999999999999999999999999999888877654

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

Probab=99.45  E-value=9.1e-12  Score=127.67  Aligned_cols=244  Identities=15%  Similarity=0.183  Sum_probs=195.0

Q ss_pred             CHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCC--CCCchHHHHHhhhhhhcCCHHH-HHH
Q 005481          297 NLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPS--GLDTSVSNSIVDMYLKCGLIDE-ATE  373 (694)
Q Consensus       297 ~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~--~~~~~~~~~li~~y~~~g~~~~-A~~  373 (694)
                      +..+|+..|...... +.-+......+..+|...+++++++.+|+.+.+...  ..+..+|++.+--+-+.=.+.- |..
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~  412 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQD  412 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHH
Confidence            467899999985443 344456777788899999999999999999987643  2266677766644332211111 222


Q ss_pred             HHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCC
Q 005481          374 LFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEP-DGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKP  452 (694)
Q Consensus       374 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p  452 (694)
                      +.+ +....+.+|-++..+|..+++.+.|++.|++.++  +.| ...+|+.+..-+.....+|.|...|+.++.     .
T Consensus       413 Li~-~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQ--ldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~-----~  484 (638)
T KOG1126|consen  413 LID-TDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQ--LDPRFAYAYTLLGHESIATEEFDKAMKSFRKALG-----V  484 (638)
T ss_pred             HHh-hCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhc--cCCccchhhhhcCChhhhhHHHHhHHHHHHhhhc-----C
Confidence            222 2244678999999999999999999999999998  677 557888888888888999999999998865     5


Q ss_pred             ChhHHHH---HHHHHHhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHH
Q 005481          453 RIEHYSC---IVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMS  527 (694)
Q Consensus       453 ~~~~~~~---li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  527 (694)
                      +..+|++   |.-.|.++++++.|+-.|+++ .+.|. .++...++..+.+.|+.|+|++++++++-++|.|+-.-+..+
T Consensus       485 ~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~  564 (638)
T KOG1126|consen  485 DPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRA  564 (638)
T ss_pred             CchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHH
Confidence            5566665   466799999999999999998 77776 455666777888999999999999999999999999999999


Q ss_pred             hHHHhcCCchHHHHHHHHHHhC
Q 005481          528 NIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       528 ~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      .++...+++++|.+.++++++.
T Consensus       565 ~il~~~~~~~eal~~LEeLk~~  586 (638)
T KOG1126|consen  565 SILFSLGRYVEALQELEELKEL  586 (638)
T ss_pred             HHHHhhcchHHHHHHHHHHHHh
Confidence            9999999999999999999863

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

Probab=99.45  E-value=3.8e-10  Score=110.69  Aligned_cols=244  Identities=15%  Similarity=0.166  Sum_probs=161.9

Q ss_pred             hCCCHHHHHHHHHHHHhcCC--ccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHH
Q 005481          294 QEENLAEAMELFRQLRERSL--QVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEA  371 (694)
Q Consensus       294 ~~g~~~~A~~~~~~m~~~g~--~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A  371 (694)
                      ...++++|+.+|+++.+...  --|..||+.++-.-.....+.---+....+-    +.-+.+...+.+-|+-.++.++|
T Consensus       274 ~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~id----KyR~ETCCiIaNYYSlr~eHEKA  349 (559)
T KOG1155|consen  274 NQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNID----KYRPETCCIIANYYSLRSEHEKA  349 (559)
T ss_pred             hhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHhc----cCCccceeeehhHHHHHHhHHHH
Confidence            34556666666666555411  0134455555543322221111111111111    12334555666777777888888


Q ss_pred             HHHHccCCC---CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHhhc
Q 005481          372 TELFNEMPV---KNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEP-DGVAYLAVLSACSHSGLVEESQEYFSRLCND  447 (694)
Q Consensus       372 ~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~  447 (694)
                      ...|++..+   +....|+.|..-|....+...|++.+++.++  +.| |...|-.|..+|.-.+...-|+-+|+++.+ 
T Consensus       350 v~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd--i~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~-  426 (559)
T KOG1155|consen  350 VMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVD--INPRDYRAWYGLGQAYEIMKMHFYALYYFQKALE-  426 (559)
T ss_pred             HHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHh--cCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHh-
Confidence            888887763   3455788888888888888888888888887  444 557888888888888888888888888876 


Q ss_pred             cCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHc-------CCC
Q 005481          448 KRMKP-RIEHYSCIVDSLGRAGRLDEAKNLIESM--PVKPSIAIWQTLLSACRVHGDLELGREVGEILLR-------LDG  517 (694)
Q Consensus       448 ~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~-------~~p  517 (694)
                        ++| |...|.+|.+.|.+.++.+||++.|...  ....+...+..|...+-+.++.++|.+.+++-++       .+|
T Consensus       427 --~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~  504 (559)
T KOG1155|consen  427 --LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDD  504 (559)
T ss_pred             --cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccch
Confidence              556 4678888888888888888888888876  2223446777888888888888888888888775       334


Q ss_pred             CCcchHHHHHhHHHhcCCchHHHHHHHHH
Q 005481          518 DNPVNYVMMSNIHADAGSWNECERLRKLA  546 (694)
Q Consensus       518 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  546 (694)
                      .-..+..-|+.-+.+.++|++|..+-...
T Consensus       505 ~t~ka~~fLA~~f~k~~~~~~As~Ya~~~  533 (559)
T KOG1155|consen  505 ETIKARLFLAEYFKKMKDFDEASYYATLV  533 (559)
T ss_pred             HHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence            33344555777788888888887765544

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.44  E-value=8.4e-11  Score=122.80  Aligned_cols=288  Identities=11%  Similarity=0.016  Sum_probs=185.9

Q ss_pred             cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHH
Q 005481          192 AGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEAR  271 (694)
Q Consensus       192 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~  271 (694)
                      .|+++.|.+.+....+..-.| ...|.....+..+.|+.+.+.+.+..+.+...+  ............+...|+++.|.
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p-~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~--~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQP-VVNYLLAAEAAQQRGDEARANQHLERAAELADN--DQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccch-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCc--chHHHHHHHHHHHHHCCCHHHHH
Confidence            466666665555443321111 112222233335556666666666666554322  22222223356677777777777


Q ss_pred             HHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCC
Q 005481          272 RVFDLIEQ---KSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPS  348 (694)
Q Consensus       272 ~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~  348 (694)
                      ..++.+.+   .+......+...|.+.|++++|.+++..+.+.+..++. .+..+-                        
T Consensus       174 ~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~-~~~~l~------------------------  228 (398)
T PRK10747        174 HGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEE-HRAMLE------------------------  228 (398)
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHH-HHHHHH------------------------
Confidence            77777653   24556677778888888888888888888876543221 111000                        


Q ss_pred             CCCchHHHHHhhhhhhcCCHHHHHHHHccCC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005481          349 GLDTSVSNSIVDMYLKCGLIDEATELFNEMP---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVL  425 (694)
Q Consensus       349 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll  425 (694)
                         ...+..++....+..+.+...++++..+   ..++.....+..++...|+.++|.+++++..+.  .||....  ++
T Consensus       229 ---~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l  301 (398)
T PRK10747        229 ---QQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LL  301 (398)
T ss_pred             ---HHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HH
Confidence               0011112222223344556666666665   347778888889999999999999999988873  4555221  23


Q ss_pred             HHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChHH
Q 005481          426 SACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPSIAIWQTLLSACRVHGDLEL  504 (694)
Q Consensus       426 ~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~a~~~~g~~~~  504 (694)
                      .+....++.+++.+..+...+.+  +-|...+.++..++.+.|++++|.+.|+.+ ...|+...+..|...+...|+.++
T Consensus       302 ~~~l~~~~~~~al~~~e~~lk~~--P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~  379 (398)
T PRK10747        302 IPRLKTNNPEQLEKVLRQQIKQH--GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEE  379 (398)
T ss_pred             HhhccCCChHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHH
Confidence            33445589999999999888733  234556888999999999999999999987 778999888889999999999999


Q ss_pred             HHHHHHHHHcCC
Q 005481          505 GREVGEILLRLD  516 (694)
Q Consensus       505 a~~~~~~~~~~~  516 (694)
                      |.+++++.+.+-
T Consensus       380 A~~~~~~~l~~~  391 (398)
T PRK10747        380 AAAMRRDGLMLT  391 (398)
T ss_pred             HHHHHHHHHhhh
Confidence            999999988754

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.43  E-value=3.9e-09  Score=103.86  Aligned_cols=457  Identities=9%  Similarity=0.040  Sum_probs=332.8

Q ss_pred             cHHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHH
Q 005481           80 SWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYS  159 (694)
Q Consensus        80 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~  159 (694)
                      .|-....-=..++++..|..+|+..+... .-+...|.--+..=.+...+..|+.+++.++..-...| ..|-..+.|=-
T Consensus        75 ~WikYaqwEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVd-qlWyKY~ymEE  152 (677)
T KOG1915|consen   75 VWIKYAQWEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVD-QLWYKYIYMEE  152 (677)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHH-HHHHHHHHHHH
Confidence            44444444455678889999999987643 22444555556666788899999999999998743333 34455666677


Q ss_pred             hcCChHHHHHHHccCC--CCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHH
Q 005481          160 KCGRINEAARMFDVMP--AKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIH  237 (694)
Q Consensus       160 ~~g~~~~A~~~f~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~  237 (694)
                      ..|++..|+++|++-.  +|+..+|++.|..=.+....+.|..+|++..-  +-|+..+|.--.+-=-+.|+...+.+++
T Consensus       153 ~LgNi~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~Vy  230 (677)
T KOG1915|consen  153 MLGNIAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSVY  230 (677)
T ss_pred             HhcccHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            7899999999998765  58999999999999999999999999999876  4599999998888888899999999999


Q ss_pred             HHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcC----CCC-hhhHHHHHHHHHhCCCHHHHHHH--------
Q 005481          238 GFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIE----QKS-VISWSSLILGYAQEENLAEAMEL--------  304 (694)
Q Consensus       238 ~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~----~~~-~~~~~~li~~~~~~g~~~~A~~~--------  304 (694)
                      ..+++.--+...+..++.+....=.++..++.|.-+|.-..    ... ...|......--+-|+.....+.        
T Consensus       231 erAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~q  310 (677)
T KOG1915|consen  231 ERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQ  310 (677)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhH
Confidence            99887532212455667777777778888999998886543    322 23444444444455554433332        


Q ss_pred             HHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCc-hHHHHHhh-----h---hhhcCCHHHHHHHH
Q 005481          305 FRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDT-SVSNSIVD-----M---YLKCGLIDEATELF  375 (694)
Q Consensus       305 ~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~-~~~~~li~-----~---y~~~g~~~~A~~~~  375 (694)
                      ++.+... -.-|-.++--.+..-...|+.+..+++++.++..-.+.+. ..+.-.|-     +   =....+.+.+.++|
T Consensus       311 YE~~v~~-np~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vy  389 (677)
T KOG1915|consen  311 YEKEVSK-NPYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVY  389 (677)
T ss_pred             HHHHHHh-CCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            2333332 1336667777788888889999999999998875433221 11111111     1   12467888999999


Q ss_pred             ccCCC---CChhh----HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhcc
Q 005481          376 NEMPV---KNVVT----WTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDK  448 (694)
Q Consensus       376 ~~~~~---~~~~~----~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~  448 (694)
                      +...+   ..-.|    |-....--.++.+...|.+++...+  |..|-..+|...|..=.+.+.+|..+.+++..+.  
T Consensus       390 q~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle--  465 (677)
T KOG1915|consen  390 QACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLE--  465 (677)
T ss_pred             HHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHh--
Confidence            76652   22333    4444444557789999999998877  6889999999999999999999999999999987  


Q ss_pred             CCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCCCCC----CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchH
Q 005481          449 RMKP-RIEHYSCIVDSLGRAGRLDEAKNLIESMPVKP----SIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNY  523 (694)
Q Consensus       449 ~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p----~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~  523 (694)
                       ..| +..+|......=...|+.+.|..+|+-+-.+|    -...|.+.+.--...|.++.|..+++++++..+.. ..+
T Consensus       466 -~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~-kvW  543 (677)
T KOG1915|consen  466 -FSPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHV-KVW  543 (677)
T ss_pred             -cChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccc-hHH
Confidence             445 46678888888888999999999999874444    35678888888889999999999999999988864 366


Q ss_pred             HHHHhHHH-----hcC-----------CchHHHHHHHHHH
Q 005481          524 VMMSNIHA-----DAG-----------SWNECERLRKLAR  547 (694)
Q Consensus       524 ~~l~~~~~-----~~g-----------~~~~a~~~~~~m~  547 (694)
                      ...+.--.     ..|           ....|.++++.+.
T Consensus       544 isFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn  583 (677)
T KOG1915|consen  544 ISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERAN  583 (677)
T ss_pred             HhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHH
Confidence            66655433     334           4567777777764

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.43  E-value=9.4e-11  Score=122.46  Aligned_cols=275  Identities=9%  Similarity=0.052  Sum_probs=195.1

Q ss_pred             cCCHHHHHHHHhhcCCC--C-hhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchH--HHHHHHhhhccHHHHHH
Q 005481          264 CGCLVEARRVFDLIEQK--S-VISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLS--SMMGVFADFALVEQGKQ  338 (694)
Q Consensus       264 ~g~~~~A~~~f~~~~~~--~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~--~ll~~~~~~~~~~~a~~  338 (694)
                      .|+++.|++.+....+.  + ...+-.......+.|+++.|...|.++.+.  .|+.....  .....+...|+.+.|..
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            47777777776665442  1 222322233446777788888888777653  44543332  22445666777888888


Q ss_pred             HHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCCCh-----------hhHHHHHHHHHhcCCHHHHHHHHH
Q 005481          339 IHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNV-----------VTWTVIITGYGKHGLAKEAVGLFR  407 (694)
Q Consensus       339 i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~-----------~~~~~li~~~~~~g~~~~A~~~~~  407 (694)
                      .++.+.+.... ++.+...+...|.+.|++++|.+++..+.+...           ..|..++.......+.+...++++
T Consensus       175 ~l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~  253 (398)
T PRK10747        175 GVDKLLEVAPR-HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWK  253 (398)
T ss_pred             HHHHHHhcCCC-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            77777766633 567777888888888888888888887763211           133344444444555666677777


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-
Q 005481          408 KMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-  485 (694)
Q Consensus       408 ~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-  485 (694)
                      .+.+. .+.+......+..++...|+.++|.++++...+   ..|+....  ++.+....|+.+++++.+++. ...|+ 
T Consensus       254 ~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~---~~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~~  327 (398)
T PRK10747        254 NQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLK---RQYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGDT  327 (398)
T ss_pred             hCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCCC
Confidence            66442 345667888899999999999999999999877   34555322  233334559999999999887 44555 


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          486 IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       486 ~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      ...+.++...|...+++++|...++++++.+|++ ..+..++.++.+.|+.++|.+++++...
T Consensus       328 ~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~-~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        328 PLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDA-YDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            5567888889999999999999999999999985 6678999999999999999999987654

>TIGR00540 hemY_coli hemY protein

Probab=99.42  E-value=3.3e-10  Score=119.03  Aligned_cols=290  Identities=12%  Similarity=0.047  Sum_probs=172.2

Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCChh-hHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHH
Q 005481          190 VLAGYSDKGLLLFRKMQEHGEIPDEF-TFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLV  268 (694)
Q Consensus       190 ~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~  268 (694)
                      ...|+++.|.+.+.+..+.  .|+.. .+.....+..+.|+.+.+.+.+..+.+....  ....+.-.....+...|+++
T Consensus        95 ~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~--~~l~~~~~~a~l~l~~~~~~  170 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGN--DNILVEIARTRILLAQNELH  170 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCc--CchHHHHHHHHHHHHCCCHH
Confidence            4578999999988877664  34433 3344455667778888888888887765543  33344445577777788888


Q ss_pred             HHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHh
Q 005481          269 EARRVFDLIEQ---KSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAK  345 (694)
Q Consensus       269 ~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~  345 (694)
                      .|...++.+.+   .+...+..+...+.+.|++++|.+++..+.+.++.+.. .+..+-.                    
T Consensus       171 ~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~-~~~~l~~--------------------  229 (409)
T TIGR00540       171 AARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDE-EFADLEQ--------------------  229 (409)
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHH-HHHHHHH--------------------
Confidence            88888777654   24556677777788888888888888887776533221 1110000                    


Q ss_pred             cCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCC---CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH-
Q 005481          346 VPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPV---KNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAY-  421 (694)
Q Consensus       346 ~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~-  421 (694)
                             ..+..+++.-......+...+.++..+.   .+...+..++..+...|+.++|.+++++..+.  .||.... 
T Consensus       230 -------~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~  300 (409)
T TIGR00540       230 -------KAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAIS  300 (409)
T ss_pred             -------HHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccch
Confidence                   0000111111112223444445555543   47777888888888888888888888888874  3444321 


Q ss_pred             --HHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHh--C-CCCCCHHHHHHHHHHH
Q 005481          422 --LAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIES--M-PVKPSIAIWQTLLSAC  496 (694)
Q Consensus       422 --~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~--~-~~~p~~~~~~~ll~a~  496 (694)
                        ..........++.+.+.+.++...+...-.|+.....++...+.+.|++++|.+.|+.  . ...|+...+..+...+
T Consensus       301 ~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll  380 (409)
T TIGR00540       301 LPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAF  380 (409)
T ss_pred             hHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHH
Confidence              1111112334566667777766665332222223445666666666666666666662  2 4456666666666666


Q ss_pred             HhcCChHHHHHHHHHHH
Q 005481          497 RVHGDLELGREVGEILL  513 (694)
Q Consensus       497 ~~~g~~~~a~~~~~~~~  513 (694)
                      .+.|+.++|.+++++.+
T Consensus       381 ~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       381 DQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             HHcCCHHHHHHHHHHHH
Confidence            66666666666666654

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.

>TIGR00540 hemY_coli hemY protein

Probab=99.41  E-value=1.2e-10  Score=122.33  Aligned_cols=282  Identities=10%  Similarity=0.070  Sum_probs=192.5

Q ss_pred             HhcCChHHHHHHHccCCCC--C-cccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChh--hHHHHHHHHcccCCchHH
Q 005481          159 SKCGRINEAARMFDVMPAK--S-LITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEF--TFTSTLKACGSLGSVGGG  233 (694)
Q Consensus       159 ~~~g~~~~A~~~f~~~~~~--~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--t~~~ll~a~~~~~~~~~a  233 (694)
                      ...|+++.|++.+.+..+.  + ...+-.....+.+.|+++.|.+.|.+..+..  |+..  .-......+...|+++.|
T Consensus        95 ~~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHHH
Confidence            4579999999999887653  2 2233444566778899999999999987643  4543  333346777889999999


Q ss_pred             HHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCCh---hhHHHH----HHHHHhCCCHHHHHHHHH
Q 005481          234 TQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSV---ISWSSL----ILGYAQEENLAEAMELFR  306 (694)
Q Consensus       234 ~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~---~~~~~l----i~~~~~~g~~~~A~~~~~  306 (694)
                      ...++.+.+..+   .+..+...+...|.+.|++++|.+.+..+.+..+   ..+..+    ..++...+..+++.+.+.
T Consensus       173 l~~l~~l~~~~P---~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~  249 (409)
T TIGR00540       173 RHGVDKLLEMAP---RHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLL  249 (409)
T ss_pred             HHHHHHHHHhCC---CCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHH
Confidence            999999999986   5678889999999999999999999998875422   222111    111121122222222332


Q ss_pred             HHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCC--CChh
Q 005481          307 QLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPV--KNVV  384 (694)
Q Consensus       307 ~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~~  384 (694)
                      .+....  |+                              ....++..+..++..+...|+.++|.+++++..+  ||..
T Consensus       250 ~~~~~~--p~------------------------------~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~  297 (409)
T TIGR00540       250 NWWKNQ--PR------------------------------HRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDR  297 (409)
T ss_pred             HHHHHC--CH------------------------------HHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcc
Confidence            222211  10                              0112556666777777788888888887777663  3322


Q ss_pred             h---HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH---HHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHH
Q 005481          385 T---WTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGV---AYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYS  458 (694)
Q Consensus       385 ~---~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~---t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~  458 (694)
                      .   +..........++.+.+++.+++..+.  .|+..   ...++...|.+.|++++|.++|+.... ....|+...+.
T Consensus       298 ~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a-~~~~p~~~~~~  374 (409)
T TIGR00540       298 AISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAA-CKEQLDANDLA  374 (409)
T ss_pred             cchhHHHHHhhhcCCCChHHHHHHHHHHHHh--CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHH-hhcCCCHHHHH
Confidence            1   122222233457788888888887763  45554   455788889999999999999995333 33679988888


Q ss_pred             HHHHHHHhcCChHHHHHHHHhC
Q 005481          459 CIVDSLGRAGRLDEAKNLIESM  480 (694)
Q Consensus       459 ~li~~~~~~g~~~~A~~~~~~~  480 (694)
                      .+..++.+.|+.++|.+++++.
T Consensus       375 ~La~ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       375 MAADAFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHH
Confidence            9999999999999999999873

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.

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

Probab=99.39  E-value=2.6e-09  Score=107.65  Aligned_cols=477  Identities=10%  Similarity=-0.027  Sum_probs=269.2

Q ss_pred             HHHHHHHHhhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhc--cCCCCcccHHHHHHHHHhC
Q 005481           14 RLADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDK--MLERNVVSWTALMCGFLQN   91 (694)
Q Consensus        14 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~--~~~~~~~~~~~li~~~~~~   91 (694)
                      -+..+++-+.....+..|.-+-+.+...+  .|+..---+..+|.-.|+.+.|..+...  +.+.|..+.......+.+.
T Consensus        18 ~~~~~~r~~l~q~~y~~a~f~adkV~~l~--~dp~d~~~~aq~l~~~~~y~ra~~lit~~~le~~d~~cryL~~~~l~~l   95 (611)
T KOG1173|consen   18 KYRRLVRDALMQHRYKTALFWADKVAGLT--NDPADIYWLAQVLYLGRQYERAAHLITTYKLEKRDIACRYLAAKCLVKL   95 (611)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHhcc--CChHHHHHHHHHHHhhhHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHH
Confidence            35555555555556666666666666555  3334444566777777888877776654  4667888888888899999


Q ss_pred             CChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHH
Q 005481           92 GNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMF  171 (694)
Q Consensus        92 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f  171 (694)
                      .++++|+.++..-.   +.-+...|-..=.  +..-+.+.+...+..      ......+-.-...|......++|+..|
T Consensus        96 k~~~~al~vl~~~~---~~~~~f~yy~~~~--~~~l~~n~~~~~~~~------~~essic~lRgk~y~al~n~~~ar~~Y  164 (611)
T KOG1173|consen   96 KEWDQALLVLGRGH---VETNPFSYYEKDA--ANTLELNSAGEDLMI------NLESSICYLRGKVYVALDNREEARDKY  164 (611)
T ss_pred             HHHHHHHHHhcccc---hhhcchhhcchhh--hceeccCcccccccc------cchhceeeeeeehhhhhccHHHHHHHH
Confidence            99999998887321   1111111100000  000001111100000      000111111112344455666666666


Q ss_pred             ccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCC----CCCChhhHHHHHHHHc-ccCCchHHHHHHHHHHHhCCC
Q 005481          172 DVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHG----EIPDEFTFTSTLKACG-SLGSVGGGTQIHGFLITSGFP  246 (694)
Q Consensus       172 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g----~~p~~~t~~~ll~a~~-~~~~~~~a~~~~~~~~~~g~~  246 (694)
                      .+..-.|+..+.++...-. .. .-.+.+.|+.+....    .+-+......+..... +..+.+.... -....-.+..
T Consensus       165 ~~Al~~D~~c~Ea~~~lvs-~~-mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r-~~~~sl~~l~  241 (611)
T KOG1173|consen  165 KEALLADAKCFEAFEKLVS-AH-MLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTR-NEDESLIGLA  241 (611)
T ss_pred             HHHHhcchhhHHHHHHHHH-HH-hcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhcccccccc-Cchhhhhhhh
Confidence            6655555554444332111 11 111111122221110    0011111111111110 0000000000 0000000111


Q ss_pred             CCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCCh---hhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHH
Q 005481          247 YSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSV---ISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSM  323 (694)
Q Consensus       247 ~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~l  323 (694)
                        .++.+.....+-+...+++.+..++++.+.+.|+   ..+..-|..+...|+..+-+.+=.+|.+.            
T Consensus       242 --~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~------------  307 (611)
T KOG1173|consen  242 --ENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL------------  307 (611)
T ss_pred             --hcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh------------
Confidence              2333333344444444555555555544443222   22333334444444444444443343332            


Q ss_pred             HHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCC---ChhhHHHHHHHHHhcCCHH
Q 005481          324 MGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVK---NVVTWTVIITGYGKHGLAK  400 (694)
Q Consensus       324 l~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~  400 (694)
                                              .+..+.+|-++.-.|.-.|+..+|++.|.+...-   -...|-.....|+-.|..+
T Consensus       308 ------------------------yP~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~Ehd  363 (611)
T KOG1173|consen  308 ------------------------YPSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHD  363 (611)
T ss_pred             ------------------------CCCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHH
Confidence                                    2234556666776777778888888888876532   3458999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHh
Q 005481          401 EAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIES  479 (694)
Q Consensus       401 ~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~  479 (694)
                      +|+..+...-+. ++-....+.-+.--|...++.+.|.++|.++..   +.|+ +...+-+.-+....+.+.+|..+|+.
T Consensus       364 QAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~a---i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~  439 (611)
T KOG1173|consen  364 QAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALA---IAPSDPLVLHELGVVAYTYEEYPEALKYFQK  439 (611)
T ss_pred             HHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHHHHHHHHHh---cCCCcchhhhhhhheeehHhhhHHHHHHHHH
Confidence            999998887763 111223344455568889999999999999865   6664 55677777777788999999999887


Q ss_pred             C--C------CCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          480 M--P------VKP-SIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       480 ~--~------~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      .  +      .++ -..+|+.|+.+|++.+.+++|+..+++++.+.|.++.+|..++-+|...|+++.|...+.+..-
T Consensus       440 ~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~  517 (611)
T KOG1173|consen  440 ALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALA  517 (611)
T ss_pred             HHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh
Confidence            5  1      111 2456888899999999999999999999999999999999999999999999999999987753

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

Probab=99.39  E-value=8.7e-10  Score=107.48  Aligned_cols=435  Identities=11%  Similarity=0.067  Sum_probs=262.7

Q ss_pred             HHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHH-HHHHhcccCChHHHHHHHHHHHHhCCCCC----hhHHHHHHHHHH
Q 005481           85 MCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLST-NIKASGVLSSVENGMQIHGMCMKSGFEWN----PVVGNSIIDMYS  159 (694)
Q Consensus        85 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~-ll~a~~~~~~~~~a~~~~~~~~~~g~~~~----~~~~~~ll~~y~  159 (694)
                      .+-|..+....+|+..|+-+.+...-||.-.+-. +-+.+.+.+.+..|...+...+..-...+    +.+.+.+.-.+.
T Consensus       208 aqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvtfi  287 (840)
T KOG2003|consen  208 AQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVTFI  287 (840)
T ss_pred             HHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCeeEE
Confidence            3455566677788888887777766666544322 22345566677777777777766532222    123344444566


Q ss_pred             hcCChHHHHHHHccCCC--CCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHH
Q 005481          160 KCGRINEAARMFDVMPA--KSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIH  237 (694)
Q Consensus       160 ~~g~~~~A~~~f~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~  237 (694)
                      +.|++++|...|+...+  |+..+--.|+-++..-|+.++..+.|.+|..-...||..-|..      ...+        
T Consensus       288 q~gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~------~~dd--------  353 (840)
T KOG2003|consen  288 QAGQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIK------EKDD--------  353 (840)
T ss_pred             ecccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccC------CcCC--------
Confidence            67777777777766543  4544433344444455667777777777766544444443321      0000        


Q ss_pred             HHHHHhCCCCCcchhhHHHHH-----HHHHHcC--CHHHH----HHHHhhcCCCChh---hHH-----------------
Q 005481          238 GFLITSGFPYSVKTVIAGSLV-----DFYVKCG--CLVEA----RRVFDLIEQKSVI---SWS-----------------  286 (694)
Q Consensus       238 ~~~~~~g~~~~~~~~~~~~li-----~~y~~~g--~~~~A----~~~f~~~~~~~~~---~~~-----------------  286 (694)
                                 |+....|.-+     .-.-+..  +.+++    .++..-+..++..   -|.                 
T Consensus       354 -----------p~~~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dle  422 (840)
T KOG2003|consen  354 -----------PDDNLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLE  422 (840)
T ss_pred             -----------cchHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhh
Confidence                       1111111111     0111111  11111    1111111222210   011                 


Q ss_pred             -HHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHH--HHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhh
Q 005481          287 -SLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSS--MMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYL  363 (694)
Q Consensus       287 -~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~--ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~  363 (694)
                       .-...|.++|+++.|+++++-..+..-+.-+..-+.  .+.-.-.-.++-.|.+.-+.++...- .+....+.-.+.-.
T Consensus       423 i~ka~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dr-yn~~a~~nkgn~~f  501 (840)
T KOG2003|consen  423 INKAGELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDR-YNAAALTNKGNIAF  501 (840)
T ss_pred             hhHHHHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccc-cCHHHhhcCCceee
Confidence             112357899999999999988876533222222222  22222223356666666655544321 12222222233345


Q ss_pred             hcCCHHHHHHHHccCCCCChhhHHHHH---HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHH
Q 005481          364 KCGLIDEATELFNEMPVKNVVTWTVII---TGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEY  440 (694)
Q Consensus       364 ~~g~~~~A~~~~~~~~~~~~~~~~~li---~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~  440 (694)
                      ..|++++|.+.+++....|...-.+|.   -.+-..|+.++|++.|-++..- +..+...+..+.+.|....+..+|+++
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~  580 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIEL  580 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHH
Confidence            679999999999999877765444443   3466789999999999887652 234556777888889999999999999


Q ss_pred             HHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCC
Q 005481          441 FSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-P-VKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGD  518 (694)
Q Consensus       441 ~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~  518 (694)
                      +-+...  -++.|+...+.|.++|-+.|+-..|.+..-.. . ++-+..+..-|..-|....-.+.++..++++--+.|+
T Consensus       581 ~~q~~s--lip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~  658 (840)
T KOG2003|consen  581 LMQANS--LIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPN  658 (840)
T ss_pred             HHHhcc--cCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCcc
Confidence            988755  24446788999999999999999999875443 3 3345555555666666667789999999999999998


Q ss_pred             CcchHHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          519 NPVNYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       519 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      ...--..++.++.+.|++..|..+++..-.
T Consensus       659 ~~kwqlmiasc~rrsgnyqka~d~yk~~hr  688 (840)
T KOG2003|consen  659 QSKWQLMIASCFRRSGNYQKAFDLYKDIHR  688 (840)
T ss_pred             HHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            655555566788899999999999998754

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

Probab=99.38  E-value=1.5e-12  Score=129.78  Aligned_cols=250  Identities=19%  Similarity=0.197  Sum_probs=103.7

Q ss_pred             HHHHHHHcCCHHHHHHHHhhc-C----CCChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhc
Q 005481          257 LVDFYVKCGCLVEARRVFDLI-E----QKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFA  331 (694)
Q Consensus       257 li~~y~~~g~~~~A~~~f~~~-~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~  331 (694)
                      +..++.+.|++++|.++++.. .    ..|...|..+.......+++++|...++++...+.. +...+..++.. ...+
T Consensus        14 ~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   14 LARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-cccc
Confidence            455566666666666666432 1    124445555555555666677777777776654322 33334444444 5666


Q ss_pred             cHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCC-----CCChhhHHHHHHHHHhcCCHHHHHHHH
Q 005481          332 LVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMP-----VKNVVTWTVIITGYGKHGLAKEAVGLF  406 (694)
Q Consensus       332 ~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~A~~~~  406 (694)
                      +++.|.++.....+..  +++..+..++..|.+.|+++++.++++.+.     ..+...|..+...+.+.|+.++|++.|
T Consensus        92 ~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~  169 (280)
T PF13429_consen   92 DPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDY  169 (280)
T ss_dssp             ----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHH
T ss_pred             cccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            6666666665544433  344555667777888888888888877743     346778888888999999999999999


Q ss_pred             HHHHHCCCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCC
Q 005481          407 RKMLLDDVEPD-GVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKP  484 (694)
Q Consensus       407 ~~m~~~g~~pd-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p  484 (694)
                      ++.++  ..|+ ......++..+...|+.+++.+++....+..  +.+...+..+..+|...|+.++|+..+++. ...|
T Consensus       170 ~~al~--~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~--~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p  245 (280)
T PF13429_consen  170 RKALE--LDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA--PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNP  245 (280)
T ss_dssp             HHHHH--H-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH---HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHST
T ss_pred             HHHHH--cCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC--cCHHHHHHHHHHHhccccccccccccccccccccc
Confidence            99998  5676 4667788888899999999999888887732  455667888999999999999999999987 3344


Q ss_pred             -CHHHHHHHHHHHHhcCChHHHHHHHHHHHc
Q 005481          485 -SIAIWQTLLSACRVHGDLELGREVGEILLR  514 (694)
Q Consensus       485 -~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~  514 (694)
                       |+.+...+..++...|+.++|.++.+++++
T Consensus       246 ~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  246 DDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             T-HHHHHHHHHHHT-----------------
T ss_pred             ccccccccccccccccccccccccccccccc
Confidence             666777888899999999999999888765

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.33  E-value=1.7e-09  Score=101.52  Aligned_cols=287  Identities=15%  Similarity=0.136  Sum_probs=167.8

Q ss_pred             hcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhC-CCCCcchhhHHHHHHHHHHcCCHHH
Q 005481          191 LAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSG-FPYSVKTVIAGSLVDFYVKCGCLVE  269 (694)
Q Consensus       191 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g-~~~~~~~~~~~~li~~y~~~g~~~~  269 (694)
                      -+.++++|.++|-+|.+.. +-+..+-.++-+.+.+.|..+.|..+|+.+.++- ........+...|..-|...|-+|.
T Consensus        47 Ls~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          47 LSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             hhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            3578899999999998732 1223355567788889999999999999988763 2111234566678888999999999


Q ss_pred             HHHHHhhcCCCCh---hhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccc----hHHHHHHHhhhccHHHHHHHHHH
Q 005481          270 ARRVFDLIEQKSV---ISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFV----LSSMMGVFADFALVEQGKQIHAY  342 (694)
Q Consensus       270 A~~~f~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t----~~~ll~~~~~~~~~~~a~~i~~~  342 (694)
                      |+.+|..+.+.+.   .+.-.|+..|.+..+|++|++.-+++...+-++..+-    |.-+........+++.|...+..
T Consensus       126 AE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~k  205 (389)
T COG2956         126 AEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKK  205 (389)
T ss_pred             HHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            9999999887544   4566688999999999999999998888665544322    22222222333344444444444


Q ss_pred             HHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 005481          343 AAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYL  422 (694)
Q Consensus       343 ~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~  422 (694)
                      +.+.+.. .+...-.                               +...+...|++..|++.++...+.+..--..+..
T Consensus       206 Alqa~~~-cvRAsi~-------------------------------lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~  253 (389)
T COG2956         206 ALQADKK-CVRASII-------------------------------LGRVELAKGDYQKAVEALERVLEQNPEYLSEVLE  253 (389)
T ss_pred             HHhhCcc-ceehhhh-------------------------------hhHHHHhccchHHHHHHHHHHHHhChHHHHHHHH
Confidence            4433222 1222222                               3344555566666666666665543222223455


Q ss_pred             HHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHH-HhCCCCCCHHHHHHHHHHHHhc--
Q 005481          423 AVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLI-ESMPVKPSIAIWQTLLSACRVH--  499 (694)
Q Consensus       423 ~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~-~~~~~~p~~~~~~~ll~a~~~~--  499 (694)
                      .|..+|.+.|+.+++...+..+.+   ..++...-..|.+.-....-.+.|...+ +...-+|+...+..|+..-...  
T Consensus       254 ~L~~~Y~~lg~~~~~~~fL~~~~~---~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~l~dae  330 (389)
T COG2956         254 MLYECYAQLGKPAEGLNFLRRAME---TNTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYHLADAE  330 (389)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHH---ccCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhhhcccc
Confidence            555566666666666666666555   2333333344444443333344444433 3334556666666666543222  


Q ss_pred             -CChHHHHHHHHHHH
Q 005481          500 -GDLELGREVGEILL  513 (694)
Q Consensus       500 -g~~~~a~~~~~~~~  513 (694)
                       |...+-...++.++
T Consensus       331 eg~~k~sL~~lr~mv  345 (389)
T COG2956         331 EGRAKESLDLLRDMV  345 (389)
T ss_pred             ccchhhhHHHHHHHH
Confidence             23334444444444

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.33  E-value=2.8e-07  Score=94.40  Aligned_cols=432  Identities=12%  Similarity=0.140  Sum_probs=233.3

Q ss_pred             hcCCChHHHHHHHHHHHHh-CCCCChhhHHHHHHHHHhcCChHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHH
Q 005481           23 SKNLLLDYGVQLHGALVKM-GFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLF  101 (694)
Q Consensus        23 ~~~~~~~~a~~~~~~~~~~-g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  101 (694)
                      ...+++..-+..|+..+.. .+.-...+|.-.+......|-++-+.+++++-.+-++..-+..|..++..+++++|-+.+
T Consensus       113 ~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~d~~~eaa~~l  192 (835)
T KOG2047|consen  113 IKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKSDRLDEAAQRL  192 (835)
T ss_pred             HhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhccchHHHHHHH
Confidence            3344444444444444332 222233444445555455555555555555554444444445555555555555555555


Q ss_pred             HHhhhCC------CCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCC--CCC--hhHHHHHHHHHHhcCChHHHHHHH
Q 005481          102 CQMGSSS------VKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGF--EWN--PVVGNSIIDMYSKCGRINEAARMF  171 (694)
Q Consensus       102 ~~m~~~g------~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~--~~~--~~~~~~ll~~y~~~g~~~~A~~~f  171 (694)
                      .......      -+.+...|..+-...++..+.-.... .+.+++.|+  -+|  -..|++|.+-|.+.|+++.|..+|
T Consensus       193 a~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~sln-vdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvy  271 (835)
T KOG2047|consen  193 ATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLN-VDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVY  271 (835)
T ss_pred             HHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccC-HHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHH
Confidence            5443211      11122223333333222222111111 111222232  223  246888888899999999999888


Q ss_pred             ccCCCC--CcccHHHHHHHHHhc----------------CC------hhHHHHHHHHHHHCCCC----------C-Chhh
Q 005481          172 DVMPAK--SLITWNAMIAGYVLA----------------GY------SDKGLLLFRKMQEHGEI----------P-DEFT  216 (694)
Q Consensus       172 ~~~~~~--~~~~~~~li~~~~~~----------------g~------~~~A~~~~~~m~~~g~~----------p-~~~t  216 (694)
                      ++....  .+.-++.+-..|++-                |+      ++-.+.-|+.+......          | +..+
T Consensus       272 eeai~~v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~e  351 (835)
T KOG2047|consen  272 EEAIQTVMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEE  351 (835)
T ss_pred             HHHHHhheehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHH
Confidence            775542  222233333333321                11      11222333333322110          1 1112


Q ss_pred             HHHHHHHHcccCCchHHHHHHHHHHHhCCC---CCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCCh-------hhHH
Q 005481          217 FTSTLKACGSLGSVGGGTQIHGFLITSGFP---YSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSV-------ISWS  286 (694)
Q Consensus       217 ~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~---~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~-------~~~~  286 (694)
                      |..-+.  ...|+..+....+.++++.--+   +..-...|..+.+.|-..|+++.|+.+|++..+-+-       .+|.
T Consensus       352 W~kRV~--l~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~  429 (835)
T KOG2047|consen  352 WHKRVK--LYEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWC  429 (835)
T ss_pred             HHhhhh--hhcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHH
Confidence            222111  2235556666677777664211   123446788999999999999999999998765332       3566


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcCCccC-----------------ccchHHHHHHHhhhccHHHHHHHHHHHHhcCCC
Q 005481          287 SLILGYAQEENLAEAMELFRQLRERSLQVD-----------------GFVLSSMMGVFADFALVEQGKQIHAYAAKVPSG  349 (694)
Q Consensus       287 ~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-----------------~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~  349 (694)
                      .-...=.+..+++.|+++.+....-.-.|.                 ...|+..+..--..|-++..+.+++.++...+.
T Consensus       430 ~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria  509 (835)
T KOG2047|consen  430 AWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA  509 (835)
T ss_pred             HHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC
Confidence            656666678889999998887654211111                 112333344444567788888888888887665


Q ss_pred             CCchHHHHHhhhhhhcCCHHHHHHHHccCC----CCChh-hHHHHHHHHHh---cCCHHHHHHHHHHHHHCCCCCCHHHH
Q 005481          350 LDTSVSNSIVDMYLKCGLIDEATELFNEMP----VKNVV-TWTVIITGYGK---HGLAKEAVGLFRKMLLDDVEPDGVAY  421 (694)
Q Consensus       350 ~~~~~~~~li~~y~~~g~~~~A~~~~~~~~----~~~~~-~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~pd~~t~  421 (694)
                      . +.+.-...-.+-...-++++.+++++-.    -|++. .|++-+.-+.+   ....+.|..+|++.++ |.+|...-+
T Consensus       510 T-Pqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKt  587 (835)
T KOG2047|consen  510 T-PQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKT  587 (835)
T ss_pred             C-HHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHH
Confidence            3 3322223334455677889999998765    35553 78887766654   2358899999999998 777776544


Q ss_pred             HHHHHHH--HccCcHHHHHHHHHHHhhccCCCCC--hhHHHHHH
Q 005481          422 LAVLSAC--SHSGLVEESQEYFSRLCNDKRMKPR--IEHYSCIV  461 (694)
Q Consensus       422 ~~ll~a~--~~~g~~~~a~~~~~~m~~~~~~~p~--~~~~~~li  461 (694)
                      .-|+-|-  ..-|....|+.+++++..  ++.+.  ...|+..|
T Consensus       588 iyLlYA~lEEe~GLar~amsiyerat~--~v~~a~~l~myni~I  629 (835)
T KOG2047|consen  588 IYLLYAKLEEEHGLARHAMSIYERATS--AVKEAQRLDMYNIYI  629 (835)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCHHHHHHHHHHHH
Confidence            4444332  345888888888888765  23332  33455544

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.33  E-value=1.9e-10  Score=111.37  Aligned_cols=197  Identities=14%  Similarity=0.136  Sum_probs=164.6

Q ss_pred             CchHHHHHhhhhhhcCCHHHHHHHHccCC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005481          351 DTSVSNSIVDMYLKCGLIDEATELFNEMP---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSA  427 (694)
Q Consensus       351 ~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a  427 (694)
                      ....+..+...|.+.|++++|.+.|++..   ..+...+..+...|...|++++|.+.+++..+.. +.+...+..+...
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            34566778888999999999999998765   2356788889999999999999999999998853 2345677788888


Q ss_pred             HHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChHHH
Q 005481          428 CSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKP-SIAIWQTLLSACRVHGDLELG  505 (694)
Q Consensus       428 ~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g~~~~a  505 (694)
                      +...|++++|.+.++.+.+..........+..+...+.+.|++++|.+.+++. ...| +...|..+...+...|++++|
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999999873222234567788899999999999999999987 3344 466788888899999999999


Q ss_pred             HHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          506 REVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       506 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      ...++++++..|+++..+..++.++...|++++|..+.+.+..
T Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       189 RAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            9999999999888888888999999999999999999887754

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.

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.29  E-value=1.3e-09  Score=114.84  Aligned_cols=444  Identities=12%  Similarity=0.065  Sum_probs=229.3

Q ss_pred             CCCCcccHHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHH
Q 005481           74 LERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNS  153 (694)
Q Consensus        74 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~  153 (694)
                      ..||.+||..+|.-|+..|+.+.|- +|..|.-.....+...|+.++.+....++.+.++           .|.+.+|+.
T Consensus        21 i~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------ep~aDtyt~   88 (1088)
T KOG4318|consen   21 ILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------EPLADTYTN   88 (1088)
T ss_pred             CCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------CCchhHHHH
Confidence            3467777888888787777777777 7777776666667777777777777777766655           566777788


Q ss_pred             HHHHHHhcCChHH---HHHHHccCCC-------CCc---------------ccHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 005481          154 IIDMYSKCGRINE---AARMFDVMPA-------KSL---------------ITWNAMIAGYVLAGYSDKGLLLFRKMQEH  208 (694)
Q Consensus       154 ll~~y~~~g~~~~---A~~~f~~~~~-------~~~---------------~~~~~li~~~~~~g~~~~A~~~~~~m~~~  208 (694)
                      |...|...|++..   .++.+..+..       ...               ..-...|.-.+-.|.++.+++++..|...
T Consensus        89 Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvs  168 (1088)
T KOG4318|consen   89 LLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVS  168 (1088)
T ss_pred             HHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcc
Confidence            8888887777554   2221111110       000               00111222333344444444444444221


Q ss_pred             CCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCCh-----h
Q 005481          209 GEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSV-----I  283 (694)
Q Consensus       209 g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~-----~  283 (694)
                      .-  +. ++..+++-+....  .-.+++........-.  ++..++.++++.-.-.|+++.|..++.+|.+++.     .
T Consensus       169 a~--~~-p~~vfLrqnv~~n--tpvekLl~~cksl~e~--~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~Hy  241 (1088)
T KOG4318|consen  169 AW--NA-PFQVFLRQNVVDN--TPVEKLLNMCKSLVEA--PTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHY  241 (1088)
T ss_pred             cc--cc-hHHHHHHHhccCC--chHHHHHHHHHHhhcC--CChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCccccc
Confidence            10  00 1111233332222  2223333322222112  5666677777777777777777777777765432     2


Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhh
Q 005481          284 SWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYL  363 (694)
Q Consensus       284 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~  363 (694)
                      .|-.++.    .++...+..+++-|+..|+.|++.|+..-+..+...|....+....    ......+..++.++..+..
T Consensus       242 FwpLl~g----~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~s----q~~hg~tAavrsaa~rg~~  313 (1088)
T KOG4318|consen  242 FWPLLLG----INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGS----QLAHGFTAAVRSAACRGLL  313 (1088)
T ss_pred             chhhhhc----CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhccccc----chhhhhhHHHHHHHhcccH
Confidence            2333322    5666666777777777777777777776666666544422222111    0000111222333333211


Q ss_pred             hcCCHHH--HHHHHccCC-------CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCCH-HHHHHHHHHHHcc
Q 005481          364 KCGLIDE--ATELFNEMP-------VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLD--DVEPDG-VAYLAVLSACSHS  431 (694)
Q Consensus       364 ~~g~~~~--A~~~~~~~~-------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~pd~-~t~~~ll~a~~~~  431 (694)
                      ...+++.  +.-+....+       .....+|. ++.-....|..++..++-..|..-  ...|+. ..|..++.-|.+.
T Consensus       314 a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws-~c~~l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lrqyFrr  392 (1088)
T KOG4318|consen  314 ANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWS-MCEKLRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLRQYFRR  392 (1088)
T ss_pred             hHHHHHHHHHHHHHHHhhHHHHhccccchHHHH-HHHHHHHcCCCchHHHHHhhhcCCccccCcchHHHHHHHHHHHHHH
Confidence            1111111  111111111       11223443 333344468888888888877642  233433 3455555544332


Q ss_pred             Cc--H-------HHHHHH----------HHHHhhccCCCCCh----------------------------hHHHHHHHHH
Q 005481          432 GL--V-------EESQEY----------FSRLCNDKRMKPRI----------------------------EHYSCIVDSL  464 (694)
Q Consensus       432 g~--~-------~~a~~~----------~~~m~~~~~~~p~~----------------------------~~~~~li~~~  464 (694)
                      -.  .       .++.+.          -+.+.   ...||.                            ..-+.++..+
T Consensus       393 ~e~~~~~~i~~~~qgls~~l~se~tp~vsell~---~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l  469 (1088)
T KOG4318|consen  393 IERHICSRIYYAGQGLSLNLNSEDTPRVSELLE---NLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTL  469 (1088)
T ss_pred             HHhhHHHHHHHHHHHHHhhhchhhhHHHHHHHH---HhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHH
Confidence            11  0       011111          00000   011211                            1123344444


Q ss_pred             HhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCC---CCcchHHHHHhHHHhcCCchHHHH
Q 005481          465 GRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDG---DNPVNYVMMSNIHADAGSWNECER  541 (694)
Q Consensus       465 ~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p---~~~~~~~~l~~~~~~~g~~~~a~~  541 (694)
                      .+.-+..+++...++....--...|..|+.-|..+...+.|.....+....+.   -+..-+..+.+++.+.+...++..
T Consensus       470 ~se~n~lK~l~~~ekye~~lf~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~t  549 (1088)
T KOG4318|consen  470 NSEYNKLKILCDEEKYEDLLFAGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLST  549 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHH
Confidence            44445555554443331111125678888888999999999888888765442   134567889999999999999999


Q ss_pred             HHHHHHh
Q 005481          542 LRKLARS  548 (694)
Q Consensus       542 ~~~~m~~  548 (694)
                      +.+.+.+
T Consensus       550 iL~e~ks  556 (1088)
T KOG4318|consen  550 ILYEDKS  556 (1088)
T ss_pred             HHhhhhH
Confidence            9999876

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.28  E-value=8.4e-09  Score=100.05  Aligned_cols=285  Identities=14%  Similarity=0.100  Sum_probs=180.6

Q ss_pred             cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHH
Q 005481          192 AGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEAR  271 (694)
Q Consensus       192 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~  271 (694)
                      .|++.+|.++..+-.+.+-.| ...|.....+.-+.|+.+.+-+.+.++.+.-..  ++..+.-+........|+++.|.
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~--~~l~v~ltrarlll~~~d~~aA~  173 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGD--DTLAVELTRARLLLNRRDYPAAR  173 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCC--chHHHHHHHHHHHHhCCCchhHH
Confidence            577888888877766665443 234555666777778888888888877776443  66777777777888888888887


Q ss_pred             HHHhhcC---CCChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCC
Q 005481          272 RVFDLIE---QKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPS  348 (694)
Q Consensus       272 ~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~  348 (694)
                      .-.+++.   .+++........+|.+.|++.+...++..|.+.|+--|+..                 .++         
T Consensus       174 ~~v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~-----------------~~l---------  227 (400)
T COG3071         174 ENVDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEA-----------------ARL---------  227 (400)
T ss_pred             HHHHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHH-----------------HHH---------
Confidence            7766543   45667788888889999999999999999888876544211                 111         


Q ss_pred             CCCchHHHHHhhhhhhcCCHHHHHHHHccCC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005481          349 GLDTSVSNSIVDMYLKCGLIDEATELFNEMP---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVL  425 (694)
Q Consensus       349 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll  425 (694)
                        ...+++.+++=....+..+.-...++..+   +.++..-.+++.-+.+.|+.++|.++..+..+.+..|...+    +
T Consensus       228 --e~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~----~  301 (400)
T COG3071         228 --EQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCR----L  301 (400)
T ss_pred             --HHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHH----H
Confidence              11223333333333333344444556555   23555666677778888888888888888888777776222    2


Q ss_pred             HHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChHH
Q 005481          426 SACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPSIAIWQTLLSACRVHGDLEL  504 (694)
Q Consensus       426 ~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~a~~~~g~~~~  504 (694)
                      -.+.+.++...-++..+...+..+-.|  ..+.+|...|.+.+.+.+|.+.|+.. +.+|+...|+-+..++-+.|+.++
T Consensus       302 ~~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~  379 (400)
T COG3071         302 IPRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEE  379 (400)
T ss_pred             HhhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHH
Confidence            245566666666666666555444444  44555556666666666666666544 555555556655556666666666


Q ss_pred             HHHHHHHHH
Q 005481          505 GREVGEILL  513 (694)
Q Consensus       505 a~~~~~~~~  513 (694)
                      |.+..++.+
T Consensus       380 A~~~r~e~L  388 (400)
T COG3071         380 AEQVRREAL  388 (400)
T ss_pred             HHHHHHHHH
Confidence            655555554

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.26  E-value=8.4e-08  Score=91.19  Aligned_cols=471  Identities=14%  Similarity=0.113  Sum_probs=243.6

Q ss_pred             HHhhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccCC---CCcccHHHHHHHHHhCCChHH
Q 005481           20 RCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLE---RNVVSWTALMCGFLQNGNAKA   96 (694)
Q Consensus        20 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~   96 (694)
                      .-+...+++..|..+++.-...+-.-...+---+...|-..|++++|..++..+.+   ++...|-.|.-++.-.|.+.+
T Consensus        30 edfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~e  109 (557)
T KOG3785|consen   30 EDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIE  109 (557)
T ss_pred             HHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHH
Confidence            33445566666766666554333111111111223345566777777777766533   344455555555555666666


Q ss_pred             HHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCCC
Q 005481           97 CLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPA  176 (694)
Q Consensus        97 A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~  176 (694)
                      |..+-....+     +..--..++...-+.++-++-..+|+.+...     ..-.-+|.++.--.-++.+|.+++.++..
T Consensus       110 A~~~~~ka~k-----~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL~  179 (557)
T KOG3785|consen  110 AKSIAEKAPK-----TPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVLQ  179 (557)
T ss_pred             HHHHHhhCCC-----ChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            6666544322     1112223334444556666666666655432     12233444444444467777777777664


Q ss_pred             C--CcccHHHHH-HHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccC--CchHHHHHHHHHHHhCCCCCcch
Q 005481          177 K--SLITWNAMI-AGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLG--SVGGGTQIHGFLITSGFPYSVKT  251 (694)
Q Consensus       177 ~--~~~~~~~li-~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~--~~~~a~~~~~~~~~~g~~~~~~~  251 (694)
                      .  +-...|.-+ -+|.+..-++-+.+++.--.+.  -||+ |+..=+.+|..-.  +-..+.+-...+...+-.  .- 
T Consensus       180 dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q--~pdS-tiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~--~~-  253 (557)
T KOG3785|consen  180 DNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ--FPDS-TIAKNLKACNLFRLINGRTAEDEKKELADNIDQ--EY-  253 (557)
T ss_pred             cChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh--CCCc-HHHHHHHHHHHhhhhccchhHHHHHHHHhcccc--cc-
Confidence            3  333444433 4566666677777766665543  1333 2333333333211  111222222222222211  00 


Q ss_pred             hhHHHHHHHHHHcC-----CHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHH
Q 005481          252 VIAGSLVDFYVKCG-----CLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGV  326 (694)
Q Consensus       252 ~~~~~li~~y~~~g-----~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~  326 (694)
                          ..+.-.++.+     .-+.|++++-.+.+.=+.+--.|+--|.+.++..+|..+.+++..  ..|-......+..+
T Consensus       254 ----~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~a  327 (557)
T KOG3785|consen  254 ----PFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVFA  327 (557)
T ss_pred             ----hhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhcCC--CChHHHHHHHHHHH
Confidence                0111122211     123344443332222222333455567788888888888776532  12322222222221


Q ss_pred             H-----hhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHH
Q 005481          327 F-----ADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKE  401 (694)
Q Consensus       327 ~-----~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  401 (694)
                      .     .....+.-|.+.+...-.++...|                              ++.--.+|.+.+.-..++++
T Consensus       328 alGQe~gSreHlKiAqqffqlVG~Sa~ecD------------------------------TIpGRQsmAs~fFL~~qFdd  377 (557)
T KOG3785|consen  328 ALGQETGSREHLKIAQQFFQLVGESALECD------------------------------TIPGRQSMASYFFLSFQFDD  377 (557)
T ss_pred             HhhhhcCcHHHHHHHHHHHHHhcccccccc------------------------------cccchHHHHHHHHHHHHHHH
Confidence            1     111223344444444333333222                              22233455556666666777


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHH-HHHHHHHHhcCChHHHHHHHHhC
Q 005481          402 AVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHY-SCIVDSLGRAGRLDEAKNLIESM  480 (694)
Q Consensus       402 A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~-~~li~~~~~~g~~~~A~~~~~~~  480 (694)
                      .+..++....-- ..|..--..+..|....|.+.+|.++|-.+.. ..++ |..+| ..|...|.+.|+++-|++++-++
T Consensus       378 Vl~YlnSi~sYF-~NdD~Fn~N~AQAk~atgny~eaEelf~~is~-~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~  454 (557)
T KOG3785|consen  378 VLTYLNSIESYF-TNDDDFNLNLAQAKLATGNYVEAEELFIRISG-PEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKT  454 (557)
T ss_pred             HHHHHHHHHHHh-cCcchhhhHHHHHHHHhcChHHHHHHHhhhcC-hhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhc
Confidence            777776666542 33333334567788888999999998877744 2222 33344 44567888999999999999888


Q ss_pred             CCCCCHHHHHHHHH-HHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCCCccCC
Q 005481          481 PVKPSIAIWQTLLS-ACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVA  555 (694)
Q Consensus       481 ~~~p~~~~~~~ll~-a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~  555 (694)
                      ..+.+..+.-.++. -|.+.+.+--|-++|..+-.++|. |+.|         .|+-....-++..+....-++.|
T Consensus       455 ~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~-pEnW---------eGKRGACaG~f~~l~~~~~~~~p  520 (557)
T KOG3785|consen  455 NTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPT-PENW---------EGKRGACAGLFRQLANHKTDPIP  520 (557)
T ss_pred             CCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCC-cccc---------CCccchHHHHHHHHHcCCCCCCc
Confidence            65556666555554 688999998888999988888886 4444         24444455566655544333333

>PF13041 PPR_2: PPR repeat family

Probab=99.26  E-value=8.4e-12  Score=87.25  Aligned_cols=50  Identities=26%  Similarity=0.519  Sum_probs=47.7

Q ss_pred             CCcccHHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcc
Q 005481           76 RNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGV  125 (694)
Q Consensus        76 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  125 (694)
                      ||+++||++|++|++.|++++|+++|++|.+.|++||..||+.+|++|++
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            78999999999999999999999999999999999999999999999875

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.25  E-value=5.7e-08  Score=101.74  Aligned_cols=401  Identities=16%  Similarity=0.135  Sum_probs=259.9

Q ss_pred             hCCCCChhHHHHHHHHHHhcCChHHHHHHHccCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhh-H
Q 005481          142 SGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPA---KSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFT-F  217 (694)
Q Consensus       142 ~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t-~  217 (694)
                      ..+..|..+|..|.-+...+|+++.+.+.|++...   .....|+.+-..|...|.-..|+.+++.-......|+..+ +
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            34567889999999999999999999999988764   2456799999999999999999999988765443454444 3


Q ss_pred             HHHHHHHc-ccCCchHHHHHHHHHHHh--CCCCCcchhhHHHHHHHHHHcC-----------CHHHHHHHHhhcCC---C
Q 005481          218 TSTLKACG-SLGSVGGGTQIHGFLITS--GFPYSVKTVIAGSLVDFYVKCG-----------CLVEARRVFDLIEQ---K  280 (694)
Q Consensus       218 ~~ll~a~~-~~~~~~~a~~~~~~~~~~--g~~~~~~~~~~~~li~~y~~~g-----------~~~~A~~~f~~~~~---~  280 (694)
                      ...-+.|. +.+..+++..+-..++..  +.........+..+.-+|...-           ...++...+++..+   .
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            33334444 346677777766666652  2111133444555555554321           23345555665532   2


Q ss_pred             ChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhc-CCCCCchHHHHHh
Q 005481          281 SVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKV-PSGLDTSVSNSIV  359 (694)
Q Consensus       281 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~-~~~~~~~~~~~li  359 (694)
                      |+.+-.-+.--|+..++.+.|++..++...-+-.-+...+..+.-.++..+++..|..+.+..... |.......  .-+
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 DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMD--GKI  554 (799)
T ss_pred             CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhch--hhh
Confidence            332222333456677889999999999888765667777777777788888899998888765542 22111100  011


Q ss_pred             hhhhhcCCHHHHHHHHccC--------------------------C----C-CChh-hHHHHHHHHHhcCCHHHHHHHHH
Q 005481          360 DMYLKCGLIDEATELFNEM--------------------------P----V-KNVV-TWTVIITGYGKHGLAKEAVGLFR  407 (694)
Q Consensus       360 ~~y~~~g~~~~A~~~~~~~--------------------------~----~-~~~~-~~~~li~~~~~~g~~~~A~~~~~  407 (694)
                      ..-...++.++|......+                          .    + .+.. ++..+ .+... -+.+.+..-..
T Consensus       555 ~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~l-s~l~a-~~~~~~~se~~  632 (799)
T KOG4162|consen  555 HIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYL-SSLVA-SQLKSAGSELK  632 (799)
T ss_pred             hhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHH-HHHHH-hhhhhcccccc
Confidence            1111234444443332221                          1    0 1111 11111 11111 11111100000


Q ss_pred             HHHHCCCCCCH--------HHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCC-ChhHHHHHHHHHHhcCChHHHHHHHH
Q 005481          408 KMLLDDVEPDG--------VAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKP-RIEHYSCIVDSLGRAGRLDEAKNLIE  478 (694)
Q Consensus       408 ~m~~~g~~pd~--------~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~  478 (694)
                       |...-+.|+.        ..|......+...+..++|...+.++.+   +.| ....|.-....+...|.++||.+.|.
T Consensus       633 -Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~---~~~l~~~~~~~~G~~~~~~~~~~EA~~af~  708 (799)
T KOG4162|consen  633 -LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK---IDPLSASVYYLRGLLLEVKGQLEEAKEAFL  708 (799)
T ss_pred             -cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh---cchhhHHHHHHhhHHHHHHHhhHHHHHHHH
Confidence             1111122222        1244555677888999999988888865   444 35567777888999999999999988


Q ss_pred             hC-CCCCC-HHHHHHHHHHHHhcCChHHHHH--HHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCC
Q 005481          479 SM-PVKPS-IAIWQTLLSACRVHGDLELGRE--VGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKG  550 (694)
Q Consensus       479 ~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~--~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  550 (694)
                      .. .+.|+ +.+..++...+...|+...|..  +...+++++|.++.+|..++.++.+.|+.++|.+.|.......
T Consensus       709 ~Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe  784 (799)
T KOG4162|consen  709 VALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLE  784 (799)
T ss_pred             HHHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhc
Confidence            77 67776 5678888889999999988888  9999999999999999999999999999999999999887643

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.24  E-value=8e-08  Score=93.28  Aligned_cols=302  Identities=11%  Similarity=0.019  Sum_probs=216.9

Q ss_pred             CChhhHHHHHHHHcc--cCCchHHHHHHHHHHHh-CCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCChhhHHH-
Q 005481          212 PDEFTFTSTLKACGS--LGSVGGGTQIHGFLITS-GFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSS-  287 (694)
Q Consensus       212 p~~~t~~~ll~a~~~--~~~~~~a~~~~~~~~~~-g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~-  287 (694)
                      |+..+...-+.++++  .++-..+.+.+..+... .++  .++....++.+.|...|+.++|...|++..--|+.+..+ 
T Consensus       192 ~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr--~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~M  269 (564)
T KOG1174|consen  192 DHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLR--CNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAM  269 (564)
T ss_pred             CCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCC--ccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhH
Confidence            444444444554443  34444455555544443 344  788899999999999999999999999876544433332 


Q ss_pred             --HHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhc
Q 005481          288 --LILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKC  365 (694)
Q Consensus       288 --li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~  365 (694)
                        ..-.+.+.|++++...+...+.... +-...-|..-+...-...+++.|..+-+..++.... +...+-.-...+...
T Consensus       270 D~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~  347 (564)
T KOG1174|consen  270 DLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIAL  347 (564)
T ss_pred             HHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhc
Confidence              2334567888988888888776532 112222333333444567788888877777765433 333333334566778


Q ss_pred             CCHHHHHHHHccCC--C-CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH-HHHHc-cCcHHHHHHH
Q 005481          366 GLIDEATELFNEMP--V-KNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVL-SACSH-SGLVEESQEY  440 (694)
Q Consensus       366 g~~~~A~~~~~~~~--~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll-~a~~~-~g~~~~a~~~  440 (694)
                      |+.++|.-.|+...  . -+..+|..|+.+|...|++.+|..+-+..... +..+..+...+. ..|.- ...-++|..+
T Consensus       348 ~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf  426 (564)
T KOG1174|consen  348 ERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKF  426 (564)
T ss_pred             cchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHH
Confidence            99999999998765  3 47889999999999999999999888776653 344556665553 34432 3345789999


Q ss_pred             HHHHhhccCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCC
Q 005481          441 FSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGD  518 (694)
Q Consensus       441 ~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~  518 (694)
                      +++..+   ++|+ ....+.+..++.+.|+.+++..++++. ...||....+.|...++..+.+++|...|..++.++|+
T Consensus       427 ~ek~L~---~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~  503 (564)
T KOG1174|consen  427 AEKSLK---INPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPK  503 (564)
T ss_pred             HHhhhc---cCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCcc
Confidence            998876   6787 456778889999999999999999987 77899999999999999999999999999999999998


Q ss_pred             Ccc
Q 005481          519 NPV  521 (694)
Q Consensus       519 ~~~  521 (694)
                      +..
T Consensus       504 ~~~  506 (564)
T KOG1174|consen  504 SKR  506 (564)
T ss_pred             chH
Confidence            744

>PF13041 PPR_2: PPR repeat family

Probab=99.23  E-value=2.8e-11  Score=84.58  Aligned_cols=50  Identities=32%  Similarity=0.595  Sum_probs=47.3

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 005481          381 KNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSH  430 (694)
Q Consensus       381 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~  430 (694)
                      ||+++||++|.+|++.|++++|.++|++|.+.|+.||..||+.++++|++
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            78999999999999999999999999999999999999999999999864

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.21  E-value=2.8e-09  Score=110.89  Aligned_cols=230  Identities=17%  Similarity=0.153  Sum_probs=166.6

Q ss_pred             cchHHHHHHHhhhccHHHHHHHHHHHHhc-----CC-CCCc-hHHHHHhhhhhhcCCHHHHHHHHccCCC----------
Q 005481          318 FVLSSMMGVFADFALVEQGKQIHAYAAKV-----PS-GLDT-SVSNSIVDMYLKCGLIDEATELFNEMPV----------  380 (694)
Q Consensus       318 ~t~~~ll~~~~~~~~~~~a~~i~~~~~~~-----~~-~~~~-~~~~~li~~y~~~g~~~~A~~~~~~~~~----------  380 (694)
                      .|+..+...|...|+++.|..++...++.     |. .+.+ ...+.+..+|...+++++|..+|+++..          
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            34455666667777777777766655443     21 1111 1223466788889999999888887751          


Q ss_pred             C-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCC-CCH-HHHHHHHHHHHccCcHHHHHHHHHHHhhccC--C
Q 005481          381 K-NVVTWTVIITGYGKHGLAKEAVGLFRKMLL-----DDVE-PDG-VAYLAVLSACSHSGLVEESQEYFSRLCNDKR--M  450 (694)
Q Consensus       381 ~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~-pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~--~  450 (694)
                      | -..+++.|...|...|++++|...+++..+     .|.. |.. .-++.+...|...+.+++|..+++...+.+.  .
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence            1 234778888899999999998888777654     2222 222 2466777789999999999999998766443  2


Q ss_pred             CCC----hhHHHHHHHHHHhcCChHHHHHHHHhC---------CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHc--
Q 005481          451 KPR----IEHYSCIVDSLGRAGRLDEAKNLIESM---------PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLR--  514 (694)
Q Consensus       451 ~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~---------~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~--  514 (694)
                      .++    ..+++.|...|...|+++||+++++++         ...+. ....+.|..+|.+.++++.|.++|.+...  
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~  439 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIM  439 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence            222    457999999999999999999999887         11222 34577888899999999999998887764  


Q ss_pred             --CCCCC---cchHHHHHhHHHhcCCchHHHHHHHHHH
Q 005481          515 --LDGDN---PVNYVMMSNIHADAGSWNECERLRKLAR  547 (694)
Q Consensus       515 --~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~  547 (694)
                        ..|++   ..+|..|+.+|.+.|++++|.++.....
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence              34544   4678899999999999999999988875

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.20  E-value=2.4e-08  Score=93.93  Aligned_cols=310  Identities=13%  Similarity=0.084  Sum_probs=198.9

Q ss_pred             cCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCC-CCh------hhHHHHHHHHHhCCCHH
Q 005481          227 LGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQ-KSV------ISWSSLILGYAQEENLA  299 (694)
Q Consensus       227 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~-~~~------~~~~~li~~~~~~g~~~  299 (694)
                      ..+.++|...|-+|.+...   .+..+.-+|.+.|-+.|.+|.|+++-+.+.+ ||.      .+.-.|..-|...|-++
T Consensus        48 s~Q~dKAvdlF~e~l~~d~---~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~D  124 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDP---ETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLD  124 (389)
T ss_pred             hcCcchHHHHHHHHHhcCc---hhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhh
Confidence            3567777777777777544   4556666777788888888888887777654 332      22334556677777777


Q ss_pred             HHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCC
Q 005481          300 EAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMP  379 (694)
Q Consensus       300 ~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~  379 (694)
                      .|..+|..+.+.|.- -......++..|-...++++|..+-....+.+..+...   -+..                   
T Consensus       125 RAE~~f~~L~de~ef-a~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~---eIAq-------------------  181 (389)
T COG2956         125 RAEDIFNQLVDEGEF-AEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRV---EIAQ-------------------  181 (389)
T ss_pred             HHHHHHHHHhcchhh-hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchh---HHHH-------------------
Confidence            777777777664311 11223334444444444444444444333333221100   0111                   


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHH
Q 005481          380 VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGV-AYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYS  458 (694)
Q Consensus       380 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~  458 (694)
                           .|--+...+....+.+.|..++.+..+.  .|+.+ .-..+.+.....|+++.|.+.++.+.+ .+..--.++..
T Consensus       182 -----fyCELAq~~~~~~~~d~A~~~l~kAlqa--~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~e-Qn~~yl~evl~  253 (389)
T COG2956         182 -----FYCELAQQALASSDVDRARELLKKALQA--DKKCVRASIILGRVELAKGDYQKAVEALERVLE-QNPEYLSEVLE  253 (389)
T ss_pred             -----HHHHHHHHHhhhhhHHHHHHHHHHHHhh--CccceehhhhhhHHHHhccchHHHHHHHHHHHH-hChHHHHHHHH
Confidence                 2344556666778899999999999884  45553 334566778889999999999999987 32222356788


Q ss_pred             HHHHHHHhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHH--HhcCC
Q 005481          459 CIVDSLGRAGRLDEAKNLIESM-PVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIH--ADAGS  535 (694)
Q Consensus       459 ~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~--~~~g~  535 (694)
                      .|..+|...|+.++...++.++ ...+....-..+-..-....-.+.|...+.+-+...|+-...|-.+-.-.  +..|+
T Consensus       254 ~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~l~daeeg~  333 (389)
T COG2956         254 MLYECYAQLGKPAEGLNFLRRAMETNTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYHLADAEEGR  333 (389)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHccCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhhhccccccc
Confidence            8999999999999999999887 44555555555555444445567788888888888897545554443333  34567


Q ss_pred             chHHHHHHHHHHhCCCccCCceeEEEECCEEEEEE
Q 005481          536 WNECERLRKLARSKGLKKVAGRSWVEVDKEIHFFY  570 (694)
Q Consensus       536 ~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~~~~f~  570 (694)
                      +.+..-+++.|....++..|.+..-.-+-..|.|.
T Consensus       334 ~k~sL~~lr~mvge~l~~~~~YRC~~CGF~a~~l~  368 (389)
T COG2956         334 AKESLDLLRDMVGEQLRRKPRYRCQNCGFTAHTLY  368 (389)
T ss_pred             hhhhHHHHHHHHHHHHhhcCCceecccCCcceeee
Confidence            99999999999887777777655544444445553

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.17  E-value=1.2e-06  Score=89.89  Aligned_cols=488  Identities=11%  Similarity=0.114  Sum_probs=304.9

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHhccCC-----CCcccHHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHH
Q 005481           47 LMLNNDLIDMYAKCGEMNGACAVFDKMLE-----RNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIK  121 (694)
Q Consensus        47 ~~~~~~li~~~~~~g~~~~A~~~f~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  121 (694)
                      +.+|-..+....++|++...+..|++...     .....|...+.-....+-++-++.++++.++-  .|.  .-.--|.
T Consensus       102 pRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~--~P~--~~eeyie  177 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV--APE--AREEYIE  177 (835)
T ss_pred             CHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc--CHH--HHHHHHH
Confidence            35566667777889999999999988643     24456999999999999999999999998763  443  3566677


Q ss_pred             HhcccCChHHHHHHHHHHHHhC------CCCChhHHHHHHHHHHhcCCh---HHHHHHHccCCCC--C--cccHHHHHHH
Q 005481          122 ASGVLSSVENGMQIHGMCMKSG------FEWNPVVGNSIIDMYSKCGRI---NEAARMFDVMPAK--S--LITWNAMIAG  188 (694)
Q Consensus       122 a~~~~~~~~~a~~~~~~~~~~g------~~~~~~~~~~ll~~y~~~g~~---~~A~~~f~~~~~~--~--~~~~~~li~~  188 (694)
                      .++..+++++|.+.+..++...      .+.+...|.-+.+..++.-+.   -....+++.+..+  |  -..|++|..-
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            7888899999999888876431      244555677666666655332   2334455555443  3  3479999999


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCC----------------------chHHHHHHHHHHHhCCC
Q 005481          189 YVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGS----------------------VGGGTQIHGFLITSGFP  246 (694)
Q Consensus       189 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~----------------------~~~a~~~~~~~~~~g~~  246 (694)
                      |.+.|.+++|.++|++-...-.  ...-|+.+.++|++-..                      ++....-++.+...++.
T Consensus       258 YIr~g~~ekarDvyeeai~~v~--tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~  335 (835)
T KOG2047|consen  258 YIRSGLFEKARDVYEEAIQTVM--TVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPL  335 (835)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhe--ehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccch
Confidence            9999999999999998766422  33345555555543211                      12222333333332211


Q ss_pred             C---------CcchhhHHHHHHHHHHcCCHHHHHHHHhhcCC---C------ChhhHHHHHHHHHhCCCHHHHHHHHHHH
Q 005481          247 Y---------SVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQ---K------SVISWSSLILGYAQEENLAEAMELFRQL  308 (694)
Q Consensus       247 ~---------~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~------~~~~~~~li~~~~~~g~~~~A~~~~~~m  308 (694)
                      .         ..++..|..-+..  ..|+..+-...|.+...   |      -...|..+...|-.+|+.+.|..+|++.
T Consensus       336 ~lNsVlLRQn~~nV~eW~kRV~l--~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka  413 (835)
T KOG2047|consen  336 LLNSVLLRQNPHNVEEWHKRVKL--YEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKA  413 (835)
T ss_pred             HHHHHHHhcCCccHHHHHhhhhh--hcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHh
Confidence            0         0112222222221  23444455555544321   1      1246888999999999999999999887


Q ss_pred             HhcCCccCccchHHHHHHH-------hhhccHHHHHHHHHHHHhcCCC-----------C------CchHHHHHhhhhhh
Q 005481          309 RERSLQVDGFVLSSMMGVF-------ADFALVEQGKQIHAYAAKVPSG-----------L------DTSVSNSIVDMYLK  364 (694)
Q Consensus       309 ~~~g~~pd~~t~~~ll~~~-------~~~~~~~~a~~i~~~~~~~~~~-----------~------~~~~~~~li~~y~~  364 (694)
                      .+-    +-.+..-|-...       .+..+++.|..+.+.+....-.           +      +..+|+.+++.--.
T Consensus       414 ~~V----~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs  489 (835)
T KOG2047|consen  414 TKV----PYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEES  489 (835)
T ss_pred             hcC----CccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHH
Confidence            653    222333333322       3445677777776665432211           1      23355566666667


Q ss_pred             cCCHHHHHHHHccCCCCChhhHHH---HHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHH---ccCcHHHH
Q 005481          365 CGLIDEATELFNEMPVKNVVTWTV---IITGYGKHGLAKEAVGLFRKMLLDDVEPDG-VAYLAVLSACS---HSGLVEES  437 (694)
Q Consensus       365 ~g~~~~A~~~~~~~~~~~~~~~~~---li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~a~~---~~g~~~~a  437 (694)
                      .|-++....+++++.+--+.|=..   ...-+-.+.-++++.++|++-+..=--|+. ..|+..|.-+.   ....++.|
T Consensus       490 ~gtfestk~vYdriidLriaTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEra  569 (835)
T KOG2047|consen  490 LGTFESTKAVYDRIIDLRIATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERA  569 (835)
T ss_pred             hccHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHH
Confidence            888888888888887432222111   122344567788999888876654334665 34555555443   23478999


Q ss_pred             HHHHHHHhhccCCCCChh--HHHHHHHHHHhcCChHHHHHHHHhC--CCCCC--HHHHHHHHHHHHhcCChHHHHHHHHH
Q 005481          438 QEYFSRLCNDKRMKPRIE--HYSCIVDSLGRAGRLDEAKNLIESM--PVKPS--IAIWQTLLSACRVHGDLELGREVGEI  511 (694)
Q Consensus       438 ~~~~~~m~~~~~~~p~~~--~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~--~~~~~~ll~a~~~~g~~~~a~~~~~~  511 (694)
                      +.+|+++.+  +.+|...  .|-.....=-+-|....|+++++++  .+++.  ...|+..|.--...=-+..-..+|++
T Consensus       570 RdLFEqaL~--~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~v~~a~~l~myni~I~kaae~yGv~~TR~iYek  647 (835)
T KOG2047|consen  570 RDLFEQALD--GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSAVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEK  647 (835)
T ss_pred             HHHHHHHHh--cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHH
Confidence            999999987  4555422  1222223333568889999999998  34443  33577777633322224556789999


Q ss_pred             HHcCCCCCcc--hHHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          512 LLRLDGDNPV--NYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       512 ~~~~~p~~~~--~~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      +++.-|++..  ...-.+++=.+.|..+.|+.++..-.+
T Consensus       648 aIe~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq  686 (835)
T KOG2047|consen  648 AIESLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQ  686 (835)
T ss_pred             HHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhh
Confidence            9998887533  333457778899999999999887654

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

Probab=99.14  E-value=7.3e-07  Score=90.43  Aligned_cols=286  Identities=14%  Similarity=0.039  Sum_probs=188.5

Q ss_pred             cccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHH
Q 005481          179 LITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLV  258 (694)
Q Consensus       179 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li  258 (694)
                      +...-.-..-+...+++.+.+++++...+.. ++....+..-|..+...|+..+-..+-..+++.-+   ....+|-++.
T Consensus       244 ~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP---~~a~sW~aVg  319 (611)
T KOG1173|consen  244 LDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYP---SKALSWFAVG  319 (611)
T ss_pred             HHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCC---CCCcchhhHH
Confidence            3344444556677889999999999987753 34555555556677777877776666667776655   6778888999


Q ss_pred             HHHHHcCCHHHHHHHHhhcCCCC---hhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHH
Q 005481          259 DFYVKCGCLVEARRVFDLIEQKS---VISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQ  335 (694)
Q Consensus       259 ~~y~~~g~~~~A~~~f~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~  335 (694)
                      -.|.-.|+.++|++.|.....-|   ...|-.....|+-.|..++|+..+...-+. ++-..--+.-+.--|...++++.
T Consensus       320 ~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kL  398 (611)
T KOG1173|consen  320 CYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKL  398 (611)
T ss_pred             HHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHH
Confidence            98999999999999998765433   367999999999999999999988877653 11111122223334566677777


Q ss_pred             HHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 005481          336 GKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVE  415 (694)
Q Consensus       336 a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  415 (694)
                      |.+++..+....+ .|+.+.+-+.-+..+.+.+.+|..+|+....                        ..+....+ ..
T Consensus       399 Ae~Ff~~A~ai~P-~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~------------------------~ik~~~~e-~~  452 (611)
T KOG1173|consen  399 AEKFFKQALAIAP-SDPLVLHELGVVAYTYEEYPEALKYFQKALE------------------------VIKSVLNE-KI  452 (611)
T ss_pred             HHHHHHHHHhcCC-CcchhhhhhhheeehHhhhHHHHHHHHHHHH------------------------Hhhhcccc-cc
Confidence            7777766655432 2555555555555555555555555544320                        00000000 00


Q ss_pred             CCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCCHHHHHHHHH
Q 005481          416 PDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPSIAIWQTLLS  494 (694)
Q Consensus       416 pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~  494 (694)
                      --..+++.|..+|.+.+.+++|+..|+.....  .+-+..++.++.-.|...|+++.|.+.|.+. .++||..+-..++.
T Consensus       453 ~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l--~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~  530 (611)
T KOG1173|consen  453 FWEPTLNNLGHAYRKLNKYEEAIDYYQKALLL--SPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLK  530 (611)
T ss_pred             chhHHHHhHHHHHHHHhhHHHHHHHHHHHHHc--CCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHH
Confidence            12346777777788888888888888877662  2335677778888888888888888888776 67787777666666


Q ss_pred             HHH
Q 005481          495 ACR  497 (694)
Q Consensus       495 a~~  497 (694)
                      .+.
T Consensus       531 ~ai  533 (611)
T KOG1173|consen  531 LAI  533 (611)
T ss_pred             HHH
Confidence            544

>PRK12370 invasion protein regulator; Provisional

Probab=99.14  E-value=8.7e-09  Score=112.61  Aligned_cols=244  Identities=11%  Similarity=0.010  Sum_probs=174.1

Q ss_pred             CHHHHHHHHHHHHhcCCccCcc-chHHHHHHHh---------hhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcC
Q 005481          297 NLAEAMELFRQLRERSLQVDGF-VLSSMMGVFA---------DFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCG  366 (694)
Q Consensus       297 ~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~~~~---------~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g  366 (694)
                      ..++|+.+|++..+.  .|+.. .+..+..++.         ..++++.|...+..+++.... +...+..+..++...|
T Consensus       276 ~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~-~~~a~~~lg~~~~~~g  352 (553)
T PRK12370        276 SLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHN-NPQALGLLGLINTIHS  352 (553)
T ss_pred             HHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcc
Confidence            456888888887764  55543 2333322222         224478888888888877543 5677778888899999


Q ss_pred             CHHHHHHHHccCC--CC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHccCcHHHHHHHHH
Q 005481          367 LIDEATELFNEMP--VK-NVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGV-AYLAVLSACSHSGLVEESQEYFS  442 (694)
Q Consensus       367 ~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~a~~~~g~~~~a~~~~~  442 (694)
                      ++++|...|++..  .| +...|..+...+...|++++|+..+++..+.  .|+.. .+..++..+...|++++|...++
T Consensus       353 ~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l--~P~~~~~~~~~~~~~~~~g~~eeA~~~~~  430 (553)
T PRK12370        353 EYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKL--DPTRAAAGITKLWITYYHTGIDDAIRLGD  430 (553)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHhccCHHHHHHHHH
Confidence            9999999999876  33 4667888999999999999999999999984  56542 33334445666899999999999


Q ss_pred             HHhhccCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCCHHH-HHHHHHHHHhcCChHHHHHHHHHHHcCCCCC
Q 005481          443 RLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPSIAI-WQTLLSACRVHGDLELGREVGEILLRLDGDN  519 (694)
Q Consensus       443 ~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~-~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~  519 (694)
                      ++.+..  .|+ ...+..+...|...|++++|.+.++++ +..|+... ++.+...+...|  +.|...++++++..-..
T Consensus       431 ~~l~~~--~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~  506 (553)
T PRK12370        431 ELRSQH--LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRI  506 (553)
T ss_pred             HHHHhc--cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHh
Confidence            987621  353 455778889999999999999999987 55555444 555555666666  47888888877643222


Q ss_pred             cchHHHHHhHHHhcCCchHHHHHHHHHHhCC
Q 005481          520 PVNYVMMSNIHADAGSWNECERLRKLARSKG  550 (694)
Q Consensus       520 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  550 (694)
                      +.....+..+|+-.|+-+.+..+ +.+.+.+
T Consensus       507 ~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        507 DNNPGLLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             hcCchHHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            22333477788888998888877 6666543

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.13  E-value=8.1e-08  Score=93.37  Aligned_cols=284  Identities=12%  Similarity=0.039  Sum_probs=173.0

Q ss_pred             CCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHH
Q 005481           91 NGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARM  170 (694)
Q Consensus        91 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~  170 (694)
                      .|++.+|.++..+-.+.+-.| ...|.....+.-..|+.+.+-+++.++.+.--.++..++-+........|+.+.|..-
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            678888888888766665443 2345555566677788888888888887764456666677777777778888888776


Q ss_pred             HccCC---CCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCC
Q 005481          171 FDVMP---AKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPY  247 (694)
Q Consensus       171 f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~  247 (694)
                      .++..   .++.........+|.+.|++...+.++..|.+.|+--|+..-.                             
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~-----------------------------  226 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAAR-----------------------------  226 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHH-----------------------------
Confidence            65543   3567777888888888888888888888888877654432110                             


Q ss_pred             CcchhhHHHHHHHHHHcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHH
Q 005481          248 SVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQ---KSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMM  324 (694)
Q Consensus       248 ~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll  324 (694)
                       ....+++.+++-....+..+.-...++..+.   .++..-.+++.-+.+.|+.++|.++..+..+.+..|+    -..+
T Consensus       227 -le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~  301 (400)
T COG3071         227 -LEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRL  301 (400)
T ss_pred             -HHHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHH
Confidence             1112222333322222333333334555442   3455556677777788888888888888777766665    1122


Q ss_pred             HHHhhhccHHHHHHHHHHHHh-cCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCC--CCChhhHHHHHHHHHhcCCHHH
Q 005481          325 GVFADFALVEQGKQIHAYAAK-VPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMP--VKNVVTWTVIITGYGKHGLAKE  401 (694)
Q Consensus       325 ~~~~~~~~~~~a~~i~~~~~~-~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~  401 (694)
                      -.+.+.++.+.-.+..+...+ .+.  ++..+.+|...|.+.+.+.+|...|+...  .++..+|+-+..+|.+.|+..+
T Consensus       302 ~~~l~~~d~~~l~k~~e~~l~~h~~--~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~  379 (400)
T COG3071         302 IPRLRPGDPEPLIKAAEKWLKQHPE--DPLLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEE  379 (400)
T ss_pred             HhhcCCCCchHHHHHHHHHHHhCCC--ChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHH
Confidence            233444444444444443332 232  33555666666666666666666666544  3555666666666666666666


Q ss_pred             HHHHHHHHHH
Q 005481          402 AVGLFRKMLL  411 (694)
Q Consensus       402 A~~~~~~m~~  411 (694)
                      |.+.+++.+.
T Consensus       380 A~~~r~e~L~  389 (400)
T COG3071         380 AEQVRREALL  389 (400)
T ss_pred             HHHHHHHHHH
Confidence            6666655543

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.11  E-value=3.6e-06  Score=85.93  Aligned_cols=459  Identities=12%  Similarity=0.081  Sum_probs=247.9

Q ss_pred             HHHHHhhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccCCCCcccHHH--HHHHH--HhCC
Q 005481           17 DSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTA--LMCGF--LQNG   92 (694)
Q Consensus        17 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~--li~~~--~~~g   92 (694)
                      +=|.-....+++++|.+.-..++..+ +.|...+.+-+-+..+.+++++|+.+.+.-....  +++.  +=.+|  .+.+
T Consensus        17 t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~--~~~~~~fEKAYc~Yrln   93 (652)
T KOG2376|consen   17 TDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGALL--VINSFFFEKAYCEYRLN   93 (652)
T ss_pred             HHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhh--hcchhhHHHHHHHHHcc
Confidence            34455667889999999999998877 5666777777777888999999997766544211  1222  23344  4788


Q ss_pred             ChHHHHHHHHHhhhCCCCCCc-eeHHHHHHHhcccCChHHHHHHHHHHHHhCCCC-ChhHHHHHHHHHHhcCChHHHHHH
Q 005481           93 NAKACLSLFCQMGSSSVKPNE-FTLSTNIKASGVLSSVENGMQIHGMCMKSGFEW-NPVVGNSIIDMYSKCGRINEAARM  170 (694)
Q Consensus        93 ~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~-~~~~~~~ll~~y~~~g~~~~A~~~  170 (694)
                      ..++|+..++.     ..++. .+...-...|.+.+++++|..+|..+.+++.+. |...-..++..-.    .-.+. +
T Consensus        94 k~Dealk~~~~-----~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a----~l~~~-~  163 (652)
T KOG2376|consen   94 KLDEALKTLKG-----LDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAA----ALQVQ-L  163 (652)
T ss_pred             cHHHHHHHHhc-----ccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHH----hhhHH-H
Confidence            99999999883     33333 355555566889999999999999998886432 2222222222211    11121 3


Q ss_pred             HccCCCCCcccHHHHH---HHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCC
Q 005481          171 FDVMPAKSLITWNAMI---AGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPY  247 (694)
Q Consensus       171 f~~~~~~~~~~~~~li---~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~  247 (694)
                      .+..+.....+|..+-   -.+...|++.+|++++....+-+.+           .+. .++.. -..+-.+        
T Consensus       164 ~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e-----------~l~-~~d~~-eEeie~e--------  222 (652)
T KOG2376|consen  164 LQSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICRE-----------KLE-DEDTN-EEEIEEE--------  222 (652)
T ss_pred             HHhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH-----------hhc-ccccc-hhhHHHH--------
Confidence            4445544344444443   3466789999999999887432110           000 00000 0000000        


Q ss_pred             CcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCC---Ch----hhHHHHHHHHHhCCCHH-HHHHHHHHHHhcCCccCccc
Q 005481          248 SVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQK---SV----ISWSSLILGYAQEENLA-EAMELFRQLRERSLQVDGFV  319 (694)
Q Consensus       248 ~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~---~~----~~~~~li~~~~~~g~~~-~A~~~~~~m~~~g~~pd~~t  319 (694)
                       . ..+.--|.-.+...|+.++|..++..+...   |.    +.-|.|+..-....-++ .++..++.....        
T Consensus       223 -l-~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~--------  292 (652)
T KOG2376|consen  223 -L-NPIRVQLAYVLQLQGQTAEASSIYVDIIKRNPADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFK--------  292 (652)
T ss_pred             -H-HHHHHHHHHHHHHhcchHHHHHHHHHHHHhcCCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHH--------
Confidence             0 011112333444555555555555544322   11    22233332221111111 222222221110        


Q ss_pred             hHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCCC-hhhHHHHHHHHHh--c
Q 005481          320 LSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKN-VVTWTVIITGYGK--H  396 (694)
Q Consensus       320 ~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~-~~~~~~li~~~~~--~  396 (694)
                      +.            +....-+..-.+.    ....-+.++.+|.  +..+.++++-...+..- ...+.+++....+  .
T Consensus       293 l~------------~~~l~~Ls~~qk~----~i~~N~~lL~l~t--nk~~q~r~~~a~lp~~~p~~~~~~ll~~~t~~~~  354 (652)
T KOG2376|consen  293 LA------------EFLLSKLSKKQKQ----AIYRNNALLALFT--NKMDQVRELSASLPGMSPESLFPILLQEATKVRE  354 (652)
T ss_pred             hH------------HHHHHHHHHHHHH----HHHHHHHHHHHHh--hhHHHHHHHHHhCCccCchHHHHHHHHHHHHHHH
Confidence            00            0000000000000    1111234555554  45566666666665322 2333444333222  2


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHccCcHHHHHHHHH--------HHhhccCCCCChhHHHHHHHHHHh
Q 005481          397 GLAKEAVGLFRKMLLDDVEPDG--VAYLAVLSACSHSGLVEESQEYFS--------RLCNDKRMKPRIEHYSCIVDSLGR  466 (694)
Q Consensus       397 g~~~~A~~~~~~m~~~g~~pd~--~t~~~ll~a~~~~g~~~~a~~~~~--------~m~~~~~~~p~~~~~~~li~~~~~  466 (694)
                      ....+|.+++...-+.  .|+.  +.....+.-....|+++.|.+++.        .+.+ .+  -.+.+...++.+|.+
T Consensus       355 ~~~~ka~e~L~~~~~~--~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~-~~--~~P~~V~aiv~l~~~  429 (652)
T KOG2376|consen  355 KKHKKAIELLLQFADG--HPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILE-AK--HLPGTVGAIVALYYK  429 (652)
T ss_pred             HHHhhhHHHHHHHhcc--CCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhh-hc--cChhHHHHHHHHHHh
Confidence            2466677777666553  3443  334444455567888888888888        4443 22  234556678888888


Q ss_pred             cCChHHHHHHHHhC--------CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCch
Q 005481          467 AGRLDEAKNLIESM--------PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWN  537 (694)
Q Consensus       467 ~g~~~~A~~~~~~~--------~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  537 (694)
                      .+.-+-|.+++.+.        .-.+. ..+|.-+...-.++|+-++|...++++++.+|++....+.++.+|+... .+
T Consensus       430 ~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n~~d~~~l~~lV~a~~~~d-~e  508 (652)
T KOG2376|consen  430 IKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFNPNDTDLLVQLVTAYARLD-PE  508 (652)
T ss_pred             ccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhCCchHHHHHHHHHHHHhcC-HH
Confidence            88766666666554        22222 2233334444467799999999999999999999999999999998764 44


Q ss_pred             HHHHHH
Q 005481          538 ECERLR  543 (694)
Q Consensus       538 ~a~~~~  543 (694)
                      .|..+-
T Consensus       509 ka~~l~  514 (652)
T KOG2376|consen  509 KAESLS  514 (652)
T ss_pred             HHHHHh
Confidence            454443

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

Probab=99.09  E-value=2.7e-07  Score=91.69  Aligned_cols=216  Identities=13%  Similarity=0.072  Sum_probs=116.3

Q ss_pred             hcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHH
Q 005481          191 LAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEA  270 (694)
Q Consensus       191 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A  270 (694)
                      -.|++..|.+.|+........++.. |.-+-.+|....+.++..+.|..+.+.++   .++.+|-.-..++.-.+++++|
T Consensus       338 L~g~~~~a~~d~~~~I~l~~~~~~l-yI~~a~~y~d~~~~~~~~~~F~~A~~ldp---~n~dvYyHRgQm~flL~q~e~A  413 (606)
T KOG0547|consen  338 LKGDSLGAQEDFDAAIKLDPAFNSL-YIKRAAAYADENQSEKMWKDFNKAEDLDP---ENPDVYYHRGQMRFLLQQYEEA  413 (606)
T ss_pred             hcCCchhhhhhHHHHHhcCcccchH-HHHHHHHHhhhhccHHHHHHHHHHHhcCC---CCCchhHhHHHHHHHHHHHHHH
Confidence            3466666666666666544333222 55555566666666666666666666665   3445555555556666666666


Q ss_pred             HHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcC
Q 005481          271 RRVFDLIEQ---KSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVP  347 (694)
Q Consensus       271 ~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~  347 (694)
                      ..-|+....   .++.+|-.+.-+.-+.+.+++++..|++..+. ++--...|+.....+...++++.|.+.++.+++..
T Consensus       414 ~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE  492 (606)
T KOG0547|consen  414 IADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELE  492 (606)
T ss_pred             HHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhc
Confidence            666666543   23344555555555566666666666666554 22233445555555555666666666555555432


Q ss_pred             CCC-------CchHHHHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-H
Q 005481          348 SGL-------DTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDG-V  419 (694)
Q Consensus       348 ~~~-------~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~  419 (694)
                      ...       .+.+.-+++..-                                -.+++..|++++++..+  +.|-. .
T Consensus       493 ~~~~~~~v~~~plV~Ka~l~~q--------------------------------wk~d~~~a~~Ll~KA~e--~Dpkce~  538 (606)
T KOG0547|consen  493 PREHLIIVNAAPLVHKALLVLQ--------------------------------WKEDINQAENLLRKAIE--LDPKCEQ  538 (606)
T ss_pred             cccccccccchhhhhhhHhhhc--------------------------------hhhhHHHHHHHHHHHHc--cCchHHH
Confidence            221       111111111111                                12556666666666655  33433 4


Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHh
Q 005481          420 AYLAVLSACSHSGLVEESQEYFSRLC  445 (694)
Q Consensus       420 t~~~ll~a~~~~g~~~~a~~~~~~m~  445 (694)
                      .|..|...-.+.|+.++|+++|+...
T Consensus       539 A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  539 AYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            55666666666666666666666553

>PRK12370 invasion protein regulator; Provisional

Probab=99.09  E-value=9.7e-09  Score=112.24  Aligned_cols=211  Identities=11%  Similarity=0.004  Sum_probs=163.9

Q ss_pred             ccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhh---------hcCCHHHHHHHHccCCC---CChhhHHHHHHHHHhcCC
Q 005481          331 ALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYL---------KCGLIDEATELFNEMPV---KNVVTWTVIITGYGKHGL  398 (694)
Q Consensus       331 ~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~---------~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~  398 (694)
                      ++++.|.+.+..+++.... +...+..+..+|.         ..+++++|...+++...   .+...|..+...+...|+
T Consensus       275 ~~~~~A~~~~~~Al~ldP~-~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        275 YSLQQALKLLTQCVNMSPN-SIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccC
Confidence            4568899999988876543 3445555554443         33458999999998763   467788889889999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChh-HHHHHHHHHHhcCChHHHHHH
Q 005481          399 AKEAVGLFRKMLLDDVEPDG-VAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIE-HYSCIVDSLGRAGRLDEAKNL  476 (694)
Q Consensus       399 ~~~A~~~~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~g~~~~A~~~  476 (694)
                      +++|+..|++.++.  .|+. ..+..+..++...|++++|...++++.+   +.|+.. .+..+...+...|++++|++.
T Consensus       354 ~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~---l~P~~~~~~~~~~~~~~~~g~~eeA~~~  428 (553)
T PRK12370        354 YIVGSLLFKQANLL--SPISADIKYYYGWNLFMAGQLEEALQTINECLK---LDPTRAAAGITKLWITYYHTGIDDAIRL  428 (553)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCChhhHHHHHHHHHhccCHHHHHHH
Confidence            99999999999984  5664 5777888899999999999999999988   456532 333445567778999999999


Q ss_pred             HHhC--CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          477 IESM--PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       477 ~~~~--~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      +++.  ...|+ ...+..+..++...|+.++|...++++....|++......++..|...|  ++|...++.+.+.
T Consensus       429 ~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~  502 (553)
T PRK12370        429 GDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLES  502 (553)
T ss_pred             HHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHH
Confidence            9887  22354 4456777778889999999999999998888888888888888888888  4788877776653

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.09  E-value=6.9e-09  Score=103.70  Aligned_cols=189  Identities=17%  Similarity=0.081  Sum_probs=129.2

Q ss_pred             hHHHHHhhhhhhcCCHHHHHHHHccCC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHH
Q 005481          353 SVSNSIVDMYLKCGLIDEATELFNEMP---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDG-VAYLAVLSAC  428 (694)
Q Consensus       353 ~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~a~  428 (694)
                      ..+..+...|.+.|+.++|...|++..   ..+...|+.+...|...|++++|+..|++.++  +.|+. .++..+..++
T Consensus        65 ~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~--l~P~~~~a~~~lg~~l  142 (296)
T PRK11189         65 QLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLE--LDPTYNYAYLNRGIAL  142 (296)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHH
Confidence            345566667788888888888887765   33567888888888888999999888888887  55654 5777777788


Q ss_pred             HccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCChHHHH
Q 005481          429 SHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM--PVKPSIAIWQTLLSACRVHGDLELGR  506 (694)
Q Consensus       429 ~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~a~~~~g~~~~a~  506 (694)
                      ...|++++|.+.|+...+   ..|+..........+...+++++|.+.|++.  ...|+...|   .......|+...+ 
T Consensus       143 ~~~g~~~eA~~~~~~al~---~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~~~~~~~~---~~~~~~lg~~~~~-  215 (296)
T PRK11189        143 YYGGRYELAQDDLLAFYQ---DDPNDPYRALWLYLAESKLDPKQAKENLKQRYEKLDKEQWGW---NIVEFYLGKISEE-  215 (296)
T ss_pred             HHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhCCccccHH---HHHHHHccCCCHH-
Confidence            888899999988888876   4555332222223345667888888888654  223333222   1222334555443 


Q ss_pred             HHHHHHH-------cCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCC
Q 005481          507 EVGEILL-------RLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKG  550 (694)
Q Consensus       507 ~~~~~~~-------~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  550 (694)
                      ..++.+.       ++.|+.+.+|..++.+|...|++++|...+++..+..
T Consensus       216 ~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        216 TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            2333333       3455666788899999999999999999998887643

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.08  E-value=2.3e-06  Score=91.98  Aligned_cols=466  Identities=17%  Similarity=0.184  Sum_probs=267.8

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHhccCC--CCcc-----cHHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHH
Q 005481           49 LNNDLIDMYAKCGEMNGACAVFDKMLE--RNVV-----SWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIK  121 (694)
Q Consensus        49 ~~~~li~~~~~~g~~~~A~~~f~~~~~--~~~~-----~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  121 (694)
                      -+..+.+.+.+.|-...|++.+..+..  +.++     .=..+ -.|.-.-.++++++.++.|...+++-|..+...+..
T Consensus       608 Dra~IAqLCEKAGL~qraLehytDl~DIKR~vVhth~L~pEwL-v~yFg~lsve~s~eclkaml~~NirqNlQi~VQvat  686 (1666)
T KOG0985|consen  608 DRAEIAQLCEKAGLLQRALEHYTDLYDIKRVVVHTHLLNPEWL-VNYFGSLSVEDSLECLKAMLSANIRQNLQIVVQVAT  686 (1666)
T ss_pred             cHHHHHHHHHhcchHHHHHHhcccHHHHHHHHHHhccCCHHHH-HHHHHhcCHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            366777888899999999988887743  2111     11122 234444568889999999988888777766665555


Q ss_pred             HhcccCChHHHHHHHHHHHHh-----------CCCCChhHHHHHHHHHHhcCChHHHHHHHccCCC--------------
Q 005481          122 ASGVLSSVENGMQIHGMCMKS-----------GFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPA--------------  176 (694)
Q Consensus       122 a~~~~~~~~~a~~~~~~~~~~-----------g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~--------------  176 (694)
                      -|...-..+...++|+.....           ++.-|+.+.-..|.+.++.|++.+.+++-++-.-              
T Consensus       687 ky~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicresn~YdpErvKNfLkeAk  766 (1666)
T KOG0985|consen  687 KYHEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRESNCYDPERVKNFLKEAK  766 (1666)
T ss_pred             HHHHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhccccCCHHHHHHHHHhcc
Confidence            554443344444444443321           3566777778889999999999999888765420              


Q ss_pred             -----C------------CcccH------HHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhh-------------HHHH
Q 005481          177 -----K------------SLITW------NAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFT-------------FTST  220 (694)
Q Consensus       177 -----~------------~~~~~------~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t-------------~~~l  220 (694)
                           |            |.+.|      -..|..|++.-++...-.+...+.....  +...             ..-+
T Consensus       767 L~DqlPLiiVCDRf~fVhdlvlYLyrnn~~kyIE~yVQkvNps~~p~VvG~LLD~dC--~E~~ik~Li~~v~gq~~~deL  844 (1666)
T KOG0985|consen  767 LTDQLPLIIVCDRFDFVHDLVLYLYRNNLQKYIEIYVQKVNPSRTPQVVGALLDVDC--SEDFIKNLILSVRGQFPVDEL  844 (1666)
T ss_pred             ccccCceEEEecccccHHHHHHHHHHhhHHHHHHHHHhhcCCcccchhhhhhhcCCC--cHHHHHHHHHHHhccCChHHH
Confidence                 0            11111      1234455544333333222222222111  1111             1112


Q ss_pred             HHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHH-------------------------------
Q 005481          221 LKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVE-------------------------------  269 (694)
Q Consensus       221 l~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~-------------------------------  269 (694)
                      ..-+-+.+++..-...++..+..|.   .+..++|+|...|...++-.+                               
T Consensus       845 v~EvEkRNRLklLlp~LE~~i~eG~---~d~a~hnAlaKIyIDSNNnPE~fLkeN~yYDs~vVGkYCEKRDP~lA~vaYe  921 (1666)
T KOG0985|consen  845 VEEVEKRNRLKLLLPWLESLIQEGS---QDPATHNALAKIYIDSNNNPERFLKENPYYDSKVVGKYCEKRDPHLACVAYE  921 (1666)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHhccC---cchHHHhhhhheeecCCCChHHhcccCCcchhhHHhhhhcccCCceEEEeec
Confidence            2223334444444555555666665   466666666666554332111                               


Q ss_pred             ---------------------HH------------HHH-----------hhc-----C-CCChhhHHHHHHHHHhCCCHH
Q 005481          270 ---------------------AR------------RVF-----------DLI-----E-QKSVISWSSLILGYAQEENLA  299 (694)
Q Consensus       270 ---------------------A~------------~~f-----------~~~-----~-~~~~~~~~~li~~~~~~g~~~  299 (694)
                                           |+            +++           ++.     + ..|+..-+.-+.++...+-+.
T Consensus       922 rGqcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~ 1001 (1666)
T KOG0985|consen  922 RGQCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPN 1001 (1666)
T ss_pred             ccCCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcH
Confidence                                 00            000           000     0 012233344455666666666


Q ss_pred             HHHHHHHHHHhcCCcc-CccchHHHHHHHhhhccHHHHHHHHHHHHhcC-----------------------CCCCchHH
Q 005481          300 EAMELFRQLRERSLQV-DGFVLSSMMGVFADFALVEQGKQIHAYAAKVP-----------------------SGLDTSVS  355 (694)
Q Consensus       300 ~A~~~~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~-----------------------~~~~~~~~  355 (694)
                      +-+++++++.-..-.. ....+..++-.-+-..+.....+....+-...                       +..+....
T Consensus      1002 eLIELLEKIvL~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyDa~~ia~iai~~~LyEEAF~ifkkf~~n~~A~ 1081 (1666)
T KOG0985|consen 1002 ELIELLEKIVLDNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIAEIAIENQLYEEAFAIFKKFDMNVSAI 1081 (1666)
T ss_pred             HHHHHHHHHhcCCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccCCchhHHHHHhhhhHHHHHHHHHHHhcccHHHH
Confidence            6666666654321110 00111111111111111111111111111110                       01111111


Q ss_pred             HHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHH
Q 005481          356 NSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVE  435 (694)
Q Consensus       356 ~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~  435 (694)
                      +.|++   .-+.++.|.+.-++..  ....|..+..+-.+.|...+|++-|-+.      -|...|..++..+++.|.++
T Consensus      1082 ~VLie---~i~~ldRA~efAe~~n--~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~e 1150 (1666)
T KOG0985|consen 1082 QVLIE---NIGSLDRAYEFAERCN--EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYE 1150 (1666)
T ss_pred             HHHHH---HhhhHHHHHHHHHhhC--ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHH
Confidence            11211   1233444444333333  3457999999999999999999988543      36678999999999999999


Q ss_pred             HHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcC
Q 005481          436 ESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRL  515 (694)
Q Consensus       436 ~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~  515 (694)
                      +-.+++..+.+ ..-+|.++  +.|+-+|++.+++.|-++++.    -|+..-......-|...|.++.|.-+|..    
T Consensus      1151 dLv~yL~MaRk-k~~E~~id--~eLi~AyAkt~rl~elE~fi~----gpN~A~i~~vGdrcf~~~~y~aAkl~y~~---- 1219 (1666)
T KOG0985|consen 1151 DLVKYLLMARK-KVREPYID--SELIFAYAKTNRLTELEEFIA----GPNVANIQQVGDRCFEEKMYEAAKLLYSN---- 1219 (1666)
T ss_pred             HHHHHHHHHHH-hhcCccch--HHHHHHHHHhchHHHHHHHhc----CCCchhHHHHhHHHhhhhhhHHHHHHHHH----
Confidence            99999988776 44566554  579999999999999888874    47777788889999999999999888875    


Q ss_pred             CCCCcchHHHHHhHHHhcCCchHHHHHHHHH
Q 005481          516 DGDNPVNYVMMSNIHADAGSWNECERLRKLA  546 (694)
Q Consensus       516 ~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  546 (694)
                          .+.|..|+..+...|.+..|...-+++
T Consensus      1220 ----vSN~a~La~TLV~LgeyQ~AVD~aRKA 1246 (1666)
T KOG0985|consen 1220 ----VSNFAKLASTLVYLGEYQGAVDAARKA 1246 (1666)
T ss_pred             ----hhhHHHHHHHHHHHHHHHHHHHHhhhc
Confidence                467888888888889888887655444

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.08  E-value=4e-09  Score=98.95  Aligned_cols=229  Identities=14%  Similarity=0.116  Sum_probs=146.2

Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcC
Q 005481          287 SLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCG  366 (694)
Q Consensus       287 ~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g  366 (694)
                      .|..+|.+.|.+.+|.+-|+.-+..  .|-..||..+-.+|.+......|..++..-++. ++.++....-....+-..+
T Consensus       228 Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam~  304 (478)
T KOG1129|consen  228 QMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAME  304 (478)
T ss_pred             HHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHHH
Confidence            3445555555555555555554443  233334444444444444444444444433332 1112222233344455556


Q ss_pred             CHHHHHHHHccCCC---CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHH
Q 005481          367 LIDEATELFNEMPV---KNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSR  443 (694)
Q Consensus       367 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~  443 (694)
                      +.++|.++++...+   .++.+..++..+|...++++-|+..|+++++.|+. +...|..+.-+|...+++|-++.-|++
T Consensus       305 ~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~R  383 (478)
T KOG1129|consen  305 QQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQR  383 (478)
T ss_pred             hHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHHH
Confidence            66666666665542   24555556666777777778888888887777754 456677777777777777777776666


Q ss_pred             HhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchH
Q 005481          444 LCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNY  523 (694)
Q Consensus       444 m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~  523 (694)
                      +... --.|+                  +            -..+|-.|.......||+..|.+.|+-++..+|++..++
T Consensus       384 Alst-at~~~------------------~------------aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~eal  432 (478)
T KOG1129|consen  384 ALST-ATQPG------------------Q------------AADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEAL  432 (478)
T ss_pred             HHhh-ccCcc------------------h------------hhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHH
Confidence            6541 11111                  1            234577777777788999999999999999999999999


Q ss_pred             HHHHhHHHhcCCchHHHHHHHHHHhCC
Q 005481          524 VMMSNIHADAGSWNECERLRKLARSKG  550 (694)
Q Consensus       524 ~~l~~~~~~~g~~~~a~~~~~~m~~~g  550 (694)
                      ++|+-+-.+.|+.++|+.++....+..
T Consensus       433 nNLavL~~r~G~i~~Arsll~~A~s~~  459 (478)
T KOG1129|consen  433 NNLAVLAARSGDILGARSLLNAAKSVM  459 (478)
T ss_pred             HhHHHHHhhcCchHHHHHHHHHhhhhC
Confidence            999999999999999999999887643

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.07  E-value=1.1e-08  Score=91.87  Aligned_cols=162  Identities=19%  Similarity=0.193  Sum_probs=141.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHHHH
Q 005481          385 TWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDG-VAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVD  462 (694)
Q Consensus       385 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~  462 (694)
                      +...|.-+|.+.|+...|..-+++.++  ..|+. .++..+...|.+.|..+.|.+.|+.+.+   +.|+ -.+.|....
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~--~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls---l~p~~GdVLNNYG~  111 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALE--HDPSYYLAHLVRAHYYQKLGENDLADESYRKALS---LAPNNGDVLNNYGA  111 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHh---cCCCccchhhhhhH
Confidence            345577889999999999999999998  56766 6888899999999999999999999987   5664 668889999


Q ss_pred             HHHhcCChHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchH
Q 005481          463 SLGRAGRLDEAKNLIESMPVKPS----IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNE  538 (694)
Q Consensus       463 ~~~~~g~~~~A~~~~~~~~~~p~----~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  538 (694)
                      -++..|++++|...|++.-..|+    ..+|..+..+-.+.|+.+.|+..+++.++++|+.+.....+.....+.|++-.
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            99999999999999999833333    55788888888899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCC
Q 005481          539 CERLRKLARSKGL  551 (694)
Q Consensus       539 a~~~~~~m~~~g~  551 (694)
                      |..+++.....+.
T Consensus       192 Ar~~~~~~~~~~~  204 (250)
T COG3063         192 ARLYLERYQQRGG  204 (250)
T ss_pred             HHHHHHHHHhccc
Confidence            9999998876553

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.04  E-value=3.8e-08  Score=95.20  Aligned_cols=197  Identities=18%  Similarity=0.201  Sum_probs=130.2

Q ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhh
Q 005481          282 VISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDM  361 (694)
Q Consensus       282 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~  361 (694)
                      ...+..+...+...|++++|.+.|++..+.  .|+                                  +...+..+...
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~--~p~----------------------------------~~~~~~~la~~   74 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEH--DPD----------------------------------DYLAYLALALY   74 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--Ccc----------------------------------cHHHHHHHHHH
Confidence            456777888888899999999988887664  232                                  12233344455


Q ss_pred             hhhcCCHHHHHHHHccCC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHccCcHHHH
Q 005481          362 YLKCGLIDEATELFNEMP---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEP-DGVAYLAVLSACSHSGLVEES  437 (694)
Q Consensus       362 y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~a  437 (694)
                      |...|++++|.+.|++..   ..+...+..+...+...|++++|.+.|++.......| ....+..+..++...|++++|
T Consensus        75 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  154 (234)
T TIGR02521        75 YQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKA  154 (234)
T ss_pred             HHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHH
Confidence            555566666665555443   2344456666777777777777777777777643222 234555666677778888888


Q ss_pred             HHHHHHHhhccCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHc
Q 005481          438 QEYFSRLCNDKRMKP-RIEHYSCIVDSLGRAGRLDEAKNLIESM-PV-KPSIAIWQTLLSACRVHGDLELGREVGEILLR  514 (694)
Q Consensus       438 ~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~  514 (694)
                      ...++...+.   .| +...+..+...+...|++++|.+.+++. .. +++...+..+...+...|+.+.|....+.+.+
T Consensus       155 ~~~~~~~~~~---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       155 EKYLTRALQI---DPQRPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHh---CcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            8888877662   33 3556777778888888888888888776 22 23455566666777778888888888777665


Q ss_pred             CCC
Q 005481          515 LDG  517 (694)
Q Consensus       515 ~~p  517 (694)
                      ..|
T Consensus       232 ~~~  234 (234)
T TIGR02521       232 LFP  234 (234)
T ss_pred             hCc
Confidence            543

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.

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.04  E-value=9e-08  Score=99.80  Aligned_cols=127  Identities=18%  Similarity=0.218  Sum_probs=84.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC---CCCCCH----HHHHHHHHHHHccCcHHHHHHHHHHHhhcc-----CCCCC-
Q 005481          387 TVIITGYGKHGLAKEAVGLFRKMLLD---DVEPDG----VAYLAVLSACSHSGLVEESQEYFSRLCNDK-----RMKPR-  453 (694)
Q Consensus       387 ~~li~~~~~~g~~~~A~~~~~~m~~~---g~~pd~----~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~-----~~~p~-  453 (694)
                      +.++..+...+++++|..++++..+.   -+.++.    .++..+...+.+.|++++|.++|++++...     +..+. 
T Consensus       329 ~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~  408 (508)
T KOG1840|consen  329 SELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGV  408 (508)
T ss_pred             HHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhh
Confidence            33445555566666666666554431   122222    467777777788888888888877776522     11222 


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhC--------CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 005481          454 IEHYSCIVDSLGRAGRLDEAKNLIESM--------PVKPS-IAIWQTLLSACRVHGDLELGREVGEILL  513 (694)
Q Consensus       454 ~~~~~~li~~~~~~g~~~~A~~~~~~~--------~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~  513 (694)
                      ...++.|...|.+.+++++|.++|.+.        +..|+ ..+|..|...|...|+++.|+++.+++.
T Consensus       409 ~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  409 GKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             hHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            345677778888888888888877765        33455 4468999999999999999999988887

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.03  E-value=1e-06  Score=91.41  Aligned_cols=451  Identities=15%  Similarity=0.116  Sum_probs=263.5

Q ss_pred             hhcCCChHHHHHHHHHHHHh--------CCCCChhhHHHHHHHHHhcCChHHHHHHHhccCCCCcccHHHHHHHHHhCCC
Q 005481           22 CSKNLLLDYGVQLHGALVKM--------GFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGN   93 (694)
Q Consensus        22 ~~~~~~~~~a~~~~~~~~~~--------g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~   93 (694)
                      ++..|++..++.+|+.+.-.        |-..+.+-..+++.+..  .++.+|..+|-+-   |  .-...|..|....+
T Consensus       500 faai~dvak~r~lhd~~eiadeas~~~ggdgt~fykvra~lail~--kkfk~ae~ifleq---n--~te~aigmy~~lhk  572 (1636)
T KOG3616|consen  500 FAAIGDVAKARFLHDILEIADEASIEIGGDGTDFYKVRAMLAILE--KKFKEAEMIFLEQ---N--ATEEAIGMYQELHK  572 (1636)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHhhCCCCchHHHHHHHHHHHH--hhhhHHHHHHHhc---c--cHHHHHHHHHHHHh
Confidence            34445555555555544321        12233333444454443  3466666666431   1  12234556666666


Q ss_pred             hHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHcc
Q 005481           94 AKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDV  173 (694)
Q Consensus        94 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~  173 (694)
                      |++|+.+-+..   |.+.-...-.+.++++...|+-+.|-++         +.+..-.-+-|+.|.+.|....|.+.-..
T Consensus       573 wde~i~lae~~---~~p~~eklk~sy~q~l~dt~qd~ka~el---------k~sdgd~laaiqlyika~~p~~a~~~a~n  640 (1636)
T KOG3616|consen  573 WDEAIALAEAK---GHPALEKLKRSYLQALMDTGQDEKAAEL---------KESDGDGLAAIQLYIKAGKPAKAARAALN  640 (1636)
T ss_pred             HHHHHHHHHhc---CChHHHHHHHHHHHHHHhcCchhhhhhh---------ccccCccHHHHHHHHHcCCchHHHHhhcC
Confidence            77776664432   2111111122334444444444443322         11222234567889999998888776432


Q ss_pred             C--CCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcch
Q 005481          174 M--PAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKT  251 (694)
Q Consensus       174 ~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~  251 (694)
                      -  ...|......+..++.+..-+++|-++|+++..    |     ...+..+.+..-+.+|.++-+...-.     .-+
T Consensus       641 ~~~l~~de~il~~ia~alik~elydkagdlfeki~d----~-----dkale~fkkgdaf~kaielarfafp~-----evv  706 (1636)
T KOG3616|consen  641 DEELLADEEILEHIAAALIKGELYDKAGDLFEKIHD----F-----DKALECFKKGDAFGKAIELARFAFPE-----EVV  706 (1636)
T ss_pred             HHHhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhC----H-----HHHHHHHHcccHHHHHHHHHHhhCcH-----HHh
Confidence            2  224666666777777888888888888888754    2     22333333333344555544332210     111


Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhc
Q 005481          252 VIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFA  331 (694)
Q Consensus       252 ~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~  331 (694)
                      ..-.+-.+-+...|+++.|...|-+...     .---|.+-....++.+|+.+++.++.+.  .-.--|..+...|+..|
T Consensus       707 ~lee~wg~hl~~~~q~daainhfiea~~-----~~kaieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~  779 (1636)
T KOG3616|consen  707 KLEEAWGDHLEQIGQLDAAINHFIEANC-----LIKAIEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKG  779 (1636)
T ss_pred             hHHHHHhHHHHHHHhHHHHHHHHHHhhh-----HHHHHHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccch
Confidence            1122334455667888888887755421     1123445567788999999999888753  33445777888899999


Q ss_pred             cHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCC--ChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 005481          332 LVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVK--NVVTWTVIITGYGKHGLAKEAVGLFRKM  409 (694)
Q Consensus       332 ~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m  409 (694)
                      +++.|.++|...         ..++--|+||.+.|++++|.++-.+...|  ...+|-+-..-+-.+|++.+|.++|-..
T Consensus       780 dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da~kla~e~~~~e~t~~~yiakaedldehgkf~eaeqlyiti  850 (1636)
T KOG3616|consen  780 DFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDAFKLAEECHGPEATISLYIAKAEDLDEHGKFAEAEQLYITI  850 (1636)
T ss_pred             hHHHHHHHHHhc---------chhHHHHHHHhccccHHHHHHHHHHhcCchhHHHHHHHhHHhHHhhcchhhhhheeEEc
Confidence            999999887643         23456788999999999999988877655  4456666677778889999998887544


Q ss_pred             HHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHH
Q 005481          410 LLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIW  489 (694)
Q Consensus       410 ~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~  489 (694)
                      .    .|+.     .+..|-+.|..+..+++.++--.    ..-.++.-.+..-|-..|++.+|++-|-+.+      -|
T Consensus       851 ~----~p~~-----aiqmydk~~~~ddmirlv~k~h~----d~l~dt~~~f~~e~e~~g~lkaae~~flea~------d~  911 (1636)
T KOG3616|consen  851 G----EPDK-----AIQMYDKHGLDDDMIRLVEKHHG----DHLHDTHKHFAKELEAEGDLKAAEEHFLEAG------DF  911 (1636)
T ss_pred             c----CchH-----HHHHHHhhCcchHHHHHHHHhCh----hhhhHHHHHHHHHHHhccChhHHHHHHHhhh------hH
Confidence            3    3553     35667888888888777664421    1113345556777888899999888887653      36


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHH
Q 005481          490 QTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKL  545 (694)
Q Consensus       490 ~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  545 (694)
                      .+-.+.|...+-++.|-++.+.   ....|..-.+...+  ++.=--+.|.+++.+
T Consensus       912 kaavnmyk~s~lw~dayriakt---egg~n~~k~v~flw--aksiggdaavkllnk  962 (1636)
T KOG3616|consen  912 KAAVNMYKASELWEDAYRIAKT---EGGANAEKHVAFLW--AKSIGGDAAVKLLNK  962 (1636)
T ss_pred             HHHHHHhhhhhhHHHHHHHHhc---cccccHHHHHHHHH--HHhhCcHHHHHHHHh
Confidence            6667777777777776665543   22333333333333  333223455555543

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.98  E-value=2.9e-06  Score=89.33  Aligned_cols=442  Identities=15%  Similarity=0.104  Sum_probs=245.3

Q ss_pred             CCCCChhhHHHHHHHHHhcCChHHHHHHHhccCC---CCcccHHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCcee-HH
Q 005481           42 GFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLE---RNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFT-LS  117 (694)
Q Consensus        42 g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t-~~  117 (694)
                      .+.-|..+|..|.-+...+|+++.+.+.|++...   .....|+.+-..|+..|....|+.+++.-....-.|+..+ +.
T Consensus       318 ~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~L  397 (799)
T KOG4162|consen  318 KFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLL  397 (799)
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHH
Confidence            3567889999999999999999999999998743   3445799999999999999999999988765433454433 33


Q ss_pred             HHHHHhc-ccCChHHHHHHHHHHHHhC--C--CCChhHHHHHHHHHHhcCChHHHHHHHccCCCCCcccHHHHHHHHHhc
Q 005481          118 TNIKASG-VLSSVENGMQIHGMCMKSG--F--EWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLA  192 (694)
Q Consensus       118 ~ll~a~~-~~~~~~~a~~~~~~~~~~g--~--~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~  192 (694)
                      ..-+.|. +.+..+++..+-.+++...  .  ...+..|-.+.-+|...-              ....++.-      +.
T Consensus       398 masklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A--------------~~a~~~se------R~  457 (799)
T KOG4162|consen  398 MASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQA--------------RQANLKSE------RD  457 (799)
T ss_pred             HHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHh--------------hcCCChHH------HH
Confidence            3333444 3466667766666666521  1  111223333333332210              00000000      01


Q ss_pred             CChhHHHHHHHHHHHCC-CCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHH
Q 005481          193 GYSDKGLLLFRKMQEHG-EIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEAR  271 (694)
Q Consensus       193 g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~  271 (694)
                      ....++++.+++..+.+ -.|+..-|.++-  ++-.++++.|.+...+..+.+..  .+...|..|.-.+.-.+++.+|+
T Consensus       458 ~~h~kslqale~av~~d~~dp~~if~lalq--~A~~R~l~sAl~~~~eaL~l~~~--~~~~~whLLALvlSa~kr~~~Al  533 (799)
T KOG4162|consen  458 ALHKKSLQALEEAVQFDPTDPLVIFYLALQ--YAEQRQLTSALDYAREALALNRG--DSAKAWHLLALVLSAQKRLKEAL  533 (799)
T ss_pred             HHHHHHHHHHHHHHhcCCCCchHHHHHHHH--HHHHHhHHHHHHHHHHHHHhcCC--ccHHHHHHHHHHHhhhhhhHHHH
Confidence            11234455555554432 223333333322  33445566666666666655444  55556666666666666666666


Q ss_pred             HHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHH--hc
Q 005481          272 RVFDLIEQK---SVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAA--KV  346 (694)
Q Consensus       272 ~~f~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~--~~  346 (694)
                      .+.+...+.   |.+....-+..-..-++.++|+.....+..-  --+...+...+.    .|.   ..+....+.  ..
T Consensus       534 ~vvd~al~E~~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~--we~~~~~q~~~~----~g~---~~~lk~~l~la~~  604 (799)
T KOG4162|consen  534 DVVDAALEEFGDNHVLMDGKIHIELTFNDREEALDTCIHKLAL--WEAEYGVQQTLD----EGK---LLRLKAGLHLALS  604 (799)
T ss_pred             HHHHHHHHHhhhhhhhchhhhhhhhhcccHHHHHHHHHHHHHH--HHhhhhHhhhhh----hhh---hhhhhcccccCcc
Confidence            655544321   1111111112222245555555555554431  000000000000    000   000000000  00


Q ss_pred             CCCCCchHHHH---HhhhhhhcCCHHHHHHHHccCCCCC------hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 005481          347 PSGLDTSVSNS---IVDMYLKCGLIDEATELFNEMPVKN------VVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPD  417 (694)
Q Consensus       347 ~~~~~~~~~~~---li~~y~~~g~~~~A~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd  417 (694)
                      .....+.++..   ++..=.+.-..+.....+...+.|+      ...|......+...++.++|...+.+...  +.|-
T Consensus       605 q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l  682 (799)
T KOG4162|consen  605 QPTDAISTSRYLSSLVASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK--IDPL  682 (799)
T ss_pred             cccccchhhHHHHHHHHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchh
Confidence            00001111111   1111111111111112222222333      23566777788888999999887777765  3443


Q ss_pred             H-HHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHHHHHHHhcCChHHHHH--HHHhC-CCCCC-HHHHHH
Q 005481          418 G-VAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEAKN--LIESM-PVKPS-IAIWQT  491 (694)
Q Consensus       418 ~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~--~~~~~-~~~p~-~~~~~~  491 (694)
                      . ..|......+...|...+|.+.|.....   +.|+ +....++..++.+.|+..-|..  ++..+ .+.|+ ...|-.
T Consensus       683 ~~~~~~~~G~~~~~~~~~~EA~~af~~Al~---ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~  759 (799)
T KOG4162|consen  683 SASVYYLRGLLLEVKGQLEEAKEAFLVALA---LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYY  759 (799)
T ss_pred             hHHHHHHhhHHHHHHHhhHHHHHHHHHHHh---cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHH
Confidence            3 4555555667788999999999998866   6786 5678899999999998777776  77777 55664 778999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHcCCCCCcc
Q 005481          492 LLSACRVHGDLELGREVGEILLRLDGDNPV  521 (694)
Q Consensus       492 ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~  521 (694)
                      |.....+.|+.+.|-..|..++++++.+|.
T Consensus       760 LG~v~k~~Gd~~~Aaecf~aa~qLe~S~PV  789 (799)
T KOG4162|consen  760 LGEVFKKLGDSKQAAECFQAALQLEESNPV  789 (799)
T ss_pred             HHHHHHHccchHHHHHHHHHHHhhccCCCc
Confidence            999999999999999999999999987663

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.96  E-value=8.2e-06  Score=78.00  Aligned_cols=188  Identities=12%  Similarity=0.074  Sum_probs=123.8

Q ss_pred             HHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCC-------HHHHHHHHHHHHHCCCCCCHH-HHHHHHHHH
Q 005481          357 SIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGL-------AKEAVGLFRKMLLDDVEPDGV-AYLAVLSAC  428 (694)
Q Consensus       357 ~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~-------~~~A~~~~~~m~~~g~~pd~~-t~~~ll~a~  428 (694)
                      .|+-.|.+.+++++|..+.+......+.-|-.-...++.+|+       ..-|.+.|+-.-.++..-|.+ ---++.+++
T Consensus       290 NL~iYyL~q~dVqeA~~L~Kdl~PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~f  369 (557)
T KOG3785|consen  290 NLIIYYLNQNDVQEAISLCKDLDPTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYF  369 (557)
T ss_pred             hheeeecccccHHHHHHHHhhcCCCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHH
Confidence            466779999999999999988875444433322233333443       334555554444444443332 223344455


Q ss_pred             HccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCCHHHHHHHHHH-HHhcCChHHH
Q 005481          429 SHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMP--VKPSIAIWQTLLSA-CRVHGDLELG  505 (694)
Q Consensus       429 ~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~ll~a-~~~~g~~~~a  505 (694)
                      .-..++++.+.++..+.. +=..-|...| .+..+++..|.+.+|+++|-...  .-.|..+|.+++.- |...+..+.|
T Consensus       370 FL~~qFddVl~YlnSi~s-YF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lA  447 (557)
T KOG3785|consen  370 FLSFQFDDVLTYLNSIES-YFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLA  447 (557)
T ss_pred             HHHHHHHHHHHHHHHHHH-HhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHH
Confidence            556778999999998877 5344444444 57899999999999999998872  22467778777764 5677888887


Q ss_pred             HHHHHHHHcCC-CCC-cchHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          506 REVGEILLRLD-GDN-PVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       506 ~~~~~~~~~~~-p~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      ..++-   +.+ |.+ -.....+++-+.+++.+--|.+.|..+...
T Consensus       448 W~~~l---k~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~l  490 (557)
T KOG3785|consen  448 WDMML---KTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEIL  490 (557)
T ss_pred             HHHHH---hcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHcc
Confidence            66554   333 322 244556678899999999999999987654

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.93  E-value=2.7e-07  Score=92.29  Aligned_cols=198  Identities=11%  Similarity=0.005  Sum_probs=128.5

Q ss_pred             HHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCC--C-ChhhHHHHHHHHHhcCCHH
Q 005481          324 MGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPV--K-NVVTWTVIITGYGKHGLAK  400 (694)
Q Consensus       324 l~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~  400 (694)
                      ...+...|+.+.|...+..+++... .+...++.+...|...|++++|...|++..+  | +..+|..+...+...|+++
T Consensus        71 g~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~  149 (296)
T PRK11189         71 GVLYDSLGLRALARNDFSQALALRP-DMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAYLNRGIALYYGGRYE  149 (296)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHH
Confidence            3334444555555555544444332 2566778888888999999999999888753  3 5678888888999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHH--HHHHHH
Q 005481          401 EAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDE--AKNLIE  478 (694)
Q Consensus       401 ~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~--A~~~~~  478 (694)
                      +|++.|++..+  ..|+..........+...++.++|...|......  ..|+... ..++..+  .|++.+  +.+.+.
T Consensus       150 eA~~~~~~al~--~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~--~~~~~~~-~~~~~~~--lg~~~~~~~~~~~~  222 (296)
T PRK11189        150 LAQDDLLAFYQ--DDPNDPYRALWLYLAESKLDPKQAKENLKQRYEK--LDKEQWG-WNIVEFY--LGKISEETLMERLK  222 (296)
T ss_pred             HHHHHHHHHHH--hCCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh--CCccccH-HHHHHHH--ccCCCHHHHHHHHH
Confidence            99999999988  4565432222222344567899999999776541  2343322 2333333  444433  333333


Q ss_pred             hC-CC----CC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCC-CCcchHHHHHhH
Q 005481          479 SM-PV----KP-SIAIWQTLLSACRVHGDLELGREVGEILLRLDG-DNPVNYVMMSNI  529 (694)
Q Consensus       479 ~~-~~----~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p-~~~~~~~~l~~~  529 (694)
                      +. ..    .| ....|..+...+...|++++|+..|+++++.+| +...+-..++.+
T Consensus       223 ~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~~e~~~~~~e~  280 (296)
T PRK11189        223 AGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNFVEHRYALLEL  280 (296)
T ss_pred             hcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            22 11    12 245799999999999999999999999999997 444444444443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.89  E-value=7.9e-06  Score=85.02  Aligned_cols=435  Identities=13%  Similarity=0.106  Sum_probs=244.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHhccCCCCcc-cHHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCCh
Q 005481           51 NDLIDMYAKCGEMNGACAVFDKMLERNVV-SWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSV  129 (694)
Q Consensus        51 ~~li~~~~~~g~~~~A~~~f~~~~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~  129 (694)
                      ..-|.+|....++++|+.+-+..-.|... .-.+.++++...|+-++|-++-..        +..+ .+.|..|.+.|.+
T Consensus       561 e~aigmy~~lhkwde~i~lae~~~~p~~eklk~sy~q~l~dt~qd~ka~elk~s--------dgd~-laaiqlyika~~p  631 (1636)
T KOG3616|consen  561 EEAIGMYQELHKWDEAIALAEAKGHPALEKLKRSYLQALMDTGQDEKAAELKES--------DGDG-LAAIQLYIKAGKP  631 (1636)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHhcCChHHHHHHHHHHHHHHhcCchhhhhhhccc--------cCcc-HHHHHHHHHcCCc
Confidence            45678888889999998887766555422 223445555666766666544211        2222 2345666666666


Q ss_pred             HHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 005481          130 ENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHG  209 (694)
Q Consensus       130 ~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  209 (694)
                      ..|.+.-..  +.-+..|......+...+.+..-++.|-.+|+++..++.     -+..|-+..-+-+|+++-+-.    
T Consensus       632 ~~a~~~a~n--~~~l~~de~il~~ia~alik~elydkagdlfeki~d~dk-----ale~fkkgdaf~kaielarfa----  700 (1636)
T KOG3616|consen  632 AKAARAALN--DEELLADEEILEHIAAALIKGELYDKAGDLFEKIHDFDK-----ALECFKKGDAFGKAIELARFA----  700 (1636)
T ss_pred             hHHHHhhcC--HHHhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhCHHH-----HHHHHHcccHHHHHHHHHHhh----
Confidence            555443211  111223444444455555555556666666666554321     122222222233333332221    


Q ss_pred             CCCChhhHHH-HHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCChhh--HH
Q 005481          210 EIPDEFTFTS-TLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVIS--WS  286 (694)
Q Consensus       210 ~~p~~~t~~~-ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~--~~  286 (694)
                      ++...+++.- --..+...|+++.|..-|-+..           ..---+.+-.....+.+|+.+++.+.+.++.+  |.
T Consensus       701 fp~evv~lee~wg~hl~~~~q~daainhfiea~-----------~~~kaieaai~akew~kai~ildniqdqk~~s~yy~  769 (1636)
T KOG3616|consen  701 FPEEVVKLEEAWGDHLEQIGQLDAAINHFIEAN-----------CLIKAIEAAIGAKEWKKAISILDNIQDQKTASGYYG  769 (1636)
T ss_pred             CcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhh-----------hHHHHHHHHhhhhhhhhhHhHHHHhhhhccccccch
Confidence            0000111000 0011122233333222221110           01112334445566667777777666554433  45


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcC
Q 005481          287 SLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCG  366 (694)
Q Consensus       287 ~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g  366 (694)
                      .+...|+..|+++.|.++|.+.-         .+.-.+..|.+.|.++.|.++-...  .|.......|-+-..-+-+.|
T Consensus       770 ~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~kla~e~--~~~e~t~~~yiakaedldehg  838 (1636)
T KOG3616|consen  770 EIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFKLAEEC--HGPEATISLYIAKAEDLDEHG  838 (1636)
T ss_pred             HHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHHHHHHh--cCchhHHHHHHHhHHhHHhhc
Confidence            55566777777777777765421         2344556666777776665553322  344444555555566667889


Q ss_pred             CHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHccCcHHHHHHHHHHH
Q 005481          367 LIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDG--VAYLAVLSACSHSGLVEESQEYFSRL  444 (694)
Q Consensus       367 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~--~t~~~ll~a~~~~g~~~~a~~~~~~m  444 (694)
                      ++.+|.++|-.+..|+..     |..|-++|..++.+.+..+-     .||.  .|...+..-+...|++.+|...|-++
T Consensus       839 kf~eaeqlyiti~~p~~a-----iqmydk~~~~ddmirlv~k~-----h~d~l~dt~~~f~~e~e~~g~lkaae~~flea  908 (1636)
T KOG3616|consen  839 KFAEAEQLYITIGEPDKA-----IQMYDKHGLDDDMIRLVEKH-----HGDHLHDTHKHFAKELEAEGDLKAAEEHFLEA  908 (1636)
T ss_pred             chhhhhheeEEccCchHH-----HHHHHhhCcchHHHHHHHHh-----ChhhhhHHHHHHHHHHHhccChhHHHHHHHhh
Confidence            999999999998888754     67889999999988887763     3444  46667777888889999999888665


Q ss_pred             hhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCC----CCHHHHHHH------HHHHHhcCChHHHHH-------
Q 005481          445 CNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVK----PSIAIWQTL------LSACRVHGDLELGRE-------  507 (694)
Q Consensus       445 ~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----p~~~~~~~l------l~a~~~~g~~~~a~~-------  507 (694)
                      ..          |.+-+++|-..+.+++|.++-+.-+-.    .-...|.--      ...+.++|-.+.|..       
T Consensus       909 ~d----------~kaavnmyk~s~lw~dayriaktegg~n~~k~v~flwaksiggdaavkllnk~gll~~~id~a~d~~a  978 (1636)
T KOG3616|consen  909 GD----------FKAAVNMYKASELWEDAYRIAKTEGGANAEKHVAFLWAKSIGGDAAVKLLNKHGLLEAAIDFAADNCA  978 (1636)
T ss_pred             hh----------HHHHHHHhhhhhhHHHHHHHHhccccccHHHHHHHHHHHhhCcHHHHHHHHhhhhHHHHhhhhhcccc
Confidence            43          667888999999999999887764211    012233221      122345555554443       


Q ss_pred             ------HHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          508 ------VGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       508 ------~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                            +.+...  ...-+..+..++--+...|++++|.+-+-+..+.
T Consensus       979 fd~afdlari~~--k~k~~~vhlk~a~~ledegk~edaskhyveaikl 1024 (1636)
T KOG3616|consen  979 FDFAFDLARIAA--KDKMGEVHLKLAMFLEDEGKFEDASKHYVEAIKL 1024 (1636)
T ss_pred             hhhHHHHHHHhh--hccCccchhHHhhhhhhccchhhhhHhhHHHhhc
Confidence                  322222  2233567778888889999999997776666554

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.86  E-value=2.6e-05  Score=84.19  Aligned_cols=346  Identities=13%  Similarity=0.100  Sum_probs=187.7

Q ss_pred             HHHHhhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHH
Q 005481           18 SLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNAKAC   97 (694)
Q Consensus        18 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A   97 (694)
                      |..-+-+++++..-...++..+..| ..|+.++|+|...|...++-.+-  .+    +.|..-=+..+.-|+...++.-|
T Consensus       844 Lv~EvEkRNRLklLlp~LE~~i~eG-~~d~a~hnAlaKIyIDSNNnPE~--fL----keN~yYDs~vVGkYCEKRDP~lA  916 (1666)
T KOG0985|consen  844 LVEEVEKRNRLKLLLPWLESLIQEG-SQDPATHNALAKIYIDSNNNPER--FL----KENPYYDSKVVGKYCEKRDPHLA  916 (1666)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHhcc-CcchHHHhhhhheeecCCCChHH--hc----ccCCcchhhHHhhhhcccCCceE
Confidence            3344556667777777778888888 57888999999999877554321  11    12222222333444444433333


Q ss_pred             HHHHHHhhhC----CC----------------CCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCC--CChhHHHHHH
Q 005481           98 LSLFCQMGSS----SV----------------KPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFE--WNPVVGNSII  155 (694)
Q Consensus        98 ~~~~~~m~~~----g~----------------~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~--~~~~~~~~ll  155 (694)
                      .-.|++=.-.    ++                +.|...|..++.     ..-..-+++.++++..+++  .|+.-.+.-+
T Consensus       917 ~vaYerGqcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~-----e~n~~rRqLiDqVv~tal~E~~dPe~vS~tV  991 (1666)
T KOG0985|consen  917 CVAYERGQCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLN-----EENPYRRQLIDQVVQTALPETQDPEEVSVTV  991 (1666)
T ss_pred             EEeecccCCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHh-----ccChHHHHHHHHHHHhcCCccCChHHHHHHH
Confidence            2222110000    00                113333444332     1122234566777766653  3455566667


Q ss_pred             HHHHhcCChHHHHHHHccCC-CCCcc-----cHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCC
Q 005481          156 DMYSKCGRINEAARMFDVMP-AKSLI-----TWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGS  229 (694)
Q Consensus       156 ~~y~~~g~~~~A~~~f~~~~-~~~~~-----~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~  229 (694)
                      .++...+-..+-.++++++. ++++.     .-|.||-.-.+. +.....+..+++-..+. |+      +...+...+-
T Consensus       992 kAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAika-d~trVm~YI~rLdnyDa-~~------ia~iai~~~L 1063 (1666)
T KOG0985|consen  992 KAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKA-DRTRVMEYINRLDNYDA-PD------IAEIAIENQL 1063 (1666)
T ss_pred             HHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhc-ChHHHHHHHHHhccCCc-hh------HHHHHhhhhH
Confidence            77777777788888877764 23222     234444333333 33445555555433221 22      2223344455


Q ss_pred             chHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHH
Q 005481          230 VGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLR  309 (694)
Q Consensus       230 ~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  309 (694)
                      +++|..+|...-       .+....+.|++   .-+.++.|.+.-++..+|  ..|+.+..+-.+.|...+|++-|-+. 
T Consensus      1064 yEEAF~ifkkf~-------~n~~A~~VLie---~i~~ldRA~efAe~~n~p--~vWsqlakAQL~~~~v~dAieSyika- 1130 (1666)
T KOG0985|consen 1064 YEEAFAIFKKFD-------MNVSAIQVLIE---NIGSLDRAYEFAERCNEP--AVWSQLAKAQLQGGLVKDAIESYIKA- 1130 (1666)
T ss_pred             HHHHHHHHHHhc-------ccHHHHHHHHH---HhhhHHHHHHHHHhhCCh--HHHHHHHHHHHhcCchHHHHHHHHhc-
Confidence            666666665432       33333344433   335566666666555443  46788888888888888887776442 


Q ss_pred             hcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHH
Q 005481          310 ERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVI  389 (694)
Q Consensus       310 ~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~l  389 (694)
                           -|...|..++..+.+.|.++.-...+..+.+..-+|.+  -+.|+-+|++.+++.+-++.+.   .||+.....+
T Consensus      1131 -----dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eLi~AyAkt~rl~elE~fi~---gpN~A~i~~v 1200 (1666)
T KOG0985|consen 1131 -----DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSELIFAYAKTNRLTELEEFIA---GPNVANIQQV 1200 (1666)
T ss_pred             -----CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHHHHHHHHhchHHHHHHHhc---CCCchhHHHH
Confidence                 25567778888888888888877777777776655443  3567777888877777666543   2333333333


Q ss_pred             HHHHHhcCCHHHHHHHH
Q 005481          390 ITGYGKHGLAKEAVGLF  406 (694)
Q Consensus       390 i~~~~~~g~~~~A~~~~  406 (694)
                      ..-|...|.++.|.-+|
T Consensus      1201 Gdrcf~~~~y~aAkl~y 1217 (1666)
T KOG0985|consen 1201 GDRCFEEKMYEAAKLLY 1217 (1666)
T ss_pred             hHHHhhhhhhHHHHHHH
Confidence            33344444444443333

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.86  E-value=8.3e-05  Score=77.13  Aligned_cols=457  Identities=14%  Similarity=0.129  Sum_probs=255.1

Q ss_pred             CCChhH-HHHHHHHhhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccCC---CCcccHHHH
Q 005481            9 VSERQR-LADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLE---RNVVSWTAL   84 (694)
Q Consensus         9 ~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~---~~~~~~~~l   84 (694)
                      .|-..+ |-.+++.| ..+.+..+....+.+++ +++....+....--.+...|+-++|......-..   ++.+.|+.+
T Consensus         4 ~~KE~~lF~~~lk~y-E~kQYkkgLK~~~~iL~-k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~   81 (700)
T KOG1156|consen    4 SPKENALFRRALKCY-ETKQYKKGLKLIKQILK-KFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVL   81 (700)
T ss_pred             ChHHHHHHHHHHHHH-HHHHHHhHHHHHHHHHH-hCCccchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHH
Confidence            343333 56666655 45667777777777777 3333333333332334557999999888877755   456789998


Q ss_pred             HHHHHhCCChHHHHHHHHHhhhCCCCCCc-eeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCC
Q 005481           85 MCGFLQNGNAKACLSLFCQMGSSSVKPNE-FTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGR  163 (694)
Q Consensus        85 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~  163 (694)
                      .-.+-...++++|+..|+.....  .||. ..+.-+--.-++.++++.....-....+                      
T Consensus        82 gl~~R~dK~Y~eaiKcy~nAl~~--~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLq----------------------  137 (700)
T KOG1156|consen   82 GLLQRSDKKYDEAIKCYRNALKI--EKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQ----------------------  137 (700)
T ss_pred             HHHHhhhhhHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHH----------------------
Confidence            88888889999999999998764  3442 2222111111222222222222221111                      


Q ss_pred             hHHHHHHHccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCC-CCCChhhHHHHHH------HHcccCCchHHHHH
Q 005481          164 INEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHG-EIPDEFTFTSTLK------ACGSLGSVGGGTQI  236 (694)
Q Consensus       164 ~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~------a~~~~~~~~~a~~~  236 (694)
                                ........|..+..++--.|++..|..+.++..+.. -.|+...+.....      .....|.++.+.+.
T Consensus       138 ----------l~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~  207 (700)
T KOG1156|consen  138 ----------LRPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEH  207 (700)
T ss_pred             ----------hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHH
Confidence                      111234467777777777777777777777775543 2345444433222      23344555555555


Q ss_pred             HHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCC--ChhhHHHHH-HHHHhCCCHHHHH-HHHHHHHhcC
Q 005481          237 HGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQK--SVISWSSLI-LGYAQEENLAEAM-ELFRQLRERS  312 (694)
Q Consensus       237 ~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~--~~~~~~~li-~~~~~~g~~~~A~-~~~~~m~~~g  312 (694)
                      +..-...-+   ......-.-.+.+.+.+++++|..++..+..+  |...|+-.. .++.+--+.-+++ .+|....+.-
T Consensus       208 L~~~e~~i~---Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y  284 (700)
T KOG1156|consen  208 LLDNEKQIV---DKLAFEETKADLLMKLGQLEEAVKVYRRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKY  284 (700)
T ss_pred             HHhhhhHHH---HHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcC
Confidence            444332222   23334445566788888899998888887654  444444333 3333233333344 5555544321


Q ss_pred             CccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHH----HHHHHccC----------
Q 005481          313 LQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDE----ATELFNEM----------  378 (694)
Q Consensus       313 ~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~----A~~~~~~~----------  378 (694)
                      .. -......=++......-.+....++....+.|+++   ++..+...|-.-...+-    +..+...+          
T Consensus       285 ~r-~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D  360 (700)
T KOG1156|consen  285 PR-HECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLD  360 (700)
T ss_pred             cc-cccchhccHHHhCcchhHHHHHHHHHHHhhcCCCc---hhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCccc
Confidence            11 00001111111112222333344455555666543   22333333322111110    11111111          


Q ss_pred             ----CCCChhhHHH--HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHccCcHHHHHHHHHHHhhccCCC
Q 005481          379 ----PVKNVVTWTV--IITGYGKHGLAKEAVGLFRKMLLDDVEPDGV-AYLAVLSACSHSGLVEESQEYFSRLCNDKRMK  451 (694)
Q Consensus       379 ----~~~~~~~~~~--li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~  451 (694)
                          ..|....|+.  ++..|-..|+++.|+..++....  ..|+.+ -|..=.+.+.+.|++++|..++++..+.  -.
T Consensus       361 ~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AId--HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~el--D~  436 (700)
T KOG1156|consen  361 DGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAID--HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQEL--DT  436 (700)
T ss_pred             ccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhc--cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhc--cc
Confidence                1345556654  67788889999999999999886  577774 5656668899999999999999999762  24


Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHhCCCCC-C--------HHHHHHHH--HHHHhcCChHHHHHHHHHH
Q 005481          452 PRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKP-S--------IAIWQTLL--SACRVHGDLELGREVGEIL  512 (694)
Q Consensus       452 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p-~--------~~~~~~ll--~a~~~~g~~~~a~~~~~~~  512 (694)
                      ||...-.--+.-..|+.+.++|.++.....-.. +        .-.|-.+-  .+|.+.|++.+|.+-+..+
T Consensus       437 aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i  508 (700)
T KOG1156|consen  437 ADRAINSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEI  508 (700)
T ss_pred             hhHHHHHHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhH
Confidence            555444455667789999999999887762111 1        22465553  3577888887777654443

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.83  E-value=8.9e-05  Score=78.56  Aligned_cols=222  Identities=12%  Similarity=0.042  Sum_probs=125.0

Q ss_pred             hhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccCC-----------CCc-ccHHHHHHHHH
Q 005481           22 CSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLE-----------RNV-VSWTALMCGFL   89 (694)
Q Consensus        22 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~-----------~~~-~~~~~li~~~~   89 (694)
                      |...|+.+.|-.-...+.      +..+|..+.+++.+..+++-|.-.+..|..           .|. ..=-...-.-.
T Consensus       738 yvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~e~eakvAvLAi  811 (1416)
T KOG3617|consen  738 YVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGEEDEAKVAVLAI  811 (1416)
T ss_pred             EEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCcchhhHHHHHHH
Confidence            344566665544433332      335677777777777766666665555522           011 11111111223


Q ss_pred             hCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHH
Q 005481           90 QNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAAR  169 (694)
Q Consensus        90 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~  169 (694)
                      +.|..++|..+|++..+.         ..+=+.|-..|.+++|.++-+.=-+..+.   .+|.....-+-..++.+.|++
T Consensus       812 eLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DRiHLr---~Tyy~yA~~Lear~Di~~Ale  879 (1416)
T KOG3617|consen  812 ELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDRIHLR---NTYYNYAKYLEARRDIEAALE  879 (1416)
T ss_pred             HHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhccceehh---hhHHHHHHHHHhhccHHHHHH
Confidence            556667777777666542         22333344556666666654432221111   233333333344556666666


Q ss_pred             HHccCCC-----------------------CCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcc
Q 005481          170 MFDVMPA-----------------------KSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGS  226 (694)
Q Consensus       170 ~f~~~~~-----------------------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  226 (694)
                      .|++...                       +|...|.-...-+-..|+.+.|+.+|...+.         |-++++..+-
T Consensus       880 yyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~  950 (1416)
T KOG3617|consen  880 YYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCI  950 (1416)
T ss_pred             HHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEee
Confidence            6655431                       2333444444444456888888888877655         5566677777


Q ss_pred             cCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcC
Q 005481          227 LGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIE  278 (694)
Q Consensus       227 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~  278 (694)
                      .|+.++|.++-++-        .|....-.|..+|-..|++.+|...|.+..
T Consensus       951 qGk~~kAa~iA~es--------gd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  951 QGKTDKAARIAEES--------GDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             ccCchHHHHHHHhc--------ccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            78888887776542        455566678889999999999998887654

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.83  E-value=1.1e-07  Score=89.52  Aligned_cols=225  Identities=12%  Similarity=0.093  Sum_probs=175.3

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhc
Q 005481           82 TALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKC  161 (694)
Q Consensus        82 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~  161 (694)
                      +.|..+|.+.|.+.+|...|+.-...  .|-..||..+-++|.+..++..|..++.+.++. ++.|+.........+-..
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            56778899999999999999888775  455668888889999999999999998888775 455666666777888888


Q ss_pred             CChHHHHHHHccCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHH
Q 005481          162 GRINEAARMFDVMPA---KSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHG  238 (694)
Q Consensus       162 g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~  238 (694)
                      ++.++|.++++...+   -++.+..++..+|.-.++++-|+..|+++++.|+. +...|..+--.|.-.++++.+..-|.
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            999999999987764   36667777778888889999999999999998874 66677777777777888888888888


Q ss_pred             HHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 005481          239 FLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQK---SVISWSSLILGYAQEENLAEAMELFRQLRE  310 (694)
Q Consensus       239 ~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  310 (694)
                      .+...--.++....+|-.|.......|++..|.+.|+-....   +..++|.|.-.-.+.|+.++|..++.....
T Consensus       383 RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  383 RALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKS  457 (478)
T ss_pred             HHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhh
Confidence            777665543455667777777777788888888888776543   346777777777888888888888877655

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.82  E-value=0.00011  Score=76.28  Aligned_cols=453  Identities=13%  Similarity=0.035  Sum_probs=279.4

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHh
Q 005481           81 WTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSK  160 (694)
Q Consensus        81 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~  160 (694)
                      +-.++..| ..+++...+.+.+...+. .+--..|....--.+...|+.++|.......++.. .-+.+.|..+.-.+..
T Consensus        11 F~~~lk~y-E~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R~   87 (700)
T KOG1156|consen   11 FRRALKCY-ETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRS   87 (700)
T ss_pred             HHHHHHHH-HHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHHhh
Confidence            44445544 456777888877777662 22223343333334556788888888877777643 3355677777777777


Q ss_pred             cCChHHHHHHHccCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-hhhHHHHHHHHcccCCchHHHHH
Q 005481          161 CGRINEAARMFDVMPA---KSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPD-EFTFTSTLKACGSLGSVGGGTQI  236 (694)
Q Consensus       161 ~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~~~~~~a~~~  236 (694)
                      ..++++|.+.|.....   .|...|.-+.---++.|+++...+.-.+..+.  .|+ ...|.....+.--.|+...|..+
T Consensus        88 dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql--~~~~ra~w~~~Avs~~L~g~y~~A~~i  165 (700)
T KOG1156|consen   88 DKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQL--RPSQRASWIGFAVAQHLLGEYKMALEI  165 (700)
T ss_pred             hhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh--hhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7899999999987653   46677887777778888888888877777663  344 44677778888888999999999


Q ss_pred             HHHHHHhCCCCCcchhhHHHH------HHHHHHcCCHHHHHHHHhhcCCC--C-hhhHHHHHHHHHhCCCHHHHHHHHHH
Q 005481          237 HGFLITSGFPYSVKTVIAGSL------VDFYVKCGCLVEARRVFDLIEQK--S-VISWSSLILGYAQEENLAEAMELFRQ  307 (694)
Q Consensus       237 ~~~~~~~g~~~~~~~~~~~~l------i~~y~~~g~~~~A~~~f~~~~~~--~-~~~~~~li~~~~~~g~~~~A~~~~~~  307 (694)
                      .+...+.... .++...+.-.      .....+.|.+++|.+.+......  | ...-......+.+.+++++|..++..
T Consensus       166 l~ef~~t~~~-~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~  244 (700)
T KOG1156|consen  166 LEEFEKTQNT-SPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAFEETKADLLMKLGQLEEAVKVYRR  244 (700)
T ss_pred             HHHHHHhhcc-CCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHH
Confidence            9998887631 1333322222      22346788899998888766542  2 22233455678889999999999999


Q ss_pred             HHhcCCccCccchHHHHHHHhh-hcc-HHHHHHHHHHHHhcCCCCCchH--HHHHhhhhhhcCCHHHHHHHHccCCCCC-
Q 005481          308 LRERSLQVDGFVLSSMMGVFAD-FAL-VEQGKQIHAYAAKVPSGLDTSV--SNSIVDMYLKCGLIDEATELFNEMPVKN-  382 (694)
Q Consensus       308 m~~~g~~pd~~t~~~ll~~~~~-~~~-~~~a~~i~~~~~~~~~~~~~~~--~~~li~~y~~~g~~~~A~~~~~~~~~~~-  382 (694)
                      ++..  .||..-|.-.+..+.. ..+ .+....++....+.-.......  --.++..   ..-.+....++..+..+. 
T Consensus       245 Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~---eel~~~vdkyL~~~l~Kg~  319 (700)
T KOG1156|consen  245 LLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNG---EELKEIVDKYLRPLLSKGV  319 (700)
T ss_pred             HHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCc---chhHHHHHHHHHHHhhcCC
Confidence            9986  7888888877776652 333 3333355555443321111110  0011111   111122222333322222 


Q ss_pred             hhhHHHHHHHHHhcCCHHH----HHHHHHHHHHCC----------CCCCHH--HHHHHHHHHHccCcHHHHHHHHHHHhh
Q 005481          383 VVTWTVIITGYGKHGLAKE----AVGLFRKMLLDD----------VEPDGV--AYLAVLSACSHSGLVEESQEYFSRLCN  446 (694)
Q Consensus       383 ~~~~~~li~~~~~~g~~~~----A~~~~~~m~~~g----------~~pd~~--t~~~ll~a~~~~g~~~~a~~~~~~m~~  446 (694)
                      +..+..+.+-|-.-...+-    +..+...+-..|          -+|...  |+..+...+-+.|+++.|..+.+.++.
T Consensus       320 p~vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AId  399 (700)
T KOG1156|consen  320 PSVFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAID  399 (700)
T ss_pred             CchhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhc
Confidence            2233333333332221111    111111111111          145553  445566677889999999999999976


Q ss_pred             ccCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcc--
Q 005481          447 DKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIESM-P-VKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPV--  521 (694)
Q Consensus       447 ~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~--  521 (694)
                         -.|+ ++.|-.=..++...|.+++|..++++. . ..||..+-+--..-..+.++.++|.++..+.-+.+-+-..  
T Consensus       400 ---HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L  476 (700)
T KOG1156|consen  400 ---HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNL  476 (700)
T ss_pred             ---cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHHHHccccHHHHHHHHHhhhcccchhhhH
Confidence               3566 556767778899999999999999988 2 3456555444555556788999999998887765532111  


Q ss_pred             -----hHH--HHHhHHHhcCCchHHHHHHHHHH
Q 005481          522 -----NYV--MMSNIHADAGSWNECERLRKLAR  547 (694)
Q Consensus       522 -----~~~--~l~~~~~~~g~~~~a~~~~~~m~  547 (694)
                           .|.  .=+.+|.++|+|.+|.+-+..+.
T Consensus       477 ~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~  509 (700)
T KOG1156|consen  477 AEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIE  509 (700)
T ss_pred             HHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHH
Confidence                 122  22567889999988887666553

>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=98.81  E-value=2.6e-07  Score=91.00  Aligned_cols=147  Identities=13%  Similarity=0.061  Sum_probs=95.5

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChh---HHHHHHHHHHhcCC
Q 005481          393 YGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIE---HYSCIVDSLGRAGR  469 (694)
Q Consensus       393 ~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~---~~~~li~~~~~~g~  469 (694)
                      +...|++++|++++++-      .+.......+..+.+.++++.|.+.++.|.+   +..|..   ...+.+..+.-.+.
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      2334444555666667777777777777654   333321   12222333333346


Q ss_pred             hHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCc-hHHHHHHHHH
Q 005481          470 LDEAKNLIESM--PVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSW-NECERLRKLA  546 (694)
Q Consensus       470 ~~~A~~~~~~~--~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~-~~a~~~~~~m  546 (694)
                      +.+|..+|+++  ...+++.+.+.+..+....|++++|+.+++++++.+|.++.+..+++-+....|+. +.+.+++..+
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            78888888887  34467777888888888999999999999999999999999999998888899988 5677788877


Q ss_pred             Hh
Q 005481          547 RS  548 (694)
Q Consensus       547 ~~  548 (694)
                      +.
T Consensus       263 ~~  264 (290)
T PF04733_consen  263 KQ  264 (290)
T ss_dssp             HH
T ss_pred             HH
Confidence            64

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=98.80  E-value=2.8e-05  Score=82.50  Aligned_cols=430  Identities=13%  Similarity=0.077  Sum_probs=215.1

Q ss_pred             HHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhc----
Q 005481           86 CGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKC----  161 (694)
Q Consensus        86 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~----  161 (694)
                      ..+...|++++|++.+..-... +......+......+.+.|+.++|..++..+++.+ +.+..-|..|..+..-.    
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~~~   89 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQLS   89 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhcccc
Confidence            4557788999999888775432 33233344455566778888888888888888875 23344444444444222    


Q ss_pred             -CChHHHHHHHccCCCCC--cccHHHHHHHHHhcCChh-HHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHH
Q 005481          162 -GRINEAARMFDVMPAKS--LITWNAMIAGYVLAGYSD-KGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIH  237 (694)
Q Consensus       162 -g~~~~A~~~f~~~~~~~--~~~~~~li~~~~~~g~~~-~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~  237 (694)
                       .+.+....+|+++...-  ..+...+.-.+.....+. .+...+..+...|++   .+|+.+-..|.......-..+++
T Consensus        90 ~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~l~  166 (517)
T PF12569_consen   90 DEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIESLV  166 (517)
T ss_pred             cccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHHHH
Confidence             13455555555554321  111222222222212222 233444555555653   23333333343332222222222


Q ss_pred             HHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhh-cCCCChhhH--HHHHHHHHhCCCHHHHHHHHHHHHhcCCc
Q 005481          238 GFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDL-IEQKSVISW--SSLILGYAQEENLAEAMELFRQLRERSLQ  314 (694)
Q Consensus       238 ~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~-~~~~~~~~~--~~li~~~~~~g~~~~A~~~~~~m~~~g~~  314 (694)
                      .......-                 .++.+....   .. -..|....|  .-+...|-..|++++|++++++..+.  .
T Consensus       167 ~~~~~~l~-----------------~~~~~~~~~---~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--t  224 (517)
T PF12569_consen  167 EEYVNSLE-----------------SNGSFSNGD---DEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--T  224 (517)
T ss_pred             HHHHHhhc-----------------ccCCCCCcc---ccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--C
Confidence            22221100                 000000000   00 001222233  44456666777777777777776664  4


Q ss_pred             cCc-cchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCCCh----------
Q 005481          315 VDG-FVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNV----------  383 (694)
Q Consensus       315 pd~-~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~----------  383 (694)
                      |+. ..|..-...+-+.|++..|.+..+.+.+.... |..+-+-.+..+.++|++++|.+++.....++.          
T Consensus       225 Pt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQ  303 (517)
T PF12569_consen  225 PTLVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQ  303 (517)
T ss_pred             CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHH
Confidence            443 34455555667777777777777777666544 666667777777888888888887766654331          


Q ss_pred             hhHH--HHHHHHHhcCCHHHHHHHHHHHHHC--CC-------------CCCHHHHHHHHHHHHccCc-------HHHHHH
Q 005481          384 VTWT--VIITGYGKHGLAKEAVGLFRKMLLD--DV-------------EPDGVAYLAVLSACSHSGL-------VEESQE  439 (694)
Q Consensus       384 ~~~~--~li~~~~~~g~~~~A~~~~~~m~~~--g~-------------~pd~~t~~~ll~a~~~~g~-------~~~a~~  439 (694)
                      ..|-  .-..+|.+.|++..|++-|....+.  .+             +....+|..++...-+...       ...|.+
T Consensus       304 c~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k~f~~~~~DQfDFH~Yc~RK~t~r~Y~~~L~~ed~l~~~~~y~raa~~ai~  383 (517)
T PF12569_consen  304 CMWFETECAEAYLRQGDYGLALKRFHAVLKHFDDFEEDQFDFHSYCLRKMTLRAYVDMLRWEDKLRSHPFYRRAAKGAIR  383 (517)
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcccccHHHHHHhhccHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            1332  3456778888888887776665441  01             1122334444433222111       123334


Q ss_pred             HHHHHhhccCCCCCh-----------hHHHHHHHHH---HhcCChHHHHHHHH-----------hC----CCCCCHHHHH
Q 005481          440 YFSRLCNDKRMKPRI-----------EHYSCIVDSL---GRAGRLDEAKNLIE-----------SM----PVKPSIAIWQ  490 (694)
Q Consensus       440 ~~~~m~~~~~~~p~~-----------~~~~~li~~~---~~~g~~~~A~~~~~-----------~~----~~~p~~~~~~  490 (694)
                      ++-.+-.........           .--..+-.-.   .+...-+++...-.           +.    +.++|.-..+
T Consensus       384 iYl~l~d~~~~~~~~~~~~~~~~~~~~e~Kk~~kK~kK~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~Dp~G  463 (517)
T PF12569_consen  384 IYLELHDKPEAKQGEEQEADNENMSAAERKKAKKKAKKAAKKAKKEEAEKAAKKEPKKQQNKSKKKEKVEPKKKDDDPLG  463 (517)
T ss_pred             HHHHHhcCcccccccccccccccCChHHHHHHHHHHHHHHHHHhHHHHHHHHhhhhhhhhccccccccccCCcCCCCccH
Confidence            443332211000000           0000000000   11111111211110           00    1111211111


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHH
Q 005481          491 TLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKL  545 (694)
Q Consensus       491 ~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  545 (694)
                      .-+.  ....=.++|.+.++-+.+..|++..+|..--.+|.+.|++--|.+.+..
T Consensus       464 ekL~--~t~dPLe~A~kfl~pL~~~a~~~~et~~laFeVy~Rk~K~LLaLqaL~k  516 (517)
T PF12569_consen  464 EKLL--KTEDPLEEAMKFLKPLLELAPDNIETHLLAFEVYLRKGKYLLALQALKK  516 (517)
T ss_pred             HHHh--cCCcHHHHHHHHHHHHHHhCccchhhHHHHhHHHHhcCcHHHHHHHHHh
Confidence            1111  2233468899999999999999999999999999999999988877653

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 [], [].

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.78  E-value=0.00032  Score=82.68  Aligned_cols=366  Identities=13%  Similarity=0.012  Sum_probs=169.8

Q ss_pred             HHHHhcCChHHHHHHHccCCCCCccc--HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHH
Q 005481          156 DMYSKCGRINEAARMFDVMPAKSLIT--WNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGG  233 (694)
Q Consensus       156 ~~y~~~g~~~~A~~~f~~~~~~~~~~--~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a  233 (694)
                      ..|...|++.+|..........+...  ...........|+++.+..++..+.......+..........+...|+++++
T Consensus       349 ~~~~~~g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a  428 (903)
T PRK04841        349 EAWLAQGFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEV  428 (903)
T ss_pred             HHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHH
Confidence            34556677777776666555432211  1112233445677777666666552211111222222333344566777777


Q ss_pred             HHHHHHHHHhCCCC------CcchhhHHHHHHHHHHcCCHHHHHHHHhhcCC----CCh----hhHHHHHHHHHhCCCHH
Q 005481          234 TQIHGFLITSGFPY------SVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQ----KSV----ISWSSLILGYAQEENLA  299 (694)
Q Consensus       234 ~~~~~~~~~~g~~~------~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~----~~~----~~~~~li~~~~~~g~~~  299 (694)
                      ...+..+...-...      .........+...+...|++++|...+++...    .+.    ..++.+...+...|+++
T Consensus       429 ~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~  508 (903)
T PRK04841        429 NTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELA  508 (903)
T ss_pred             HHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHH
Confidence            77776665431110      00112222233445566677777666665321    111    23344445555666666


Q ss_pred             HHHHHHHHHHhcCCcc-----CccchHHHHHHHhhhccHHHHHHHHHHHHhc----CCCCCchHHHHHhhhhhhcCCHHH
Q 005481          300 EAMELFRQLRERSLQV-----DGFVLSSMMGVFADFALVEQGKQIHAYAAKV----PSGLDTSVSNSIVDMYLKCGLIDE  370 (694)
Q Consensus       300 ~A~~~~~~m~~~g~~p-----d~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~----~~~~~~~~~~~li~~y~~~g~~~~  370 (694)
                      +|...+.+.....-..     ...++..+...+...|+++.|...+......    +.....                  
T Consensus       509 ~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~------------------  570 (903)
T PRK04841        509 RALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLP------------------  570 (903)
T ss_pred             HHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhcccccc------------------
Confidence            6666666654321100     0112222223334444444444444433221    100000                  


Q ss_pred             HHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCC--HHHHHHHHHHHHccCcHHHHHHHHHHHhh
Q 005481          371 ATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLD--DVEPD--GVAYLAVLSACSHSGLVEESQEYFSRLCN  446 (694)
Q Consensus       371 A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~pd--~~t~~~ll~a~~~~g~~~~a~~~~~~m~~  446 (694)
                                .....+..+...+...|++++|...+++....  ...|.  ..++..+.......|+.++|.+.++.+..
T Consensus       571 ----------~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~  640 (903)
T PRK04841        571 ----------MHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLEN  640 (903)
T ss_pred             ----------HHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                      00112233334444556666666666655432  11111  12333344455566666776666666543


Q ss_pred             ccCCCCChhHH-----HHHHHHHHhcCChHHHHHHHHhCCCC--CCH----HHHHHHHHHHHhcCChHHHHHHHHHHHcC
Q 005481          447 DKRMKPRIEHY-----SCIVDSLGRAGRLDEAKNLIESMPVK--PSI----AIWQTLLSACRVHGDLELGREVGEILLRL  515 (694)
Q Consensus       447 ~~~~~p~~~~~-----~~li~~~~~~g~~~~A~~~~~~~~~~--p~~----~~~~~ll~a~~~~g~~~~a~~~~~~~~~~  515 (694)
                      ...-......+     ......+...|+.+.|.+.+......  ...    ..+..+..++...|+.++|...++++++.
T Consensus       641 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~  720 (903)
T PRK04841        641 LLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNEN  720 (903)
T ss_pred             HHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            11100000001     01123344566777777776554110  111    11334445566667777777777776653


Q ss_pred             C------CCCcchHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          516 D------GDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       516 ~------p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      .      +....++..++.+|...|+.++|...+.+..+.
T Consensus       721 ~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        721 ARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            2      111235556667777777777777777776653

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.77  E-value=1.6e-06  Score=78.30  Aligned_cols=198  Identities=18%  Similarity=0.127  Sum_probs=141.0

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhh
Q 005481          284 SWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYL  363 (694)
Q Consensus       284 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~  363 (694)
                      +...|..+|.+.|++..|..-+++.++.  .|+                                  +..++..+...|.
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~--DPs----------------------------------~~~a~~~~A~~Yq   80 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEH--DPS----------------------------------YYLAHLVRAHYYQ   80 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--Ccc----------------------------------cHHHHHHHHHHHH
Confidence            3445566777777777777777777664  232                                  3445556666777


Q ss_pred             hcCCHHHHHHHHccCC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHccCcHHHHHH
Q 005481          364 KCGLIDEATELFNEMP---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDG-VAYLAVLSACSHSGLVEESQE  439 (694)
Q Consensus       364 ~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~  439 (694)
                      +.|..+.|.+.|++..   ..+....|....-+|..|++++|...|++....-.-|.. .||..+.-+..+.|+.+.|..
T Consensus        81 ~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~  160 (250)
T COG3063          81 KLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEE  160 (250)
T ss_pred             HcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHH
Confidence            7777777777777654   345556677777778888888888888888875433333 578788777788888888888


Q ss_pred             HHHHHhhccCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCC
Q 005481          440 YFSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIESM--PVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLD  516 (694)
Q Consensus       440 ~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~  516 (694)
                      +|++..+   +.|+ ......|.+.....|++..|..+++..  ...++..+.-..+..-...||.+.+-+.-.++...-
T Consensus       161 ~l~raL~---~dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~f  237 (250)
T COG3063         161 YLKRALE---LDPQFPPALLELARLHYKAGDYAPARLYLERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLF  237 (250)
T ss_pred             HHHHHHH---hCcCCChHHHHHHHHHHhcccchHHHHHHHHHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            8888877   3444 456777888888888888888888876  334666665555666677788888888888888888


Q ss_pred             CCCc
Q 005481          517 GDNP  520 (694)
Q Consensus       517 p~~~  520 (694)
                      |...
T Consensus       238 P~s~  241 (250)
T COG3063         238 PYSE  241 (250)
T ss_pred             CCcH
Confidence            8643

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.75  E-value=1.7e-05  Score=75.60  Aligned_cols=194  Identities=18%  Similarity=0.162  Sum_probs=111.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHccCCCCCcccHHHHH---HHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcc
Q 005481          150 VGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMI---AGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGS  226 (694)
Q Consensus       150 ~~~~ll~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li---~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  226 (694)
                      -.--|...+...|++.+|+.-|....+-|+..|-++.   ..|...|+..-|+.=|.+.++  .+||-..-..       
T Consensus        40 khlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVle--lKpDF~~ARi-------  110 (504)
T KOG0624|consen   40 KHLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLE--LKPDFMAARI-------  110 (504)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHh--cCccHHHHHH-------
Confidence            3344556666677888888888777777777776664   467777777777777777766  4555332110       


Q ss_pred             cCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCChh------------------hHHHH
Q 005481          227 LGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVI------------------SWSSL  288 (694)
Q Consensus       227 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~------------------~~~~l  288 (694)
                                     ++              ...+.|.|.++.|..-|+.+.+.++.                  .....
T Consensus       111 ---------------QR--------------g~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~q  161 (504)
T KOG0624|consen  111 ---------------QR--------------GVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQ  161 (504)
T ss_pred             ---------------Hh--------------chhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHH
Confidence                           01              11234555555555555554432210                  01112


Q ss_pred             HHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCH
Q 005481          289 ILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLI  368 (694)
Q Consensus       289 i~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~  368 (694)
                      +..+..+|+...|+.....+++                                   .. +.|...+..-..+|...|++
T Consensus       162 l~s~~~~GD~~~ai~~i~~llE-----------------------------------i~-~Wda~l~~~Rakc~i~~~e~  205 (504)
T KOG0624|consen  162 LKSASGSGDCQNAIEMITHLLE-----------------------------------IQ-PWDASLRQARAKCYIAEGEP  205 (504)
T ss_pred             HHHHhcCCchhhHHHHHHHHHh-----------------------------------cC-cchhHHHHHHHHHHHhcCcH
Confidence            2233344444444444444443                                   22 12555555666777777777


Q ss_pred             HHHHHHHccCC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 005481          369 DEATELFNEMP---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGV  419 (694)
Q Consensus       369 ~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~  419 (694)
                      ..|+.-++...   ..+.....-+-..+...|+.+.++...++-++  +.||..
T Consensus       206 k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ldpdHK  257 (504)
T KOG0624|consen  206 KKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLK--LDPDHK  257 (504)
T ss_pred             HHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCcchh
Confidence            77766554433   45556666666777777888888888877776  567763

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.74  E-value=5.1e-05  Score=82.22  Aligned_cols=175  Identities=10%  Similarity=0.053  Sum_probs=107.8

Q ss_pred             HHHHHHHHHhCCCCC-hhhHHHHHHHHHhcCChHHHHHHHhccCC---CCcccHHHHHHHHHhCCChHHHHHHHHHhhhC
Q 005481           32 VQLHGALVKMGFSFD-LMLNNDLIDMYAKCGEMNGACAVFDKMLE---RNVVSWTALMCGFLQNGNAKACLSLFCQMGSS  107 (694)
Q Consensus        32 ~~~~~~~~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  107 (694)
                      ..++..+....+.++ ...|..|-..|...-+...|.+.|+..-+   .+..+|-.....|++..+++.|..+.-.--+.
T Consensus       476 ~al~ali~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~qk  555 (1238)
T KOG1127|consen  476 LALHALIRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQK  555 (1238)
T ss_pred             HHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhhh
Confidence            333333333333333 34677777777777777788888887755   34567888888888888888888873322221


Q ss_pred             C-CCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCCCCCcccHHH--
Q 005481          108 S-VKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNA--  184 (694)
Q Consensus       108 g-~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~~~~~~~~--  184 (694)
                      . ...-...|...--.+-..++...+..-|+..++.. +-|...|..|..+|.++|++..|.++|.+...-++.+|-.  
T Consensus       556 a~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~f  634 (1238)
T KOG1127|consen  556 APAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRF  634 (1238)
T ss_pred             chHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHH
Confidence            1 00011122222333455667777777777776654 4466788888888888888888888887776544333222  


Q ss_pred             -HHHHHHhcCChhHHHHHHHHHHH
Q 005481          185 -MIAGYVLAGYSDKGLLLFRKMQE  207 (694)
Q Consensus       185 -li~~~~~~g~~~~A~~~~~~m~~  207 (694)
                       ....-+..|.+.+|+..+.....
T Consensus       635 k~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  635 KEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHH
Confidence             12234567888888877776643

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.72  E-value=2.4e-07  Score=94.21  Aligned_cols=219  Identities=15%  Similarity=0.104  Sum_probs=163.1

Q ss_pred             hhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCC---CChhhHHHHHHHHHhcCCHHHHHH
Q 005481          328 ADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPV---KNVVTWTVIITGYGKHGLAKEAVG  404 (694)
Q Consensus       328 ~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~  404 (694)
                      .+.|++..|.-.|+.+++.... +...|--|...-...++-..|+..+++..+   .|....-+|...|...|.-.+|+.
T Consensus       296 m~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~  374 (579)
T KOG1125|consen  296 MKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALK  374 (579)
T ss_pred             HhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHH
Confidence            3445566666666666655433 556666666667777777777777776653   366677777888888888888988


Q ss_pred             HHHHHHHCCCCCCHHHHHHH--------HHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHH
Q 005481          405 LFRKMLLDDVEPDGVAYLAV--------LSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNL  476 (694)
Q Consensus       405 ~~~~m~~~g~~pd~~t~~~l--------l~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  476 (694)
                      .++.-+...  |-......-        -........+....++|-.+....+..+|.+++.+|.-+|--.|.+++|.+.
T Consensus       375 ~L~~Wi~~~--p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDc  452 (579)
T KOG1125|consen  375 MLDKWIRNK--PKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDC  452 (579)
T ss_pred             HHHHHHHhC--ccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHH
Confidence            888776532  111000000        0112222334556667777766677668888999999999999999999999


Q ss_pred             HHhC-CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          477 IESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       477 ~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      |+.+ .++|+ ..+||-|...+....+.++|+.+|++++++.|.-..+...|+-.|...|.++||.+.+-.+...
T Consensus       453 f~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~m  527 (579)
T KOG1125|consen  453 FEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSM  527 (579)
T ss_pred             HHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHh
Confidence            9987 67775 6679999999999999999999999999999999999999999999999999999998877653

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.71  E-value=8.5e-06  Score=82.57  Aligned_cols=215  Identities=15%  Similarity=0.102  Sum_probs=133.9

Q ss_pred             HHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCCChh----------hHHHHH
Q 005481          321 SSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVV----------TWTVII  390 (694)
Q Consensus       321 ~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~----------~~~~li  390 (694)
                      ..+..+..+..+++.+.+-+...+...  .+..-++....+|...|.+.+....-+...+....          +...+.
T Consensus       228 k~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g  305 (539)
T KOG0548|consen  228 KELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLG  305 (539)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhh
Confidence            344555555566677777776666655  45555666667777777766665554443322111          122234


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChh-HHHHHHHHHHhcCC
Q 005481          391 TGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIE-HYSCIVDSLGRAGR  469 (694)
Q Consensus       391 ~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~g~  469 (694)
                      .+|.+.++++.|+..|++.+..-..||..         .+....+++........-   +.|... -...=.+.+.+.|+
T Consensus       306 ~a~~k~~~~~~ai~~~~kaLte~Rt~~~l---------s~lk~~Ek~~k~~e~~a~---~~pe~A~e~r~kGne~Fk~gd  373 (539)
T KOG0548|consen  306 NAYTKREDYEGAIKYYQKALTEHRTPDLL---------SKLKEAEKALKEAERKAY---INPEKAEEEREKGNEAFKKGD  373 (539)
T ss_pred             hhhhhHHhHHHHHHHHHHHhhhhcCHHHH---------HHHHHHHHHHHHHHHHHh---hChhHHHHHHHHHHHHHhccC
Confidence            45666777888888888776654444432         222233444443333322   344421 11122566777888


Q ss_pred             hHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHH
Q 005481          470 LDEAKNLIESM-PVKP-SIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLAR  547 (694)
Q Consensus       470 ~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  547 (694)
                      +.+|+..+.++ ...| |...|.....+|.+.|++..|..-.+..++++|+....|..=+-++....+|+.|.+.+++..
T Consensus       374 y~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eal  453 (539)
T KOG0548|consen  374 YPEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEAL  453 (539)
T ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888776 3334 456677777777888888888888888888888888888888888888888888888887766


Q ss_pred             hC
Q 005481          548 SK  549 (694)
Q Consensus       548 ~~  549 (694)
                      +.
T Consensus       454 e~  455 (539)
T KOG0548|consen  454 EL  455 (539)
T ss_pred             hc
Confidence            54

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.70  E-value=6.1e-05  Score=81.61  Aligned_cols=522  Identities=14%  Similarity=0.006  Sum_probs=258.9

Q ss_pred             HHHHHHHhhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccCCCCc---c--cHHHHHHHHH
Q 005481           15 LADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNV---V--SWTALMCGFL   89 (694)
Q Consensus        15 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~---~--~~~~li~~~~   89 (694)
                      |..+=..|...-+...|...|....+.. ..+...+....+.|++..+++.|..+.-...+.+.   .  .|-...-.|.
T Consensus       495 f~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyL  573 (1238)
T KOG1127|consen  495 FAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYL  573 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhcccccc
Confidence            3333333443345556666666665544 45667778888888888888888877433333221   1  2323333455


Q ss_pred             hCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCCh-hHHHHHHHHHHhcCChHHHH
Q 005481           90 QNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNP-VVGNSIIDMYSKCGRINEAA  168 (694)
Q Consensus        90 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~-~~~~~ll~~y~~~g~~~~A~  168 (694)
                      +.++...|+.-|+...+.. +-|...|..+..+|...|....|.++|..+...  .|+. +.---...+-+..|.+.+|.
T Consensus       574 ea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s~y~~fk~A~~ecd~GkYkeal  650 (1238)
T KOG1127|consen  574 EAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLSKYGRFKEAVMECDNGKYKEAL  650 (1238)
T ss_pred             CccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHhHHHHHHHHHHHHHhhhHHHHH
Confidence            5666666666666665532 125556666666676667766666666665543  2221 11111222334456666665


Q ss_pred             HHHccCCCC----------CcccHHHHHHHHHhcCChhHHHHHHHH-------HHHCCC---------------------
Q 005481          169 RMFDVMPAK----------SLITWNAMIAGYVLAGYSDKGLLLFRK-------MQEHGE---------------------  210 (694)
Q Consensus       169 ~~f~~~~~~----------~~~~~~~li~~~~~~g~~~~A~~~~~~-------m~~~g~---------------------  210 (694)
                      ..+..+...          -..++-.+...+...|-..+|.+.|+.       ......                     
T Consensus       651 d~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~f~q~e  730 (1238)
T KOG1127|consen  651 DALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYIFSQEE  730 (1238)
T ss_pred             HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHHHHHhc
Confidence            555444310          011111111122222222222222222       111111                     


Q ss_pred             --CCChhhHHHHHHHHcccCCc---h---HHHHHHHHHHHhCCCCCcchhhHHHHHHHHHH----cC----CHHHHHHHH
Q 005481          211 --IPDEFTFTSTLKACGSLGSV---G---GGTQIHGFLITSGFPYSVKTVIAGSLVDFYVK----CG----CLVEARRVF  274 (694)
Q Consensus       211 --~p~~~t~~~ll~a~~~~~~~---~---~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~----~g----~~~~A~~~f  274 (694)
                        .|+......+..-.-..+..   +   .|.+.+-.  ...+.  .+...|..|+..|.+    +|    +...|...+
T Consensus       731 ~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~--hlsl~--~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~  806 (1238)
T KOG1127|consen  731 PSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIA--HLSLA--IHMYPWYNLGINYLRYFLLLGETMKDACTAIRCC  806 (1238)
T ss_pred             ccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhH--HHHHh--hccchHHHHhHHHHHHHHHcCCcchhHHHHHHHH
Confidence              12222222222111112221   1   01111100  00111  223334444433333    11    223455555


Q ss_pred             hhcC---CCChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCC
Q 005481          275 DLIE---QKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLD  351 (694)
Q Consensus       275 ~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~  351 (694)
                      ....   ..+...||+|.-. ...|.+.-|...|-+-.... +-...+|..+--.|....+++.|.+.+.......+. +
T Consensus       807 KkaV~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLdP~-n  883 (1238)
T KOG1127|consen  807 KKAVSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLDPL-N  883 (1238)
T ss_pred             HHHHHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhhcCch-h
Confidence            5433   3456677766554 44455666655555444321 224455666666666677777777777766554322 2


Q ss_pred             chHHHHHhhhhhhcCCHHHHHHHHccC-----C---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH---------CCC
Q 005481          352 TSVSNSIVDMYLKCGLIDEATELFNEM-----P---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLL---------DDV  414 (694)
Q Consensus       352 ~~~~~~li~~y~~~g~~~~A~~~~~~~-----~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---------~g~  414 (694)
                      ...+-...-..-..|+.-++..+|..-     .   .++..-|-+-..-..++|+.++-+...+++-.         .|.
T Consensus       884 l~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~  963 (1238)
T KOG1127|consen  884 LVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYYFLGH  963 (1238)
T ss_pred             hHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHhcC
Confidence            222211111223456666666666541     1   23444455444455566666655444443322         133


Q ss_pred             CCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHH----HHHHHHhcCChHHHHHHHHhCCCCCCHHHHH
Q 005481          415 EPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSC----IVDSLGRAGRLDEAKNLIESMPVKPSIAIWQ  490 (694)
Q Consensus       415 ~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~----li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~  490 (694)
                      +-+...|...+....+.+.+.+|.+...+.+.-...+-+...|+.    +...+...|.++.|..-+...+..-|..+.+
T Consensus       964 p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~~~~evdEdi~g 1043 (1238)
T KOG1127|consen  964 PQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKKASWKEWMEVDEDIRG 1043 (1238)
T ss_pred             cchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhcccchhHHHHHhh
Confidence            334467777777777888888777776665442222344445553    3345556678887777666654444554544


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHcCCCCCcc---hHHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          491 TLLSACRVHGDLELGREVGEILLRLDGDNPV---NYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       491 ~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      +-+.. .-.|+++.+...|++++.+--++..   ....++.....++.-+.|....-+...
T Consensus      1044 t~l~l-Ffkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~~~ 1103 (1238)
T KOG1127|consen 1044 TDLTL-FFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEVKS 1103 (1238)
T ss_pred             hhHHH-HHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHHHH
Confidence            44444 3457899999999999887554333   233344455566777777766555543

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.70  E-value=1.9e-05  Score=83.37  Aligned_cols=405  Identities=14%  Similarity=0.127  Sum_probs=242.2

Q ss_pred             CChhhHHHHHH--HHHhcCChHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHHHhhhC-CC--------CCCc
Q 005481           45 FDLMLNNDLID--MYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSS-SV--------KPNE  113 (694)
Q Consensus        45 ~~~~~~~~li~--~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~--------~p~~  113 (694)
                      .|..+-.++++  .|..-|+.+.|.+-.+.+..  -+.|..|.+.|++..+.+-|.-.+-.|... |.        .|+ 
T Consensus       724 Cd~~TRkaml~FSfyvtiG~MD~AfksI~~IkS--~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-  800 (1416)
T KOG3617|consen  724 CDESTRKAMLDFSFYVTIGSMDAAFKSIQFIKS--DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-  800 (1416)
T ss_pred             cCHHHHHhhhceeEEEEeccHHHHHHHHHHHhh--hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-
Confidence            56677777765  67788999999887776653  346999999999999998888887777431 21        222 


Q ss_pred             eeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCCCC-CcccHHHHHHHHHhc
Q 005481          114 FTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAK-SLITWNAMIAGYVLA  192 (694)
Q Consensus       114 ~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~-~~~~~~~li~~~~~~  192 (694)
                      .+=.-+.-.....|-+++|+.++.+..+..         .|=..|...|.+++|.++-+.-..- =-.||.....-+-..
T Consensus       801 e~eakvAvLAieLgMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear  871 (1416)
T KOG3617|consen  801 EDEAKVAVLAIELGMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEAR  871 (1416)
T ss_pred             chhhHHHHHHHHHhhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhh
Confidence            222223333456788999999999888753         3556788899999999886543221 112555556666667


Q ss_pred             CChhHHHHHHHHH----------HHCCC---------CCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhh
Q 005481          193 GYSDKGLLLFRKM----------QEHGE---------IPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVI  253 (694)
Q Consensus       193 g~~~~A~~~~~~m----------~~~g~---------~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~  253 (694)
                      ++.+.|++.|++-          +....         +-|...|.--..-.-..|+.+.|..++..+..           
T Consensus       872 ~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D-----------  940 (1416)
T KOG3617|consen  872 RDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD-----------  940 (1416)
T ss_pred             ccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh-----------
Confidence            8888888888753          11111         01222222222233344555555555544322           


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccH
Q 005481          254 AGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALV  333 (694)
Q Consensus       254 ~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~  333 (694)
                      |-+++...+-.|+.++|-++-++-  .|..+...+...|-..|++.+|+..|.+.+.         |+..|+.|-..+.-
T Consensus       941 ~fs~VrI~C~qGk~~kAa~iA~es--gd~AAcYhlaR~YEn~g~v~~Av~FfTrAqa---------fsnAIRlcKEnd~~ 1009 (1416)
T KOG3617|consen  941 YFSMVRIKCIQGKTDKAARIAEES--GDKAACYHLARMYENDGDVVKAVKFFTRAQA---------FSNAIRLCKENDMK 1009 (1416)
T ss_pred             hhhheeeEeeccCchHHHHHHHhc--ccHHHHHHHHHHhhhhHHHHHHHHHHHHHHH---------HHHHHHHHHhcCHH
Confidence            233445555567777776665543  4556677788899999999999999988653         44555544333221


Q ss_pred             HHHHH------------HHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCC--------------CCChhhHH
Q 005481          334 EQGKQ------------IHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMP--------------VKNVVTWT  387 (694)
Q Consensus       334 ~~a~~------------i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~--------------~~~~~~~~  387 (694)
                      ++-..            .-.+..+.|..     ...-+-.|-|.|.+.+|+++--+-.              ..|+...+
T Consensus      1010 d~L~nlal~s~~~d~v~aArYyEe~g~~-----~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~ 1084 (1416)
T KOG3617|consen 1010 DRLANLALMSGGSDLVSAARYYEELGGY-----AHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLR 1084 (1416)
T ss_pred             HHHHHHHhhcCchhHHHHHHHHHHcchh-----hhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHH
Confidence            11110            11111122211     1223446777787777776522211              23555566


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC----hhHHHHHHHH
Q 005481          388 VIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR----IEHYSCIVDS  463 (694)
Q Consensus       388 ~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~  463 (694)
                      .-..-|..+.++++|..++-..++         |...+..|...+ +.-..++-+.|.....-.|+    ......+.+.
T Consensus      1085 RcadFF~~~~qyekAV~lL~~ar~---------~~~AlqlC~~~n-v~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~ 1154 (1416)
T KOG3617|consen 1085 RCADFFENNQQYEKAVNLLCLARE---------FSGALQLCKNRN-VRVTEEFAELMTPTKDDMPNEQERKQVLEQVAEL 1154 (1416)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHH---------HHHHHHHHhcCC-CchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHH
Confidence            666677788888888888766554         445555565443 23333344444332222343    3356677788


Q ss_pred             HHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHH
Q 005481          464 LGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLEL  504 (694)
Q Consensus       464 ~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~a~~~~g~~~~  504 (694)
                      +.++|.+..|-+-|.+++.+      -.-+.++.+.||.++
T Consensus      1155 c~qQG~Yh~AtKKfTQAGdK------l~AMraLLKSGdt~K 1189 (1416)
T KOG3617|consen 1155 CLQQGAYHAATKKFTQAGDK------LSAMRALLKSGDTQK 1189 (1416)
T ss_pred             HHhccchHHHHHHHhhhhhH------HHHHHHHHhcCCcce
Confidence            88999999988888887533      123445556666553

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.70  E-value=0.00011  Score=72.00  Aligned_cols=154  Identities=13%  Similarity=0.081  Sum_probs=100.4

Q ss_pred             HHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCC---CCChhhHHHHH-HHHH-hcCCHH
Q 005481          326 VFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMP---VKNVVTWTVII-TGYG-KHGLAK  400 (694)
Q Consensus       326 ~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li-~~~~-~~g~~~  400 (694)
                      .+...++.++|.-.|..+.... +.+...|.-|+..|...|++.+|.-.-+...   ..+..+.+.+. ..+. .-.--+
T Consensus       343 lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rE  421 (564)
T KOG1174|consen  343 LLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRLFQNSARSLTLFGTLVLFPDPRMRE  421 (564)
T ss_pred             HHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHH
Confidence            3344455555544444443322 1245566667777777777666654332211   12222222221 1111 112246


Q ss_pred             HHHHHHHHHHHCCCCCCH-HHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHh
Q 005481          401 EAVGLFRKMLLDDVEPDG-VAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIES  479 (694)
Q Consensus       401 ~A~~~~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  479 (694)
                      +|.+++++-+.  +.|+. ...+.+...|...|..++++.+++....   ..||....+.|.+.+...+.+++|++.|..
T Consensus       422 KAKkf~ek~L~--~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~---~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~  496 (564)
T KOG1174|consen  422 KAKKFAEKSLK--INPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLI---IFPDVNLHNHLGDIMRAQNEPQKAMEYYYK  496 (564)
T ss_pred             HHHHHHHhhhc--cCCccHHHHHHHHHHHHhhCccchHHHHHHHHHh---hccccHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            88888888776  67887 4677777889999999999999999877   569999999999999999999999999987


Q ss_pred             C-CCCCC
Q 005481          480 M-PVKPS  485 (694)
Q Consensus       480 ~-~~~p~  485 (694)
                      . .+.|+
T Consensus       497 ALr~dP~  503 (564)
T KOG1174|consen  497 ALRQDPK  503 (564)
T ss_pred             HHhcCcc
Confidence            6 56665

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.68  E-value=4.5e-05  Score=77.46  Aligned_cols=241  Identities=13%  Similarity=0.068  Sum_probs=152.7

Q ss_pred             HHHHHHHHHcCCHHHHHHHHhhcCC--CChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhcc
Q 005481          255 GSLVDFYVKCGCLVEARRVFDLIEQ--KSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFAL  332 (694)
Q Consensus       255 ~~li~~y~~~g~~~~A~~~f~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~  332 (694)
                      ..|.++..+..+++.|.+.++...+  .++.-++....+|...|.+.+.........+.|-.. ..-|+.+-.       
T Consensus       228 k~lgnaaykkk~f~~a~q~y~~a~el~~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~-rad~klIak-------  299 (539)
T KOG0548|consen  228 KELGNAAYKKKDFETAIQHYAKALELATDITYLNNIAAVYLERGKYAECIELCEKAVEVGREL-RADYKLIAK-------  299 (539)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhHhhhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHH-HHHHHHHHH-------
Confidence            3456666666777777777766543  233345556667777777777666665544433110 000111000       


Q ss_pred             HHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005481          333 VEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLD  412 (694)
Q Consensus       333 ~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  412 (694)
                                           ....+..+|.+.++++.|...|.+...+...     -....+....++++.......- 
T Consensus       300 ---------------------~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~-  352 (539)
T KOG0548|consen  300 ---------------------ALARLGNAYTKREDYEGAIKYYQKALTEHRT-----PDLLSKLKEAEKALKEAERKAY-  352 (539)
T ss_pred             ---------------------HHHHhhhhhhhHHhHHHHHHHHHHHhhhhcC-----HHHHHHHHHHHHHHHHHHHHHh-
Confidence                                 1112445777788889998888875522111     1112233445666666555544 


Q ss_pred             CCCCCHH-HHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-HHHH
Q 005481          413 DVEPDGV-AYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIW  489 (694)
Q Consensus       413 g~~pd~~-t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~  489 (694)
                       +.|+.. -...-.+.+.+.|++..|...|.++++..  +-|...|....-+|.+.|.+.+|++=.+.. ...|+ ...|
T Consensus       353 -~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~--P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy  429 (539)
T KOG0548|consen  353 -INPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD--PEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAY  429 (539)
T ss_pred             -hChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC--CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHH
Confidence             445442 23333667788999999999999998822  335778999999999999999998876665 44555 3345


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhc
Q 005481          490 QTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADA  533 (694)
Q Consensus       490 ~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  533 (694)
                      .-=..++....+++.|.+.|++.++.+|++......+..++...
T Consensus       430 ~RKg~al~~mk~ydkAleay~eale~dp~~~e~~~~~~rc~~a~  473 (539)
T KOG0548|consen  430 LRKGAALRAMKEYDKALEAYQEALELDPSNAEAIDGYRRCVEAQ  473 (539)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHh
Confidence            55566677778999999999999999999877766666666543

>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=98.67  E-value=2.7e-05  Score=82.55  Aligned_cols=125  Identities=15%  Similarity=0.110  Sum_probs=79.3

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHH
Q 005481          421 YLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIESM-PVKP-SIAIWQTLLSACR  497 (694)
Q Consensus       421 ~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~  497 (694)
                      +..+...|.+.|++++|.++.+..+.   ..|+ ++.|..-...|-+.|++++|.+.++.. ...+ |..+-+-....+.
T Consensus       197 ~~~lAqhyd~~g~~~~Al~~Id~aI~---htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~L  273 (517)
T PF12569_consen  197 LYFLAQHYDYLGDYEKALEYIDKAIE---HTPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKYLL  273 (517)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHh---cCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHHH
Confidence            34445556677777777777777776   3455 566777777777777777777777766 2333 3444444455566


Q ss_pred             hcCChHHHHHHHHHHHcCC--CCC-------cchHHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          498 VHGDLELGREVGEILLRLD--GDN-------PVNYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       498 ~~g~~~~a~~~~~~~~~~~--p~~-------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      +.|+.++|+..+......+  |..       .......+.+|.+.|++..|.+.+..+.+
T Consensus       274 Ra~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  274 RAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            7777777777777765444  211       01123456778888888888777666543

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 [], [].

>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=98.66  E-value=1.6e-06  Score=85.51  Aligned_cols=158  Identities=14%  Similarity=0.125  Sum_probs=116.9

Q ss_pred             HHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----c
Q 005481          356 NSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSH----S  431 (694)
Q Consensus       356 ~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~----~  431 (694)
                      .....+|...|++++|.+++.+.  .+.......+..|.+.++++.|.+.++.|.+  +..|. +...+..++..    .
T Consensus       106 ~~~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~--~~eD~-~l~qLa~awv~l~~g~  180 (290)
T PF04733_consen  106 LLAATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQ--IDEDS-ILTQLAEAWVNLATGG  180 (290)
T ss_dssp             HHHHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC--CSCCH-HHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCcH-HHHHHHHHHHHHHhCc
Confidence            33445677889999999988876  5566667788899999999999999999987  34454 34444444432    3


Q ss_pred             CcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCh-HHHHHH
Q 005481          432 GLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDL-ELGREV  508 (694)
Q Consensus       432 g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~-~~a~~~  508 (694)
                      ..+.+|..+|+++...+  .++..+.+.+.-+....|++++|.+++++. ...|+ +.+...++-.....|+. +.+.+.
T Consensus       181 e~~~~A~y~f~El~~~~--~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~  258 (290)
T PF04733_consen  181 EKYQDAFYIFEELSDKF--GSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERY  258 (290)
T ss_dssp             TCCCHHHHHHHHHHCCS----SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             hhHHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHH
Confidence            46899999999997743  577888999999999999999999999886 43443 55666777777777877 778889


Q ss_pred             HHHHHcCCCCCc
Q 005481          509 GEILLRLDGDNP  520 (694)
Q Consensus       509 ~~~~~~~~p~~~  520 (694)
                      ..++....|+++
T Consensus       259 l~qL~~~~p~h~  270 (290)
T PF04733_consen  259 LSQLKQSNPNHP  270 (290)
T ss_dssp             HHHCHHHTTTSH
T ss_pred             HHHHHHhCCCCh
Confidence            999888899764

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.

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.65  E-value=2.4e-05  Score=81.14  Aligned_cols=294  Identities=11%  Similarity=-0.040  Sum_probs=162.5

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHhhcCC---CChh---hHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCcc-chHHHH
Q 005481          252 VIAGSLVDFYVKCGCLVEARRVFDLIEQ---KSVI---SWSSLILGYAQEENLAEAMELFRQLRERSLQVDGF-VLSSMM  324 (694)
Q Consensus       252 ~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~---~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~-t~~~ll  324 (694)
                      ..+..+...|...|+.+++.+.+....+   .+..   ........+...|++++|.+.+++..+.  .|+.. .+.. .
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            3444444555555555555444443221   1111   1222233456677778888777777664  34332 2221 1


Q ss_pred             HHHhh----hccHHHHHHHHHHHHhcCCCCC-chHHHHHhhhhhhcCCHHHHHHHHccCC---CCChhhHHHHHHHHHhc
Q 005481          325 GVFAD----FALVEQGKQIHAYAAKVPSGLD-TSVSNSIVDMYLKCGLIDEATELFNEMP---VKNVVTWTVIITGYGKH  396 (694)
Q Consensus       325 ~~~~~----~~~~~~a~~i~~~~~~~~~~~~-~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~  396 (694)
                      ..+..    .+..+.+.+....  ..+..|+ ......+...+...|++++|...+++..   ..+...+..+...|...
T Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~  161 (355)
T cd05804          84 LGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQ  161 (355)
T ss_pred             HHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHc
Confidence            11222    2333334333332  1112222 2333455567778888888888888766   23456677788888888


Q ss_pred             CCHHHHHHHHHHHHHCCC-CCCH--HHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHH-H--HHHHHHHhcCCh
Q 005481          397 GLAKEAVGLFRKMLLDDV-EPDG--VAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHY-S--CIVDSLGRAGRL  470 (694)
Q Consensus       397 g~~~~A~~~~~~m~~~g~-~pd~--~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~-~--~li~~~~~~g~~  470 (694)
                      |++++|...+++...... .|+.  ..+..+...+...|++++|..+++.+.......+..... +  .+...+...|..
T Consensus       162 g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~  241 (355)
T cd05804         162 GRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHV  241 (355)
T ss_pred             CCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCC
Confidence            888888888888776422 1232  234466777788888999988888875422111111111 1  223333344432


Q ss_pred             HHHHHH---HHhC-CCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHcCC-C--------CCcchHHHHHhHHHhcC
Q 005481          471 DEAKNL---IESM-PVKPS---IAIWQTLLSACRVHGDLELGREVGEILLRLD-G--------DNPVNYVMMSNIHADAG  534 (694)
Q Consensus       471 ~~A~~~---~~~~-~~~p~---~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~-p--------~~~~~~~~l~~~~~~~g  534 (694)
                      +.+.+.   .... +..|.   .........++...|+.+.|...++.+.... .        .........+.++...|
T Consensus       242 ~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g  321 (355)
T cd05804         242 DVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEG  321 (355)
T ss_pred             ChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcC
Confidence            222222   1111 11011   1222345556778888999998888876422 1        12345567778889999


Q ss_pred             CchHHHHHHHHHHhCC
Q 005481          535 SWNECERLRKLARSKG  550 (694)
Q Consensus       535 ~~~~a~~~~~~m~~~g  550 (694)
                      ++++|.+.+......+
T Consensus       322 ~~~~A~~~L~~al~~a  337 (355)
T cd05804         322 NYATALELLGPVRDDL  337 (355)
T ss_pred             CHHHHHHHHHHHHHHH
Confidence            9999999999887643

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.

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.63  E-value=9.7e-07  Score=77.60  Aligned_cols=121  Identities=14%  Similarity=0.098  Sum_probs=91.2

Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhC-C
Q 005481          404 GLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKP-RIEHYSCIVDSLGRAGRLDEAKNLIESM-P  481 (694)
Q Consensus       404 ~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~  481 (694)
                      .+|++.++  +.|+.  +..+..++...|++++|...|+.+..   +.| +...|..+..++.+.|++++|...|++. .
T Consensus        14 ~~~~~al~--~~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~   86 (144)
T PRK15359         14 DILKQLLS--VDPET--VYASGYASWQEGDYSRAVIDFSWLVM---AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALM   86 (144)
T ss_pred             HHHHHHHH--cCHHH--HHHHHHHHHHcCCHHHHHHHHHHHHH---cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            45555555  44554  44556677788888888888888876   444 4667788888888888888888888887 3


Q ss_pred             CCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHH
Q 005481          482 VKP-SIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHA  531 (694)
Q Consensus       482 ~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  531 (694)
                      ..| +...|..+..++...|+.++|+..+++++++.|+++..+...+++..
T Consensus        87 l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~  137 (144)
T PRK15359         87 LDASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQI  137 (144)
T ss_pred             cCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Confidence            344 56778888888888899999999999999999988888877766544

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.63  E-value=0.00037  Score=71.75  Aligned_cols=408  Identities=12%  Similarity=0.083  Sum_probs=208.3

Q ss_pred             HHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHH--HHHHHH--h
Q 005481           85 MCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNS--IIDMYS--K  160 (694)
Q Consensus        85 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~--ll~~y~--~  160 (694)
                      ++-+..+|++++|......+...+ +-|...+..-+-+..+.+.+++|..+...   .+.   ..+++.  +=.+|+  +
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk---~~~---~~~~~~~~fEKAYc~Yr   91 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKK---NGA---LLVINSFFFEKAYCEYR   91 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHh---cch---hhhcchhhHHHHHHHHH
Confidence            455667788888888888887654 33445556666667777777777643322   211   111111  223343  6


Q ss_pred             cCChHHHHHHHccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC-ChhhHHHHHHHHcccCCchHHHHHHHH
Q 005481          161 CGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIP-DEFTFTSTLKACGSLGSVGGGTQIHGF  239 (694)
Q Consensus       161 ~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~~~~~~a~~~~~~  239 (694)
                      .+..|+|...++.....+..+...-...+.+.|++++|+++|+.+.+.+..- |...-..++.+-..         .-..
T Consensus        92 lnk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~---------l~~~  162 (652)
T KOG2376|consen   92 LNKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAA---------LQVQ  162 (652)
T ss_pred             cccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHh---------hhHH
Confidence            6778888888875555555455556667777888888888888887665421 11112222221111         1110


Q ss_pred             HHHhC-CCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhc--------CCCCh----------hhHHHHHHHHHhCCCHHH
Q 005481          240 LITSG-FPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLI--------EQKSV----------ISWSSLILGYAQEENLAE  300 (694)
Q Consensus       240 ~~~~g-~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~--------~~~~~----------~~~~~li~~~~~~g~~~~  300 (694)
                      ..+.- ..+..+-..+-...-.+...|++.+|+++++..        .+.|.          ..---|...+...|+.++
T Consensus       163 ~~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~e  242 (652)
T KOG2376|consen  163 LLQSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAE  242 (652)
T ss_pred             HHHhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHH
Confidence            11111 111112222222334455666666666666654        11111          011123344455666666


Q ss_pred             HHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHH-HHHHHHccCC
Q 005481          301 AMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLID-EATELFNEMP  379 (694)
Q Consensus       301 A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~-~A~~~~~~~~  379 (694)
                      |..++...++.. .+|.......                               -|.|+.+-.-..-++ .+...|+...
T Consensus       243 a~~iy~~~i~~~-~~D~~~~Av~-------------------------------~NNLva~~~d~~~~d~~~l~~k~~~~  290 (652)
T KOG2376|consen  243 ASSIYVDIIKRN-PADEPSLAVA-------------------------------VNNLVALSKDQNYFDGDLLKSKKSQV  290 (652)
T ss_pred             HHHHHHHHHHhc-CCCchHHHHH-------------------------------hcchhhhccccccCchHHHHHHHHHH
Confidence            666666655542 2232221111                               111111110000000 1122222111


Q ss_pred             --------------CCChhhH-HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc--cCcHHHHHHHHH
Q 005481          380 --------------VKNVVTW-TVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSH--SGLVEESQEYFS  442 (694)
Q Consensus       380 --------------~~~~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~--~g~~~~a~~~~~  442 (694)
                                    ++..+.. +.++..|.  +..+.+.++.....  +..|.. .+..++..+..  ......+.+++.
T Consensus       291 ~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~t--nk~~q~r~~~a~lp--~~~p~~-~~~~ll~~~t~~~~~~~~ka~e~L~  365 (652)
T KOG2376|consen  291 FKLAEFLLSKLSKKQKQAIYRNNALLALFT--NKMDQVRELSASLP--GMSPES-LFPILLQEATKVREKKHKKAIELLL  365 (652)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHh--hhHHHHHHHHHhCC--ccCchH-HHHHHHHHHHHHHHHHHhhhHHHHH
Confidence                          1111222 22333332  22333333333222  233433 44555555432  235677788877


Q ss_pred             HHhhccCCCCC--hhHHHHHHHHHHhcCChHHHHHHHH--------hC-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 005481          443 RLCNDKRMKPR--IEHYSCIVDSLGRAGRLDEAKNLIE--------SM-PVKPSIAIWQTLLSACRVHGDLELGREVGEI  511 (694)
Q Consensus       443 ~m~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~--------~~-~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~  511 (694)
                      ...+.   .|.  ..+.-.++......|+++.|.+++.        .. .+.-.+.+..++...+.+.++.+-|..++..
T Consensus       366 ~~~~~---~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~  442 (652)
T KOG2376|consen  366 QFADG---HPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPGTVGAIVALYYKIKDNDSASAVLDS  442 (652)
T ss_pred             HHhcc---CCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChhHHHHHHHHHHhccCCccHHHHHHH
Confidence            77652   233  4456677888899999999999998        43 2333455667777777777777777777777


Q ss_pred             HHcC----CCC---CcchHHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          512 LLRL----DGD---NPVNYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       512 ~~~~----~p~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      ++.-    .+.   -...+..++..-.+.|+-++|..+++++.+
T Consensus       443 Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k  486 (652)
T KOG2376|consen  443 AIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVK  486 (652)
T ss_pred             HHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHH
Confidence            6531    222   223344455556677999999999999876

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.60  E-value=3.2e-06  Score=81.94  Aligned_cols=178  Identities=13%  Similarity=0.020  Sum_probs=103.0

Q ss_pred             chHHHHHhhhhhhcCCHHHHHHHHccCCC--CC-h---hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH----HH
Q 005481          352 TSVSNSIVDMYLKCGLIDEATELFNEMPV--KN-V---VTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGV----AY  421 (694)
Q Consensus       352 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~-~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~----t~  421 (694)
                      ...+..+...|.+.|++++|...|+++..  |+ .   ..|..+..+|...|++++|+..|+++.+.  .|+..    ++
T Consensus        33 ~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~  110 (235)
T TIGR03302        33 AEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL--HPNHPDADYAY  110 (235)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCchHHHH
Confidence            33444555556666666666666665542  21 1   24455556666666666666666666653  22221    23


Q ss_pred             HHHHHHHHcc--------CcHHHHHHHHHHHhhccCCCCChh-HHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHH
Q 005481          422 LAVLSACSHS--------GLVEESQEYFSRLCNDKRMKPRIE-HYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTL  492 (694)
Q Consensus       422 ~~ll~a~~~~--------g~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l  492 (694)
                      ..+..++...        |+.++|.+.|+.+.+.   .|+.. .+..+...    +......           ......+
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~----~~~~~~~-----------~~~~~~~  172 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRM----DYLRNRL-----------AGKELYV  172 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHH----HHHHHHH-----------HHHHHHH
Confidence            3333344332        4555666666665542   23321 11111100    0000000           0011244


Q ss_pred             HHHHHhcCChHHHHHHHHHHHcCCCCC---cchHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          493 LSACRVHGDLELGREVGEILLRLDGDN---PVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       493 l~a~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      ...+...|+++.|...++++++..|++   +.++..++.+|...|++++|..+++.+..+
T Consensus       173 a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       173 ARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            556788899999999999999987765   478899999999999999999999888754

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).

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.54  E-value=1.2e-06  Score=77.03  Aligned_cols=106  Identities=12%  Similarity=0.011  Sum_probs=92.6

Q ss_pred             HHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCC
Q 005481          439 EYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKP-SIAIWQTLLSACRVHGDLELGREVGEILLRLD  516 (694)
Q Consensus       439 ~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~  516 (694)
                      .+|++..+   +.|+  .+..+...+...|++++|.+.|+.. ...| +...|..+..++...|++++|...++++++++
T Consensus        14 ~~~~~al~---~~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~   88 (144)
T PRK15359         14 DILKQLLS---VDPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD   88 (144)
T ss_pred             HHHHHHHH---cCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            45666655   4565  3567888999999999999999987 4445 57789999999999999999999999999999


Q ss_pred             CCCcchHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          517 GDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       517 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      |+++.++..++.++...|+.++|...++...+.
T Consensus        89 p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359         89 ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKM  121 (144)
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999998764

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.54  E-value=0.00013  Score=75.77  Aligned_cols=298  Identities=12%  Similarity=0.034  Sum_probs=147.8

Q ss_pred             cccHHHHHHHHHhcCChhHHHHHHHHHHHCCC-CCChhhHHH-HHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHH
Q 005481          179 LITWNAMIAGYVLAGYSDKGLLLFRKMQEHGE-IPDEFTFTS-TLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGS  256 (694)
Q Consensus       179 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~-ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~  256 (694)
                      ...|..+...+...|+.+++...+....+... .++...... ....+...|+++.+.++++.+.+..+   .+...++.
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P---~~~~a~~~   82 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYP---RDLLALKL   82 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC---CcHHHHHH
Confidence            34566666677777777777666666544321 122221111 12234456677777777777666544   22222221


Q ss_pred             ---HHHHHHHcCCHHHHHHHHhhcCCCCh---hhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhh
Q 005481          257 ---LVDFYVKCGCLVEARRVFDLIEQKSV---ISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADF  330 (694)
Q Consensus       257 ---li~~y~~~g~~~~A~~~f~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~  330 (694)
                         +.......+..+.+.+.++.....+.   .....+...+...|++++|...+++..+.  .|+              
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~--~p~--------------  146 (355)
T cd05804          83 HLGAFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALEL--NPD--------------  146 (355)
T ss_pred             hHHHHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCC--------------
Confidence               11111223334444444433221111   22223334455555566666655555543  222              


Q ss_pred             ccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCC-----CCh--hhHHHHHHHHHhcCCHHHHH
Q 005481          331 ALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPV-----KNV--VTWTVIITGYGKHGLAKEAV  403 (694)
Q Consensus       331 ~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-----~~~--~~~~~li~~~~~~g~~~~A~  403 (694)
                                          +...+..+...|...|++++|...+++...     ++.  ..|..+...+...|++++|+
T Consensus       147 --------------------~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~  206 (355)
T cd05804         147 --------------------DAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAAL  206 (355)
T ss_pred             --------------------CcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHH
Confidence                                344455566666677777777777666542     121  23455677777788888888


Q ss_pred             HHHHHHHHCCC-CCCHHHH-H--HHHHHHHccCcHHHHHHH---HHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHH
Q 005481          404 GLFRKMLLDDV-EPDGVAY-L--AVLSACSHSGLVEESQEY---FSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNL  476 (694)
Q Consensus       404 ~~~~~m~~~g~-~pd~~t~-~--~ll~a~~~~g~~~~a~~~---~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  476 (694)
                      .+|++...... .+..... .  .++.-+...|..+.+.+.   .........-..........+.++...|+.++|..+
T Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~  286 (355)
T cd05804         207 AIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKL  286 (355)
T ss_pred             HHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHH
Confidence            88887754322 1111111 1  223333333433322222   111111000011111222456677788888888888


Q ss_pred             HHhCC--CCC---CH----HHHHHHHH--HHHhcCChHHHHHHHHHHHcC
Q 005481          477 IESMP--VKP---SI----AIWQTLLS--ACRVHGDLELGREVGEILLRL  515 (694)
Q Consensus       477 ~~~~~--~~p---~~----~~~~~ll~--a~~~~g~~~~a~~~~~~~~~~  515 (694)
                      ++.+.  ...   ..    .+...++.  ++...|+.+.|.+.+..++.+
T Consensus       287 L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         287 LAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             HHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            87761  111   11    12222222  456889999999998888754

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.52  E-value=0.00019  Score=67.30  Aligned_cols=406  Identities=12%  Similarity=0.044  Sum_probs=210.4

Q ss_pred             HHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCCC--CCcccHHH-HHHHHHhc
Q 005481          116 LSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPA--KSLITWNA-MIAGYVLA  192 (694)
Q Consensus       116 ~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~--~~~~~~~~-li~~~~~~  192 (694)
                      +.+++..+.+..++..+.+++..-.+.. +.+..-.+.|...|-...++..|...++++..  |...-|.. -...+.+.
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY~A   91 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSLYKA   91 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHHh
Confidence            3344444444444444444444433332 11334444555555556666666666655543  21111211 12344566


Q ss_pred             CChhHHHHHHHHHHHCCCCCChhhHHHHHHH--HcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHH
Q 005481          193 GYSDKGLLLFRKMQEHGEIPDEFTFTSTLKA--CGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEA  270 (694)
Q Consensus       193 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a--~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A  270 (694)
                      +.+.+|+.+...|...   |+...-..-+.+  .-+.+++..+..+.++....     .+..+.+...-...+.|+++.|
T Consensus        92 ~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~e-----n~Ad~~in~gCllykegqyEaA  163 (459)
T KOG4340|consen   92 CIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSE-----NEADGQINLGCLLYKEGQYEAA  163 (459)
T ss_pred             cccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCC-----CccchhccchheeeccccHHHH
Confidence            7777777777766542   222211111222  22456666666666554322     2334444455566788999999


Q ss_pred             HHHHhhcCC----CChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccc----hHHHHHHHhhhccHHHHHHHHHH
Q 005481          271 RRVFDLIEQ----KSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFV----LSSMMGVFADFALVEQGKQIHAY  342 (694)
Q Consensus       271 ~~~f~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t----~~~ll~~~~~~~~~~~a~~i~~~  342 (694)
                      .+-|+...+    .....||.-+.. .+.|+++.|+++..++.++|++-....    ..-.+.+    ..+..-..++..
T Consensus       164 vqkFqaAlqvsGyqpllAYniALaH-y~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDv----rsvgNt~~lh~S  238 (459)
T KOG4340|consen  164 VQKFQAALQVSGYQPLLAYNLALAH-YSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDV----RSVGNTLVLHQS  238 (459)
T ss_pred             HHHHHHHHhhcCCCchhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCch----hcccchHHHHHH
Confidence            999988765    245667755544 467889999999999998887532110    0000000    000000111111


Q ss_pred             HHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCC-----CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 005481          343 AAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPV-----KNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPD  417 (694)
Q Consensus       343 ~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd  417 (694)
                      .       -+..+|.-...+.+.|+.+.|.+.+-.|+.     -|++|...+.-.- ..+++.+..+-+.-++..+.- -
T Consensus       239 a-------l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nPf-P  309 (459)
T KOG4340|consen  239 A-------LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNPF-P  309 (459)
T ss_pred             H-------HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCCC-C
Confidence            0       011223334456789999999999999984     3677765543221 245555666656666654332 2


Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHH-hcCChHHHHHHHHhCCCCCCHHHHHHHHHH-
Q 005481          418 GVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLG-RAGRLDEAKNLIESMPVKPSIAIWQTLLSA-  495 (694)
Q Consensus       418 ~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~-~~g~~~~A~~~~~~~~~~p~~~~~~~ll~a-  495 (694)
                      ..||..++-.|++..-++-|..++.+-...--.-.+...|+ |++++. ..-..++|++-++.+...--...-..-+.. 
T Consensus       310 ~ETFANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~La~~l~~kLRklAi~vQ  388 (459)
T KOG4340|consen  310 PETFANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGLAGMLTEKLRKLAIQVQ  388 (459)
T ss_pred             hHHHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            47999999999999999988888764322000001223333 334333 344667777666554100000000011111 


Q ss_pred             HHhcCChHH----HHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          496 CRVHGDLEL----GREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       496 ~~~~g~~~~----a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      -.++.+-++    +.+-++..+++-   ......-+++|.+..++..+.+.|..-.+
T Consensus       389 e~r~~~dd~a~R~ai~~Yd~~LE~Y---LPVlMa~AkiyW~~~Dy~~vEk~Fr~Sve  442 (459)
T KOG4340|consen  389 EARHNRDDEAIRKAVNEYDETLEKY---LPVLMAQAKIYWNLEDYPMVEKIFRKSVE  442 (459)
T ss_pred             HHHhcccHHHHHHHHHHHHHHHHHH---HHHHHHHHHhhccccccHHHHHHHHHHHh
Confidence            112222222    222333333332   12445567888999999999998886554

>PF12854 PPR_1: PPR repeat

Probab=98.52  E-value=1.4e-07  Score=59.08  Aligned_cols=33  Identities=39%  Similarity=0.618  Sum_probs=26.3

Q ss_pred             CCCCChhhHHHHHHHHHhcCChHHHHHHHhccC
Q 005481           42 GFSFDLMLNNDLIDMYAKCGEMNGACAVFDKML   74 (694)
Q Consensus        42 g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~   74 (694)
                      |+.||..+||+||++|++.|++++|.++|++|+
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            677888888888888888888888888888774

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.51  E-value=5.7e-06  Score=76.96  Aligned_cols=117  Identities=10%  Similarity=0.089  Sum_probs=91.6

Q ss_pred             cCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHH-HhcCC--hHHH
Q 005481          431 SGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKP-SIAIWQTLLSAC-RVHGD--LELG  505 (694)
Q Consensus       431 ~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~a~-~~~g~--~~~a  505 (694)
                      .++.+++...++...+..  +.+...|..|...|...|++++|...+++. ...| +...+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~--P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN--PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            566677777777766621  345677888888888888888888888877 4455 466677777763 56676  5899


Q ss_pred             HHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          506 REVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       506 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      .++++++++.+|+++.++..++..+...|++++|...++++.+.
T Consensus       130 ~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        130 REMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999999998764

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.50  E-value=0.00024  Score=83.81  Aligned_cols=322  Identities=10%  Similarity=-0.080  Sum_probs=161.3

Q ss_pred             ccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCCC----CC---c---c--cHHHHHHHHHhc
Q 005481          125 VLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPA----KS---L---I--TWNAMIAGYVLA  192 (694)
Q Consensus       125 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~----~~---~---~--~~~~li~~~~~~  192 (694)
                      ..|+.+.+..++..+.......++.........+...|++++|...++....    .+   .   .  ....+...+...
T Consensus       386 ~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  465 (903)
T PRK04841        386 NQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAIND  465 (903)
T ss_pred             hcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhC
Confidence            3455555555554432111112222333344445566777776666654321    11   0   0  111122344567


Q ss_pred             CChhHHHHHHHHHHHCCCCCCh----hhHHHHHHHHcccCCchHHHHHHHHHHHhCCCC---CcchhhHHHHHHHHHHcC
Q 005481          193 GYSDKGLLLFRKMQEHGEIPDE----FTFTSTLKACGSLGSVGGGTQIHGFLITSGFPY---SVKTVIAGSLVDFYVKCG  265 (694)
Q Consensus       193 g~~~~A~~~~~~m~~~g~~p~~----~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~---~~~~~~~~~li~~y~~~g  265 (694)
                      |++++|...+++....-...+.    .....+...+...|+++.|...+..........   .........+...+...|
T Consensus       466 g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G  545 (903)
T PRK04841        466 GDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQG  545 (903)
T ss_pred             CCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCC
Confidence            7777777777776553111111    122334444556777777777776665432110   011234455566677778


Q ss_pred             CHHHHHHHHhhcCC-------CC----hhhHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CccC--ccchHHHHHHHhhh
Q 005481          266 CLVEARRVFDLIEQ-------KS----VISWSSLILGYAQEENLAEAMELFRQLRERS--LQVD--GFVLSSMMGVFADF  330 (694)
Q Consensus       266 ~~~~A~~~f~~~~~-------~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~pd--~~t~~~ll~~~~~~  330 (694)
                      +++.|...+++..+       ++    ...+..+...+...|++++|...+.+.....  ..+.  ...+..+.......
T Consensus       546 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~  625 (903)
T PRK04841        546 FLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLAR  625 (903)
T ss_pred             CHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHc
Confidence            88887777665431       11    1223344455666788888887777765421  1111  12222333445566


Q ss_pred             ccHHHHHHHHHHHHhcCCCCC-chHH-----HHHhhhhhhcCCHHHHHHHHccCCCCCh-------hhHHHHHHHHHhcC
Q 005481          331 ALVEQGKQIHAYAAKVPSGLD-TSVS-----NSIVDMYLKCGLIDEATELFNEMPVKNV-------VTWTVIITGYGKHG  397 (694)
Q Consensus       331 ~~~~~a~~i~~~~~~~~~~~~-~~~~-----~~li~~y~~~g~~~~A~~~~~~~~~~~~-------~~~~~li~~~~~~g  397 (694)
                      |+.+.|...+..+........ ...+     ...+..+...|+.+.|.+++.....+..       ..+..+..++...|
T Consensus       626 G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g  705 (903)
T PRK04841        626 GDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLG  705 (903)
T ss_pred             CCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcC
Confidence            777777766665543211000 0000     1112334456777777777655543211       11234555666677


Q ss_pred             CHHHHHHHHHHHHHC----CCCCCH-HHHHHHHHHHHccCcHHHHHHHHHHHhh
Q 005481          398 LAKEAVGLFRKMLLD----DVEPDG-VAYLAVLSACSHSGLVEESQEYFSRLCN  446 (694)
Q Consensus       398 ~~~~A~~~~~~m~~~----g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~  446 (694)
                      ++++|...+++....    |..++. .+...+..++...|+.++|...+.++.+
T Consensus       706 ~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~  759 (903)
T PRK04841        706 QFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALK  759 (903)
T ss_pred             CHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            777777777766542    222222 2444455556666777777766666655

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.49  E-value=8.5e-06  Score=89.69  Aligned_cols=138  Identities=14%  Similarity=0.130  Sum_probs=99.3

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHH
Q 005481          382 NVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDG-VAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSC  459 (694)
Q Consensus       382 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~  459 (694)
                      ++..+-.|.....+.|++++|..+++...+  +.||. .....+...+.+.+.+++|...+++...   ..|+ ......
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~---~~p~~~~~~~~  159 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS---GGSSSAREILL  159 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh---cCCCCHHHHHH
Confidence            466677777777778888888888888877  66776 3566677777888888888888887766   3454 556677


Q ss_pred             HHHHHHhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHH
Q 005481          460 IVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYV  524 (694)
Q Consensus       460 li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  524 (694)
                      +..++.+.|++++|.++|++. ...|+ ..+|.++..++...|+.++|..+|+++++...+-...|.
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~  226 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLT  226 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHH
Confidence            777788888888888888876 22333 667777777788888888888888888776654444433

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.48  E-value=8.9e-06  Score=83.15  Aligned_cols=216  Identities=13%  Similarity=0.143  Sum_probs=158.3

Q ss_pred             HcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHH
Q 005481          224 CGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQ---KSVISWSSLILGYAQEENLAE  300 (694)
Q Consensus       224 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~  300 (694)
                      +.+.|++.+|.-.|+..++..+   .+...|.-|....+..++-..|+..+.+..+   .|....-+|.-.|...|.-.+
T Consensus       295 lm~nG~L~~A~LafEAAVkqdP---~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQDP---QHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhCh---HHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHH
Confidence            3467888888888888888887   6788888888888888888888888777654   456777778888999999999


Q ss_pred             HHHHHHHHHhcCCc--------cCccchHHHHHHHhhhccHHHHHHH-HHHHHhcCCCCCchHHHHHhhhhhhcCCHHHH
Q 005481          301 AMELFRQLRERSLQ--------VDGFVLSSMMGVFADFALVEQGKQI-HAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEA  371 (694)
Q Consensus       301 A~~~~~~m~~~g~~--------pd~~t~~~ll~~~~~~~~~~~a~~i-~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A  371 (694)
                      |+..|+.......+        ++..+-..  ........+....++ ++.....+...|+.+...|.-.|--.|++++|
T Consensus       372 Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdra  449 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRA  449 (579)
T ss_pred             HHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHH
Confidence            99999887653210        01110000  122222333344444 44445566567888888888888889999999


Q ss_pred             HHHHccCC--C-CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHccCcHHHHHHHHHHHhh
Q 005481          372 TELFNEMP--V-KNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGV-AYLAVLSACSHSGLVEESQEYFSRLCN  446 (694)
Q Consensus       372 ~~~~~~~~--~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~a~~~~g~~~~a~~~~~~m~~  446 (694)
                      .+.|+...  + .|...||-|...++...+.++|+..|++.++  ++|+.+ ....|.-+|...|.+++|..+|-.++.
T Consensus       450 iDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  450 VDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            99999876  3 3777899999999999999999999999988  788874 444566678899999999888876654

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.48  E-value=0.0024  Score=65.20  Aligned_cols=420  Identities=12%  Similarity=0.087  Sum_probs=197.7

Q ss_pred             CCChhhHHHHHHHHHhcCChHHHHHHHhccCC--CC-cccHHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHH
Q 005481           44 SFDLMLNNDLIDMYAKCGEMNGACAVFDKMLE--RN-VVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNI  120 (694)
Q Consensus        44 ~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~--~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  120 (694)
                      +-|+.+|+.||.-+... ..++++..++++..  |+ ...|..-|.+-.+..+++....+|.+.+..-.  +...|..-|
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvL--nlDLW~lYl   93 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVL--NLDLWKLYL   93 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHh--hHhHHHHHH
Confidence            56788888888877655 88888888888754  43 44688888888888888888888888765432  333444444


Q ss_pred             HHhccc-CChHHHH----HHHHHHH-HhCCCCCh-hHHHHHHHH---------HHhcCChHHHHHHHccCCCC---Cc--
Q 005481          121 KASGVL-SSVENGM----QIHGMCM-KSGFEWNP-VVGNSIIDM---------YSKCGRINEAARMFDVMPAK---SL--  179 (694)
Q Consensus       121 ~a~~~~-~~~~~a~----~~~~~~~-~~g~~~~~-~~~~~ll~~---------y~~~g~~~~A~~~f~~~~~~---~~--  179 (694)
                      .--.+. ++....+    +.|+.++ +.|+++-. ..|+..+..         |....+++..+++++++...   |.  
T Consensus        94 ~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlEk  173 (656)
T KOG1914|consen   94 SYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLEK  173 (656)
T ss_pred             HHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHHH
Confidence            332221 2222222    2333333 33544332 345554433         33445677778888777642   11  


Q ss_pred             -----ccHHHHHHHH-------HhcCChhHHHHHHHHHHH--CCCCCChhh---------------HHHHHHHHcccCCc
Q 005481          180 -----ITWNAMIAGY-------VLAGYSDKGLLLFRKMQE--HGEIPDEFT---------------FTSTLKACGSLGSV  230 (694)
Q Consensus       180 -----~~~~~li~~~-------~~~g~~~~A~~~~~~m~~--~g~~p~~~t---------------~~~ll~a~~~~~~~  230 (694)
                           ..|..=|+..       -+...+..|.+++++...  .|..-+..+               |..+|.-=-..+--
T Consensus       174 LW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL~  253 (656)
T KOG1914|consen  174 LWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPLR  253 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCcc
Confidence                 1221111111       123345667777776643  343322222               22222211100000


Q ss_pred             --------hHHHHHHHHHHH-hCCCCCcchhh-H----HHHHHHHHHcCCH-------HHHHHHHhhcCCC----ChhhH
Q 005481          231 --------GGGTQIHGFLIT-SGFPYSVKTVI-A----GSLVDFYVKCGCL-------VEARRVFDLIEQK----SVISW  285 (694)
Q Consensus       231 --------~~a~~~~~~~~~-~g~~~~~~~~~-~----~~li~~y~~~g~~-------~~A~~~f~~~~~~----~~~~~  285 (694)
                              ....-++++.+. .+..  ++... +    ...-+.+...|+.       +++.+++++..+.    +...|
T Consensus       254 t~~~~~~~~Rv~yayeQ~ll~l~~~--peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly  331 (656)
T KOG1914|consen  254 TLDGTMLTRRVMYAYEQCLLYLGYH--PEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLY  331 (656)
T ss_pred             cccccHHHHHHHHHHHHHHHHHhcC--HHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence                    000011111111 1111  11100 0    0011122223322       2333333332211    11222


Q ss_pred             HHHHHHH---HhCCCHHHHHHHHHHHHhc-CCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCC-CchHHHHHhh
Q 005481          286 SSLILGY---AQEENLAEAMELFRQLRER-SLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGL-DTSVSNSIVD  360 (694)
Q Consensus       286 ~~li~~~---~~~g~~~~A~~~~~~m~~~-g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~-~~~~~~~li~  360 (694)
                      ..+..--   .+....+.....+.+++.. .+.|+ .+|...+....+..-++.|+.+|..+.+.+..+ ++.++++++.
T Consensus       332 ~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mE  410 (656)
T KOG1914|consen  332 FALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALME  410 (656)
T ss_pred             HHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHH
Confidence            2221110   0111234444455554442 22232 445556666666666666777777666665555 6666666666


Q ss_pred             hhhhcCCHHHHHHHHccCCC--C-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHccCcHH
Q 005481          361 MYLKCGLIDEATELFNEMPV--K-NVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDG--VAYLAVLSACSHSGLVE  435 (694)
Q Consensus       361 ~y~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~--~t~~~ll~a~~~~g~~~  435 (694)
                      .|+ .++.+-|.++|+--..  + +..--+..+.-+...++-..|..+|++.+..++.||.  ..|..+|.-=+.-|++.
T Consensus       411 y~c-skD~~~AfrIFeLGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~  489 (656)
T KOG1914|consen  411 YYC-SKDKETAFRIFELGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLN  489 (656)
T ss_pred             HHh-cCChhHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHH
Confidence            555 3556666666654331  2 2222334445555556666666666666665555544  35566665555666666


Q ss_pred             HHHHHHHHHhhccC--CCCChhHHHHHHHHHHhcCCh
Q 005481          436 ESQEYFSRLCNDKR--MKPRIEHYSCIVDSLGRAGRL  470 (694)
Q Consensus       436 ~a~~~~~~m~~~~~--~~p~~~~~~~li~~~~~~g~~  470 (694)
                      .+.++-+++...+.  ..|...+-..+++.|+-.+..
T Consensus       490 si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~  526 (656)
T KOG1914|consen  490 SILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLY  526 (656)
T ss_pred             HHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhcccc
Confidence            66555555544333  333333333444444444443

>PF12854 PPR_1: PPR repeat

Probab=98.47  E-value=2e-07  Score=58.29  Aligned_cols=33  Identities=45%  Similarity=0.668  Sum_probs=26.2

Q ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHHccCC
Q 005481          143 GFEWNPVVGNSIIDMYSKCGRINEAARMFDVMP  175 (694)
Q Consensus       143 g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~  175 (694)
                      |+.||..+||+||++|++.|++++|.++|++|+
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            677888888888888888888888888887774

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.46  E-value=0.00037  Score=66.78  Aligned_cols=174  Identities=11%  Similarity=-0.002  Sum_probs=109.4

Q ss_pred             CceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCCh-hHHHHHHHHHHhcCChHHHHHHHccCCCCCcccHHHHH---H
Q 005481          112 NEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNP-VVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMI---A  187 (694)
Q Consensus       112 ~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~-~~~~~ll~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li---~  187 (694)
                      +..--.-+-+.+...|++..|..-|..+++.  .|+. .++-.-...|...|+...|+.=|++..+--+..+.+-|   .
T Consensus        37 dvekhlElGk~lla~~Q~sDALt~yHaAve~--dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~  114 (504)
T KOG0624|consen   37 DVEKHLELGKELLARGQLSDALTHYHAAVEG--DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGV  114 (504)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHcC--CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhch
Confidence            3333445556666777787777776666653  2332 22333346788889888888888777654333333333   4


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCH
Q 005481          188 GYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCL  267 (694)
Q Consensus       188 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~  267 (694)
                      .+.+.|.++.|..=|+..++..  |+..+-   ..+..+.--.++-                  ......+..+.-.|+.
T Consensus       115 vllK~Gele~A~~DF~~vl~~~--~s~~~~---~eaqskl~~~~e~------------------~~l~~ql~s~~~~GD~  171 (504)
T KOG0624|consen  115 VLLKQGELEQAEADFDQVLQHE--PSNGLV---LEAQSKLALIQEH------------------WVLVQQLKSASGSGDC  171 (504)
T ss_pred             hhhhcccHHHHHHHHHHHHhcC--CCcchh---HHHHHHHHhHHHH------------------HHHHHHHHHHhcCCch
Confidence            6788999999999999998754  433221   2222222211211                  1222234445667888


Q ss_pred             HHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 005481          268 VEARRVFDLIEQ---KSVISWSSLILGYAQEENLAEAMELFRQLRE  310 (694)
Q Consensus       268 ~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  310 (694)
                      ..|+.....+.+   -|...+..-..+|...|++..|+.-++..-+
T Consensus       172 ~~ai~~i~~llEi~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~ask  217 (504)
T KOG0624|consen  172 QNAIEMITHLLEIQPWDASLRQARAKCYIAEGEPKKAIHDLKQASK  217 (504)
T ss_pred             hhHHHHHHHHHhcCcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHh
Confidence            888888877654   3666777778899999999999887776654

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.46  E-value=7.3e-06  Score=85.86  Aligned_cols=217  Identities=18%  Similarity=0.181  Sum_probs=121.3

Q ss_pred             cchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHh
Q 005481          249 VKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFA  328 (694)
Q Consensus       249 ~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~  328 (694)
                      |-......+...+.++|-...|..+|+++     ..|.-.|.+|...|+..+|..+..+-.++  +||...         
T Consensus       396 p~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~l---------  459 (777)
T KOG1128|consen  396 PIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRL---------  459 (777)
T ss_pred             CcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchh---------
Confidence            34445556677777777777777777654     35666777777777777777766665552  444444         


Q ss_pred             hhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 005481          329 DFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRK  408 (694)
Q Consensus       329 ~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  408 (694)
                                                |..|.+.....--+++|.++++....+--..|+.+   ....++++++.+.|+.
T Consensus       460 --------------------------yc~LGDv~~d~s~yEkawElsn~~sarA~r~~~~~---~~~~~~fs~~~~hle~  510 (777)
T KOG1128|consen  460 --------------------------YCLLGDVLHDPSLYEKAWELSNYISARAQRSLALL---ILSNKDFSEADKHLER  510 (777)
T ss_pred             --------------------------HHHhhhhccChHHHHHHHHHhhhhhHHHHHhhccc---cccchhHHHHHHHHHH
Confidence                                      44444444444445555555544332211111111   1235667777777766


Q ss_pred             HHHCCCCCCH-HHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhC-CC-CC
Q 005481          409 MLLDDVEPDG-VAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIESM-PV-KP  484 (694)
Q Consensus       409 m~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p  484 (694)
                      -.+  +.|-. .||-.+..+..+.++++.|.+.|..-..   +.|+ .+.||.+-.+|.+.|+-.+|...+.+. .. .-
T Consensus       511 sl~--~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvt---L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~  585 (777)
T KOG1128|consen  511 SLE--INPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVT---LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQ  585 (777)
T ss_pred             Hhh--cCccchhHHHhccHHHHHHhhhHHHHHHHHHHhh---cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCC
Confidence            555  23332 4666666666666777777777766655   4554 445566666666666555555555554 11 12


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHcC
Q 005481          485 SIAIWQTLLSACRVHGDLELGREVGEILLRL  515 (694)
Q Consensus       485 ~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~  515 (694)
                      +-.+|...+-...+-|.++.|.+++.+++.+
T Consensus       586 ~w~iWENymlvsvdvge~eda~~A~~rll~~  616 (777)
T KOG1128|consen  586 HWQIWENYMLVSVDVGEFEDAIKAYHRLLDL  616 (777)
T ss_pred             CCeeeechhhhhhhcccHHHHHHHHHHHHHh
Confidence            2334555555555666666666666666544

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.42  E-value=1.6e-05  Score=88.80  Aligned_cols=198  Identities=14%  Similarity=0.115  Sum_probs=162.9

Q ss_pred             CchHHHHHhhhhhhcCCHHHHHHHHccCCC--------CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 005481          351 DTSVSNSIVDMYLKCGLIDEATELFNEMPV--------KNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYL  422 (694)
Q Consensus       351 ~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~  422 (694)
                      +...|-..|......+++++|++++++...        .-...|.++++.-...|.-+...++|+++.+.  .--...|.
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V~~ 1534 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTVHL 1534 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHHHH
Confidence            455666777778888999999999888762        13457999998888889888999999999883  22245788


Q ss_pred             HHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC---HHHHHHHHHHHHh
Q 005481          423 AVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS---IAIWQTLLSACRV  498 (694)
Q Consensus       423 ~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~---~~~~~~ll~a~~~  498 (694)
                      .|+..|.+.+.+++|.++++.|.++++  -....|...++.+.+..+-++|..++.++ ..-|.   .....-.+..-.+
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk 1612 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFK 1612 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhh
Confidence            899999999999999999999999776  56678999999999999999999999876 32232   3344555555678


Q ss_pred             cCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCCCc
Q 005481          499 HGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLK  552 (694)
Q Consensus       499 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~  552 (694)
                      +|+.+.+..+|+.++.-.|.-...|..++++=.+.|..+.++.+|+++...++.
T Consensus      1613 ~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~ 1666 (1710)
T KOG1070|consen 1613 YGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLS 1666 (1710)
T ss_pred             cCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCC
Confidence            999999999999999999988899999999999999999999999999887653

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.38  E-value=3.8e-06  Score=72.47  Aligned_cols=97  Identities=9%  Similarity=-0.009  Sum_probs=85.3

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHH
Q 005481          453 RIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIH  530 (694)
Q Consensus       453 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  530 (694)
                      +.+..-.+...+...|++++|..+|+-. ...|. ..-|-.|...|...|++++|+.+|.++..++|++|.++..++.+|
T Consensus        34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~  113 (157)
T PRK15363         34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECY  113 (157)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            3455666777788999999999999887 45554 566899999999999999999999999999999999999999999


Q ss_pred             HhcCCchHHHHHHHHHHhC
Q 005481          531 ADAGSWNECERLRKLARSK  549 (694)
Q Consensus       531 ~~~g~~~~a~~~~~~m~~~  549 (694)
                      ...|+.+.|++.|+.....
T Consensus       114 L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        114 LACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            9999999999999988753

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.37  E-value=3.3e-05  Score=71.83  Aligned_cols=154  Identities=10%  Similarity=0.140  Sum_probs=116.1

Q ss_pred             hhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHH
Q 005481          359 VDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQ  438 (694)
Q Consensus       359 i~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~  438 (694)
                      +-.|.+.|+++......+.+..+.        ..|...++.++++..+++.++.. +.|...|..+...+...|++++|.
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            446778888877765554332221        01223567788888888887743 345578888889999999999999


Q ss_pred             HHHHHHhhccCCCC-ChhHHHHHHHHH-HhcCC--hHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 005481          439 EYFSRLCNDKRMKP-RIEHYSCIVDSL-GRAGR--LDEAKNLIESM-PVKP-SIAIWQTLLSACRVHGDLELGREVGEIL  512 (694)
Q Consensus       439 ~~~~~m~~~~~~~p-~~~~~~~li~~~-~~~g~--~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~  512 (694)
                      ..|+++.+   +.| +...+..+..++ .+.|+  .++|.+++++. ...| +...+..+...+...|++++|+..++++
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   456 467788888864 67787  59999999988 5555 4667888888999999999999999999


Q ss_pred             HcCCCCCcchHH
Q 005481          513 LRLDGDNPVNYV  524 (694)
Q Consensus       513 ~~~~p~~~~~~~  524 (694)
                      +++.|.+..-+.
T Consensus       171 L~l~~~~~~r~~  182 (198)
T PRK10370        171 LDLNSPRVNRTQ  182 (198)
T ss_pred             HhhCCCCccHHH
Confidence            999987655443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.31  E-value=1.8e-05  Score=73.23  Aligned_cols=134  Identities=16%  Similarity=0.118  Sum_probs=99.4

Q ss_pred             CCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC--CCCCCHHHHHH
Q 005481          414 VEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM--PVKPSIAIWQT  491 (694)
Q Consensus       414 ~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~  491 (694)
                      ..|+......+-.++...|+-+....+.......+  ..+......++....+.|++.+|...|.+.  +-+||...|+.
T Consensus        62 ~~p~d~~i~~~a~a~~~~G~a~~~l~~~~~~~~~~--~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~  139 (257)
T COG5010          62 RNPEDLSIAKLATALYLRGDADSSLAVLQKSAIAY--PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNL  139 (257)
T ss_pred             cCcchHHHHHHHHHHHhcccccchHHHHhhhhccC--cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhH
Confidence            34543333555566666777777777666654312  234455566788888888888888888887  45567888888


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          492 LLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       492 ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      +..+|-+.|+.++|...+.+++++.|.++..+.+|+-.|.-.|+.+.|..++......
T Consensus       140 lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~  197 (257)
T COG5010         140 LGAALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLS  197 (257)
T ss_pred             HHHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            8888888888888888888888888888888888888888888888888888877654

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.31  E-value=5e-05  Score=71.12  Aligned_cols=303  Identities=9%  Similarity=0.032  Sum_probs=150.3

Q ss_pred             HHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCC--ChhhHHH-HHHHHH
Q 005481          217 FTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQK--SVISWSS-LILGYA  293 (694)
Q Consensus       217 ~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~--~~~~~~~-li~~~~  293 (694)
                      +.+++..+.+..++..+.+++..-.+..+   .+....+.|...|....++..|-..++++...  ...-|-. -...+-
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p---~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSP---RSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSLY   89 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCc---cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHH
Confidence            33444444444555555555555444433   24444555666666666666666666665532  1111111 123445


Q ss_pred             hCCCHHHHHHHHHHHHhcCCccCccchHHHHHHH--hhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHH
Q 005481          294 QEENLAEAMELFRQLRERSLQVDGFVLSSMMGVF--ADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEA  371 (694)
Q Consensus       294 ~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~--~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A  371 (694)
                      +.+.+.+|+.+...|...   |+...-..-+.+.  .+.+++..++.+.+..-.   +.+..+.+...-...+.|+.+.|
T Consensus        90 ~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~---en~Ad~~in~gCllykegqyEaA  163 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPS---ENEADGQINLGCLLYKEGQYEAA  163 (459)
T ss_pred             HhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccC---CCccchhccchheeeccccHHHH
Confidence            666777777777666542   1111111111110  112222222222222111   11222222233334455555555


Q ss_pred             HHHHccCCC----CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhc
Q 005481          372 TELFNEMPV----KNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCND  447 (694)
Q Consensus       372 ~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~  447 (694)
                      .+-|+...+    .....||.-+ +..+.|++..|++...++++.|++.-+. +        ..|...++..+ +..   
T Consensus       164 vqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPE-l--------gIGm~tegiDv-rsv---  229 (459)
T KOG4340|consen  164 VQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPE-L--------GIGMTTEGIDV-RSV---  229 (459)
T ss_pred             HHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCc-c--------CccceeccCch-hcc---
Confidence            555554442    1233343322 2334455555555555555555431110 0        00000000000 000   


Q ss_pred             cCCCCChhHHHHH-------HHHHHhcCChHHHHHHHHhCC----CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCC
Q 005481          448 KRMKPRIEHYSCI-------VDSLGRAGRLDEAKNLIESMP----VKPSIAIWQTLLSACRVHGDLELGREVGEILLRLD  516 (694)
Q Consensus       448 ~~~~p~~~~~~~l-------i~~~~~~g~~~~A~~~~~~~~----~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~  516 (694)
                        -.|-.-+-+.+       ...+.+.|+++.|.+.+..||    .+.|++|...+.-. -..+++..+.+-+.-+++++
T Consensus       230 --gNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~n  306 (459)
T KOG4340|consen  230 --GNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQN  306 (459)
T ss_pred             --cchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcC
Confidence              00111122333       344678899999999999994    33467776554322 23566777888888889999


Q ss_pred             CCCcchHHHHHhHHHhcCCchHHHHHHHH
Q 005481          517 GDNPVNYVMMSNIHADAGSWNECERLRKL  545 (694)
Q Consensus       517 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  545 (694)
                      |-.+.++..+.-+|++..-++-|..++.+
T Consensus       307 PfP~ETFANlLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  307 PFPPETFANLLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             CCChHHHHHHHHHHhhhHHHhHHHHHHhh
Confidence            97789999999999999999888877754

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.31  E-value=2e-05  Score=76.31  Aligned_cols=180  Identities=15%  Similarity=0.040  Sum_probs=125.9

Q ss_pred             ccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCC--CchHHHHHhhhhhhcCCHHHHHHHHccCCC--C-Chh---hHHH
Q 005481          317 GFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGL--DTSVSNSIVDMYLKCGLIDEATELFNEMPV--K-NVV---TWTV  388 (694)
Q Consensus       317 ~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~--~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~~~---~~~~  388 (694)
                      ...+......+...|+++.|...+..+.+.....  ....+..+...|.+.|++++|...|+++..  | +..   .+..
T Consensus        33 ~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~  112 (235)
T TIGR03302        33 AEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYL  112 (235)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHH
Confidence            3456666778889999999999999988765432  124567788999999999999999998863  2 222   4555


Q ss_pred             HHHHHHhc--------CCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHH
Q 005481          389 IITGYGKH--------GLAKEAVGLFRKMLLDDVEPDGV-AYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSC  459 (694)
Q Consensus       389 li~~~~~~--------g~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~  459 (694)
                      +..++.+.        |+.++|.+.|+++...  .|+.. ....+.....    ..      ....         .....
T Consensus       113 ~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~----~~------~~~~---------~~~~~  171 (235)
T TIGR03302       113 RGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDY----LR------NRLA---------GKELY  171 (235)
T ss_pred             HHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHH----HH------HHHH---------HHHHH
Confidence            66666654        7899999999999984  56543 2222211100    00      0000         11235


Q ss_pred             HHHHHHhcCChHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCC
Q 005481          460 IVDSLGRAGRLDEAKNLIESM----PVKP-SIAIWQTLLSACRVHGDLELGREVGEILLRLDG  517 (694)
Q Consensus       460 li~~~~~~g~~~~A~~~~~~~----~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p  517 (694)
                      +.+.|.+.|++++|...+++.    |..| ....|..+..++...|++++|...++.+....|
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            667788999999999998886    3233 356788899999999999999998888776555

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.28  E-value=2e-05  Score=82.73  Aligned_cols=189  Identities=16%  Similarity=0.143  Sum_probs=139.9

Q ss_pred             CCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005481          347 PSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLS  426 (694)
Q Consensus       347 ~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~  426 (694)
                      +++|--..-..+...+.++|-...|..+|++.     ..|.-.|.+|...|+..+|..+..+-.+  -+||..-|..+++
T Consensus       393 ~lpp~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGD  465 (777)
T KOG1128|consen  393 HLPPIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGD  465 (777)
T ss_pred             CCCCcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhh
Confidence            34455556667788889999999999999875     4677788899999999999988888776  4788888988888


Q ss_pred             HHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChHH
Q 005481          427 ACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKP-SIAIWQTLLSACRVHGDLEL  504 (694)
Q Consensus       427 a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g~~~~  504 (694)
                      ......-+++|.++++.....        .-..+.....+.++++++.+.|+.. .+.| ...+|-.+..+..+.++++.
T Consensus       466 v~~d~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~  537 (777)
T KOG1128|consen  466 VLHDPSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQA  537 (777)
T ss_pred             hccChHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHH
Confidence            888777888888888765431        1111222233467777777777654 3333 35567777777777788888


Q ss_pred             HHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCC
Q 005481          505 GREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKG  550 (694)
Q Consensus       505 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  550 (694)
                      |.+.|.+.+.++|++...|++++-+|.+.|+..+|...+++..+.+
T Consensus       538 av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn  583 (777)
T KOG1128|consen  538 AVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN  583 (777)
T ss_pred             HHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC
Confidence            8888888888888888888888888888888888888777777654

>PLN02789 farnesyltranstransferase

Probab=98.28  E-value=0.00014  Score=72.70  Aligned_cols=168  Identities=15%  Similarity=0.111  Sum_probs=114.5

Q ss_pred             hhhcC-CHHHHHHHHccCC---CCChhhHHHHHHHHHhcCCH--HHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHccCcH
Q 005481          362 YLKCG-LIDEATELFNEMP---VKNVVTWTVIITGYGKHGLA--KEAVGLFRKMLLDDVEP-DGVAYLAVLSACSHSGLV  434 (694)
Q Consensus       362 y~~~g-~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~--~~A~~~~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~  434 (694)
                      +.+.| ++++++..++++.   .++..+|+.....+.+.|+.  ++++.+++++++.  .| |..+|.....++.+.|++
T Consensus        81 L~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~--dpkNy~AW~~R~w~l~~l~~~  158 (320)
T PLN02789         81 LEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSL--DAKNYHAWSHRQWVLRTLGGW  158 (320)
T ss_pred             HHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhhhH
Confidence            33344 4566777666654   34555677655555555553  6678888888873  34 446777777778888888


Q ss_pred             HHHHHHHHHHhhccCCCCChhHHHHHHHHHHhc---CCh----HHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc----CC
Q 005481          435 EESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRA---GRL----DEAKNLIESM-PVKP-SIAIWQTLLSACRVH----GD  501 (694)
Q Consensus       435 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~---g~~----~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~----g~  501 (694)
                      +++++.++++++..  .-+...|+....++.+.   |.+    ++++++..++ ...| |...|+-+...+...    ++
T Consensus       159 ~eeL~~~~~~I~~d--~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~  236 (320)
T PLN02789        159 EDELEYCHQLLEED--VRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVS  236 (320)
T ss_pred             HHHHHHHHHHHHHC--CCchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCccccc
Confidence            88888888887721  22345566665555444   222    4566666554 4445 477899998888774    34


Q ss_pred             hHHHHHHHHHHHcCCCCCcchHHHHHhHHHhc
Q 005481          502 LELGREVGEILLRLDGDNPVNYVMMSNIHADA  533 (694)
Q Consensus       502 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  533 (694)
                      ..+|...+.++++.+|.++.++..|+++|+..
T Consensus       237 ~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~  268 (320)
T PLN02789        237 DPEVSSVCLEVLSKDSNHVFALSDLLDLLCEG  268 (320)
T ss_pred             chhHHHHHHHhhcccCCcHHHHHHHHHHHHhh
Confidence            56788999999999999999999999999864

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.23  E-value=1.7e-05  Score=69.32  Aligned_cols=100  Identities=21%  Similarity=0.322  Sum_probs=79.4

Q ss_pred             CCCC-hhHHHHHHHHHHhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHH
Q 005481          450 MKPR-IEHYSCIVDSLGRAGRLDEAKNLIESM-PVKP-SIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMM  526 (694)
Q Consensus       450 ~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  526 (694)
                      ..|+ ......+...+...|++++|.+.++.. ...| +...|..+...+...|+++.|...++++++.+|+++..+..+
T Consensus        12 ~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l   91 (135)
T TIGR02552        12 LDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHA   91 (135)
T ss_pred             CChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHH
Confidence            3443 345666777778888888888888776 3334 566778888888888999999999999999999888899999


Q ss_pred             HhHHHhcCCchHHHHHHHHHHhC
Q 005481          527 SNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       527 ~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      +.+|...|++++|.+.++...+.
T Consensus        92 a~~~~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        92 AECLLALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh
Confidence            99999999999999998887764

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.22  E-value=0.00011  Score=80.99  Aligned_cols=142  Identities=13%  Similarity=0.138  Sum_probs=111.1

Q ss_pred             CCCCchHHHHHhhhhhhcCCHHHHHHHHccCC--CC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-HHHH
Q 005481          348 SGLDTSVSNSIVDMYLKCGLIDEATELFNEMP--VK-NVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGV-AYLA  423 (694)
Q Consensus       348 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~-t~~~  423 (694)
                      ...++..+-.|.....+.|..++|..+++...  .| +...+..++..+.+.+++++|+..+++...  ..|+.. ....
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~--~~p~~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS--GGSSSAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh--cCCCCHHHHHH
Confidence            34457777888888899999999999999887  34 556788888999999999999999999988  457764 4555


Q ss_pred             HHHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhC--CCCCCHHHHHHHHH
Q 005481          424 VLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIESM--PVKPSIAIWQTLLS  494 (694)
Q Consensus       424 ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~  494 (694)
                      +..++.+.|.+++|..+|+++..   -.|+ ...+..+..++-..|+.++|...|++.  ...|....|+.++.
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~---~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~~  230 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSR---QHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRLV  230 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHh---cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHHH
Confidence            66677889999999999999986   2344 678888899999999999999999887  33444555554443

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.21  E-value=0.00024  Score=79.86  Aligned_cols=228  Identities=17%  Similarity=0.134  Sum_probs=161.7

Q ss_pred             CCh-hhHHHHHHHHcccCCchHHHHHHHHHHHhC-C-CCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCC-C-hhhHH
Q 005481          212 PDE-FTFTSTLKACGSLGSVGGGTQIHGFLITSG-F-PYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQK-S-VISWS  286 (694)
Q Consensus       212 p~~-~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g-~-~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~-~-~~~~~  286 (694)
                      ||. ..|..-|.-..+.++++.|+++.+++++.- + +-+.-..+|.+++++-..-|.-+...++|++..+- | ...|.
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~ 1534 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHL 1534 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHH
Confidence            443 345555666666777777777777766542 1 00123457777777777777777788888887652 3 35677


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCC-CCchHHHHHhhhhhhc
Q 005481          287 SLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSG-LDTSVSNSIVDMYLKC  365 (694)
Q Consensus       287 ~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~-~~~~~~~~li~~y~~~  365 (694)
                      .|...|.+.+.+++|-++|+.|.+. +.-....|...+..+.+...-+.|..++..+.+.-.. -.+....-.+++-.++
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~ 1613 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKY 1613 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhc
Confidence            8888888888888888888888774 2345566777777777777778888888877765332 2455667778888899


Q ss_pred             CCHHHHHHHHccCC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHccCcHHHHHHH
Q 005481          366 GLIDEATELFNEMP---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDG--VAYLAVLSACSHSGLVEESQEY  440 (694)
Q Consensus       366 g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~--~t~~~ll~a~~~~g~~~~a~~~  440 (694)
                      |+.+.++.+|+...   .+-...|+..|..-.++|+.+.+..+|++....++.|-.  ..|.-.|..=...|+-..+..+
T Consensus      1614 GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~V 1693 (1710)
T KOG1070|consen 1614 GDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEYV 1693 (1710)
T ss_pred             CCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHHH
Confidence            99999999999887   345678999999999999999999999999999888765  3455555544444554443333

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.15  E-value=0.00025  Score=79.08  Aligned_cols=233  Identities=12%  Similarity=0.077  Sum_probs=122.0

Q ss_pred             cchhhHHHHHHHHHHcCCHHHHHHHHhhcCC--C-ChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHH
Q 005481          249 VKTVIAGSLVDFYVKCGCLVEARRVFDLIEQ--K-SVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMG  325 (694)
Q Consensus       249 ~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~  325 (694)
                      .+...+..|++.|...+++++|..+.+...+  | ....|-.+...+.+.++..++..+  .+..               
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~---------------   91 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLL--NLID---------------   91 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhh--hhhh---------------
Confidence            4455666666666666666666666654432  2 223333333355555554444443  2211               


Q ss_pred             HHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCC---CChhhHHHHHHHHHhcCCHHHH
Q 005481          326 VFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPV---KNVVTWTVIITGYGKHGLAKEA  402 (694)
Q Consensus       326 ~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A  402 (694)
                      ......++.....+...+...+  .+...+..|..+|-+.|+.++|..+++++.+   .|+...|.+...|+.. +.++|
T Consensus        92 ~~~~~~~~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA  168 (906)
T PRK14720         92 SFSQNLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKA  168 (906)
T ss_pred             hcccccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHH
Confidence            1111112212222222222211  1223444556666666666666666665542   3455555555556555 66666


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCC
Q 005481          403 VGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIESMP  481 (694)
Q Consensus       403 ~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~  481 (694)
                      ++++.+.+..               +...+++.++.++|..+..   ..|+ ...+--+.....            ...+
T Consensus       169 ~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~---~~~~d~d~f~~i~~ki~------------~~~~  218 (906)
T PRK14720        169 ITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVH---YNSDDFDFFLRIERKVL------------GHRE  218 (906)
T ss_pred             HHHHHHHHHH---------------HHhhhcchHHHHHHHHHHh---cCcccchHHHHHHHHHH------------hhhc
Confidence            6665555432               3344455556666666554   2232 111111111111            1111


Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHH
Q 005481          482 VKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHA  531 (694)
Q Consensus       482 ~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  531 (694)
                      ..--..+|--+-..|...++++++..+++.+++.+|+|..+...++..|.
T Consensus       219 ~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        219 FTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             cchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence            22234455556677888899999999999999999999888888888876

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.14  E-value=0.00018  Score=66.89  Aligned_cols=150  Identities=17%  Similarity=0.155  Sum_probs=74.6

Q ss_pred             HhhhhhhcCCHHHHHHHHccCC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcH
Q 005481          358 IVDMYLKCGLIDEATELFNEMP---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLV  434 (694)
Q Consensus       358 li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~  434 (694)
                      +-..|.-.|+-+.+..+.....   ..|....+..+....+.|++.+|+..|++.... -+||..+++.+.-+|.+.|+.
T Consensus        72 ~a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~Gr~  150 (257)
T COG5010          72 LATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQLGRF  150 (257)
T ss_pred             HHHHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHccCh
Confidence            3444444455555554444432   223334444555555556666666666655542 234445555555555666666


Q ss_pred             HHHHHHHHHHhhccCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 005481          435 EESQEYFSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIESMPV--KPSIAIWQTLLSACRVHGDLELGREVGEI  511 (694)
Q Consensus       435 ~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~ll~a~~~~g~~~~a~~~~~~  511 (694)
                      ++|..-|.+..+   +.|+ ...++.|.-.|.-.|+++.|..++...-.  ..|..+-..|..+....|++++|+.+..+
T Consensus       151 ~~Ar~ay~qAl~---L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~~  227 (257)
T COG5010         151 DEARRAYRQALE---LAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAVQ  227 (257)
T ss_pred             hHHHHHHHHHHH---hccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhccc
Confidence            666655555555   2222 33445555555555555555555554411  11344444454555555555555554443

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.14  E-value=3.9e-06  Score=53.33  Aligned_cols=35  Identities=26%  Similarity=0.544  Sum_probs=32.4

Q ss_pred             ccHHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCc
Q 005481           79 VSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNE  113 (694)
Q Consensus        79 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  113 (694)
                      ++||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            47999999999999999999999999999999984

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.13  E-value=4.4e-06  Score=53.12  Aligned_cols=34  Identities=44%  Similarity=0.747  Sum_probs=31.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 005481          384 VTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPD  417 (694)
Q Consensus       384 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd  417 (694)
                      .+||+||.+|++.|++++|.++|++|.+.|+.||
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            4799999999999999999999999999999997

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.

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.09  E-value=0.00036  Score=70.53  Aligned_cols=114  Identities=17%  Similarity=0.128  Sum_probs=54.3

Q ss_pred             ccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChHHHHH
Q 005481          430 HSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELGRE  507 (694)
Q Consensus       430 ~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~  507 (694)
                      ..|.+++|+..++.+.+.  .+-|+.......+.+.+.++.++|.+.++++ ...|+ ...+-++..++.+.|+..+|+.
T Consensus       318 ~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai~  395 (484)
T COG4783         318 LAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIR  395 (484)
T ss_pred             HhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHHH
Confidence            344555555555554441  1122333344445555555555555555544 33344 3334444455555555555555


Q ss_pred             HHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHH
Q 005481          508 VGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKL  545 (694)
Q Consensus       508 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  545 (694)
                      .+++....+|+|+..|..|+.+|...|+-.++...+.+
T Consensus       396 ~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE  433 (484)
T COG4783         396 ILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAE  433 (484)
T ss_pred             HHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHH
Confidence            55555555555555555555555554444444444433

>PLN02789 farnesyltranstransferase

Probab=98.08  E-value=0.00036  Score=69.86  Aligned_cols=181  Identities=11%  Similarity=0.082  Sum_probs=131.3

Q ss_pred             hhhcCCHHHHHHHHccCCC---CChhhHHHHHHHHHhcC-CHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHccCc--H
Q 005481          362 YLKCGLIDEATELFNEMPV---KNVVTWTVIITGYGKHG-LAKEAVGLFRKMLLDDVEPDG-VAYLAVLSACSHSGL--V  434 (694)
Q Consensus       362 y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~a~~~~g~--~  434 (694)
                      +.+.+..++|..+.+++..   .+..+|+.....+...| ++++++..++++.+..  |+. .+|..-...+.+.|.  .
T Consensus        47 l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n--pknyqaW~~R~~~l~~l~~~~~  124 (320)
T PLN02789         47 YASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN--PKNYQIWHHRRWLAEKLGPDAA  124 (320)
T ss_pred             HHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC--CcchHHhHHHHHHHHHcCchhh
Confidence            4455677788888877663   35557777777777777 6799999999999854  433 456655545556665  3


Q ss_pred             HHHHHHHHHHhhccCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhc---CCh----HH
Q 005481          435 EESQEYFSRLCNDKRMKP-RIEHYSCIVDSLGRAGRLDEAKNLIESM-PVK-PSIAIWQTLLSACRVH---GDL----EL  504 (694)
Q Consensus       435 ~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~ll~a~~~~---g~~----~~  504 (694)
                      +++..+++.+.+   +.| +...|+...-++.+.|++++|++.++++ ... -|...|+.....+...   |..    +.
T Consensus       125 ~~el~~~~kal~---~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~  201 (320)
T PLN02789        125 NKELEFTRKILS---LDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEAMRDS  201 (320)
T ss_pred             HHHHHHHHHHHH---hCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhccccccccccHHH
Confidence            678888888877   445 4667888888999999999999999998 333 3577788877766554   222    46


Q ss_pred             HHHHHHHHHcCCCCCcchHHHHHhHHHhc----CCchHHHHHHHHHH
Q 005481          505 GREVGEILLRLDGDNPVNYVMMSNIHADA----GSWNECERLRKLAR  547 (694)
Q Consensus       505 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~----g~~~~a~~~~~~m~  547 (694)
                      +.....++++++|+|.++|..+..++...    ++..+|.+......
T Consensus       202 el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~  248 (320)
T PLN02789        202 ELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVL  248 (320)
T ss_pred             HHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhh
Confidence            77888899999999999999999999873    34455666655543

>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=98.06  E-value=7.5e-05  Score=76.15  Aligned_cols=121  Identities=12%  Similarity=0.083  Sum_probs=91.8

Q ss_pred             HHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc
Q 005481          422 LAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKP-SIAIWQTLLSACRVH  499 (694)
Q Consensus       422 ~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~  499 (694)
                      .+|+..+...++++.|.++|+++.+.   .|+  ....|+..+...++-.+|.+++.+. ...| +...+......|...
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 DTLLKYLSLTQRYDEAIELLEKLRER---DPE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhc---CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhc
Confidence            34555556667777777777777652   244  3344666666677777777777765 2233 455566666678899


Q ss_pred             CChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHH
Q 005481          500 GDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLAR  547 (694)
Q Consensus       500 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  547 (694)
                      ++++.|+.+++++.++.|++-.+|..|+.+|...|++++|...+..+.
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 [].

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.01  E-value=0.00071  Score=68.43  Aligned_cols=146  Identities=16%  Similarity=0.107  Sum_probs=117.9

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH-HHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHH
Q 005481          383 VVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAV-LSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCI  460 (694)
Q Consensus       383 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~l-l~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~l  460 (694)
                      ...+....-.+...|++++|+..++.++.  -.||...|..+ ...+...++.++|.+.++.+..   ..|+ ....-.+
T Consensus       306 ~aa~YG~A~~~~~~~~~d~A~~~l~~L~~--~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~---l~P~~~~l~~~~  380 (484)
T COG4783         306 LAAQYGRALQTYLAGQYDEALKLLQPLIA--AQPDNPYYLELAGDILLEANKAKEAIERLKKALA---LDPNSPLLQLNL  380 (484)
T ss_pred             hHHHHHHHHHHHHhcccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCCccHHHHHH
Confidence            33444455566678999999999999887  46777655554 4577899999999999999987   5676 5567788


Q ss_pred             HHHHHhcCChHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchH
Q 005481          461 VDSLGRAGRLDEAKNLIESM--PVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNE  538 (694)
Q Consensus       461 i~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  538 (694)
                      .++|.+.|++.+|..+++..  ..+-|+..|..|..+|...|+..++...                 .+..|+-.|+|++
T Consensus       381 a~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A-----------------~AE~~~~~G~~~~  443 (484)
T COG4783         381 AQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLA-----------------RAEGYALAGRLEQ  443 (484)
T ss_pred             HHHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHH-----------------HHHHHHhCCCHHH
Confidence            89999999999999999987  4455688999999999999998776654                 3556788999999


Q ss_pred             HHHHHHHHHhCC
Q 005481          539 CERLRKLARSKG  550 (694)
Q Consensus       539 a~~~~~~m~~~g  550 (694)
                      |........++.
T Consensus       444 A~~~l~~A~~~~  455 (484)
T COG4783         444 AIIFLMRASQQV  455 (484)
T ss_pred             HHHHHHHHHHhc
Confidence            999999888764

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.00  E-value=9.3e-06  Score=51.19  Aligned_cols=34  Identities=35%  Similarity=0.575  Sum_probs=29.9

Q ss_pred             cccHHHHHHHHHhCCChHHHHHHHHHhhhCCCCC
Q 005481           78 VVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKP  111 (694)
Q Consensus        78 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  111 (694)
                      +.+||.+|.+|++.|+++.|.++|++|.+.|++|
T Consensus         1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    1 VHTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             CcHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            3679999999999999999999999999888887

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=97.99  E-value=0.00017  Score=62.83  Aligned_cols=113  Identities=12%  Similarity=0.144  Sum_probs=86.6

Q ss_pred             HHHHHHHCCCCCCH-HHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CC
Q 005481          405 LFRKMLLDDVEPDG-VAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PV  482 (694)
Q Consensus       405 ~~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~  482 (694)
                      .|++.+.  ..|+. .....+...+...|++++|.+.|+.+....  +.+...+..+...|.+.|++++|...+++. ..
T Consensus         5 ~~~~~l~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLG--LDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYD--PYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHc--CChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            4555555  44544 445666677788899999999998887621  235677888888999999999999988876 33


Q ss_pred             CC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcc
Q 005481          483 KP-SIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPV  521 (694)
Q Consensus       483 ~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~  521 (694)
                      .| +...|..+...+...|+.+.|...++++++++|++..
T Consensus        81 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  120 (135)
T TIGR02552        81 DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPE  120 (135)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccch
Confidence            44 4667777888899999999999999999999998755

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.96  E-value=0.032  Score=57.40  Aligned_cols=430  Identities=12%  Similarity=0.068  Sum_probs=229.6

Q ss_pred             CCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCCCC--CcccHHHHHH
Q 005481          110 KPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAK--SLITWNAMIA  187 (694)
Q Consensus       110 ~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~--~~~~~~~li~  187 (694)
                      +-|..+|..||+-+... ..++++..++++... ++.....|..-+..-.+..+++..+++|.+...+  ++..|...|.
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvLnlDLW~lYl~   94 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVLNLDLWKLYLS   94 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHhHHHHHHH
Confidence            34777888888877665 888888888888764 4556677888888888888899888888887653  6777877776


Q ss_pred             HHHh-cCChhH----HHHHHHH-HHHCCCCCChh-hHH---HHHHHHcccCC------chHHHHHHHHHHHhCCCCCcch
Q 005481          188 GYVL-AGYSDK----GLLLFRK-MQEHGEIPDEF-TFT---STLKACGSLGS------VGGGTQIHGFLITSGFPYSVKT  251 (694)
Q Consensus       188 ~~~~-~g~~~~----A~~~~~~-m~~~g~~p~~~-t~~---~ll~a~~~~~~------~~~a~~~~~~~~~~g~~~~~~~  251 (694)
                      ---+ +|+...    ..+.|+- |.+.|+.+-+. .|+   ..+..--..|.      ++..++++..++..-+.  .-.
T Consensus        95 YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~--nlE  172 (656)
T KOG1914|consen   95 YVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMH--NLE  172 (656)
T ss_pred             HHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccc--cHH
Confidence            3222 333333    2223332 23445444333 222   23332222233      33444555555543332  222


Q ss_pred             hhHHHHHHHH-------------HHcCCHHHHHHHHhhcCC------CChh---------------hHHHHHHHHHhCCC
Q 005481          252 VIAGSLVDFY-------------VKCGCLVEARRVFDLIEQ------KSVI---------------SWSSLILGYAQEEN  297 (694)
Q Consensus       252 ~~~~~li~~y-------------~~~g~~~~A~~~f~~~~~------~~~~---------------~~~~li~~~~~~g~  297 (694)
                      ..|+-....=             -+...+..|+++++++..      ++..               .|-.+|.-=..++.
T Consensus       173 kLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL  252 (656)
T KOG1914|consen  173 KLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPL  252 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCc
Confidence            2332211100             011123334444433321      0000               12222221111110


Q ss_pred             H--------HHHHHHHHHHH-hcCCccCccc-hHHHHH----HHhhhcc-------HHHHHHHHHHHHhcCCCCCchHHH
Q 005481          298 L--------AEAMELFRQLR-ERSLQVDGFV-LSSMMG----VFADFAL-------VEQGKQIHAYAAKVPSGLDTSVSN  356 (694)
Q Consensus       298 ~--------~~A~~~~~~m~-~~g~~pd~~t-~~~ll~----~~~~~~~-------~~~a~~i~~~~~~~~~~~~~~~~~  356 (694)
                      -        ....-.+++.. --+..|+..- ++..+.    .+...|+       .+++..+++..+..-...+..+|.
T Consensus       253 ~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~  332 (656)
T KOG1914|consen  253 RTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYF  332 (656)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            0        00111111111 1122222110 011111    1111122       334444444444433333333443


Q ss_pred             HHhhhhhhcC---CHHHHHHHHccCC----CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHH
Q 005481          357 SIVDMYLKCG---LIDEATELFNEMP----VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEP-DGVAYLAVLSAC  428 (694)
Q Consensus       357 ~li~~y~~~g---~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-d~~t~~~ll~a~  428 (694)
                      ++.+-=-..-   ..+.....+++..    ..-..+|-..+..-.+..-.+.|..+|.+..+.+..+ +.....+++.-+
T Consensus       333 ~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~  412 (656)
T KOG1914|consen  333 ALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYY  412 (656)
T ss_pred             HHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHH
Confidence            3332111111   1333333333333    2223456677777777777889999999999988888 445666666644


Q ss_pred             HccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC---CCCCC--HHHHHHHHHHHHhcCChH
Q 005481          429 SHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM---PVKPS--IAIWQTLLSACRVHGDLE  503 (694)
Q Consensus       429 ~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~p~--~~~~~~ll~a~~~~g~~~  503 (694)
                       -.++.+-|.++|+.-.+.+|-.|  .--.+.++-+.+.++-..|..+|++.   .+.||  ..+|..++.--..-|+..
T Consensus       413 -cskD~~~AfrIFeLGLkkf~d~p--~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~  489 (656)
T KOG1914|consen  413 -CSKDKETAFRIFELGLKKFGDSP--EYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLN  489 (656)
T ss_pred             -hcCChhHHHHHHHHHHHhcCCCh--HHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHH
Confidence             45788999999998877664333  45567788889999999999999987   23444  467999999888999999


Q ss_pred             HHHHHHHHHHcCCCCC----cchHHHHHhHHHhcCCchHHHHHHHHH
Q 005481          504 LGREVGEILLRLDGDN----PVNYVMMSNIHADAGSWNECERLRKLA  546 (694)
Q Consensus       504 ~a~~~~~~~~~~~p~~----~~~~~~l~~~~~~~g~~~~a~~~~~~m  546 (694)
                      .+..+-++....-|.+    ...-..+.+.|.-.+.+..-..-++.|
T Consensus       490 si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~c~~~elk~l  536 (656)
T KOG1914|consen  490 SILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYPCSLDELKFL  536 (656)
T ss_pred             HHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhcccccccHHHHHhh
Confidence            9999888877655521    123345566777777665555444444

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.96  E-value=0.00013  Score=69.21  Aligned_cols=114  Identities=18%  Similarity=0.167  Sum_probs=88.0

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHh
Q 005481          401 EAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIES  479 (694)
Q Consensus       401 ~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~  479 (694)
                      +....-+++..+|            +-..+.+++.+|+..|..+++   +.|+ ...|..-..+|.+.|.++.|++-.+.
T Consensus        76 e~~~~AE~LK~eG------------N~~m~~~~Y~eAv~kY~~AI~---l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~  140 (304)
T KOG0553|consen   76 EDKALAESLKNEG------------NKLMKNKDYQEAVDKYTEAIE---LDPTNAVYYCNRAAAYSKLGEYEDAVKDCES  140 (304)
T ss_pred             hHHHHHHHHHHHH------------HHHHHhhhHHHHHHHHHHHHh---cCCCcchHHHHHHHHHHHhcchHHHHHHHHH
Confidence            4455555555554            235677889999999999987   6665 45566668889999999999888877


Q ss_pred             C-CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhH
Q 005481          480 M-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNI  529 (694)
Q Consensus       480 ~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  529 (694)
                      . .+.|. ..+|..|..+|...|++++|++.|+++++++|++......|-.+
T Consensus       141 Al~iDp~yskay~RLG~A~~~~gk~~~A~~aykKaLeldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  141 ALSIDPHYSKAYGRLGLAYLALGKYEEAIEAYKKALELDPDNESYKSNLKIA  192 (304)
T ss_pred             HHhcChHHHHHHHHHHHHHHccCcHHHHHHHHHhhhccCCCcHHHHHHHHHH
Confidence            6 66666 55799999999999999999999999999999987555554433

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.93  E-value=1.7e-05  Score=49.93  Aligned_cols=33  Identities=27%  Similarity=0.452  Sum_probs=28.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 005481          384 VTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEP  416 (694)
Q Consensus       384 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  416 (694)
                      .+||+++.+|++.|+++.|.++|++|.+.|++|
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

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.91  E-value=0.025  Score=56.58  Aligned_cols=122  Identities=18%  Similarity=0.266  Sum_probs=89.8

Q ss_pred             HHHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcH
Q 005481          355 SNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLV  434 (694)
Q Consensus       355 ~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~  434 (694)
                      .+..+.-+...|+...|.++-.+..-||-.-|-..+.+|+..+++++-..+...      +-.++-|..++.+|...|..
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~  253 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNK  253 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCH
Confidence            344455566788899999999888889999999999999999999877765432      12347788888999999999


Q ss_pred             HHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 005481          435 EESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSAC  496 (694)
Q Consensus       435 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~a~  496 (694)
                      .+|..+...+.           +..-+.+|.++|++.+|.+.--+..   |......+..-|
T Consensus       254 ~eA~~yI~k~~-----------~~~rv~~y~~~~~~~~A~~~A~~~k---d~~~L~~i~~~~  301 (319)
T PF04840_consen  254 KEASKYIPKIP-----------DEERVEMYLKCGDYKEAAQEAFKEK---DIDLLKQILKRC  301 (319)
T ss_pred             HHHHHHHHhCC-----------hHHHHHHHHHCCCHHHHHHHHHHcC---CHHHHHHHHHHC
Confidence            99988876631           2456788899999999887755532   555454444443

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

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=97.89  E-value=0.0003  Score=71.85  Aligned_cols=127  Identities=15%  Similarity=0.164  Sum_probs=97.5

Q ss_pred             HHHHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCc
Q 005481          354 VSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGL  433 (694)
Q Consensus       354 ~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~  433 (694)
                      ...+|+..+...++++.|..+|+++.+.+...+..|+..+...++-.+|++++++.+... +-|...+..-...|...++
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~  249 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKK  249 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCC
Confidence            344566666777888999999998887666666678888888888889999998888642 2244555555566788888


Q ss_pred             HHHHHHHHHHHhhccCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCCCCC
Q 005481          434 VEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIESMPVKP  484 (694)
Q Consensus       434 ~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p  484 (694)
                      ++.|.++.+++.+   +.|+ ..+|..|+..|.+.|++++|+..++.+|.-|
T Consensus       250 ~~lAL~iAk~av~---lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~~  298 (395)
T PF09295_consen  250 YELALEIAKKAVE---LSPSEFETWYQLAECYIQLGDFENALLALNSCPMLT  298 (395)
T ss_pred             HHHHHHHHHHHHH---hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcCCC
Confidence            9999999998877   5665 5588889999999999999998888886543

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>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=97.86  E-value=0.00014  Score=58.42  Aligned_cols=92  Identities=23%  Similarity=0.193  Sum_probs=72.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcC
Q 005481          457 YSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAG  534 (694)
Q Consensus       457 ~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  534 (694)
                      +..+...+.+.|++++|.+.+++. ...|+ ...|..+...+...|+++.|...+++.++..|.++..+..++.++...|
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            455667777788888888888776 33343 4567777777888888999999999988888888888888888999999


Q ss_pred             CchHHHHHHHHHHh
Q 005481          535 SWNECERLRKLARS  548 (694)
Q Consensus       535 ~~~~a~~~~~~m~~  548 (694)
                      ++++|...+....+
T Consensus        83 ~~~~a~~~~~~~~~   96 (100)
T cd00189          83 KYEEALEAYEKALE   96 (100)
T ss_pred             hHHHHHHHHHHHHc
Confidence            99998888877654

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.85  E-value=0.0005  Score=60.65  Aligned_cols=114  Identities=14%  Similarity=0.126  Sum_probs=56.3

Q ss_pred             cCcHHHHHHHHHHHhhccCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCCH----HHHHHHHHHHHhcCChHH
Q 005481          431 SGLVEESQEYFSRLCNDKRMKP-RIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPSI----AIWQTLLSACRVHGDLEL  504 (694)
Q Consensus       431 ~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~----~~~~~ll~a~~~~g~~~~  504 (694)
                      .++.+.+...++.+.+.++-.| .....-.+...+...|++++|...|+.. ...||.    .....|...+...|++++
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            4555555555555554322111 0122223345555556666666665554 111232    123334445556666666


Q ss_pred             HHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHH
Q 005481          505 GREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKL  545 (694)
Q Consensus       505 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  545 (694)
                      |+..++.. .-.+..+..+..++++|.+.|++++|...++.
T Consensus       104 Al~~L~~~-~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  104 ALATLQQI-PDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHhc-cCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            66666442 22233345555666666666666666666654

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.84  E-value=0.0066  Score=56.66  Aligned_cols=146  Identities=12%  Similarity=0.078  Sum_probs=91.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHH----HHHhc
Q 005481          392 GYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVD----SLGRA  467 (694)
Q Consensus       392 ~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~----~~~~~  467 (694)
                      .|...|++++|++..+...    .-+....+  ...+.+..+.+-|.+.++.|..   + -+..+.+.|..    ...-.
T Consensus       117 i~~~~~~~deAl~~~~~~~----~lE~~Al~--VqI~lk~~r~d~A~~~lk~mq~---i-ded~tLtQLA~awv~la~gg  186 (299)
T KOG3081|consen  117 IYMHDGDFDEALKALHLGE----NLEAAALN--VQILLKMHRFDLAEKELKKMQQ---I-DEDATLTQLAQAWVKLATGG  186 (299)
T ss_pred             HhhcCCChHHHHHHHhccc----hHHHHHHH--HHHHHHHHHHHHHHHHHHHHHc---c-chHHHHHHHHHHHHHHhccc
Confidence            3455566666665555411    11111111  1223445556666666666654   1 22233333333    33344


Q ss_pred             CChHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHH-HHHH
Q 005481          468 GRLDEAKNLIESM--PVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECE-RLRK  544 (694)
Q Consensus       468 g~~~~A~~~~~~~--~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~-~~~~  544 (694)
                      +...+|.-+|++|  ...|+..+.+-...++...|++++|+.+++.++..+|.+|.+..+++-.--..|+-.++. +...
T Consensus       187 ek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r~l~  266 (299)
T KOG3081|consen  187 EKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKDAEVTERNLS  266 (299)
T ss_pred             hhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCChHHHHHHHH
Confidence            5677888888888  356778888888888888999999999999999999999998888888877888776654 3344


Q ss_pred             HHH
Q 005481          545 LAR  547 (694)
Q Consensus       545 ~m~  547 (694)
                      ..+
T Consensus       267 QLk  269 (299)
T KOG3081|consen  267 QLK  269 (299)
T ss_pred             HHH
Confidence            333

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.78  E-value=0.00026  Score=60.00  Aligned_cols=92  Identities=10%  Similarity=0.014  Sum_probs=45.7

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCC---cchHHHHHhH
Q 005481          458 SCIVDSLGRAGRLDEAKNLIESM-PVKPS----IAIWQTLLSACRVHGDLELGREVGEILLRLDGDN---PVNYVMMSNI  529 (694)
Q Consensus       458 ~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~  529 (694)
                      ..++..+.+.|++++|.+.++++ ...|+    ...+..+..++...|+++.|...+++++...|++   +..+..++.+
T Consensus         6 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~   85 (119)
T TIGR02795         6 YDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMS   85 (119)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHH
Confidence            34444444555555555555444 11122    2233444455555555555555555555555543   2345555555


Q ss_pred             HHhcCCchHHHHHHHHHHhC
Q 005481          530 HADAGSWNECERLRKLARSK  549 (694)
Q Consensus       530 ~~~~g~~~~a~~~~~~m~~~  549 (694)
                      |.+.|++++|.+.++.+.+.
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        86 LQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHhCChHHHHHHHHHHHHH
Confidence            55555555555555555443

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.

>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=97.78  E-value=4.9e-05  Score=57.23  Aligned_cols=64  Identities=22%  Similarity=0.189  Sum_probs=58.9

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcC-CchHHHHHHHHHHh
Q 005481          485 SIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAG-SWNECERLRKLARS  548 (694)
Q Consensus       485 ~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~a~~~~~~m~~  548 (694)
                      ++.+|..+...+...|++++|+..++++++++|+++.+|..++.+|...| ++++|.+.++...+
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            46788999999999999999999999999999999999999999999999 79999999988765

...

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.77  E-value=2.5e-05  Score=61.51  Aligned_cols=78  Identities=21%  Similarity=0.266  Sum_probs=48.3

Q ss_pred             cCChHHHHHHHHhC-CCCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHH
Q 005481          467 AGRLDEAKNLIESM-PVKP---SIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERL  542 (694)
Q Consensus       467 ~g~~~~A~~~~~~~-~~~p---~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  542 (694)
                      .|++++|+.+++++ ...|   +...|-.+..++.+.|++++|..++++ .+.+|.++.....++.+|.+.|++++|+++
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            35556666666555 1122   344555566677777777777777777 666666556666667777777777777777


Q ss_pred             HHH
Q 005481          543 RKL  545 (694)
Q Consensus       543 ~~~  545 (694)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            654

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.76  E-value=0.0011  Score=70.95  Aligned_cols=139  Identities=15%  Similarity=0.070  Sum_probs=65.3

Q ss_pred             CCChhhHHHHHHHHHhc-----CCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHcc--------CcHHHHHHHHHHHh
Q 005481          380 VKNVVTWTVIITGYGKH-----GLAKEAVGLFRKMLLDDVEPDGV-AYLAVLSACSHS--------GLVEESQEYFSRLC  445 (694)
Q Consensus       380 ~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~a~~~~--------g~~~~a~~~~~~m~  445 (694)
                      ..|...|...+.|....     +...+|..+|++.++  ..||.. .+..+..++...        .++..+.+..+...
T Consensus       334 ~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~--ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~  411 (517)
T PRK10153        334 PHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK--SEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIV  411 (517)
T ss_pred             CCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhh
Confidence            45666777776664432     225677888888877  566652 333332222111        11222222222222


Q ss_pred             hccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCc
Q 005481          446 NDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNP  520 (694)
Q Consensus       446 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~  520 (694)
                      .......+...|..+.-.+...|++++|...++++ ...|+...|..+...+...|+.++|...+++++.++|.++
T Consensus       412 al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~p  487 (517)
T PRK10153        412 ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGEN  487 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCc
Confidence            21011122334444444444445555555555554 3444444455555555555555555555555555555544

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.73  E-value=0.00042  Score=71.13  Aligned_cols=99  Identities=11%  Similarity=0.097  Sum_probs=59.4

Q ss_pred             HHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCC
Q 005481          425 LSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIESM-PVKP-SIAIWQTLLSACRVHGD  501 (694)
Q Consensus       425 l~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g~  501 (694)
                      ...+...|++++|+++|+++++   +.|+ ...|..+..+|.+.|++++|+..++++ .+.| +...|..+..+|...|+
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~---~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAID---LDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCC
Confidence            3444556677777777776665   2333 445556666666666666666666665 3333 34455556666666666


Q ss_pred             hHHHHHHHHHHHcCCCCCcchHHHH
Q 005481          502 LELGREVGEILLRLDGDNPVNYVMM  526 (694)
Q Consensus       502 ~~~a~~~~~~~~~~~p~~~~~~~~l  526 (694)
                      +++|+..++++++++|+++.....+
T Consensus        86 ~~eA~~~~~~al~l~P~~~~~~~~l  110 (356)
T PLN03088         86 YQTAKAALEKGASLAPGDSRFTKLI  110 (356)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            6666666666666666665554444

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=97.73  E-value=0.0034  Score=70.30  Aligned_cols=149  Identities=13%  Similarity=0.070  Sum_probs=93.6

Q ss_pred             hhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCChhhHHHHHHHHH
Q 005481          214 EFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYA  293 (694)
Q Consensus       214 ~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~  293 (694)
                      ...+..+..+|.+.|+.+++..+++.+++..+   .++.+.|.+...|... ++++|..++.+..           ..|.
T Consensus       116 k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~---~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV-----------~~~i  180 (906)
T PRK14720        116 KLALRTLAEAYAKLNENKKLKGVWERLVKADR---DNPEIVKKLATSYEEE-DKEKAITYLKKAI-----------YRFI  180 (906)
T ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHhcCc---ccHHHHHHHHHHHHHh-hHHHHHHHHHHHH-----------HHHH
Confidence            34555666666677777777777777777664   6778888888888888 8888887776543           3366


Q ss_pred             hCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhc-CCCCCchHHHHHhhhhhhcCCHHHHH
Q 005481          294 QEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKV-PSGLDTSVSNSIVDMYLKCGLIDEAT  372 (694)
Q Consensus       294 ~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~-~~~~~~~~~~~li~~y~~~g~~~~A~  372 (694)
                      ..+++.++.+++.++...  .|+.+.+.               .++.+.+... |..--+.++-.|-..|-+.++++++.
T Consensus       181 ~~kq~~~~~e~W~k~~~~--~~~d~d~f---------------~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i  243 (906)
T PRK14720        181 KKKQYVGIEEIWSKLVHY--NSDDFDFF---------------LRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVI  243 (906)
T ss_pred             hhhcchHHHHHHHHHHhc--CcccchHH---------------HHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHH
Confidence            677888888888888774  34433221               1222222221 22233344455666777777788888


Q ss_pred             HHHccCCC---CChhhHHHHHHHHH
Q 005481          373 ELFNEMPV---KNVVTWTVIITGYG  394 (694)
Q Consensus       373 ~~~~~~~~---~~~~~~~~li~~~~  394 (694)
                      .+|+.+.+   .|.....-++.+|.
T Consensus       244 ~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        244 YILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHHHhcCCcchhhHHHHHHHHH
Confidence            88877763   34455555666654

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.72  E-value=0.00048  Score=58.32  Aligned_cols=103  Identities=10%  Similarity=0.055  Sum_probs=66.2

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHHhhccCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC----HHHHHHHHH
Q 005481          421 YLAVLSACSHSGLVEESQEYFSRLCNDKRMKP-RIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS----IAIWQTLLS  494 (694)
Q Consensus       421 ~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~  494 (694)
                      +..+...+...|++++|.+.|..+.+...-.| ....+..+..++.+.|++++|.+.++.+ ...|+    ..++..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            34445555666666666666666655221111 1234555667777777777777777765 22233    456777777


Q ss_pred             HHHhcCChHHHHHHHHHHHcCCCCCcchH
Q 005481          495 ACRVHGDLELGREVGEILLRLDGDNPVNY  523 (694)
Q Consensus       495 a~~~~g~~~~a~~~~~~~~~~~p~~~~~~  523 (694)
                      ++...|+.+.|...++++++..|+++...
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~  113 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKRYPGSSAAK  113 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHHCcCChhHH
Confidence            88888899999999999998888865543

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.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.72  E-value=4.3e-05  Score=46.86  Aligned_cols=31  Identities=23%  Similarity=0.557  Sum_probs=25.4

Q ss_pred             ccHHHHHHHHHhCCChHHHHHHHHHhhhCCC
Q 005481           79 VSWTALMCGFLQNGNAKACLSLFCQMGSSSV  109 (694)
Q Consensus        79 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  109 (694)
                      ++||.||++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4788888888888888888888888887763

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.

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.70  E-value=0.002  Score=56.85  Aligned_cols=124  Identities=17%  Similarity=0.192  Sum_probs=83.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCCh--hHHHH
Q 005481          386 WTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDG----VAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRI--EHYSC  459 (694)
Q Consensus       386 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~----~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~--~~~~~  459 (694)
                      |..++..+ ..++...+...++.+....  |+.    .....+...+...|++++|...|+.+.... -.|+.  ...-.
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~--~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~-~d~~l~~~a~l~   90 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDY--PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANA-PDPELKPLARLR   90 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC-CCHHHHHHHHHH
Confidence            44455555 3777888888888888753  333    233445566778888888888888887732 22221  23445


Q ss_pred             HHHHHHhcCChHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 005481          460 IVDSLGRAGRLDEAKNLIESMPVK-PSIAIWQTLLSACRVHGDLELGREVGEILL  513 (694)
Q Consensus       460 li~~~~~~g~~~~A~~~~~~~~~~-p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~  513 (694)
                      |...+...|++++|+..++..+.. .....+..+...+...|+.++|...|++++
T Consensus        91 LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al  145 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKAL  145 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence            677888888899988888776322 234456667778888899999998888763

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.69  E-value=5.3e-05  Score=46.45  Aligned_cols=31  Identities=35%  Similarity=0.591  Sum_probs=26.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 005481          384 VTWTVIITGYGKHGLAKEAVGLFRKMLLDDV  414 (694)
Q Consensus       384 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  414 (694)
                      ++||+|+++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4788999999999999999999999988764

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.

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.66  E-value=0.00042  Score=62.96  Aligned_cols=93  Identities=16%  Similarity=-0.043  Sum_probs=74.7

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHh
Q 005481          454 IEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS----IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSN  528 (694)
Q Consensus       454 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  528 (694)
                      ...|..++..+...|++++|+..|++. ...|+    ..+|..+...+...|++++|+..+++++++.|.....+..++.
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            455677777788888888888888876 23332    3478888899999999999999999999999998888888888


Q ss_pred             HHH-------hcCCchHHHHHHHHH
Q 005481          529 IHA-------DAGSWNECERLRKLA  546 (694)
Q Consensus       529 ~~~-------~~g~~~~a~~~~~~m  546 (694)
                      +|.       ..|++++|...++..
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHHH
Confidence            888       788888776666554

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.65  E-value=0.0014  Score=64.78  Aligned_cols=263  Identities=11%  Similarity=0.022  Sum_probs=164.5

Q ss_pred             HHHHHcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccC-ccchHHHHHHHhhhccHH
Q 005481          259 DFYVKCGCLVEARRVFDLIEQ---KSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVD-GFVLSSMMGVFADFALVE  334 (694)
Q Consensus       259 ~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~ll~~~~~~~~~~  334 (694)
                      ..+.+...+.+|++.+....+   .+..-|..-...+..-|++++|+--.+.-.+  ++|. ..+....-..+...++..
T Consensus        57 n~~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   57 NAFYKQKTYGNALKNYTFAIDMCPDNASYYSNRAATLMMLGRFEEALGDARQSVR--LKDGFSKGQLREGQCHLALSDLI  134 (486)
T ss_pred             chHHHHhhHHHHHHHHHHHHHhCccchhhhchhHHHHHHHHhHhhcccchhhhee--cCCCccccccchhhhhhhhHHHH
Confidence            455666677777776665432   3445566666666667777776655544333  2222 123333334444444444


Q ss_pred             HHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCC-----CCChhhHHHH-HHHHHhcCCHHHHHHHHHH
Q 005481          335 QGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMP-----VKNVVTWTVI-ITGYGKHGLAKEAVGLFRK  408 (694)
Q Consensus       335 ~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~-----~~~~~~~~~l-i~~~~~~g~~~~A~~~~~~  408 (694)
                      .|.+.+.         +...+           ....|...++...     +|-..+|-.+ ..++...|++++|...-..
T Consensus       135 ~A~~~~~---------~~~~~-----------~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~  194 (486)
T KOG0550|consen  135 EAEEKLK---------SKQAY-----------KAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAID  194 (486)
T ss_pred             HHHHHhh---------hhhhh-----------HHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHH
Confidence            4444433         10000           1112222222222     1233444443 3456678899998888777


Q ss_pred             HHHCCCCCCHHHHHHHH--HHHHccCcHHHHHHHHHHHhhccCCCCChhHH-------------HHHHHHHHhcCChHHH
Q 005481          409 MLLDDVEPDGVAYLAVL--SACSHSGLVEESQEYFSRLCNDKRMKPRIEHY-------------SCIVDSLGRAGRLDEA  473 (694)
Q Consensus       409 m~~~g~~pd~~t~~~ll--~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~-------------~~li~~~~~~g~~~~A  473 (694)
                      .++.  .+.. .+..++  .++-..++.+.|...|++..+   +.|+...-             ..=.+...+.|++.+|
T Consensus       195 ilkl--d~~n-~~al~vrg~~~yy~~~~~ka~~hf~qal~---ldpdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A  268 (486)
T KOG0550|consen  195 ILKL--DATN-AEALYVRGLCLYYNDNADKAINHFQQALR---LDPDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKA  268 (486)
T ss_pred             HHhc--ccch-hHHHHhcccccccccchHHHHHHHhhhhc---cChhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHH
Confidence            7663  2222 122222  234566788999999998866   55653321             2223556789999999


Q ss_pred             HHHHHhC-CCCC-----CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHH
Q 005481          474 KNLIESM-PVKP-----SIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLAR  547 (694)
Q Consensus       474 ~~~~~~~-~~~p-----~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  547 (694)
                      .+.+.+. .+.|     +...|.....+..+.|+.++|+.-.+.+++++|.-..+|..-++++...++|++|.+-++...
T Consensus       269 ~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c~l~le~~e~AV~d~~~a~  348 (486)
T KOG0550|consen  269 YECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCHLALEKWEEAVEDYEKAM  348 (486)
T ss_pred             HHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999887 4444     455566666677889999999999999999999988999999999999999999999999887


Q ss_pred             hC
Q 005481          548 SK  549 (694)
Q Consensus       548 ~~  549 (694)
                      +.
T Consensus       349 q~  350 (486)
T KOG0550|consen  349 QL  350 (486)
T ss_pred             hh
Confidence            64

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.64  E-value=0.0037  Score=57.82  Aligned_cols=182  Identities=15%  Similarity=0.122  Sum_probs=137.0

Q ss_pred             cCCHHHHHHHHccCC--------CCChh-hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH-HHHHHccCcH
Q 005481          365 CGLIDEATELFNEMP--------VKNVV-TWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAV-LSACSHSGLV  434 (694)
Q Consensus       365 ~g~~~~A~~~~~~~~--------~~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~l-l~a~~~~g~~  434 (694)
                      ..+.++..+++..+.        .++.. .+..++-+....|+.+.|...++++...-  |.+.-...+ ..-+...|.+
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhch
Confidence            457888888887775        12222 33444555667899999999999988753  555322222 1124567999


Q ss_pred             HHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 005481          435 EESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM--PVKPSIAIWQTLLSACRVHGDLELGREVGEIL  512 (694)
Q Consensus       435 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~  512 (694)
                      ++|.++++.+.++.  +.|..++--=+-++-..|+--+|++-+.+.  .+..|...|.-|...|...|+++.|.-.++++
T Consensus       103 ~~A~e~y~~lL~dd--pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  103 KEAIEYYESLLEDD--PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hhHHHHHHHHhccC--cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            99999999998843  345666766677777888888888887776  56678999999999999999999999999999


Q ss_pred             HcCCCCCcchHHHHHhHHHhcC---CchHHHHHHHHHHhCC
Q 005481          513 LRLDGDNPVNYVMMSNIHADAG---SWNECERLRKLARSKG  550 (694)
Q Consensus       513 ~~~~p~~~~~~~~l~~~~~~~g---~~~~a~~~~~~m~~~g  550 (694)
                      +=..|.++..+..+++++...|   +.+-+++++....+..
T Consensus       181 ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  181 LLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            9999999999999999887766   4556777777776643

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.63  E-value=0.00057  Score=62.35  Aligned_cols=81  Identities=17%  Similarity=0.070  Sum_probs=59.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhH
Q 005481          455 EHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS----IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNI  529 (694)
Q Consensus       455 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  529 (694)
                      ..+..+...|.+.|++++|...|++. ...|+    ...|..+...+...|+++.|...++++++..|+++..+..++.+
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            34556666666677777777776665 22222    35677777888888888999998999888888888888888888


Q ss_pred             HHhcCC
Q 005481          530 HADAGS  535 (694)
Q Consensus       530 ~~~~g~  535 (694)
                      |...|+
T Consensus       116 ~~~~g~  121 (172)
T PRK02603        116 YHKRGE  121 (172)
T ss_pred             HHHcCC
Confidence            887776

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.62  E-value=0.0058  Score=56.59  Aligned_cols=166  Identities=20%  Similarity=0.205  Sum_probs=122.8

Q ss_pred             HHHHHhhhhhhcCCHHHHHHHHccCCCC-----ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005481          354 VSNSIVDMYLKCGLIDEATELFNEMPVK-----NVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSAC  428 (694)
Q Consensus       354 ~~~~li~~y~~~g~~~~A~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~  428 (694)
                      ++..++-+..-+|+.+.|...++.+...     -+.-..+  .-+-..|++++|+++++.+++.. +-|.+++--=+...
T Consensus        54 l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lka--m~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAil  130 (289)
T KOG3060|consen   54 LYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKA--MLLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAIL  130 (289)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHH--HHHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHH
Confidence            4555666677789999999999887632     2222222  23455799999999999999865 34556776666666


Q ss_pred             HccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhc---CChH
Q 005481          429 SHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVH---GDLE  503 (694)
Q Consensus       429 ~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~---g~~~  503 (694)
                      -..|+--+|++-+....+.  +..|.+.|.-+.+.|...|++++|.-.++++ -+.|- +..+..+...+...   .+.+
T Consensus       131 ka~GK~l~aIk~ln~YL~~--F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~  208 (289)
T KOG3060|consen  131 KAQGKNLEAIKELNEYLDK--FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLE  208 (289)
T ss_pred             HHcCCcHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHH
Confidence            6678777888888777764  4678999999999999999999999999998 34554 44455666654444   3788


Q ss_pred             HHHHHHHHHHcCCCCCcchHH
Q 005481          504 LGREVGEILLRLDGDNPVNYV  524 (694)
Q Consensus       504 ~a~~~~~~~~~~~p~~~~~~~  524 (694)
                      .|...|.+++++.|.+...+.
T Consensus       209 ~arkyy~~alkl~~~~~ral~  229 (289)
T KOG3060|consen  209 LARKYYERALKLNPKNLRALF  229 (289)
T ss_pred             HHHHHHHHHHHhChHhHHHHH
Confidence            999999999999996544433

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.61  E-value=0.00016  Score=53.62  Aligned_cols=58  Identities=24%  Similarity=0.272  Sum_probs=46.4

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          492 LLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       492 ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      +...+...|++++|+..++++++..|+++.++..++.++...|++++|..+++.+.+.
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            3456777888888888888888888888888888888888888888888888887653

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.61  E-value=0.00075  Score=69.24  Aligned_cols=103  Identities=16%  Similarity=0.136  Sum_probs=83.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCC-ChhHHHHHHHHHHh
Q 005481          389 IITGYGKHGLAKEAVGLFRKMLLDDVEPD-GVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKP-RIEHYSCIVDSLGR  466 (694)
Q Consensus       389 li~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~  466 (694)
                      ....+...|++++|+..|+++++.  .|+ ...|..+..++...|++++|+..++.+++   +.| +...|..+..+|..
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~---l~P~~~~a~~~lg~~~~~   82 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIE---LDPSLAKAYLRKGTACMK   82 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCcCCHHHHHHHHHHHHH
Confidence            355667889999999999999984  454 46788888899999999999999999987   456 46688899999999


Q ss_pred             cCChHHHHHHHHhC-CCCCCHHHHHHHHHHH
Q 005481          467 AGRLDEAKNLIESM-PVKPSIAIWQTLLSAC  496 (694)
Q Consensus       467 ~g~~~~A~~~~~~~-~~~p~~~~~~~ll~a~  496 (694)
                      .|++++|+..|++. .+.|+......++..|
T Consensus        83 lg~~~eA~~~~~~al~l~P~~~~~~~~l~~~  113 (356)
T PLN03088         83 LEEYQTAKAALEKGASLAPGDSRFTKLIKEC  113 (356)
T ss_pred             hCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            99999999999987 5666655544444433

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.61  E-value=0.18  Score=55.42  Aligned_cols=89  Identities=15%  Similarity=0.113  Sum_probs=47.6

Q ss_pred             HHHHHHHHHhcCChH---HHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHc--CCCCCcchHHHHHhH
Q 005481          457 YSCIVDSLGRAGRLD---EAKNLIESM-PVKP-SIAIWQTLLSACRVHGDLELGREVGEILLR--LDGDNPVNYVMMSNI  529 (694)
Q Consensus       457 ~~~li~~~~~~g~~~---~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~--~~p~~~~~~~~l~~~  529 (694)
                      .+.|++++-+.++..   +|+-+++.- ...| |..+--.|+..|.--|-+..|...|+.+--  +.-| .-.| .+...
T Consensus       439 v~~Lid~~rktnd~~~l~eaI~LLE~glt~s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~D-Tlgh-~~~~~  516 (932)
T KOG2053|consen  439 VNHLIDLWRKTNDLTDLFEAITLLENGLTKSPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTD-TLGH-LIFRR  516 (932)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHHhhcCCccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhc-cchH-HHHHH
Confidence            456667777777655   333333332 2223 233334456666666777777777765532  2222 2222 23345


Q ss_pred             HHhcCCchHHHHHHHHHH
Q 005481          530 HADAGSWNECERLRKLAR  547 (694)
Q Consensus       530 ~~~~g~~~~a~~~~~~m~  547 (694)
                      +...|+|..+...+....
T Consensus       517 ~~t~g~~~~~s~~~~~~l  534 (932)
T KOG2053|consen  517 AETSGRSSFASNTFNEHL  534 (932)
T ss_pred             HHhcccchhHHHHHHHHH
Confidence            566777777777766543

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.60  E-value=0.0018  Score=59.04  Aligned_cols=130  Identities=15%  Similarity=0.177  Sum_probs=83.8

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHH
Q 005481          382 NVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPD--GVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYS  458 (694)
Q Consensus       382 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd--~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~  458 (694)
                      ....+..+...+...|++++|+..|++.......|.  ...+..+...+.+.|++++|...++++.+   +.|+ ...+.
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            344566677777777888888888887776433332  24666677777777888888887777766   3343 44555


Q ss_pred             HHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCC
Q 005481          459 CIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGS  535 (694)
Q Consensus       459 ~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  535 (694)
                      .+..+|...|+...+..-++..                  ...+++|.+.++++++.+|++   |..+...+...|+
T Consensus       111 ~lg~~~~~~g~~~~a~~~~~~A------------------~~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~~  166 (172)
T PRK02603        111 NIAVIYHKRGEKAEEAGDQDEA------------------EALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHHHHcCChHhHhhCHHHH------------------HHHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcCc
Confidence            6666666666655544332221                  112678889999999999976   5555555555554

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.56  E-value=0.013  Score=54.80  Aligned_cols=184  Identities=16%  Similarity=0.082  Sum_probs=124.1

Q ss_pred             hhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHH-HHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHH
Q 005481          360 DMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAV-GLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQ  438 (694)
Q Consensus       360 ~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~-~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~  438 (694)
                      ..|...|.......-...-..+.......+...+..-++-++-+ ++.+.+.......|.+....-...|.+.|++++|.
T Consensus        49 raylAlg~~~~~~~eI~~~~~~~lqAvr~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl  128 (299)
T KOG3081|consen   49 RAYLALGQYQIVISEIKEGKATPLQAVRLLAEYLELESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEAL  128 (299)
T ss_pred             HHHHHcccccccccccccccCChHHHHHHHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHH
Confidence            34444554433322222222333344443444444445544443 34455555555555454555556789999999999


Q ss_pred             HHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----CChHHHHHHHHHHHc
Q 005481          439 EYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVH----GDLELGREVGEILLR  514 (694)
Q Consensus       439 ~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~a~~~~----g~~~~a~~~~~~~~~  514 (694)
                      +.....       -+.+....=+..+.|..+++-|.+.+++|..-.+..+.+.|..++.+.    +.+..|.-+|+++-+
T Consensus       129 ~~~~~~-------~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~ided~tLtQLA~awv~la~ggek~qdAfyifeE~s~  201 (299)
T KOG3081|consen  129 KALHLG-------ENLEAAALNVQILLKMHRFDLAEKELKKMQQIDEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSE  201 (299)
T ss_pred             HHHhcc-------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhc
Confidence            887652       344555556777889999999999999995444667777777776432    468889999999998


Q ss_pred             CCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCC
Q 005481          515 LDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKG  550 (694)
Q Consensus       515 ~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  550 (694)
                      .-|..+....-.+.++...|+|++|..+.+...++.
T Consensus       202 k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd  237 (299)
T KOG3081|consen  202 KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD  237 (299)
T ss_pred             ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc
Confidence            666668888888899999999999999999998754

>PRK15331 chaperone protein SicA; Provisional

Probab=97.54  E-value=0.0019  Score=56.30  Aligned_cols=90  Identities=11%  Similarity=0.099  Sum_probs=76.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCc
Q 005481          459 CIVDSLGRAGRLDEAKNLIESM-PVK-PSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSW  536 (694)
Q Consensus       459 ~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  536 (694)
                      ....-+...|++++|..+|+-+ -.. -+..-|..|...|...++++.|...|..+..++++||.++...+.+|...|+.
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            3444556789999999998876 122 24556888888899999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHh
Q 005481          537 NECERLRKLARS  548 (694)
Q Consensus       537 ~~a~~~~~~m~~  548 (694)
                      +.|+..++...+
T Consensus       122 ~~A~~~f~~a~~  133 (165)
T PRK15331        122 AKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998875

>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=97.48  E-value=0.0013  Score=52.43  Aligned_cols=61  Identities=25%  Similarity=0.238  Sum_probs=30.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCC
Q 005481          457 YSCIVDSLGRAGRLDEAKNLIESM-PVKP-SIAIWQTLLSACRVHGDLELGREVGEILLRLDG  517 (694)
Q Consensus       457 ~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p  517 (694)
                      +..+...+...|++++|.+.++.. ...| +..+|..+...+...|+++.|...++++++..|
T Consensus        37 ~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~   99 (100)
T cd00189          37 YYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGKYEEALEAYEKALELDP   99 (100)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHhHHHHHHHHHHHHccCC
Confidence            333444444444444444444443 1112 223455555556666666666666666665555

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.47  E-value=0.00037  Score=51.64  Aligned_cols=61  Identities=28%  Similarity=0.323  Sum_probs=48.2

Q ss_pred             HHHHHHhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCc
Q 005481          460 IVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNP  520 (694)
Q Consensus       460 li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~  520 (694)
                      +...+.+.|++++|++.|++. ...|+ ...|..+...+...|++++|...++++++..|++|
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            456677888888888888887 44554 66788888899999999999999999999999864

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.47  E-value=0.01  Score=52.21  Aligned_cols=133  Identities=10%  Similarity=0.077  Sum_probs=100.5

Q ss_pred             CCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC---HHHH
Q 005481          414 VEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS---IAIW  489 (694)
Q Consensus       414 ~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~---~~~~  489 (694)
                      ..|....-..|..+....|+..+|...|++... .-+.-|....-.+.++....+++.+|...+++. ...|+   +...
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            456666667778888888888888888888876 334556667777778888888888888888876 22222   2234


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          490 QTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       490 ~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      -.+...+...|.++.|+..++.++..-|+ +..-...+..++++|+.+++..-...+.+
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~ypg-~~ar~~Y~e~La~qgr~~ea~aq~~~v~d  221 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYYPG-PQARIYYAEMLAKQGRLREANAQYVAVVD  221 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhCCC-HHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            45567788899999999999999999887 67777788899999999888776655544

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.45  E-value=0.00093  Score=63.48  Aligned_cols=88  Identities=17%  Similarity=0.126  Sum_probs=78.1

Q ss_pred             HHHHHhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchH
Q 005481          461 VDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNE  538 (694)
Q Consensus       461 i~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  538 (694)
                      .+-+.+.+++++|+..|.++ .+.|. ++.|..=..+|.+.|.++.|.+-.+.++.++|....+|..|+-+|...|++++
T Consensus        88 GN~~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   88 GNKLMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHH
Confidence            34567889999999999987 66665 56677777899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHh
Q 005481          539 CERLRKLARS  548 (694)
Q Consensus       539 a~~~~~~m~~  548 (694)
                      |.+.+++..+
T Consensus       168 A~~aykKaLe  177 (304)
T KOG0553|consen  168 AIEAYKKALE  177 (304)
T ss_pred             HHHHHHhhhc
Confidence            9999987765

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.41  E-value=0.19  Score=50.93  Aligned_cols=446  Identities=11%  Similarity=0.089  Sum_probs=235.9

Q ss_pred             hcCCChHHHHHHHHHHHHhCCCCC------hhhHHHHHHHHHhcCChHHHHHHHhccCCCC-cccHHHHHHHH--HhCCC
Q 005481           23 SKNLLLDYGVQLHGALVKMGFSFD------LMLNNDLIDMYAKCGEMNGACAVFDKMLERN-VVSWTALMCGF--LQNGN   93 (694)
Q Consensus        23 ~~~~~~~~a~~~~~~~~~~g~~~~------~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~-~~~~~~li~~~--~~~g~   93 (694)
                      -+.+++.++..+|..+.+.- ..+      ....+.++++|.- .+++..........+.. ...|-.+..++  -+.+.
T Consensus        17 qkq~~~~esEkifskI~~e~-~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~~~~s~~l~LF~~L~~Y~~k~   94 (549)
T PF07079_consen   17 QKQKKFQESEKIFSKIYDEK-ESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQFGKSAYLPLFKALVAYKQKE   94 (549)
T ss_pred             HHHhhhhHHHHHHHHHHHHh-hcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhh
Confidence            36788999999999998764 222      2345678888873 45555555554443321 33466665544  46889


Q ss_pred             hHHHHHHHHHhhhC--CCCC---C---------ceeHHHHHHHhcccCChHHHHHHHHHHHHhCCC----CChhHHHHHH
Q 005481           94 AKACLSLFCQMGSS--SVKP---N---------EFTLSTNIKASGVLSSVENGMQIHGMCMKSGFE----WNPVVGNSII  155 (694)
Q Consensus        94 ~~~A~~~~~~m~~~--g~~p---~---------~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~----~~~~~~~~ll  155 (694)
                      +.+|++.+......  +..|   |         -.-=+..+.++...|.+.+|+.++.+++..=++    .+..+|+.++
T Consensus        95 ~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~v  174 (549)
T PF07079_consen   95 YRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAV  174 (549)
T ss_pred             HHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHH
Confidence            99999998877654  2222   1         111234456677889999999998888776444    7888999988


Q ss_pred             HHHHhcCChHHHHHHHccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHccc--CCchHH
Q 005481          156 DMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSL--GSVGGG  233 (694)
Q Consensus       156 ~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~--~~~~~a  233 (694)
                      -++++.=-++    +-+.+...=..-|--||-.|.+.=+.-++      -.=..+.|...-+..++....-.  ..+.--
T Consensus       175 lmlsrSYfLE----l~e~~s~dl~pdyYemilfY~kki~~~d~------~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~  244 (549)
T PF07079_consen  175 LMLSRSYFLE----LKESMSSDLYPDYYEMILFYLKKIHAFDQ------RPYEKFIPEEELFSTIMQHLFIVPKERLPPL  244 (549)
T ss_pred             HHHhHHHHHH----HHHhcccccChHHHHHHHHHHHHHHHHhh------chHHhhCcHHHHHHHHHHHHHhCCHhhccHH
Confidence            8887652221    11122222223455666666543211111      00011233333333333332221  222333


Q ss_pred             HHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcC--------CCChhhHHHHHHHHHhCCCHHHHHHHH
Q 005481          234 TQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIE--------QKSVISWSSLILGYAQEENLAEAMELF  305 (694)
Q Consensus       234 ~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~--------~~~~~~~~~li~~~~~~g~~~~A~~~~  305 (694)
                      .+++......-+.| ....+...|+.-..+  +.+++..+.+.+.        ++=+.++..++....+.++..+|-+.+
T Consensus       245 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  245 MQILENWENFYVHP-NYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYL  321 (549)
T ss_pred             HHHHHHHHhhccCC-chhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            44444444443332 223334445544444  3444444433322        223457888888888999998888887


Q ss_pred             HHHHhcCCccCccchHH-------HHHHHh-h---hccHHHHHHHHHHHHhcCCCCCchHHHHHh---hhhhhcCC-HHH
Q 005481          306 RQLRERSLQVDGFVLSS-------MMGVFA-D---FALVEQGKQIHAYAAKVPSGLDTSVSNSIV---DMYLKCGL-IDE  370 (694)
Q Consensus       306 ~~m~~~g~~pd~~t~~~-------ll~~~~-~---~~~~~~a~~i~~~~~~~~~~~~~~~~~~li---~~y~~~g~-~~~  370 (694)
                      .-+..  +.|+...-.-       +-+..+ .   ..++..-..++..+....+.... ...-|+   .-|-+.|. -++
T Consensus       322 ~lL~~--ldp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDrqQ-Lvh~L~~~Ak~lW~~g~~dek  398 (549)
T PF07079_consen  322 ALLKI--LDPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDRQQ-LVHYLVFGAKHLWEIGQCDEK  398 (549)
T ss_pred             HHHHh--cCCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccHHH-HHHHHHHHHHHHHhcCCccHH
Confidence            76654  2444321111       111111 1   11122222333333333322111 111111   22334444 677


Q ss_pred             HHHHHccCC---CCChhhHHHHH----HHHHhc---CCHHHHHHHHHHHHHCCCCCCHHHH----HHHHH--HHHccCcH
Q 005481          371 ATELFNEMP---VKNVVTWTVII----TGYGKH---GLAKEAVGLFRKMLLDDVEPDGVAY----LAVLS--ACSHSGLV  434 (694)
Q Consensus       371 A~~~~~~~~---~~~~~~~~~li----~~~~~~---g~~~~A~~~~~~m~~~g~~pd~~t~----~~ll~--a~~~~g~~  434 (694)
                      |.++++.+.   .-|...-|...    .+|.+.   ....+-+.+-+-..+.|+.|-.+.=    +.|.+  -+...|++
T Consensus       399 alnLLk~il~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey  478 (549)
T PF07079_consen  399 ALNLLKLILQFTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEY  478 (549)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccH
Confidence            777777665   23444333322    122221   2233344444445566777644332    22222  23456788


Q ss_pred             HHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHH
Q 005481          435 EESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQT  491 (694)
Q Consensus       435 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~  491 (694)
                      .++.-+-..+.+   +.|++.+|..++-.+....+++||.+++.+.|  |+..+|++
T Consensus       479 ~kc~~ys~WL~~---iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP--~n~~~~ds  530 (549)
T PF07079_consen  479 HKCYLYSSWLTK---IAPSPQAYRLLGLCLMENKRYQEAWEYLQKLP--PNERMRDS  530 (549)
T ss_pred             HHHHHHHHHHHH---hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCC--CchhhHHH
Confidence            887776666655   77888888888888888888888888888864  46666654

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.36  E-value=0.00053  Score=52.16  Aligned_cols=57  Identities=23%  Similarity=0.158  Sum_probs=50.6

Q ss_pred             HHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCC
Q 005481          494 SACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKG  550 (694)
Q Consensus       494 ~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  550 (694)
                      ..+...++++.|.++++++++++|+++..+...+.+|...|++++|.+.++...+.+
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            467888999999999999999999999999999999999999999999999887643

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.36  E-value=0.0097  Score=53.96  Aligned_cols=80  Identities=11%  Similarity=0.073  Sum_probs=54.0

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHH
Q 005481          383 VVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPD--GVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSC  459 (694)
Q Consensus       383 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd--~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~  459 (694)
                      ...|..+...+...|++++|+..|++.......|.  ..++..+...+.+.|++++|...++...+   +.|+ ...+..
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~---~~~~~~~~~~~  111 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE---RNPFLPQALNN  111 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCcCcHHHHHH
Confidence            44567777777788888888888888876432222  24677777778888888888888888766   2343 344555


Q ss_pred             HHHHHH
Q 005481          460 IVDSLG  465 (694)
Q Consensus       460 li~~~~  465 (694)
                      +...|.
T Consensus       112 la~i~~  117 (168)
T CHL00033        112 MAVICH  117 (168)
T ss_pred             HHHHHH
Confidence            555555

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.33  E-value=0.39  Score=52.86  Aligned_cols=217  Identities=13%  Similarity=0.070  Sum_probs=144.6

Q ss_pred             cCCChHHHHHHHHHHHHhCCCCChhhHHHHHHH--HHhcCChHHHHHHHhccCC---CCcccHHHHHHHHHhCCChHHHH
Q 005481           24 KNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDM--YAKCGEMNGACAVFDKMLE---RNVVSWTALMCGFLQNGNAKACL   98 (694)
Q Consensus        24 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~--~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~   98 (694)
                      ..+++..|.+..+.+.+.-  |+. .|...+.+  ..+.|+.++|..+++....   .|..|...+-..|...++.++|.
T Consensus        21 d~~qfkkal~~~~kllkk~--Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~   97 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKKH--PNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAV   97 (932)
T ss_pred             hhHHHHHHHHHHHHHHHHC--CCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHH
Confidence            4567777887777776642  332 23333333  3578999999988888733   36778888999999999999999


Q ss_pred             HHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCC----------hHHHH
Q 005481           99 SLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGR----------INEAA  168 (694)
Q Consensus        99 ~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~----------~~~A~  168 (694)
                      .+|+....  .-|+......+..++.+.+++.+-.++--++.+. ++-.++.+-+.++.+...-.          ..-|.
T Consensus        98 ~~Ye~~~~--~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~  174 (932)
T KOG2053|consen   98 HLYERANQ--KYPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAE  174 (932)
T ss_pred             HHHHHHHh--hCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHH
Confidence            99999876  4677778888888999888877766655555553 45556666666666654321          23456


Q ss_pred             HHHccCCCCC-c-cc---HHHHHHHHHhcCChhHHHHHHH-HHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHH
Q 005481          169 RMFDVMPAKS-L-IT---WNAMIAGYVLAGYSDKGLLLFR-KMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLIT  242 (694)
Q Consensus       169 ~~f~~~~~~~-~-~~---~~~li~~~~~~g~~~~A~~~~~-~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~  242 (694)
                      +.++.+.+.+ . .+   .-.-...+-..|++++|++++. ...+.-...+...-+.-+..+...+++.+..++-..++.
T Consensus       175 ~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~  254 (932)
T KOG2053|consen  175 KMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLE  254 (932)
T ss_pred             HHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHH
Confidence            6666665443 1 11   1111233456788999999884 343333333444445566677788888888888888888


Q ss_pred             hCCC
Q 005481          243 SGFP  246 (694)
Q Consensus       243 ~g~~  246 (694)
                      .|.+
T Consensus       255 k~~D  258 (932)
T KOG2053|consen  255 KGND  258 (932)
T ss_pred             hCCc
Confidence            8864

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.31  E-value=0.0081  Score=64.49  Aligned_cols=134  Identities=12%  Similarity=0.100  Sum_probs=99.3

Q ss_pred             CCCCCHHHHHHHHHHHHcc-----CcHHHHHHHHHHHhhccCCCCCh-hHHHHHHHHHHhc--------CChHHHHHHHH
Q 005481          413 DVEPDGVAYLAVLSACSHS-----GLVEESQEYFSRLCNDKRMKPRI-EHYSCIVDSLGRA--------GRLDEAKNLIE  478 (694)
Q Consensus       413 g~~pd~~t~~~ll~a~~~~-----g~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~~~--------g~~~~A~~~~~  478 (694)
                      +.+.|...|..++.+....     +..+.|..+|+++.+   +.|+- ..|..+..+|...        ++++.+.+..+
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~---ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~  408 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK---SEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELD  408 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            4566778888888876543     347799999999988   67873 3444444333221        22345555555


Q ss_pred             hC---C-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCC
Q 005481          479 SM---P-VKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKG  550 (694)
Q Consensus       479 ~~---~-~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  550 (694)
                      +.   + ...+..++..+.-.....|++++|...++++++++|+ ..+|..++.+|...|+.++|.+.+++.....
T Consensus       409 ~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps-~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        409 NIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMS-WLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             HhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            53   1 3335567887777777789999999999999999995 7899999999999999999999999887654

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.31  E-value=0.00012  Score=45.67  Aligned_cols=33  Identities=18%  Similarity=0.317  Sum_probs=30.9

Q ss_pred             HHHHHcCCCCCcchHHHHHhHHHhcCCchHHHH
Q 005481          509 GEILLRLDGDNPVNYVMMSNIHADAGSWNECER  541 (694)
Q Consensus       509 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  541 (694)
                      ++++++++|+++.+|..|+.+|...|++++|++
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            689999999999999999999999999999863

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.31  E-value=0.00076  Score=64.47  Aligned_cols=101  Identities=14%  Similarity=0.047  Sum_probs=82.8

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc---CChHHHHHHHHHHHcCCCCCcchHHHH
Q 005481          452 PRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKP-SIAIWQTLLSACRVH---GDLELGREVGEILLRLDGDNPVNYVMM  526 (694)
Q Consensus       452 p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~---g~~~~a~~~~~~~~~~~p~~~~~~~~l  526 (694)
                      -|.+.|--|...|.+.|+++.|..-|.+. .+.| +...+..+..++...   ....++..+++++++++|.|..+...|
T Consensus       154 ~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~lL  233 (287)
T COG4235         154 GDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSLL  233 (287)
T ss_pred             CCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHHH
Confidence            35778888888899999999888888877 3433 466666666664333   356789999999999999999999999


Q ss_pred             HhHHHhcCCchHHHHHHHHHHhCCCc
Q 005481          527 SNIHADAGSWNECERLRKLARSKGLK  552 (694)
Q Consensus       527 ~~~~~~~g~~~~a~~~~~~m~~~g~~  552 (694)
                      +-.+...|++.+|...++.|.+....
T Consensus       234 A~~afe~g~~~~A~~~Wq~lL~~lp~  259 (287)
T COG4235         234 AFAAFEQGDYAEAAAAWQMLLDLLPA  259 (287)
T ss_pred             HHHHHHcccHHHHHHHHHHHHhcCCC
Confidence            99999999999999999999986543

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.30  E-value=0.25  Score=50.04  Aligned_cols=73  Identities=14%  Similarity=0.165  Sum_probs=59.0

Q ss_pred             HHHHHHhCCCCC----CHHHHHHHHHH--HHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHH
Q 005481          473 AKNLIESMPVKP----SIAIWQTLLSA--CRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLA  546 (694)
Q Consensus       473 A~~~~~~~~~~p----~~~~~~~ll~a--~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  546 (694)
                      -+.++++.++.|    +...-|.|..|  +..+|++.++.-...-+.+..| ++.+|..++-.+....+++||-.++..+
T Consensus       443 Le~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  443 LEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             HHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            344556666555    34456677666  5788999999999999999999 6999999999999999999999999865

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.26  E-value=0.00069  Score=53.23  Aligned_cols=80  Identities=20%  Similarity=0.315  Sum_probs=40.6

Q ss_pred             cCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHHHHHHHhcCChHHH
Q 005481          396 HGLAKEAVGLFRKMLLDDV-EPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEA  473 (694)
Q Consensus       396 ~g~~~~A~~~~~~m~~~g~-~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A  473 (694)
                      .|++++|+.+|+++.+... .|+...+..+..++.+.|++++|..+++. .+   ..|. ......+..+|.+.|++++|
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~---~~~~~~~~~~l~a~~~~~l~~y~eA   77 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LK---LDPSNPDIHYLLARCLLKLGKYEEA   77 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HT---HHHCHHHHHHHHHHHHHHTT-HHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hC---CCCCCHHHHHHHHHHHHHhCCHHHH
Confidence            4566666666666666332 11333344456666666666666666655 22   1222 22333345556666666666


Q ss_pred             HHHHHh
Q 005481          474 KNLIES  479 (694)
Q Consensus       474 ~~~~~~  479 (694)
                      ++.+++
T Consensus        78 i~~l~~   83 (84)
T PF12895_consen   78 IKALEK   83 (84)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            665543

>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=97.21  E-value=0.00033  Score=52.42  Aligned_cols=52  Identities=23%  Similarity=0.307  Sum_probs=41.1

Q ss_pred             HhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          497 RVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       497 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      ...|++++|+..++++++.+|+++..+..++.+|.+.|++++|.++++.+..
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3567888888888888888888888888888888888888888888876654

...

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.21  E-value=0.011  Score=58.39  Aligned_cols=134  Identities=17%  Similarity=0.189  Sum_probs=99.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHH
Q 005481          384 VTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSA-CSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVD  462 (694)
Q Consensus       384 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a-~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  462 (694)
                      .+|-.++...-+.+..+.|..+|.+.++.+ ..+...|...... +...++.+.|..+|+...+.+  ..+...|...++
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-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKF--PSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHH--TT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHH
Confidence            367788888888888999999999998543 2223344443333 333567777999999998854  456778889999


Q ss_pred             HHHhcCChHHHHHHHHhC-CCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCc
Q 005481          463 SLGRAGRLDEAKNLIESM-PVKPSI----AIWQTLLSACRVHGDLELGREVGEILLRLDGDNP  520 (694)
Q Consensus       463 ~~~~~g~~~~A~~~~~~~-~~~p~~----~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~  520 (694)
                      .+.+.|+.+.|..+|++. ..-|..    .+|...+.-=.+.|+.+....+.+++.+.-|++.
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 323333    4899999999999999999999999999888743

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.

>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=97.15  E-value=0.00052  Score=51.35  Aligned_cols=48  Identities=23%  Similarity=0.372  Sum_probs=23.0

Q ss_pred             ccCcHHHHHHHHHHHhhccCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhC
Q 005481          430 HSGLVEESQEYFSRLCNDKRMKP-RIEHYSCIVDSLGRAGRLDEAKNLIESM  480 (694)
Q Consensus       430 ~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~  480 (694)
                      ..|++++|.++|+.+...   .| +...+..++.+|.+.|++++|.++++++
T Consensus         3 ~~~~~~~A~~~~~~~l~~---~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~   51 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQR---NPDNPEARLLLAQCYLKQGQYDEAEELLERL   51 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHH---TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCC
T ss_pred             hccCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            345555555555555441   23 3334444555555555555555555544

...

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.15  E-value=0.0021  Score=63.27  Aligned_cols=128  Identities=9%  Similarity=-0.011  Sum_probs=90.1

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHH---hhccCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhC-------CCC-CCHH
Q 005481          420 AYLAVLSACSHSGLVEESQEYFSRL---CNDKRMKP-RIEHYSCIVDSLGRAGRLDEAKNLIESM-------PVK-PSIA  487 (694)
Q Consensus       420 t~~~ll~a~~~~g~~~~a~~~~~~m---~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~-p~~~  487 (694)
                      .|..|.+.|.-.|++++|+..++.-   .+.+|-+. ....+..|.+.+.-.|+++.|.+.++..       +.+ ...-
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            4666666666778899998777643   22344332 2456888889999999999999888764       111 1234


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHcC----C--CCCcchHHHHHhHHHhcCCchHHHHHHHHHH
Q 005481          488 IWQTLLSACRVHGDLELGREVGEILLRL----D--GDNPVNYVMMSNIHADAGSWNECERLRKLAR  547 (694)
Q Consensus       488 ~~~~ll~a~~~~g~~~~a~~~~~~~~~~----~--p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  547 (694)
                      +.-+|.++|....+++.|+....+-+.+    +  .....++..|+++|...|..+.|..+.+.-.
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            5667888888888889998887765543    2  2335688899999999999999888766554

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.13  E-value=0.011  Score=52.02  Aligned_cols=106  Identities=16%  Similarity=0.200  Sum_probs=92.6

Q ss_pred             HhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCC--
Q 005481          444 LCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM---PVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGD--  518 (694)
Q Consensus       444 m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~--  518 (694)
                      ..++..+.|++..--.|...+.+.|+..||...|++.   .+..|....-.+.++...-++...|...++.+.+..|.  
T Consensus        79 a~~~~~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r  158 (251)
T COG4700          79 ATEELAIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFR  158 (251)
T ss_pred             HHHHHhhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccC
Confidence            3333456799998889999999999999999999987   45668888888999999999999999999999999884  


Q ss_pred             CcchHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          519 NPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       519 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      .|.....++..|...|+.++|..-++...+.
T Consensus       159 ~pd~~Ll~aR~laa~g~~a~Aesafe~a~~~  189 (251)
T COG4700         159 SPDGHLLFARTLAAQGKYADAESAFEVAISY  189 (251)
T ss_pred             CCCchHHHHHHHHhcCCchhHHHHHHHHHHh
Confidence            5778888999999999999999999988764

>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=97.13  E-value=0.00093  Score=50.14  Aligned_cols=64  Identities=25%  Similarity=0.212  Sum_probs=47.9

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcC-ChHHHHHHHHHHHcCCC
Q 005481          454 IEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHG-DLELGREVGEILLRLDG  517 (694)
Q Consensus       454 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g-~~~~a~~~~~~~~~~~p  517 (694)
                      ...|..+...+.+.|++++|+..|++. ...|+ ...|..+..++...| ++++|+..++++++++|
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 34444 556788888888888 68899999999888887

...

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.09  E-value=0.6  Score=50.44  Aligned_cols=342  Identities=13%  Similarity=0.066  Sum_probs=186.8

Q ss_pred             hCCCCCCceeHHH-----HHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcC---ChHHHHHHHccCCC-
Q 005481          106 SSSVKPNEFTLST-----NIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCG---RINEAARMFDVMPA-  176 (694)
Q Consensus       106 ~~g~~p~~~t~~~-----ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g---~~~~A~~~f~~~~~-  176 (694)
                      .-|++.+..-|..     +|.-+...+.+..|.++-..+...-... ..++.....-+.+..   +-+-+..+-+++.. 
T Consensus       425 ~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~  503 (829)
T KOG2280|consen  425 RIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQG-DRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAK  503 (829)
T ss_pred             ccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccc-cHHHHHHHHHHHhccCccchHHHHHHHHHhccc
Confidence            3455555444443     4455566677777777766653221111 466666666666653   23334444455555 


Q ss_pred             -CCcccHHHHHHHHHhcCChhHHHHHHHHHHHCC----CCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcch
Q 005481          177 -KSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHG----EIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKT  251 (694)
Q Consensus       177 -~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g----~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~  251 (694)
                       ..-++|..+.+--.+.|+.+-|..+++.=...+    +..+..-+...+.-+...|+.+...+++-++.+.-.     .
T Consensus       504 ~~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~-----~  578 (829)
T KOG2280|consen  504 LTPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLN-----R  578 (829)
T ss_pred             CCCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHH-----H
Confidence             456788888888888899998888776432221    112223345556666677777776666665544311     0


Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHhhcCC-CChhhHHHHHHHHHhCCCHHHHHHHHH--HHHh-cCCccCccchHHHHHHH
Q 005481          252 VIAGSLVDFYVKCGCLVEARRVFDLIEQ-KSVISWSSLILGYAQEENLAEAMELFR--QLRE-RSLQVDGFVLSSMMGVF  327 (694)
Q Consensus       252 ~~~~~li~~y~~~g~~~~A~~~f~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~--~m~~-~g~~pd~~t~~~ll~~~  327 (694)
                      ..+      .....+...|..+|....+ .|..+   + ..+.+.++-.+++.-|.  .... .-+.+-.......-.+|
T Consensus       579 s~l------~~~l~~~p~a~~lY~~~~r~~~~~~---l-~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~  648 (829)
T KOG2280|consen  579 SSL------FMTLRNQPLALSLYRQFMRHQDRAT---L-YDFYNQDDNHQALASFHLQASYAAETIEGRIPALKTAANAF  648 (829)
T ss_pred             HHH------HHHHHhchhhhHHHHHHHHhhchhh---h-hhhhhcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHHH
Confidence            000      0111223334444443322 11111   1 11112222222222221  1000 00122222333444455


Q ss_pred             hhhccHHHHHHHHH----------HH-HhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhc
Q 005481          328 ADFALVEQGKQIHA----------YA-AKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKH  396 (694)
Q Consensus       328 ~~~~~~~~a~~i~~----------~~-~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~  396 (694)
                      ++........+..+          .+ .+.|......+.+--+.-+...|+..+|.++-.+..-||-..|---+.+++..
T Consensus       649 a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~  728 (829)
T KOG2280|consen  649 AKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADI  728 (829)
T ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhh
Confidence            54443222111111          11 12232333333444455666788999999999998888888888888999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHH
Q 005481          397 GLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNL  476 (694)
Q Consensus       397 g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  476 (694)
                      +++++-+++-+.+..      ++-|.-...+|.+.|+.++|.+++.+...   .       .-.+.+|.+.|++.+|.++
T Consensus       729 ~kweeLekfAkskks------PIGy~PFVe~c~~~~n~~EA~KYiprv~~---l-------~ekv~ay~~~~~~~eAad~  792 (829)
T KOG2280|consen  729 KKWEELEKFAKSKKS------PIGYLPFVEACLKQGNKDEAKKYIPRVGG---L-------QEKVKAYLRVGDVKEAADL  792 (829)
T ss_pred             hhHHHHHHHHhccCC------CCCchhHHHHHHhcccHHHHhhhhhccCC---h-------HHHHHHHHHhccHHHHHHH
Confidence            998887776665442      45566678889999999999988865522   1       1568889999999988876


Q ss_pred             HHh
Q 005481          477 IES  479 (694)
Q Consensus       477 ~~~  479 (694)
                      --+
T Consensus       793 A~~  795 (829)
T KOG2280|consen  793 AAE  795 (829)
T ss_pred             HHH
Confidence            544

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.05  E-value=0.012  Score=51.06  Aligned_cols=86  Identities=9%  Similarity=0.006  Sum_probs=38.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHHHHHHH
Q 005481          388 VIITGYGKHGLAKEAVGLFRKMLLDDVEPDG-VAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLG  465 (694)
Q Consensus       388 ~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~  465 (694)
                      ++..-+.+.|++++|..+|+-+..  +.|.. .-|..|..+|...|++++|+..|..+..   +.|| ...+-.+...|.
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~~--~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~---L~~ddp~~~~~ag~c~L  114 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLTI--YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQ---IKIDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHh---cCCCCchHHHHHHHHHH
Confidence            344444455555555555555544  33333 2344444444445555555555555543   2222 333333444444


Q ss_pred             hcCChHHHHHHHH
Q 005481          466 RAGRLDEAKNLIE  478 (694)
Q Consensus       466 ~~g~~~~A~~~~~  478 (694)
                      ..|+.++|.+-|+
T Consensus       115 ~lG~~~~A~~aF~  127 (157)
T PRK15363        115 ACDNVCYAIKALK  127 (157)
T ss_pred             HcCCHHHHHHHHH
Confidence            4444444444443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.04  E-value=0.04  Score=54.72  Aligned_cols=57  Identities=18%  Similarity=0.304  Sum_probs=25.9

Q ss_pred             HHHHHHhc-CCHHHHHHHHHHHHH----CCCCCCH--HHHHHHHHHHHccCcHHHHHHHHHHHhh
Q 005481          389 IITGYGKH-GLAKEAVGLFRKMLL----DDVEPDG--VAYLAVLSACSHSGLVEESQEYFSRLCN  446 (694)
Q Consensus       389 li~~~~~~-g~~~~A~~~~~~m~~----~g~~pd~--~t~~~ll~a~~~~g~~~~a~~~~~~m~~  446 (694)
                      +...|... |++++|++.|++..+    .| .|..  ..+..+...+...|++++|.++|++...
T Consensus       120 lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~  183 (282)
T PF14938_consen  120 LAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAK  183 (282)
T ss_dssp             HHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            34445555 566666666555443    12 1111  2344444455555566666665555544

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.00  E-value=0.44  Score=47.37  Aligned_cols=243  Identities=15%  Similarity=0.135  Sum_probs=155.7

Q ss_pred             hCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHH
Q 005481          294 QEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATE  373 (694)
Q Consensus       294 ~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~  373 (694)
                      -.|++++|.+-|+.|... ...-..-+..+.-..-+.|+.+.+++.-+..-..-.. -.....+++...+..|+++.|++
T Consensus       132 ~eG~~~~Ar~kfeAMl~d-PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~-l~WA~~AtLe~r~~~gdWd~Alk  209 (531)
T COG3898         132 LEGDYEDARKKFEAMLDD-PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQ-LPWAARATLEARCAAGDWDGALK  209 (531)
T ss_pred             hcCchHHHHHHHHHHhcC-hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccC-CchHHHHHHHHHHhcCChHHHHH
Confidence            357777777777777652 0000111222222334567777777766655443222 34566788888899999999999


Q ss_pred             HHccCC-----CCChh--hHHHHHHHHH---hcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHccCcHHHHHHHHH
Q 005481          374 LFNEMP-----VKNVV--TWTVIITGYG---KHGLAKEAVGLFRKMLLDDVEPDGV-AYLAVLSACSHSGLVEESQEYFS  442 (694)
Q Consensus       374 ~~~~~~-----~~~~~--~~~~li~~~~---~~g~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~a~~~~g~~~~a~~~~~  442 (694)
                      +.+.-.     ++++.  .-..|+.+-+   -.-+...|...-.+..+  +.||.+ .-.....++.+.|++.++-.+++
T Consensus       210 Lvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE  287 (531)
T COG3898         210 LVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILE  287 (531)
T ss_pred             HHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHH
Confidence            887654     44443  2222333222   13446666666655555  677774 34445667899999999999999


Q ss_pred             HHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCC
Q 005481          443 RLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM----PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDG  517 (694)
Q Consensus       443 ~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p  517 (694)
                      .+-+   ..|....+..  ..+.|.|+.  +++-++..    ..+|| ..+-.++..+-...|++..|..-.+.+....|
T Consensus       288 ~aWK---~ePHP~ia~l--Y~~ar~gdt--a~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~p  360 (531)
T COG3898         288 TAWK---AEPHPDIALL--YVRARSGDT--ALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAREAP  360 (531)
T ss_pred             HHHh---cCCChHHHHH--HHHhcCCCc--HHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCc
Confidence            9966   4676655433  234455542  33333222    34555 55566677788889999999999999999999


Q ss_pred             CCcchHHHHHhHHHhc-CCchHHHHHHHHHHh
Q 005481          518 DNPVNYVMMSNIHADA-GSWNECERLRKLARS  548 (694)
Q Consensus       518 ~~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~  548 (694)
                      . .+.|.+|+++-... |+-.++...+.+..+
T Consensus       361 r-es~~lLlAdIeeAetGDqg~vR~wlAqav~  391 (531)
T COG3898         361 R-ESAYLLLADIEEAETGDQGKVRQWLAQAVK  391 (531)
T ss_pred             h-hhHHHHHHHHHhhccCchHHHHHHHHHHhc
Confidence            8 57899999987655 998888887776654

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.99  E-value=0.0027  Score=64.66  Aligned_cols=63  Identities=14%  Similarity=-0.040  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcch---HHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          486 IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVN---YVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       486 ~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~---~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      ...|+.+..+|...|++++|...++++++++|++..+   |.+++.+|...|+.++|.+.+++..+
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444555555555555555555555555555544422   44555555555555555555544443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.95  E-value=0.098  Score=52.88  Aligned_cols=160  Identities=16%  Similarity=0.119  Sum_probs=104.6

Q ss_pred             HHhhhhhhcCCHHHHHHHHccCCCC---Ch----hhHHHHHHHHHh---cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005481          357 SIVDMYLKCGLIDEATELFNEMPVK---NV----VTWTVIITGYGK---HGLAKEAVGLFRKMLLDDVEPDGVAYLAVLS  426 (694)
Q Consensus       357 ~li~~y~~~g~~~~A~~~~~~~~~~---~~----~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~  426 (694)
                      .|+-.|-...+++...++.+.+...   ++    ..-...+-++.+   .|+.++|+.++..++...-.++..||..+..
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            3444577777788887877777632   11    112223445556   7889999999998776667788888877776


Q ss_pred             HHHc---------cCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChH----HHHHHH---HhC-------CCC
Q 005481          427 ACSH---------SGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLD----EAKNLI---ESM-------PVK  483 (694)
Q Consensus       427 a~~~---------~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~----~A~~~~---~~~-------~~~  483 (694)
                      .|-.         ....++|...|.+.-+   +.|+..+--.++.++...|...    +..++-   ...       .-.
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         2347788888887744   6677655444455555555422    222222   111       122


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCC
Q 005481          484 PSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDN  519 (694)
Q Consensus       484 p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~  519 (694)
                      .|-..+.+++.++.-.|+.+.|.+++++++++.|+.
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            345556889999999999999999999999998764

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.94  E-value=0.01  Score=49.65  Aligned_cols=86  Identities=20%  Similarity=0.040  Sum_probs=54.1

Q ss_pred             HHHHHhcCChHHHHHHHHhC---CCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCC---CcchHHHHHhHHHh
Q 005481          461 VDSLGRAGRLDEAKNLIESM---PVKPS--IAIWQTLLSACRVHGDLELGREVGEILLRLDGD---NPVNYVMMSNIHAD  532 (694)
Q Consensus       461 i~~~~~~g~~~~A~~~~~~~---~~~p~--~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~  532 (694)
                      ..++-..|+.++|+.+|++.   +..+.  ...+-.+.++++..|++++|..++++.++..|+   +......++.++..
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            34455566666666666654   21211  234555666777777777777777777776666   45555666677777


Q ss_pred             cCCchHHHHHHHHH
Q 005481          533 AGSWNECERLRKLA  546 (694)
Q Consensus       533 ~g~~~~a~~~~~~m  546 (694)
                      .|++++|.+.+-..
T Consensus        88 ~gr~~eAl~~~l~~  101 (120)
T PF12688_consen   88 LGRPKEALEWLLEA  101 (120)
T ss_pred             CCCHHHHHHHHHHH
Confidence            78877777766543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.91  E-value=0.0057  Score=59.39  Aligned_cols=92  Identities=11%  Similarity=0.022  Sum_probs=48.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCC---cchHHHHHh
Q 005481          457 YSCIVDSLGRAGRLDEAKNLIESM-PVKPS----IAIWQTLLSACRVHGDLELGREVGEILLRLDGDN---PVNYVMMSN  528 (694)
Q Consensus       457 ~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~  528 (694)
                      |..-+..+.+.|++++|...|+.+ ...|+    ...+--+..++...|+++.|...|+++++..|++   +.++..++.
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~  225 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGV  225 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHH
Confidence            333333334445555555555444 11222    1234445555666666666666666666655543   344445566


Q ss_pred             HHHhcCCchHHHHHHHHHHh
Q 005481          529 IHADAGSWNECERLRKLARS  548 (694)
Q Consensus       529 ~~~~~g~~~~a~~~~~~m~~  548 (694)
                      +|...|++++|.++++...+
T Consensus       226 ~~~~~g~~~~A~~~~~~vi~  245 (263)
T PRK10803        226 IMQDKGDTAKAKAVYQQVIK  245 (263)
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            66666666666666666554

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=96.91  E-value=0.4  Score=47.59  Aligned_cols=100  Identities=12%  Similarity=0.132  Sum_probs=45.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-----hh-hHHHHHHHHcccCCchHHHHHHHHHHHh--CCCCCcchhh
Q 005481          182 WNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPD-----EF-TFTSTLKACGSLGSVGGGTQIHGFLITS--GFPYSVKTVI  253 (694)
Q Consensus       182 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-----~~-t~~~ll~a~~~~~~~~~a~~~~~~~~~~--g~~~~~~~~~  253 (694)
                      +..+...+.+.|++++|.++|++....-...+     .. .|...+-.+...|+...|...++.....  ++..+....+
T Consensus       158 ~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~  237 (282)
T PF14938_consen  158 LLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKF  237 (282)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHH
Confidence            34455666667777777777766654322211     11 1112222333445555555555555433  2222233344


Q ss_pred             HHHHHHHHHH--cCCHHHHHHHHhhcCCCC
Q 005481          254 AGSLVDFYVK--CGCLVEARRVFDLIEQKS  281 (694)
Q Consensus       254 ~~~li~~y~~--~g~~~~A~~~f~~~~~~~  281 (694)
                      ...|+.+|-.  ...+++|..-|+.+.+-|
T Consensus       238 ~~~l~~A~~~~D~e~f~~av~~~d~~~~ld  267 (282)
T PF14938_consen  238 LEDLLEAYEEGDVEAFTEAVAEYDSISRLD  267 (282)
T ss_dssp             HHHHHHHHHTT-CCCHHHHCHHHTTSS---
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHcccCccH
Confidence            4555555543  234566666666665544

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=96.90  E-value=0.015  Score=46.93  Aligned_cols=80  Identities=15%  Similarity=0.177  Sum_probs=63.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHccC--------cHHHHHHHHHHHhhccCCCCChhH
Q 005481          386 WTVIITGYGKHGLAKEAVGLFRKMLLDDV-EPDGVAYLAVLSACSHSG--------LVEESQEYFSRLCNDKRMKPRIEH  456 (694)
Q Consensus       386 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~pd~~t~~~ll~a~~~~g--------~~~~a~~~~~~m~~~~~~~p~~~~  456 (694)
                      -...|..+...+++.....+|+.+.+.|+ .|...+|+.++.+..+..        .+-+.+.+|+.|.. .+++|+.++
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            34456666677999999999999999999 899999999999876542        34566778888887 678888888


Q ss_pred             HHHHHHHHHh
Q 005481          457 YSCIVDSLGR  466 (694)
Q Consensus       457 ~~~li~~~~~  466 (694)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            8888877654

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 [, , ].

>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=96.88  E-value=0.0093  Score=54.35  Aligned_cols=97  Identities=21%  Similarity=0.262  Sum_probs=74.7

Q ss_pred             HHHHccC--CCCChhhHHHHHHHHHhc-----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc-------------
Q 005481          372 TELFNEM--PVKNVVTWTVIITGYGKH-----GLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHS-------------  431 (694)
Q Consensus       372 ~~~~~~~--~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~-------------  431 (694)
                      ...|+..  ..+|-.+|..++..|.+.     |..+=....++.|.+-|+.-|..+|+.||+.+=+.             
T Consensus        34 ~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~  113 (228)
T PF06239_consen   34 EELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFM  113 (228)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhc
Confidence            4455555  356777888888887654     66777778888999999999999999999876542             


Q ss_pred             ---CcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCC
Q 005481          432 ---GLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGR  469 (694)
Q Consensus       432 ---g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~  469 (694)
                         .+-+-|++++++|.. +|+.||.+++..+++.+++.+.
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               234567888888877 8888888888888888887775

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=96.87  E-value=0.0081  Score=48.36  Aligned_cols=80  Identities=10%  Similarity=0.066  Sum_probs=66.5

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHhhhCCC-CCCceeHHHHHHHhcccC--------ChHHHHHHHHHHHHhCCCCChhHH
Q 005481           81 WTALMCGFLQNGNAKACLSLFCQMGSSSV-KPNEFTLSTNIKASGVLS--------SVENGMQIHGMCMKSGFEWNPVVG  151 (694)
Q Consensus        81 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~ll~a~~~~~--------~~~~a~~~~~~~~~~g~~~~~~~~  151 (694)
                      -...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        .+-....+++.++..++.|+..+|
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etY  107 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETY  107 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHH
Confidence            44556667777999999999999999999 999999999999887653        234566789999999999999999


Q ss_pred             HHHHHHHHh
Q 005481          152 NSIIDMYSK  160 (694)
Q Consensus       152 ~~ll~~y~~  160 (694)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            999887654

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 [, , ].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.83  E-value=0.012  Score=60.61  Aligned_cols=118  Identities=13%  Similarity=0.063  Sum_probs=77.6

Q ss_pred             CCChhhHHHHHHHHHhcCChHHHHHHHhccCC-CC-----cccHHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHH
Q 005481           44 SFDLMLNNDLIDMYAKCGEMNGACAVFDKMLE-RN-----VVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLS  117 (694)
Q Consensus        44 ~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~-~~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  117 (694)
                      +.+......+++......+++++..++-+... |+     ..|.+++|+.|...|..+++++++..=...|+-||.+|++
T Consensus        63 ~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n  142 (429)
T PF10037_consen   63 PVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFN  142 (429)
T ss_pred             CCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHH
Confidence            34444555566666666666667666655532 21     2345677777777777777777777777777777777777


Q ss_pred             HHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhc
Q 005481          118 TNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKC  161 (694)
Q Consensus       118 ~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~  161 (694)
                      .+++.+.+.|++..|.++...|...+...+..++..-+..+.+.
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            77777777777777777777777666555555555444444444

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=96.81  E-value=0.0018  Score=43.32  Aligned_cols=42  Identities=26%  Similarity=0.394  Sum_probs=37.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHh
Q 005481          487 AIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSN  528 (694)
Q Consensus       487 ~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  528 (694)
                      .+|..+..++...|++++|+++++++++.+|+|+..+..|+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            367888899999999999999999999999999988887754

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=96.80  E-value=0.013  Score=57.86  Aligned_cols=129  Identities=13%  Similarity=0.136  Sum_probs=99.2

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHh-cCChHHHHHHHHhC--CCCCCHHHHHHHHHH
Q 005481          419 VAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGR-AGRLDEAKNLIESM--PVKPSIAIWQTLLSA  495 (694)
Q Consensus       419 ~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~~--~~~p~~~~~~~ll~a  495 (694)
                      .+|..++..+.+.+..+.|+.+|.++.+....  +...|-....+-.+ .++.+.|.++|+..  .+..+...|...+.-
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 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRC--TYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS---THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            46888889999999999999999999863333  34456555555444 46666699999987  445577889999999


Q ss_pred             HHhcCChHHHHHHHHHHHcCCCCCc---chHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          496 CRVHGDLELGREVGEILLRLDGDNP---VNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       496 ~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      +...|+.+.|..+|++++..-|.+.   ..|...++.=.+.|+++.+.++.+.+.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999999998766543   47777888888999999999999888763

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.

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.77  E-value=0.022  Score=58.71  Aligned_cols=122  Identities=9%  Similarity=-0.028  Sum_probs=84.7

Q ss_pred             CCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCC----CChhh
Q 005481          209 GEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQ----KSVIS  284 (694)
Q Consensus       209 g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~----~~~~~  284 (694)
                      +.+.+...+..+++.+....+++.+..++-...........-..+..++|..|.+.|..+++..+++.=..    +|..+
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            34456667777788888777788777777766655322113344556777777777777777777765443    57777


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhh
Q 005481          285 WSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADF  330 (694)
Q Consensus       285 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~  330 (694)
                      +|.||..+.+.|++..|.++...|..++...+..|+...+.+|.+.
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            8888888888888888888887777777666777777666666554

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 [].

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.74  E-value=1.1  Score=48.02  Aligned_cols=144  Identities=16%  Similarity=0.135  Sum_probs=69.8

Q ss_pred             hhhhhhcCCHHHHHHHHccCCCCCh---hhHHHHHHHH----HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 005481          359 VDMYLKCGLIDEATELFNEMPVKNV---VTWTVIITGY----GKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHS  431 (694)
Q Consensus       359 i~~y~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~----~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~  431 (694)
                      |.++.+.|+.-+|.+++.+|.++..   +.+..+-..|    .-..+..++++-.++....|...|...       +...
T Consensus       930 Ie~~Rka~~~~daarll~qmae~e~~K~~p~lr~KklYVL~AlLvE~h~~~ik~~~~~~~~g~~~dat~-------lles 1002 (1189)
T KOG2041|consen  930 IEKDRKAGRHLDAARLLSQMAEREQEKYVPYLRLKKLYVLGALLVENHRQTIKELRKIDKHGFLEDATD-------LLES 1002 (1189)
T ss_pred             HHHhhhcccchhHHHHHHHHhHHHhhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCcchhhhh-------hhhh
Confidence            5567777777777777777753211   1111111111    111233445555555555554433322       1223


Q ss_pred             CcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC----CCCCCHHHHHHHHHHHHhcCChHHHHH
Q 005481          432 GLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM----PVKPSIAIWQTLLSACRVHGDLELGRE  507 (694)
Q Consensus       432 g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~~~~~~~ll~a~~~~g~~~~a~~  507 (694)
                      |...++-++.+..-+    -....||-.|..-...-|+.+.|++.--.+    .+-|-..+|+.|.-+-+..+.+...-+
T Consensus      1003 ~~l~~~~ri~~n~Wr----gAEAyHFmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaaca~raFGtCSK 1078 (1189)
T KOG2041|consen 1003 GLLAEQSRILENTWR----GAEAYHFMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALAACAVRAFGTCSK 1078 (1189)
T ss_pred             hhhhhHHHHHHhhhh----hHHHHHHHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHhhhhhhhhhHH
Confidence            333444444443322    123456666666677788888888764433    244556666655544344444444444


Q ss_pred             HHHHHH
Q 005481          508 VGEILL  513 (694)
Q Consensus       508 ~~~~~~  513 (694)
                      ++-++-
T Consensus      1079 AfmkLe 1084 (1189)
T KOG2041|consen 1079 AFMKLE 1084 (1189)
T ss_pred             HHHHHH
Confidence            444443

>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=96.74  E-value=0.034  Score=50.81  Aligned_cols=102  Identities=15%  Similarity=0.120  Sum_probs=68.1

Q ss_pred             hccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 005481          330 FALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKM  409 (694)
Q Consensus       330 ~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  409 (694)
                      .|.++-....+..|.+.|+.-|..+|+.|++.+=| |.+- -..+|+           ++..  -...+.+-|++++++|
T Consensus        65 RGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ-----------~~F~--hyp~Qq~c~i~lL~qM  129 (228)
T PF06239_consen   65 RGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQ-----------AEFM--HYPRQQECAIDLLEQM  129 (228)
T ss_pred             cChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHH-----------HHhc--cCcHHHHHHHHHHHHH
Confidence            35566666667778888888888888888887765 3221 111111           1111  1134567799999999


Q ss_pred             HHCCCCCCHHHHHHHHHHHHccCc-HHHHHHHHHHHhh
Q 005481          410 LLDDVEPDGVAYLAVLSACSHSGL-VEESQEYFSRLCN  446 (694)
Q Consensus       410 ~~~g~~pd~~t~~~ll~a~~~~g~-~~~a~~~~~~m~~  446 (694)
                      ...|+.||..|+..|++.+.+.+. +...+++.-.|.+
T Consensus       130 E~~gV~Pd~Et~~~ll~iFG~~s~p~~K~~rmmYWmpk  167 (228)
T PF06239_consen  130 ENNGVMPDKETEQMLLNIFGRKSHPMKKYRRMMYWMPK  167 (228)
T ss_pred             HHcCCCCcHHHHHHHHHHhccccHHHHHHHHHHHHHHH
Confidence            999999999999999999977654 2334444444444

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.74  E-value=0.1  Score=50.33  Aligned_cols=55  Identities=15%  Similarity=0.040  Sum_probs=45.9

Q ss_pred             HHHHHhcCChHHHHHHHHHHHcCCCCC---cchHHHHHhHHHhcCCchHHHHHHHHHH
Q 005481          493 LSACRVHGDLELGREVGEILLRLDGDN---PVNYVMMSNIHADAGSWNECERLRKLAR  547 (694)
Q Consensus       493 l~a~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~  547 (694)
                      ..-|.+.|.+.-|..-++.+++.-|+.   +.+...+.++|...|..++|..+.+...
T Consensus       182 a~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        182 AEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            345778899999999999999888764   4677788999999999999999887654

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.70  E-value=0.23  Score=52.35  Aligned_cols=199  Identities=15%  Similarity=0.145  Sum_probs=98.5

Q ss_pred             HHHHHHHhcccCChHHHHHH--HHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCCCCCcccHHHHHHHHHhcC
Q 005481          116 LSTNIKASGVLSSVENGMQI--HGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAG  193 (694)
Q Consensus       116 ~~~ll~a~~~~~~~~~a~~~--~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g  193 (694)
                      ++..-++|.+.+++.--+-+  ++.+.+.|-.|+...   +...++-.|.+.+|.++|.                  ++|
T Consensus       601 f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk------------------~~G  659 (1081)
T KOG1538|consen  601 FETARKAYIRVRDLRYLELISELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFK------------------RSG  659 (1081)
T ss_pred             hHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHH------------------HcC
Confidence            44444555555555443333  456667776677654   3345666788999998874                  456


Q ss_pred             ChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHH
Q 005481          194 YSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRV  273 (694)
Q Consensus       194 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~  273 (694)
                      ....|+++|.+|+--+          ...-+...|..++-+.+.+.-.+..    .+..--.+-..++...|+.++|..+
T Consensus       660 ~enRAlEmyTDlRMFD----------~aQE~~~~g~~~eKKmL~RKRA~WA----r~~kePkaAAEmLiSaGe~~KAi~i  725 (1081)
T KOG1538|consen  660 HENRALEMYTDLRMFD----------YAQEFLGSGDPKEKKMLIRKRADWA----RNIKEPKAAAEMLISAGEHVKAIEI  725 (1081)
T ss_pred             chhhHHHHHHHHHHHH----------HHHHHhhcCChHHHHHHHHHHHHHh----hhcCCcHHHHHHhhcccchhhhhhh
Confidence            6677777777664311          1122223333333333322211110    0000012233444555555555443


Q ss_pred             HhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCch
Q 005481          274 FDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTS  353 (694)
Q Consensus       274 f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~  353 (694)
                      .                  ..+|-.+-+.++-+++-.    .+..+...+...+-....+..|-+||..+-..       
T Consensus       726 ~------------------~d~gW~d~lidI~rkld~----~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~-------  776 (1081)
T KOG1538|consen  726 C------------------GDHGWVDMLIDIARKLDK----AEREPLLLCATYLKKLDSPGLAAEIFLKMGDL-------  776 (1081)
T ss_pred             h------------------hcccHHHHHHHHHhhcch----hhhhHHHHHHHHHhhccccchHHHHHHHhccH-------
Confidence            2                  122222223333222211    12223333333334444555566666554321       


Q ss_pred             HHHHHhhhhhhcCCHHHHHHHHccCCC
Q 005481          354 VSNSIVDMYLKCGLIDEATELFNEMPV  380 (694)
Q Consensus       354 ~~~~li~~y~~~g~~~~A~~~~~~~~~  380 (694)
                        .+++++....+++++|..+-++.++
T Consensus       777 --ksiVqlHve~~~W~eAFalAe~hPe  801 (1081)
T KOG1538|consen  777 --KSLVQLHVETQRWDEAFALAEKHPE  801 (1081)
T ss_pred             --HHHhhheeecccchHhHhhhhhCcc
Confidence              2577788888888888888888774

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.68  E-value=0.07  Score=49.84  Aligned_cols=167  Identities=13%  Similarity=0.045  Sum_probs=115.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHhhcCC--CCh--------hhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHH
Q 005481          254 AGSLVDFYVKCGCLVEARRVFDLIEQ--KSV--------ISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSM  323 (694)
Q Consensus       254 ~~~li~~y~~~g~~~~A~~~f~~~~~--~~~--------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~l  323 (694)
                      +++|+..|.-...+++-.+.|+.-..  ..+        ..-+.++..+.-.|.+.-.+.++++..+...+.+....+.+
T Consensus       139 qesLdRl~~L~~~V~~ii~~~e~~~~~ESsv~lW~KRl~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~L  218 (366)
T KOG2796|consen  139 QESLDRLHKLKTVVSKILANLEQGLAEESSIRLWRKRLGRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGL  218 (366)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHH
Confidence            56666666666566666666654332  222        23456777777788888888899988887656677777788


Q ss_pred             HHHHhhhccHHHHHHHHHHHHhcCCCCCchHHH-----HHhhhhhhcCCHHHHHHHHccCCC---CChhhHHHHHHHHHh
Q 005481          324 MGVFADFALVEQGKQIHAYAAKVPSGLDTSVSN-----SIVDMYLKCGLIDEATELFNEMPV---KNVVTWTVIITGYGK  395 (694)
Q Consensus       324 l~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~-----~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~  395 (694)
                      .+.-.+.|+.+.+...++...+..-..+...++     .....|.-.+++..|...|.+++.   .|++.-|.-.-+...
T Consensus       219 gr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllY  298 (366)
T KOG2796|consen  219 GRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLY  298 (366)
T ss_pred             HHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHH
Confidence            888888999999999998877654444443333     334456667888888888888773   456666666666666


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 005481          396 HGLAKEAVGLFRKMLLDDVEPDGVAYL  422 (694)
Q Consensus       396 ~g~~~~A~~~~~~m~~~g~~pd~~t~~  422 (694)
                      .|+..+|++..+.|..  ..|...+-.
T Consensus       299 lg~l~DAiK~~e~~~~--~~P~~~l~e  323 (366)
T KOG2796|consen  299 LGKLKDALKQLEAMVQ--QDPRHYLHE  323 (366)
T ss_pred             HHHHHHHHHHHHHHhc--cCCccchhh
Confidence            7889999999999987  445554443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.68  E-value=0.044  Score=45.86  Aligned_cols=90  Identities=11%  Similarity=0.020  Sum_probs=46.6

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCh--hhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHHHHH
Q 005481          185 MIAGYVLAGYSDKGLLLFRKMQEHGEIPDE--FTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYV  262 (694)
Q Consensus       185 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~  262 (694)
                      +..++-..|+.++|+.+|++....|...+.  ..+..+-+.+...|++++|..+++......+..+.+..+...+...+.
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            344556677777777777777776654432  234445555556666666666666555543221112222222333444


Q ss_pred             HcCCHHHHHHHH
Q 005481          263 KCGCLVEARRVF  274 (694)
Q Consensus       263 ~~g~~~~A~~~f  274 (694)
                      ..|+.++|.+.+
T Consensus        87 ~~gr~~eAl~~~   98 (120)
T PF12688_consen   87 NLGRPKEALEWL   98 (120)
T ss_pred             HCCCHHHHHHHH
Confidence            445555544444

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.68  E-value=1.2  Score=47.68  Aligned_cols=151  Identities=13%  Similarity=0.155  Sum_probs=82.6

Q ss_pred             cCChHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHHHhhhCCCCCC----ceeHHHHHHHhcccCChHHHHHH
Q 005481           60 CGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPN----EFTLSTNIKASGVLSSVENGMQI  135 (694)
Q Consensus        60 ~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~t~~~ll~a~~~~~~~~~a~~~  135 (694)
                      -|++++|.+++-.|.++|..     |..+.+.|+|-...++++.=   |-..|    ...|..+-..++....++.|.+.
T Consensus       747 ~g~feeaek~yld~drrDLA-----ielr~klgDwfrV~qL~r~g---~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~y  818 (1189)
T KOG2041|consen  747 YGEFEEAEKLYLDADRRDLA-----IELRKKLGDWFRVYQLIRNG---GSDDDDEGKEDAFRNIGETFAEMMEWEEAAKY  818 (1189)
T ss_pred             hcchhHhhhhhhccchhhhh-----HHHHHhhhhHHHHHHHHHcc---CCCcchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            47888888888887777753     55566667776666665431   11111    12355555555555556666655


Q ss_pred             HHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChh
Q 005481          136 HGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEF  215 (694)
Q Consensus       136 ~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  215 (694)
                      +...-..         ..++..|.+..++++-+.+-..+++ |....-.|...+...|.-++|.+.|-+--.    |   
T Consensus       819 Y~~~~~~---------e~~~ecly~le~f~~LE~la~~Lpe-~s~llp~~a~mf~svGMC~qAV~a~Lr~s~----p---  881 (1189)
T KOG2041|consen  819 YSYCGDT---------ENQIECLYRLELFGELEVLARTLPE-DSELLPVMADMFTSVGMCDQAVEAYLRRSL----P---  881 (1189)
T ss_pred             HHhccch---------HhHHHHHHHHHhhhhHHHHHHhcCc-ccchHHHHHHHHHhhchHHHHHHHHHhccC----c---
Confidence            5443211         2345555555566665555555554 333445566667777777777666544311    1   


Q ss_pred             hHHHHHHHHcccCCchHHHHHH
Q 005481          216 TFTSTLKACGSLGSVGGGTQIH  237 (694)
Q Consensus       216 t~~~ll~a~~~~~~~~~a~~~~  237 (694)
                        ...+..|...+++.+|.++-
T Consensus       882 --kaAv~tCv~LnQW~~avela  901 (1189)
T KOG2041|consen  882 --KAAVHTCVELNQWGEAVELA  901 (1189)
T ss_pred             --HHHHHHHHHHHHHHHHHHHH
Confidence              12344555555555555443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.62  E-value=0.26  Score=47.45  Aligned_cols=56  Identities=14%  Similarity=0.149  Sum_probs=38.3

Q ss_pred             HHHHHHHcCCHHHHHHHHhhcCCCCh---hh---HHHHHHHHHhCCCHHHHHHHHHHHHhcC
Q 005481          257 LVDFYVKCGCLVEARRVFDLIEQKSV---IS---WSSLILGYAQEENLAEAMELFRQLRERS  312 (694)
Q Consensus       257 li~~y~~~g~~~~A~~~f~~~~~~~~---~~---~~~li~~~~~~g~~~~A~~~~~~m~~~g  312 (694)
                      ....+.+.|++++|.+.|+.+....+   ..   .-.++.+|.+.+++++|...|++..+..
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~   99 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN   99 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Confidence            34445667888888888888764222   11   2345567788888888888888887753

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.62  E-value=0.024  Score=56.56  Aligned_cols=83  Identities=13%  Similarity=0.130  Sum_probs=71.6

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCCCccCCceeEEEECCE
Q 005481          486 IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSWVEVDKE  565 (694)
Q Consensus       486 ~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~  565 (694)
                      ..++..|...|.+.+++..|++..++.++++|+|..+...-+.+|...|.++.|+..++++.+.                
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~----------------  320 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKL----------------  320 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHh----------------
Confidence            3456777788899999999999999999999999999999999999999999999999999763                


Q ss_pred             EEEEEeCCCCCcCcHHHHHHHHHHHHHHH
Q 005481          566 IHFFYGGDDTHPLTEKIHQVLMEMEKRMK  594 (694)
Q Consensus       566 ~~~f~~~~~~~~~~~~i~~~l~~l~~~~~  594 (694)
                                .|.++.|...|..+..+++
T Consensus       321 ----------~P~Nka~~~el~~l~~k~~  339 (397)
T KOG0543|consen  321 ----------EPSNKAARAELIKLKQKIR  339 (397)
T ss_pred             ----------CCCcHHHHHHHHHHHHHHH
Confidence                      4666777777777776666

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.60  E-value=0.09  Score=55.21  Aligned_cols=164  Identities=15%  Similarity=0.105  Sum_probs=94.1

Q ss_pred             ChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHc
Q 005481           93 NAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFD  172 (694)
Q Consensus        93 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~  172 (694)
                      .+-+-+.-+++|.++|-.|+....   ...|+-.|.+.+|.++|.+   .|.+      |.-+.+|.....+|.|.++..
T Consensus       615 ~~L~li~EL~~~k~rge~P~~iLl---A~~~Ay~gKF~EAAklFk~---~G~e------nRAlEmyTDlRMFD~aQE~~~  682 (1081)
T KOG1538|consen  615 RYLELISELEERKKRGETPNDLLL---ADVFAYQGKFHEAAKLFKR---SGHE------NRALEMYTDLRMFDYAQEFLG  682 (1081)
T ss_pred             HHHHHHHHHHHHHhcCCCchHHHH---HHHHHhhhhHHHHHHHHHH---cCch------hhHHHHHHHHHHHHHHHHHhh
Confidence            344556667888888888886543   3446667888888887753   3432      445666766667777777664


Q ss_pred             cCCC--------------CCcccHHHHHHHHHhcCChhHHHHHHHH------HHHCCCC---CChhhHHHHHHHHcccCC
Q 005481          173 VMPA--------------KSLITWNAMIAGYVLAGYSDKGLLLFRK------MQEHGEI---PDEFTFTSTLKACGSLGS  229 (694)
Q Consensus       173 ~~~~--------------~~~~~~~~li~~~~~~g~~~~A~~~~~~------m~~~g~~---p~~~t~~~ll~a~~~~~~  229 (694)
                      .-..              +|+.--.+....+..+|+.++|.++.-+      +.+-+-+   .+..+...+..-+.+...
T Consensus       683 ~g~~~eKKmL~RKRA~WAr~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~  762 (1081)
T KOG1538|consen  683 SGDPKEKKMLIRKRADWARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDS  762 (1081)
T ss_pred             cCChHHHHHHHHHHHHHhhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccc
Confidence            4321              1222222334455666777777665322      1111211   233344444444455556


Q ss_pred             chHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCC
Q 005481          230 VGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQ  279 (694)
Q Consensus       230 ~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~  279 (694)
                      +..|.++|..+-..           .+++++....+++++|.++-++.++
T Consensus       763 ~gLAaeIF~k~gD~-----------ksiVqlHve~~~W~eAFalAe~hPe  801 (1081)
T KOG1538|consen  763 PGLAAEIFLKMGDL-----------KSLVQLHVETQRWDEAFALAEKHPE  801 (1081)
T ss_pred             cchHHHHHHHhccH-----------HHHhhheeecccchHhHhhhhhCcc
Confidence            66666666655321           3466777777788888777777765

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.59  E-value=0.95  Score=45.44  Aligned_cols=106  Identities=14%  Similarity=0.183  Sum_probs=79.1

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhcc
Q 005481          253 IAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFAL  332 (694)
Q Consensus       253 ~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~  332 (694)
                      +.+..+.-+...|+...|.++-.+..-++-.-|-..+.+++..++|++-.++-..      +-.++-|-.++.+|...|+
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~  252 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGN  252 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCC
Confidence            3344456667788899999999888888888999999999999999887765432      1234778888888888888


Q ss_pred             HHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHH
Q 005481          333 VEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATEL  374 (694)
Q Consensus       333 ~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~  374 (694)
                      ..+|..+...+          .+..-+.+|.++|++.+|.+.
T Consensus       253 ~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  253 KKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             HHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHH
Confidence            88777766551          124567788888888888655

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

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.52  E-value=0.0082  Score=45.51  Aligned_cols=63  Identities=21%  Similarity=0.212  Sum_probs=50.0

Q ss_pred             HHHHhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHH
Q 005481          462 DSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYV  524 (694)
Q Consensus       462 ~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  524 (694)
                      ..|.+.+++++|.+.++.+ ...|+ ...|......+...|++++|...+++.++..|+++....
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~~   67 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDARA   67 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHHH
Confidence            4677888888888888887 44454 556777888889999999999999999999998765543

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.48  E-value=0.13  Score=48.05  Aligned_cols=137  Identities=9%  Similarity=0.007  Sum_probs=95.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccC----CCCChhHHHHH
Q 005481          385 TWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKR----MKPRIEHYSCI  460 (694)
Q Consensus       385 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~----~~p~~~~~~~l  460 (694)
                      .-++++..+.-+|.+.-.+.++++.++...+-+..-...|.+.-.+.|+.+.|..+|+...+..+    +.-+.-+...+
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            34566777777888888999999999876666777788888888999999999999997765332    22223333334


Q ss_pred             HHHHHhcCChHHHHHHHHhCCCC-C-CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcc
Q 005481          461 VDSLGRAGRLDEAKNLIESMPVK-P-SIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPV  521 (694)
Q Consensus       461 i~~~~~~g~~~~A~~~~~~~~~~-p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~  521 (694)
                      ...|.-++++.+|...+.+.+.. | |+...|+-.-...-.|+...|.+..+.+++..|....
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~~l  321 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRHYL  321 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCccch
Confidence            45566677888888888887432 2 2333343333344567888888888888888886443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.42  E-value=0.031  Score=54.28  Aligned_cols=100  Identities=11%  Similarity=0.062  Sum_probs=60.2

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC----HHHHHHHHH
Q 005481          421 YLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS----IAIWQTLLS  494 (694)
Q Consensus       421 ~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~  494 (694)
                      |...+......|++++|...|+.+.+.+.-.+- ...+..+...|...|++++|...|+.+ ...|+    ...|-.+..
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~  225 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGV  225 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHH
Confidence            333333334446666666666666653311110 234555666666777777777766665 11122    334555566


Q ss_pred             HHHhcCChHHHHHHHHHHHcCCCCCc
Q 005481          495 ACRVHGDLELGREVGEILLRLDGDNP  520 (694)
Q Consensus       495 a~~~~g~~~~a~~~~~~~~~~~p~~~  520 (694)
                      .+...|+.+.|...++++++..|++.
T Consensus       226 ~~~~~g~~~~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        226 IMQDKGDTAKAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence            67788999999999999999988754

>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=96.27  E-value=0.064  Score=47.23  Aligned_cols=106  Identities=19%  Similarity=0.208  Sum_probs=70.6

Q ss_pred             HccCcHHHHHHHHHHHhhccCCC--CChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 005481          429 SHSGLVEESQEYFSRLCNDKRMK--PRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGR  506 (694)
Q Consensus       429 ~~~g~~~~a~~~~~~m~~~~~~~--p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~a~~~~g~~~~a~  506 (694)
                      ...|+.+.+...+..+...+.-.  |+...          ..........++++    -......++..+...|+++.|.
T Consensus        17 ~~~~~~~~~~~~~~~al~ly~G~~l~~~~~----------~~W~~~~r~~l~~~----~~~~~~~l~~~~~~~~~~~~a~   82 (146)
T PF03704_consen   17 ARAGDPEEAIELLEEALALYRGDFLPDLDD----------EEWVEPERERLREL----YLDALERLAEALLEAGDYEEAL   82 (146)
T ss_dssp             HHTT-HHHHHHHHHHHHTT--SSTTGGGTT----------STTHHHHHHHHHHH----HHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHhCCCCCCCCCc----------cHHHHHHHHHHHHH----HHHHHHHHHHHHHhccCHHHHH
Confidence            45567777777777776643211  11111          11222223333332    1234566777788999999999


Q ss_pred             HHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          507 EVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       507 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      ..+++++..+|.+...|..+..+|...|+..+|.++++.+..
T Consensus        83 ~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~  124 (146)
T PF03704_consen   83 RLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRR  124 (146)
T ss_dssp             HHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999998854

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.20  E-value=1.2  Score=42.17  Aligned_cols=194  Identities=23%  Similarity=0.187  Sum_probs=131.4

Q ss_pred             chHHHHHhhhhhhcCCHHHHHHHHccCC-----CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005481          352 TSVSNSIVDMYLKCGLIDEATELFNEMP-----VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLS  426 (694)
Q Consensus       352 ~~~~~~li~~y~~~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~  426 (694)
                      ..........+...+.+..+...+....     ......+..+...+...+++.++...+.........+.. .......
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDL-AEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcch-HHHHHHH
Confidence            3455556666777777777777766643     234455666666777777788888888887764433311 2222222


Q ss_pred             -HHHccCcHHHHHHHHHHHhhccCCCC----ChhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC--HHHHHHHHHHHHh
Q 005481          427 -ACSHSGLVEESQEYFSRLCNDKRMKP----RIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS--IAIWQTLLSACRV  498 (694)
Q Consensus       427 -a~~~~g~~~~a~~~~~~m~~~~~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~--~~~~~~ll~a~~~  498 (694)
                       ++...|+++.+...+.....   ..|    ....+......+...++.++|...+.+. ...|+  ...+..+...+..
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  214 (291)
T COG0457         138 GALYELGDYEEALELYEKALE---LDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLK  214 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHh---cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHH
Confidence             67788888888888888744   233    2334444455567788888888888776 33333  5667777778888


Q ss_pred             cCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          499 HGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       499 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      .++.+.|...+...++..|.....+..++..+...|.++++...+......
T Consensus       215 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         215 LGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             cccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            888888888888888888875566677777777777788888877776653

>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=96.09  E-value=0.0077  Score=46.38  Aligned_cols=24  Identities=21%  Similarity=0.029  Sum_probs=10.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHH
Q 005481          489 WQTLLSACRVHGDLELGREVGEIL  512 (694)
Q Consensus       489 ~~~ll~a~~~~g~~~~a~~~~~~~  512 (694)
                      +..+...+...|++++|++.++++
T Consensus        49 ~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen   49 LNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            333344444444444444444443

...

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.06  E-value=0.052  Score=44.85  Aligned_cols=89  Identities=22%  Similarity=0.189  Sum_probs=69.4

Q ss_pred             HHHhcCChHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCC----cchHHHHHhHHHhcCCc
Q 005481          463 SLGRAGRLDEAKNLIESM-PVK-PSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDN----PVNYVMMSNIHADAGSW  536 (694)
Q Consensus       463 ~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~----~~~~~~l~~~~~~~g~~  536 (694)
                      +++..|++++|++.|.+. .+- .....||.-..+++-+|+.++|..-+++++++..+.    ..+|+.-+.+|...|+-
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~d  131 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGND  131 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCch
Confidence            566778888888888776 222 346778888889999999999999999998875432    24677788899999999


Q ss_pred             hHHHHHHHHHHhCCC
Q 005481          537 NECERLRKLARSKGL  551 (694)
Q Consensus       537 ~~a~~~~~~m~~~g~  551 (694)
                      +.|+.-|+...+.|-
T Consensus       132 d~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  132 DAARADFEAAAQLGS  146 (175)
T ss_pred             HHHHHhHHHHHHhCC
Confidence            999999988877663

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=95.99  E-value=0.009  Score=45.99  Aligned_cols=62  Identities=15%  Similarity=0.136  Sum_probs=47.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHcC----CCC---CcchHHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          487 AIWQTLLSACRVHGDLELGREVGEILLRL----DGD---NPVNYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       487 ~~~~~ll~a~~~~g~~~~a~~~~~~~~~~----~p~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      .+++.+...+...|++++|+..+++++++    .++   -..++..++.+|...|++++|.+++++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            45677777888888888888888887754    222   246788999999999999999999988653

...

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=95.97  E-value=1.3  Score=44.63  Aligned_cols=148  Identities=11%  Similarity=-0.013  Sum_probs=91.9

Q ss_pred             HhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhh--hhhhcCCHHHHHHHHccCCCCChh---------------hHHHH
Q 005481          327 FADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVD--MYLKCGLIDEATELFNEMPVKNVV---------------TWTVI  389 (694)
Q Consensus       327 ~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~--~y~~~g~~~~A~~~~~~~~~~~~~---------------~~~~l  389 (694)
                      +...++.+.|.++-..+.+....   ..+..++.  ++--.++.+.|...|++...-|+.               .|..-
T Consensus       179 l~~~~~~~~a~~ea~~ilkld~~---n~~al~vrg~~~yy~~~~~ka~~hf~qal~ldpdh~~sk~~~~~~k~le~~k~~  255 (486)
T KOG0550|consen  179 LAFLGDYDEAQSEAIDILKLDAT---NAEALYVRGLCLYYNDNADKAINHFQQALRLDPDHQKSKSASMMPKKLEVKKER  255 (486)
T ss_pred             hhhcccchhHHHHHHHHHhcccc---hhHHHHhcccccccccchHHHHHHHhhhhccChhhhhHHhHhhhHHHHHHHHhh
Confidence            35567788888777766665422   11222222  233457788888888877632221               23333


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC---CCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHHHHHHH
Q 005481          390 ITGYGKHGLAKEAVGLFRKMLLD---DVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLG  465 (694)
Q Consensus       390 i~~~~~~g~~~~A~~~~~~m~~~---g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~  465 (694)
                      ..-..+.|++.+|.+.|.+.+..   +++|+...|.....+..+.|+.++|+.-.+...+   +.|. +..|-.-..++.
T Consensus       256 gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~---iD~syikall~ra~c~l  332 (486)
T KOG0550|consen  256 GNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK---IDSSYIKALLRRANCHL  332 (486)
T ss_pred             hhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh---cCHHHHHHHHHHHHHHH
Confidence            44456788899999999888862   2444555566666677788899998888887765   4443 222333334455


Q ss_pred             hcCChHHHHHHHHhC
Q 005481          466 RAGRLDEAKNLIESM  480 (694)
Q Consensus       466 ~~g~~~~A~~~~~~~  480 (694)
                      -.++|++|.+-+++.
T Consensus       333 ~le~~e~AV~d~~~a  347 (486)
T KOG0550|consen  333 ALEKWEEAVEDYEKA  347 (486)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            567788888888775

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=95.95  E-value=2.8  Score=44.49  Aligned_cols=181  Identities=15%  Similarity=0.131  Sum_probs=122.9

Q ss_pred             CchHHHHHhhhhhhcCCHHHHHHHHccCCCC---ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005481          351 DTSVSNSIVDMYLKCGLIDEATELFNEMPVK---NVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSA  427 (694)
Q Consensus       351 ~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a  427 (694)
                      +...|...++.-.+.|+.+.+.-+|++...|   -...|--.+.-....|+.+-|..++....+--++-...+-..-..-
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f  375 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARF  375 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHH
Confidence            4556777788888899999999999988754   2335555555555558888888777766654333333332222233


Q ss_pred             HHccCcHHHHHHHHHHHhhccCCCCCh-hHHHHHHHHHHhcCChHHHH---HHHHhC-CCCCCHHHHHHHHH-----HHH
Q 005481          428 CSHSGLVEESQEYFSRLCNDKRMKPRI-EHYSCIVDSLGRAGRLDEAK---NLIESM-PVKPSIAIWQTLLS-----ACR  497 (694)
Q Consensus       428 ~~~~g~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~---~~~~~~-~~~p~~~~~~~ll~-----a~~  497 (694)
                      +-..|+.+.|..+++.+..++   |+. ..-.--+....|.|..+.+.   +++... +.+-+..+...+.-     -+.
T Consensus       376 ~e~~~n~~~A~~~lq~i~~e~---pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~  452 (577)
T KOG1258|consen  376 EESNGNFDDAKVILQRIESEY---PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYK  452 (577)
T ss_pred             HHhhccHHHHHHHHHHHHhhC---CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHH
Confidence            567899999999999998754   653 33344467778899998888   555444 22223233222222     234


Q ss_pred             hcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcC
Q 005481          498 VHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAG  534 (694)
Q Consensus       498 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  534 (694)
                      ..++.+.|..++.++.+..|++...|..+.+.....+
T Consensus       453 i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  453 IREDADLARIILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence            5688999999999999999999999999988776665

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=95.89  E-value=0.035  Score=55.06  Aligned_cols=129  Identities=9%  Similarity=0.017  Sum_probs=85.4

Q ss_pred             cchHHHHHHHhhhccHHHHHHHHHHHHh----cCCC-CCchHHHHHhhhhhhcCCHHHHHHHHccCC-------CC--Ch
Q 005481          318 FVLSSMMGVFADFALVEQGKQIHAYAAK----VPSG-LDTSVSNSIVDMYLKCGLIDEATELFNEMP-------VK--NV  383 (694)
Q Consensus       318 ~t~~~ll~~~~~~~~~~~a~~i~~~~~~----~~~~-~~~~~~~~li~~y~~~g~~~~A~~~~~~~~-------~~--~~  383 (694)
                      ..|..+-..|.-+|+++.+...|+.-..    .|-. .....+..|.+++.-.|+++.|.+.|+...       .+  ..
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEA  275 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEA  275 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHH
Confidence            3455555566667888888888775432    2211 123456677788888889999888887643       23  33


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHH----CC-CCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhh
Q 005481          384 VTWTVIITGYGKHGLAKEAVGLFRKMLL----DD-VEPDGVAYLAVLSACSHSGLVEESQEYFSRLCN  446 (694)
Q Consensus       384 ~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g-~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~  446 (694)
                      .+..+|...|.-...+++|+..+.+-+.    .+ ..-...++.+|..++...|..++|..+.+...+
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            4666788888888888888888776432    11 112335778888888888888888776665443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.88  E-value=2.2  Score=42.68  Aligned_cols=284  Identities=13%  Similarity=0.100  Sum_probs=141.4

Q ss_pred             HHHHHHHHHh--cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHc--ccCCchHHHHHHHHHHHhCCCCCcchhh--HH
Q 005481          182 WNAMIAGYVL--AGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACG--SLGSVGGGTQIHGFLITSGFPYSVKTVI--AG  255 (694)
Q Consensus       182 ~~~li~~~~~--~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~--~~~~~~~a~~~~~~~~~~g~~~~~~~~~--~~  255 (694)
                      |.+|-.++..  .|+-..|.++-.+-.+. +..|...+..++.+-.  -.|+.+.+++-|+.|...     |....  ..
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d-----PEtRllGLR  158 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD-----PETRLLGLR  158 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC-----hHHHHHhHH
Confidence            3344444433  34444444443333211 3344455555555433  246666666666666532     11111  11


Q ss_pred             HHHHHHHHcCCHHHHHHHHhhcCCC--C-hhhHHHHHHHHHhCCCHHHHHHHHHHHHhcC-CccCccc--hHHHHHHHhh
Q 005481          256 SLVDFYVKCGCLVEARRVFDLIEQK--S-VISWSSLILGYAQEENLAEAMELFRQLRERS-LQVDGFV--LSSMMGVFAD  329 (694)
Q Consensus       256 ~li~~y~~~g~~~~A~~~f~~~~~~--~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~pd~~t--~~~ll~~~~~  329 (694)
                      .|.---.+.|..+.|+.+-++.-..  . .-.|.+.+...+..|+++.|+++.+.-+... +.+|..-  -..++.+-+.
T Consensus       159 gLyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~  238 (531)
T COG3898         159 GLYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAM  238 (531)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHH
Confidence            1222223566777777666655432  1 2357778888889999999999888766532 3444321  2223332211


Q ss_pred             ---hccHHHHHHHHHHHHhcCCCCCchH-HHHHhhhhhhcCCHHHHHHHHccCC--CCChhhHHHHHHHHHhcCCHHHHH
Q 005481          330 ---FALVEQGKQIHAYAAKVPSGLDTSV-SNSIVDMYLKCGLIDEATELFNEMP--VKNVVTWTVIITGYGKHGLAKEAV  403 (694)
Q Consensus       330 ---~~~~~~a~~i~~~~~~~~~~~~~~~-~~~li~~y~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~  403 (694)
                         ..+...++..-....|..  |+..- .-.-...|.+.|++.++-.+++.+-  +|....|.  +-.+.+.|+  .++
T Consensus       239 s~ldadp~~Ar~~A~~a~KL~--pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia~--lY~~ar~gd--ta~  312 (531)
T COG3898         239 SLLDADPASARDDALEANKLA--PDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIAL--LYVRARSGD--TAL  312 (531)
T ss_pred             HHhcCChHHHHHHHHHHhhcC--CccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHHH--HHHHhcCCC--cHH
Confidence               123444444444444432  22111 1122345667777777777776664  23333332  122233333  333


Q ss_pred             HHHHHHHH-CCCCCCH-HHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHh-cCChHHHHHHHHhC
Q 005481          404 GLFRKMLL-DDVEPDG-VAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGR-AGRLDEAKNLIESM  480 (694)
Q Consensus       404 ~~~~~m~~-~g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~~  480 (694)
                      .-+++... ..++||. .+...+..+-...|++..|+.--+...+   ..|....|..|.+.-.. .|+-.++...+-+.
T Consensus       313 dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r---~~pres~~lLlAdIeeAetGDqg~vR~wlAqa  389 (531)
T COG3898         313 DRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR---EAPRESAYLLLADIEEAETGDQGKVRQWLAQA  389 (531)
T ss_pred             HHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh---hCchhhHHHHHHHHHhhccCchHHHHHHHHHH
Confidence            33333322 1245554 4555566666666777666665555544   45666666666665433 36666666666554

>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=95.86  E-value=0.85  Score=38.09  Aligned_cols=139  Identities=18%  Similarity=0.128  Sum_probs=81.4

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHH
Q 005481          395 KHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAK  474 (694)
Q Consensus       395 ~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  474 (694)
                      -.|..++..++..+.....   +..-++-++--....-+-+-..+.++.+-+-+.+.              .+|++....
T Consensus        14 ldG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis--------------~C~NlKrVi   76 (161)
T PF09205_consen   14 LDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSIGKIFDIS--------------KCGNLKRVI   76 (161)
T ss_dssp             HTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GG--------------G-S-THHHH
T ss_pred             HhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHHhhhcCch--------------hhcchHHHH
Confidence            4566777777777766532   22333334333333334444555555554433332              344444444


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCCCc
Q 005481          475 NLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLK  552 (694)
Q Consensus       475 ~~~~~~~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~  552 (694)
                      .-+-.++  .+......-+.+...+|.-+.-.++++.+.+.+..+|+...-++++|.+.|...++.++++++-++|++
T Consensus        77 ~C~~~~n--~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   77 ECYAKRN--KLSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHTT-----HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            4444442  134445666778889999999999999998766566899999999999999999999999999999875

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.80  E-value=0.057  Score=55.30  Aligned_cols=62  Identities=18%  Similarity=0.108  Sum_probs=35.3

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHcC
Q 005481          454 IEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPSI----AIWQTLLSACRVHGDLELGREVGEILLRL  515 (694)
Q Consensus       454 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~----~~~~~ll~a~~~~g~~~~a~~~~~~~~~~  515 (694)
                      ...++.+..+|.+.|++++|+..|++. .+.|+.    .+|..+..+|...|+.++|+..+++++++
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            444555555555555555555555553 444442    23566666666666666666666666655

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.66  E-value=0.74  Score=43.10  Aligned_cols=48  Identities=8%  Similarity=-0.000  Sum_probs=36.8

Q ss_pred             HHHHHhcCChHHHHHHHHHHHcCCCCCc---chHHHHHhHHHhcCCchHHH
Q 005481          493 LSACRVHGDLELGREVGEILLRLDGDNP---VNYVMMSNIHADAGSWNECE  540 (694)
Q Consensus       493 l~a~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~  540 (694)
                      ..-|.+.|.+..|..-++.+++.-|+.+   .+...++.+|.+.|..+.+.
T Consensus       148 a~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  148 ARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            4457788999999999999999988754   45677888999999888544

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.63  E-value=0.34  Score=45.35  Aligned_cols=180  Identities=13%  Similarity=0.059  Sum_probs=82.4

Q ss_pred             HHHHHHHcCCHHHHHHHHhhcCC--CC----hhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhh
Q 005481          257 LVDFYVKCGCLVEARRVFDLIEQ--KS----VISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADF  330 (694)
Q Consensus       257 li~~y~~~g~~~~A~~~f~~~~~--~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~  330 (694)
                      ....+...|++++|.+.|+.+..  |+    ..+.-.++.++.+.|++++|...|++..+.-..-...-+...+.+.+..
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            33445566777777777776653  11    1344556677777888888888888877642221122222222222111


Q ss_pred             ccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005481          331 ALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKML  410 (694)
Q Consensus       331 ~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  410 (694)
                      .......                      ......+...+|...|           ..++.-|=......+|...+..+.
T Consensus        91 ~~~~~~~----------------------~~~~D~~~~~~A~~~~-----------~~li~~yP~S~y~~~A~~~l~~l~  137 (203)
T PF13525_consen   91 KQIPGIL----------------------RSDRDQTSTRKAIEEF-----------EELIKRYPNSEYAEEAKKRLAELR  137 (203)
T ss_dssp             HHHHHHH-----------------------TT---HHHHHHHHHH-----------HHHHHH-TTSTTHHHHHHHHHHHH
T ss_pred             HhCccch----------------------hcccChHHHHHHHHHH-----------HHHHHHCcCchHHHHHHHHHHHHH
Confidence            1100000                      0011111222333332           233444444444445544444333


Q ss_pred             HCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC-hhHHHHHHHHHHhcCChHHH
Q 005481          411 LDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEA  473 (694)
Q Consensus       411 ~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A  473 (694)
                      ..   - ...-..+..-|.+.|.+..|..-++.+++++.-.+. .+....|+..|.+.|..+.|
T Consensus       138 ~~---l-a~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  138 NR---L-AEHELYIARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             HH---H-HHHHHHHHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             HH---H-HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            21   0 011123455567777777777777777775522222 23456667777777776644

>PRK11906 transcriptional regulator; Provisional

Probab=95.56  E-value=0.54  Score=48.50  Aligned_cols=142  Identities=10%  Similarity=0.055  Sum_probs=94.0

Q ss_pred             HHHHHHHHHHHH-HCCCCCCHH-HHHHHHHHHHc---------cCcHHHHHHHHHHHhhccCCCC-ChhHHHHHHHHHHh
Q 005481          399 AKEAVGLFRKML-LDDVEPDGV-AYLAVLSACSH---------SGLVEESQEYFSRLCNDKRMKP-RIEHYSCIVDSLGR  466 (694)
Q Consensus       399 ~~~A~~~~~~m~-~~g~~pd~~-t~~~ll~a~~~---------~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~  466 (694)
                      .+.|+.+|.+.. .+.+.|+.. .|..+..++..         .....+|.++-++..+   +.| |......+..++.-
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAve---ld~~Da~a~~~~g~~~~~  350 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSD---ITTVDGKILAIMGLITGL  350 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHh---cCCCCHHHHHHHHHHHHh
Confidence            557888888888 223667663 34333332211         2345567777777766   344 45666777777788


Q ss_pred             cCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchH--HHHHhHHHhcCCchHHHHH
Q 005481          467 AGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNY--VMMSNIHADAGSWNECERL  542 (694)
Q Consensus       467 ~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~--~~l~~~~~~~g~~~~a~~~  542 (694)
                      .|+++.|...|++. ...|| ..+|......+.-.|+.++|.+.++++++++|....+-  ...+++|...+ .++|.++
T Consensus       351 ~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~~-~~~~~~~  429 (458)
T PRK11906        351 SGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPNP-LKNNIKL  429 (458)
T ss_pred             hcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCCc-hhhhHHH
Confidence            88899999999887 56676 44576666777888999999999999999999654333  33344566555 4555555


Q ss_pred             HH
Q 005481          543 RK  544 (694)
Q Consensus       543 ~~  544 (694)
                      +-
T Consensus       430 ~~  431 (458)
T PRK11906        430 YY  431 (458)
T ss_pred             Hh
Confidence            53

>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=95.54  E-value=0.14  Score=43.33  Aligned_cols=46  Identities=26%  Similarity=0.465  Sum_probs=26.8

Q ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHHHhC----CCCCCHHHHHHHHH
Q 005481          449 RMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM----PVKPSIAIWQTLLS  494 (694)
Q Consensus       449 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~~~~~~~ll~  494 (694)
                      .+.|+..+..+++.+|+..|++..|+++++..    +++-+...|..|+.
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            34455666666666666666666666665543    44444566666665

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>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=95.49  E-value=0.17  Score=42.92  Aligned_cols=98  Identities=11%  Similarity=0.083  Sum_probs=66.8

Q ss_pred             chHHHHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 005481          352 TSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHS  431 (694)
Q Consensus       352 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~  431 (694)
                      ..++.+++.++++.|+++....+.+..=.-|+.       +-...+.         --......|+..+..+++.+++..
T Consensus         2 e~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~-------~~~~~~~---------~~~~spl~Pt~~lL~AIv~sf~~n   65 (126)
T PF12921_consen    2 EELLCNIIYALGRSGQLDSIKSYIKSVWGIDVN-------GKKKEGD---------YPPSSPLYPTSRLLIAIVHSFGYN   65 (126)
T ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCC-------CccccCc---------cCCCCCCCCCHHHHHHHHHHHHhc
Confidence            345566666667777766666666544311111       0000000         112234779999999999999999


Q ss_pred             CcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHH
Q 005481          432 GLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLG  465 (694)
Q Consensus       432 g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~  465 (694)
                      |++..|.++.+...+.++++-+...|..|+.-..
T Consensus        66 ~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   66 GDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             ccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            9999999999999999998888888988876443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PRK11906 transcriptional regulator; Provisional

Probab=95.26  E-value=0.32  Score=50.13  Aligned_cols=117  Identities=13%  Similarity=0.072  Sum_probs=88.0

Q ss_pred             cHHHHHHHHHHHhhccCCCCC-hhHHHHHHHHHH---------hcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcC
Q 005481          433 LVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLG---------RAGRLDEAKNLIESM-PVKP-SIAIWQTLLSACRVHG  500 (694)
Q Consensus       433 ~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~---------~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g  500 (694)
                      ..+.|..+|.+......+.|+ ...|..+...+.         ......+|.++.++. ...| |+.....+..+....+
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~~Da~a~~~~g~~~~~~~  352 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITTVDGKILAIMGLITGLSG  352 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhhc
Confidence            457788899999854557777 334444443322         123345666776665 3333 5667777777778888


Q ss_pred             ChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          501 DLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       501 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      +.+.|...++++..++|+.+.+|...+....-.|+.++|.+.++...+.
T Consensus       353 ~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL  401 (458)
T PRK11906        353 QAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQL  401 (458)
T ss_pred             chhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Confidence            8999999999999999999999999999999999999999999986543

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.13  E-value=0.2  Score=50.28  Aligned_cols=95  Identities=12%  Similarity=0.091  Sum_probs=74.8

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHh
Q 005481          455 EHYSCIVDSLGRAGRLDEAKNLIESM-PVK-PSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHAD  532 (694)
Q Consensus       455 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  532 (694)
                      ..+..|.-.|.+.+++.+|++.-++. ... +|.-..--=..+|...|+++.|+..|+++++++|+|..+-..|+.+-.+
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            35667777888888888888887776 333 3455555567789999999999999999999999998888888888777


Q ss_pred             cCCchHH-HHHHHHHHhC
Q 005481          533 AGSWNEC-ERLRKLARSK  549 (694)
Q Consensus       533 ~g~~~~a-~~~~~~m~~~  549 (694)
                      ..+..+. .+++..|-.+
T Consensus       338 ~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  338 IREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHHHHHHhhc
Confidence            7766664 7788888653

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.11  E-value=3  Score=39.23  Aligned_cols=160  Identities=22%  Similarity=0.190  Sum_probs=108.1

Q ss_pred             HHHHHhhhhhhcCCHHHHHHHHccCCC--CC-hhhHHHHHH-HHHhcCCHHHHHHHHHHHHHCCCCC----CHHHHHHHH
Q 005481          354 VSNSIVDMYLKCGLIDEATELFNEMPV--KN-VVTWTVIIT-GYGKHGLAKEAVGLFRKMLLDDVEP----DGVAYLAVL  425 (694)
Q Consensus       354 ~~~~li~~y~~~g~~~~A~~~~~~~~~--~~-~~~~~~li~-~~~~~g~~~~A~~~~~~m~~~g~~p----d~~t~~~ll  425 (694)
                      .+..+...+...+....+...+.....  ++ ...+..... .+...|++++|...|.+...  ..|    ....+....
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~  174 (291)
T COG0457          97 ALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALE--LDPELNELAEALLALG  174 (291)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCccchHHHHHHhh
Confidence            333444445555556666666655542  11 122222333 67788899999999988855  333    234444445


Q ss_pred             HHHHccCcHHHHHHHHHHHhhccCCCCC--hhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCC
Q 005481          426 SACSHSGLVEESQEYFSRLCNDKRMKPR--IEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGD  501 (694)
Q Consensus       426 ~a~~~~g~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~  501 (694)
                      ..+...++.+++...+.....   ..++  ...+..+...+...+.+++|...+... ...|+ ...+..+...+...+.
T Consensus       175 ~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (291)
T COG0457         175 ALLEALGRYEEALELLEKALK---LNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGR  251 (291)
T ss_pred             hHHHHhcCHHHHHHHHHHHHh---hCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCC
Confidence            556778899999999998877   2333  567888888899999999999998887 44454 4555556665567778


Q ss_pred             hHHHHHHHHHHHcCCCC
Q 005481          502 LELGREVGEILLRLDGD  518 (694)
Q Consensus       502 ~~~a~~~~~~~~~~~p~  518 (694)
                      .+.+...+++.++..|.
T Consensus       252 ~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         252 YEEALEALEKALELDPD  268 (291)
T ss_pred             HHHHHHHHHHHHHhCcc
Confidence            99999999999998886

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=95.10  E-value=0.53  Score=45.50  Aligned_cols=102  Identities=15%  Similarity=0.087  Sum_probs=70.9

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcC---ChHHHHHHHHhC-CCCCCHH-HHHH
Q 005481          417 DGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAG---RLDEAKNLIESM-PVKPSIA-IWQT  491 (694)
Q Consensus       417 d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~~-~~~p~~~-~~~~  491 (694)
                      |...|..|..+|...|+.+.|...|....+..|  ++.+.+..+..++..+.   ...++.++|+++ ..+|+.. +..-
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            456788888888888888888888888876332  23455555555544332   345778888887 5556544 4555


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHcCCCCCc
Q 005481          492 LLSACRVHGDLELGREVGEILLRLDGDNP  520 (694)
Q Consensus       492 ll~a~~~~g~~~~a~~~~~~~~~~~p~~~  520 (694)
                      |..++...|++.+|...++.|++..|.+.
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~lp~~~  261 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLLPADD  261 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCCCCC
Confidence            55578899999999999999998887653

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.02  E-value=3  Score=47.85  Aligned_cols=23  Identities=22%  Similarity=0.138  Sum_probs=10.2

Q ss_pred             HHHHHHHHHHcC--CHHHHHHHHhh
Q 005481          254 AGSLVDFYVKCG--CLVEARRVFDL  276 (694)
Q Consensus       254 ~~~li~~y~~~g--~~~~A~~~f~~  276 (694)
                      ...++..|.+.+  .++.|+....+
T Consensus       793 ~~~ilTs~vk~~~~~ie~aL~kI~~  817 (1265)
T KOG1920|consen  793 NLFILTSYVKSNPPEIEEALQKIKE  817 (1265)
T ss_pred             hHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            334444555544  34444444333

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.87  E-value=7.6  Score=42.68  Aligned_cols=76  Identities=14%  Similarity=0.132  Sum_probs=51.3

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcc
Q 005481          148 PVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGS  226 (694)
Q Consensus       148 ~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  226 (694)
                      ..++..+|+.+...|++++|-...-.|...+..-|.-.+..+...++......+   +.......+...|..+|..+..
T Consensus       392 ~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~~Ia~~---lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  392 KKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLTDIAPY---LPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             HHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccchhhcc---CCCCCcccCchHHHHHHHHHHH
Confidence            346677788888888888888888888888888888888877777776543332   2222222445566666666654

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.87  E-value=0.042  Score=34.14  Aligned_cols=32  Identities=31%  Similarity=0.222  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHcCCCC
Q 005481          487 AIWQTLLSACRVHGDLELGREVGEILLRLDGD  518 (694)
Q Consensus       487 ~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~  518 (694)
                      .+|..+...+...|++++|+..++++++++|+
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            46788888889999999999999999999886

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 ....

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.80  E-value=0.57  Score=40.14  Aligned_cols=58  Identities=22%  Similarity=0.249  Sum_probs=40.7

Q ss_pred             HHHhcCChHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCc
Q 005481          463 SLGRAGRLDEAKNLIESM----PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNP  520 (694)
Q Consensus       463 ~~~~~g~~~~A~~~~~~~----~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~  520 (694)
                      ...+.|++++|.+.|+.+    |..|- ...--.|+.++.+.+++++|...+++.+++.|.++
T Consensus        19 ~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp   81 (142)
T PF13512_consen   19 EALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHP   81 (142)
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCC
Confidence            344567777777777766    22222 33455677788888899999999999999888765

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.74  E-value=0.065  Score=33.16  Aligned_cols=33  Identities=33%  Similarity=0.295  Sum_probs=26.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCC
Q 005481          487 AIWQTLLSACRVHGDLELGREVGEILLRLDGDN  519 (694)
Q Consensus       487 ~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~  519 (694)
                      ..|..+...+...|++++|++.++++++++|+|
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            457777888888899999999999998888874

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 ....

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.61  E-value=0.61  Score=48.21  Aligned_cols=149  Identities=13%  Similarity=0.051  Sum_probs=88.6

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHH--HhcCCh
Q 005481          393 YGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSL--GRAGRL  470 (694)
Q Consensus       393 ~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~--~~~g~~  470 (694)
                      --+..+...-++.-++.++  +.||..+-..++ +--.+..+.++.++|++..+. +    ...+   ....  ...|. 
T Consensus       178 AWRERnp~aRIkaA~eALe--i~pdCAdAYILL-AEEeA~Ti~Eae~l~rqAvkA-g----E~~l---g~s~~~~~~g~-  245 (539)
T PF04184_consen  178 AWRERNPQARIKAAKEALE--INPDCADAYILL-AEEEASTIVEAEELLRQAVKA-G----EASL---GKSQFLQHHGH-  245 (539)
T ss_pred             HHhcCCHHHHHHHHHHHHH--hhhhhhHHHhhc-ccccccCHHHHHHHHHHHHHH-H----HHhh---chhhhhhcccc-
Confidence            3445666677777777776  667775443333 233456678888888887661 1    0000   0000  01111 


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCC--CcchHHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          471 DEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGD--NPVNYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       471 ~~A~~~~~~~~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                        ..+.+..-...|-..+-..|...+++.|+.++|.+.++.+++..|.  +-.....|+..|-..+++.++..++.+--+
T Consensus       246 --~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  246 --FWEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             --hhhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence              1111111112233444455667778889999999999998877663  456778888889999999999888887644


Q ss_pred             CCCccCC
Q 005481          549 KGLKKVA  555 (694)
Q Consensus       549 ~g~~~~~  555 (694)
                      ....+..
T Consensus       324 i~lpkSA  330 (539)
T PF04184_consen  324 ISLPKSA  330 (539)
T ss_pred             ccCCchH
Confidence            3333333

The molecular function of this protein is uncertain.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.55  E-value=0.31  Score=46.14  Aligned_cols=101  Identities=12%  Similarity=0.113  Sum_probs=80.9

Q ss_pred             HHHHHHccCC--CCChhhHHHHHHHHHhc-----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC----------
Q 005481          370 EATELFNEMP--VKNVVTWTVIITGYGKH-----GLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSG----------  432 (694)
Q Consensus       370 ~A~~~~~~~~--~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g----------  432 (694)
                      ..+..|..+.  ++|-.+|-+++..|..+     +..+=....++.|.+.|+.-|..+|..||+.+-+..          
T Consensus        52 ~~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~  131 (406)
T KOG3941|consen   52 HVEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKV  131 (406)
T ss_pred             chhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHH
Confidence            3456677776  67888999988888754     556666777899999999999999999999865542          


Q ss_pred             ------cHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChH
Q 005481          433 ------LVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLD  471 (694)
Q Consensus       433 ------~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~  471 (694)
                            +-+=++.++++|.. +|+.||.++-..|+++++|.|..-
T Consensus       132 F~HYP~QQ~C~I~vLeqME~-hGVmPdkE~e~~lvn~FGr~~~p~  175 (406)
T KOG3941|consen  132 FLHYPQQQNCAIKVLEQMEW-HGVMPDKEIEDILVNAFGRWNFPT  175 (406)
T ss_pred             HhhCchhhhHHHHHHHHHHH-cCCCCchHHHHHHHHHhccccccH
Confidence                  22337889999987 999999999999999999998754

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=94.50  E-value=6.5  Score=40.23  Aligned_cols=397  Identities=12%  Similarity=0.050  Sum_probs=196.8

Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHccCCCCCc---ccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHH
Q 005481          145 EWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSL---ITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTL  221 (694)
Q Consensus       145 ~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  221 (694)
                      +.|+..|-.|+.-|...|.+++.++++++|..|-+   .+|..-|++-....++.....+|.+-+......|.  |..-+
T Consensus        39 PtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l~ldL--W~lYl  116 (660)
T COG5107          39 PTNILSYFQLIQYLETQESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSLNLDL--WMLYL  116 (660)
T ss_pred             chhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhccHhH--HHHHH
Confidence            56778888888888888889998999988888744   47888888877788888888888887776544333  33333


Q ss_pred             HHHcccCCch------HHHHHHHHHHH-hCCCCCcchhhHHHHHHHHH---------HcCCHHHHHHHHhhcCCC---Ch
Q 005481          222 KACGSLGSVG------GGTQIHGFLIT-SGFPYSVKTVIAGSLVDFYV---------KCGCLVEARRVFDLIEQK---SV  282 (694)
Q Consensus       222 ~a~~~~~~~~------~a~~~~~~~~~-~g~~~~~~~~~~~~li~~y~---------~~g~~~~A~~~f~~~~~~---~~  282 (694)
                      .--.+....-      ...+.++..+. .+++| .....|+..++..-         ...++|..++.+.++...   +.
T Consensus       117 ~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~-~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~ral~tP~~nl  195 (660)
T COG5107         117 EYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEP-QSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYMRALQTPMGNL  195 (660)
T ss_pred             HHHHhhCcccccchhhhhHHHHHHHHhcccccc-cccchHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHcCccccH
Confidence            3222222111      12244444443 23332 23344555544332         223445556666665531   11


Q ss_pred             -------hhHHHHHHH-----HHh--CCCHHHHHHHHHHHHh--cCCccCcc----chHHH-----------HHHHhhh-
Q 005481          283 -------ISWSSLILG-----YAQ--EENLAEAMELFRQLRE--RSLQVDGF----VLSSM-----------MGVFADF-  330 (694)
Q Consensus       283 -------~~~~~li~~-----~~~--~g~~~~A~~~~~~m~~--~g~~pd~~----t~~~l-----------l~~~~~~-  330 (694)
                             ..|..=+.-     +..  .--+..|...++++..  .|+..-..    |++-+           |..-... 
T Consensus       196 eklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~S~WlNwIkwE~en~  275 (660)
T COG5107         196 EKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSDSNWLNWIKWEMENG  275 (660)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccccccchhhhHhhHhhcCC
Confidence                   112111111     110  1123456666666543  34332221    11111           1100000 


Q ss_pred             -----ccH-HHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCC--CChhhHHHHHHHHHhcCCHHHH
Q 005481          331 -----ALV-EQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPV--KNVVTWTVIITGYGKHGLAKEA  402 (694)
Q Consensus       331 -----~~~-~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A  402 (694)
                           +-. ....-+|..+... +.....+|----..+...++-+.|.....+...  |....  -+...|....+.++.
T Consensus       276 l~L~~~~~~qRi~y~~~q~~~y-~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~spsL~~--~lse~yel~nd~e~v  352 (660)
T COG5107         276 LKLGGRPHEQRIHYIHNQILDY-FYYAEEVWFDYSEYLIGISDKQKALKTVERGIEMSPSLTM--FLSEYYELVNDEEAV  352 (660)
T ss_pred             cccCCCcHHHHHHHHHHHHHHH-hhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccCCCchhe--eHHHHHhhcccHHHH
Confidence                 000 0111112221111 011112222122223345566666665544321  21100  011111111222111


Q ss_pred             HHHHHHHHH--------------CCC---------------CCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC
Q 005481          403 VGLFRKMLL--------------DDV---------------EPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR  453 (694)
Q Consensus       403 ~~~~~~m~~--------------~g~---------------~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~  453 (694)
                      ...|++..+              .+.               .-=...|...+++-.+..-++.|+.+|-+..+..-+.++
T Consensus       353 ~~~fdk~~q~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~  432 (660)
T COG5107         353 YGCFDKCTQDLKRKYSMGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHH  432 (660)
T ss_pred             hhhHHHHHHHHHHHHhhhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcc
Confidence            111111110              011               011234556666666777788888888888773225677


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhC-CCCCCHHH-HHHHHHHHHhcCChHHHHHHHHHHHcCCCC--CcchHHHHHhH
Q 005481          454 IEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPSIAI-WQTLLSACRVHGDLELGREVGEILLRLDGD--NPVNYVMMSNI  529 (694)
Q Consensus       454 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~-~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~  529 (694)
                      +..+++++.-++ .|+..-|..+|+-- ..-||... -.-.+.-+..-++-+.|..+|+..++.-.+  -...|..+++-
T Consensus       433 vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~Y  511 (660)
T COG5107         433 VYIYCAFIEYYA-TGDRATAYNIFELGLLKFPDSTLYKEKYLLFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEY  511 (660)
T ss_pred             eeeeHHHHHHHh-cCCcchHHHHHHHHHHhCCCchHHHHHHHHHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHH
Confidence            778888887665 56777788888753 33345444 344555556667778888888866542221  13567777766


Q ss_pred             HHhcCCchHHHHHHHHHHh
Q 005481          530 HADAGSWNECERLRKLARS  548 (694)
Q Consensus       530 ~~~~g~~~~a~~~~~~m~~  548 (694)
                      =..-|+...+..+-+.|.+
T Consensus       512 Es~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         512 ESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHhhcchHHHHhHHHHHHH
Confidence            6677777777766666654

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.43  E-value=0.25  Score=47.09  Aligned_cols=57  Identities=12%  Similarity=0.025  Sum_probs=29.5

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHcCCCCC---cchHHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          492 LLSACRVHGDLELGREVGEILLRLDGDN---PVNYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       492 ll~a~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      |+.++...|+++.|...|..+.+-.|++   |..+.-|+.+..+.|+.++|..+++...+
T Consensus       184 LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         184 LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            3444455555555555555555444332   34455555555555555555555555544

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.37  E-value=9.7  Score=41.68  Aligned_cols=115  Identities=11%  Similarity=0.077  Sum_probs=90.1

Q ss_pred             CCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHH
Q 005481          415 EPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLS  494 (694)
Q Consensus       415 ~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~  494 (694)
                      .-...|.+--+.-+...|+..+|.++-....     -||-..|..=+.+++..+++++-+++-+++.   .+.-|.-+..
T Consensus       681 ~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLekfAkskk---sPIGy~PFVe  752 (829)
T KOG2280|consen  681 SFVDLSLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEKFAKSKK---SPIGYLPFVE  752 (829)
T ss_pred             ccccCcHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC---CCCCchhHHH
Confidence            3344556666777888899999988876653     4888899999999999999999999888863   2344677888


Q ss_pred             HHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHH
Q 005481          495 ACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKL  545 (694)
Q Consensus       495 a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  545 (694)
                      +|.+.|+.++|...+-+.-        .+.....+|.+.|++.+|.++--+
T Consensus       753 ~c~~~~n~~EA~KYiprv~--------~l~ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  753 ACLKQGNKDEAKKYIPRVG--------GLQEKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HHHhcccHHHHhhhhhccC--------ChHHHHHHHHHhccHHHHHHHHHH
Confidence            9999999999998877652        223678899999999999876544

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=93.99  E-value=3.4  Score=35.84  Aligned_cols=86  Identities=16%  Similarity=0.154  Sum_probs=55.4

Q ss_pred             HHHHHHHhhcCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccCCCCcccHHHHHHHHHhCCCh
Q 005481           15 LADSLRCCSKNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNA   94 (694)
Q Consensus        15 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~   94 (694)
                      ...++..+...+........+..+.+.+ ..++...|.++..|++.. .+.....+..  ..+......+++.|.+.+.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~--~~~~yd~~~~~~~c~~~~l~   85 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN--KSNHYDIEKVGKLCEKAKLY   85 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh--ccccCCHHHHHHHHHHcCcH
Confidence            3456666666677888888888887776 467778888888888753 3344444442  23344455566666666666


Q ss_pred             HHHHHHHHHh
Q 005481           95 KACLSLFCQM  104 (694)
Q Consensus        95 ~~A~~~~~~m  104 (694)
                      +++.-++..+
T Consensus        86 ~~~~~l~~k~   95 (140)
T smart00299       86 EEAVELYKKD   95 (140)
T ss_pred             HHHHHHHHhh
Confidence            6666666655

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=93.86  E-value=0.51  Score=41.44  Aligned_cols=69  Identities=22%  Similarity=0.299  Sum_probs=38.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHhh----ccCCCCChhH
Q 005481          386 WTVIITGYGKHGLAKEAVGLFRKMLLDDVEP-DGVAYLAVLSACSHSGLVEESQEYFSRLCN----DKRMKPRIEH  456 (694)
Q Consensus       386 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~----~~~~~p~~~~  456 (694)
                      ...++..+...|++++|+.+.+++...  .| |...+..++.++...|+..+|.++|+.+.+    +.|+.|+..+
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~--dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALAL--DPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHH--STT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            344555666677777777777777663  33 345677777777777777777777666533    3466665443

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=93.77  E-value=0.73  Score=48.54  Aligned_cols=133  Identities=16%  Similarity=0.200  Sum_probs=85.8

Q ss_pred             HHHhcCCHHHHHHHHHH-HHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCCh
Q 005481          392 GYGKHGLAKEAVGLFRK-MLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRL  470 (694)
Q Consensus       392 ~~~~~g~~~~A~~~~~~-m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~  470 (694)
                      .....|+++++.++... -.-..++  ..-...++.-+.+.|..+.|+++-..-.             .-.++..+.|++
T Consensus       270 ~av~~~d~~~v~~~i~~~~ll~~i~--~~~~~~i~~fL~~~G~~e~AL~~~~D~~-------------~rFeLAl~lg~L  334 (443)
T PF04053_consen  270 TAVLRGDFEEVLRMIAASNLLPNIP--KDQGQSIARFLEKKGYPELALQFVTDPD-------------HRFELALQLGNL  334 (443)
T ss_dssp             HHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HH-------------HHHHHHHHCT-H
T ss_pred             HHHHcCChhhhhhhhhhhhhcccCC--hhHHHHHHHHHHHCCCHHHHHhhcCChH-------------HHhHHHHhcCCH
Confidence            34457788887666641 1111122  2335667777778888888877543221             234566788999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCC
Q 005481          471 DEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKG  550 (694)
Q Consensus       471 ~~A~~~~~~~~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  550 (694)
                      +.|.++.++..   +...|..|......+|+.+.|++++++.        .-+..|.-+|...|+.+.-.++-+....+|
T Consensus       335 ~~A~~~a~~~~---~~~~W~~Lg~~AL~~g~~~lAe~c~~k~--------~d~~~L~lLy~~~g~~~~L~kl~~~a~~~~  403 (443)
T PF04053_consen  335 DIALEIAKELD---DPEKWKQLGDEALRQGNIELAEECYQKA--------KDFSGLLLLYSSTGDREKLSKLAKIAEERG  403 (443)
T ss_dssp             HHHHHHCCCCS---THHHHHHHHHHHHHTTBHHHHHHHHHHC--------T-HHHHHHHHHHCT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhcC---cHHHHHHHHHHHHHcCCHHHHHHHHHhh--------cCccccHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            99988887754   7788999999999999999999999884        557778888888898887777777766654

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.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=93.74  E-value=6.3  Score=40.16  Aligned_cols=72  Identities=11%  Similarity=0.092  Sum_probs=44.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHhhcCCC---Chh----hHHHHHHHHHh---CCCHHHHHHHHHHHHhcCCccCccchHHHHH
Q 005481          256 SLVDFYVKCGCLVEARRVFDLIEQK---SVI----SWSSLILGYAQ---EENLAEAMELFRQLRERSLQVDGFVLSSMMG  325 (694)
Q Consensus       256 ~li~~y~~~g~~~~A~~~f~~~~~~---~~~----~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~  325 (694)
                      .|+-.|-...+++...++.+.+...   ++.    .-....-++-+   .|+.++|++++..+....-.++..|+..+..
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            3444577777777777777777643   111    11123334455   7888888888888666556667777776665


Q ss_pred             HH
Q 005481          326 VF  327 (694)
Q Consensus       326 ~~  327 (694)
                      .+
T Consensus       226 Iy  227 (374)
T PF13281_consen  226 IY  227 (374)
T ss_pred             HH
Confidence            54

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=93.73  E-value=2.7  Score=45.01  Aligned_cols=157  Identities=16%  Similarity=0.090  Sum_probs=95.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCC-CCCCH-----HHHHHHHHHHH----ccCcHHHHHHHHHHHhhccCCCCChhHHH
Q 005481          389 IITGYGKHGLAKEAVGLFRKMLLDD-VEPDG-----VAYLAVLSACS----HSGLVEESQEYFSRLCNDKRMKPRIEHYS  458 (694)
Q Consensus       389 li~~~~~~g~~~~A~~~~~~m~~~g-~~pd~-----~t~~~ll~a~~----~~g~~~~a~~~~~~m~~~~~~~p~~~~~~  458 (694)
                      +++...-.|+-+.+++.+.+..+.+ +.-..     .+|..++..+.    .....+.+.++++.+.+.+   |+...|.
T Consensus       194 ll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~y---P~s~lfl  270 (468)
T PF10300_consen  194 LLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRY---PNSALFL  270 (468)
T ss_pred             HHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhC---CCcHHHH
Confidence            4444455566666666665544421 11100     11222222222    2456777888888887743   6655443


Q ss_pred             HH-HHHHHhcCChHHHHHHHHhCC-CC---C--CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHH-HHhHH
Q 005481          459 CI-VDSLGRAGRLDEAKNLIESMP-VK---P--SIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVM-MSNIH  530 (694)
Q Consensus       459 ~l-i~~~~~~g~~~~A~~~~~~~~-~~---p--~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~-l~~~~  530 (694)
                      .. ...+...|++++|++.|+++- .+   |  ....+--+...+....++++|...+.++.+...-....|.- .+-+|
T Consensus       271 ~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~a~c~  350 (468)
T PF10300_consen  271 FFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLAAACL  350 (468)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHHHHHH
Confidence            33 456677888888888888652 11   1  12334445666778899999999999999877765555544 45567


Q ss_pred             HhcCCc-------hHHHHHHHHHHh
Q 005481          531 ADAGSW-------NECERLRKLARS  548 (694)
Q Consensus       531 ~~~g~~-------~~a~~~~~~m~~  548 (694)
                      ...|+.       ++|.++++++..
T Consensus       351 ~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  351 LMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HhhccchhhhhhHHHHHHHHHHHHH
Confidence            788888       778888777654

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.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=93.46  E-value=3.3  Score=35.94  Aligned_cols=84  Identities=13%  Similarity=0.122  Sum_probs=40.2

Q ss_pred             HHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCCCCCcccHHHHHHHHHhcCChhH
Q 005481          118 TNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDK  197 (694)
Q Consensus       118 ~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~  197 (694)
                      .++..+...+.......+++.+++.+ ..+...+|.++..|++.+ .++....++.  ..+......++..|.+.+.+++
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~--~~~~yd~~~~~~~c~~~~l~~~   87 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN--KSNHYDIEKVGKLCEKAKLYEE   87 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh--ccccCCHHHHHHHHHHcCcHHH
Confidence            34444444445555555555555554 245556666666666543 2333333331  1223333444455555555555


Q ss_pred             HHHHHHHH
Q 005481          198 GLLLFRKM  205 (694)
Q Consensus       198 A~~~~~~m  205 (694)
                      +.-++.++
T Consensus        88 ~~~l~~k~   95 (140)
T smart00299       88 AVELYKKD   95 (140)
T ss_pred             HHHHHHhh
Confidence            55554443

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=93.33  E-value=11  Score=38.73  Aligned_cols=447  Identities=13%  Similarity=0.084  Sum_probs=232.7

Q ss_pred             HHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccCCCCc---ccHHHHHHHHHhCCChHHHHHHHHHhhhCCC
Q 005481           33 QLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERNV---VSWTALMCGFLQNGNAKACLSLFCQMGSSSV  109 (694)
Q Consensus        33 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  109 (694)
                      ++-+.+...  +.|+.+|-.||.-|...|..++.++++++|..|-+   ..|..-|++=....++.....+|.+......
T Consensus        30 rLRerIkdN--PtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l  107 (660)
T COG5107          30 RLRERIKDN--PTNILSYFQLIQYLETQESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSL  107 (660)
T ss_pred             HHHHHhhcC--chhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhc
Confidence            444444432  67889999999999999999999999999988754   3799999988888899999999999887544


Q ss_pred             CCCceeHHHHHHHhcccCChHH------HHHHHHHHHH-hCCCCCh-hHHHHHHHHHH---hcC------ChHHHHHHHc
Q 005481          110 KPNEFTLSTNIKASGVLSSVEN------GMQIHGMCMK-SGFEWNP-VVGNSIIDMYS---KCG------RINEAARMFD  172 (694)
Q Consensus       110 ~p~~~t~~~ll~a~~~~~~~~~------a~~~~~~~~~-~g~~~~~-~~~~~ll~~y~---~~g------~~~~A~~~f~  172 (694)
                      .  ...|..-|.-..+.+..-.      --+.++.++. .+++|-. ..|+..+...-   ..|      ++|..++.+.
T Consensus       108 ~--ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~  185 (660)
T COG5107         108 N--LDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYM  185 (660)
T ss_pred             c--HhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHHH
Confidence            3  4455555554444332221      2234444443 2444432 34444443321   223      3555666666


Q ss_pred             cCCC-C--Ccc-cHH------HHHHH-----HHh--cCChhHHHHHHHHHHH--CCCCC----ChhhHHHHHHHHcccCC
Q 005481          173 VMPA-K--SLI-TWN------AMIAG-----YVL--AGYSDKGLLLFRKMQE--HGEIP----DEFTFTSTLKACGSLGS  229 (694)
Q Consensus       173 ~~~~-~--~~~-~~~------~li~~-----~~~--~g~~~~A~~~~~~m~~--~g~~p----~~~t~~~ll~a~~~~~~  229 (694)
                      ++.. |  +.. .|+      .=+..     ++.  .--+..|...+++...  .|...    +..|++-+-+    ..+
T Consensus       186 ral~tP~~nleklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r----~s~  261 (660)
T COG5107         186 RALQTPMGNLEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAAR----TSD  261 (660)
T ss_pred             HHHcCccccHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccc----ccc
Confidence            6653 1  111 122      11111     110  1113455555555532  34322    1222222111    000


Q ss_pred             chHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHH
Q 005481          230 VGGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLR  309 (694)
Q Consensus       230 ~~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  309 (694)
                       ..-......=.+.++....++..  .-|. |+    ++.+...|-    -....|----.-+...++-+.|+.....-.
T Consensus       262 -S~WlNwIkwE~en~l~L~~~~~~--qRi~-y~----~~q~~~y~~----~~~evw~dys~Y~~~isd~q~al~tv~rg~  329 (660)
T COG5107         262 -SNWLNWIKWEMENGLKLGGRPHE--QRIH-YI----HNQILDYFY----YAEEVWFDYSEYLIGISDKQKALKTVERGI  329 (660)
T ss_pred             -chhhhHhhHhhcCCcccCCCcHH--HHHH-HH----HHHHHHHhh----hhHHHHHHHHHHHhhccHHHHHHHHHHhcc
Confidence             00001111111222221111100  0000 00    001111100    012233333333445566666666554422


Q ss_pred             hcCCccCccchHHHHHHHhhhcc-HHHHHHHHHHHHhcCCCCCchHHHHHhhhhhh---------cCCHHHHHHHHccCC
Q 005481          310 ERSLQVDGFVLSSMMGVFADFAL-VEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLK---------CGLIDEATELFNEMP  379 (694)
Q Consensus       310 ~~g~~pd~~t~~~ll~~~~~~~~-~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~---------~g~~~~A~~~~~~~~  379 (694)
                           |+...++..++-|..+.+ -+.....++...+           .|..-|.+         -|+++...+++-+-.
T Consensus       330 -----~~spsL~~~lse~yel~nd~e~v~~~fdk~~q-----------~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~  393 (660)
T COG5107         330 -----EMSPSLTMFLSEYYELVNDEEAVYGCFDKCTQ-----------DLKRKYSMGESESASKVDNNFEYSKELLLKRI  393 (660)
T ss_pred             -----cCCCchheeHHHHHhhcccHHHHhhhHHHHHH-----------HHHHHHhhhhhhhhccccCCccccHHHHHHHH
Confidence                 222223333443333222 1211111211110           01111110         122222222222212


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHH-
Q 005481          380 VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDD-VEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHY-  457 (694)
Q Consensus       380 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~-  457 (694)
                      .+-...|...+..-.+..-.+.|..+|-+..+.| +.++...+++++.-++ .|+...|..+|+.-...+   ||...| 
T Consensus       394 ~k~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f---~d~~~y~  469 (660)
T COG5107         394 NKLTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKF---PDSTLYK  469 (660)
T ss_pred             hhhhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhC---CCchHHH
Confidence            2344567777777777777888888999888888 5677777777776544 577888888888766633   443333 


Q ss_pred             HHHHHHHHhcCChHHHHHHHHhC--CCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCC
Q 005481          458 SCIVDSLGRAGRLDEAKNLIESM--PVKPS--IAIWQTLLSACRVHGDLELGREVGEILLRLDGDN  519 (694)
Q Consensus       458 ~~li~~~~~~g~~~~A~~~~~~~--~~~p~--~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~  519 (694)
                      +-.++-+.+.++-+.|..+|+..  .+..+  ..+|..++.--..-|+...+..+-+++.++-|..
T Consensus       470 ~kyl~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQe  535 (660)
T COG5107         470 EKYLLFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQE  535 (660)
T ss_pred             HHHHHHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcH
Confidence            45566677888888888888865  23333  5678888888888899888888888888888864

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.33  E-value=0.77  Score=44.71  Aligned_cols=159  Identities=16%  Similarity=0.106  Sum_probs=112.2

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHH----HHHHHhcCCh
Q 005481          395 KHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCI----VDSLGRAGRL  470 (694)
Q Consensus       395 ~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~l----i~~~~~~g~~  470 (694)
                      -+|...+|-..++++++. .+-|..++.-.-++|...|+.+.-...++++...  -.|+...|.-+    .-++..+|-+
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~--wn~dlp~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK--WNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc--cCCCCcHHHHHHHHHHhhHHHhccc
Confidence            468888888899998874 5567778888888999999999999999888763  24555444333    3445688999


Q ss_pred             HHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCC----CcchHHHHHhHHHhcCCchHHHHHHH
Q 005481          471 DEAKNLIESM-PVKP-SIAIWQTLLSACRVHGDLELGREVGEILLRLDGD----NPVNYVMMSNIHADAGSWNECERLRK  544 (694)
Q Consensus       471 ~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~a~~~~~  544 (694)
                      ++|++.-++. .+.| |.-.-.++.......|+..++.+...+--..-.+    -...|-..+-.|...+.++.|.++++
T Consensus       192 ~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  192 DDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            9999998887 4444 3444556666677888899888877764322111    12455566677778899999999998


Q ss_pred             HHHhCCCccCCc
Q 005481          545 LARSKGLKKVAG  556 (694)
Q Consensus       545 ~m~~~g~~~~~~  556 (694)
                      .=.-+.+.++.+
T Consensus       272 ~ei~k~l~k~Da  283 (491)
T KOG2610|consen  272 REIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHhhccch
Confidence            755444555444

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.31  E-value=5.1  Score=37.59  Aligned_cols=86  Identities=12%  Similarity=0.062  Sum_probs=45.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCC-------CCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHcC----CCCCcchHH
Q 005481          457 YSCIVDSLGRAGRLDEAKNLIESMP-------VKPSI-AIWQTLLSACRVHGDLELGREVGEILLRL----DGDNPVNYV  524 (694)
Q Consensus       457 ~~~li~~~~~~g~~~~A~~~~~~~~-------~~p~~-~~~~~ll~a~~~~g~~~~a~~~~~~~~~~----~p~~~~~~~  524 (694)
                      |......|.|..+++||-..|.+-.       .-|+. ..+-+.+-.+....++..|++.++.--+.    .|++..+..
T Consensus       153 ~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~le  232 (308)
T KOG1585|consen  153 YGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLE  232 (308)
T ss_pred             HHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHH
Confidence            4444556666667776665554431       11221 12333334445556777777777765443    345555555


Q ss_pred             HHHhHHHhcCCchHHHHHH
Q 005481          525 MMSNIHADAGSWNECERLR  543 (694)
Q Consensus       525 ~l~~~~~~~g~~~~a~~~~  543 (694)
                      .|...| ..|+.+++.++.
T Consensus       233 nLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  233 NLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHh-ccCCHHHHHHHH
Confidence            555554 356666665544

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.25  E-value=0.82  Score=43.63  Aligned_cols=92  Identities=14%  Similarity=0.148  Sum_probs=49.9

Q ss_pred             ccCcHHHHHHHHHHHhhccCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCChH
Q 005481          430 HSGLVEESQEYFSRLCNDKRMKP-RIEHYSCIVDSLGRAGRLDEAKNLIESM----PVKPS-IAIWQTLLSACRVHGDLE  503 (694)
Q Consensus       430 ~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~p~-~~~~~~ll~a~~~~g~~~  503 (694)
                      +.|++..|...|...++.+.-.+ ....+-.|...+...|++++|...|..+    |..|- +..+--|.......|+.+
T Consensus       153 ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d  232 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTD  232 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHH
Confidence            34555666666655555331111 1223444566666666666666665554    22222 234444555556667777


Q ss_pred             HHHHHHHHHHcCCCCCcc
Q 005481          504 LGREVGEILLRLDGDNPV  521 (694)
Q Consensus       504 ~a~~~~~~~~~~~p~~~~  521 (694)
                      +|...++++.+.-|+.+.
T Consensus       233 ~A~atl~qv~k~YP~t~a  250 (262)
T COG1729         233 EACATLQQVIKRYPGTDA  250 (262)
T ss_pred             HHHHHHHHHHHHCCCCHH
Confidence            777777777777776543

>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=93.23  E-value=3.4  Score=36.23  Aligned_cols=91  Identities=18%  Similarity=0.145  Sum_probs=60.1

Q ss_pred             HHHHHccCcHHHHHHHHHHHhhccCCCCChh-HHHHHHHHHHhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCh
Q 005481          425 LSACSHSGLVEESQEYFSRLCNDKRMKPRIE-HYSCIVDSLGRAGRLDEAKNLIESM-PVKPSIAIWQTLLSACRVHGDL  502 (694)
Q Consensus       425 l~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~a~~~~g~~  502 (694)
                      ++.-...++.+++..+++.+.-   +.|... .-..-...+.+.|++.+|+.+|+++ .-.|....-..|+..|.....-
T Consensus        17 ~~~al~~~~~~D~e~lL~ALrv---LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D   93 (160)
T PF09613_consen   17 LSVALRLGDPDDAEALLDALRV---LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGD   93 (160)
T ss_pred             HHHHHccCChHHHHHHHHHHHH---hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCC
Confidence            3344566788888888888865   566533 3333455677888999999999888 3345555566777777666555


Q ss_pred             HHHHHHHHHHHcCCCC
Q 005481          503 ELGREVGEILLRLDGD  518 (694)
Q Consensus       503 ~~a~~~~~~~~~~~p~  518 (694)
                      ..=....+++++..|+
T Consensus        94 ~~Wr~~A~evle~~~d  109 (160)
T PF09613_consen   94 PSWRRYADEVLESGAD  109 (160)
T ss_pred             hHHHHHHHHHHhcCCC
Confidence            5555666677776664

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=93.19  E-value=0.65  Score=45.73  Aligned_cols=46  Identities=13%  Similarity=0.159  Sum_probs=22.7

Q ss_pred             HHhCCCHHHHHHHHHHHHhcC--CccCccchHHHHHHHhhhccHHHHH
Q 005481          292 YAQEENLAEAMELFRQLRERS--LQVDGFVLSSMMGVFADFALVEQGK  337 (694)
Q Consensus       292 ~~~~g~~~~A~~~~~~m~~~g--~~pd~~t~~~ll~~~~~~~~~~~a~  337 (694)
                      +.+..+.++|+..+.+-+.+-  ...--.++..+..+.+..|.++++.
T Consensus        16 Ly~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL   63 (518)
T KOG1941|consen   16 LYQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEML   63 (518)
T ss_pred             HhcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHH
Confidence            445667777777776655421  1111233444444444555444443

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=93.03  E-value=3.5  Score=37.84  Aligned_cols=160  Identities=18%  Similarity=0.106  Sum_probs=94.4

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHH
Q 005481          383 VVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDG-VAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIV  461 (694)
Q Consensus       383 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li  461 (694)
                      ...||-+.--+...|+++.|.+.|+...+  +.|.. .++..-.-++--.|++.-|.+-|...-+...-.|-...|--++
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~E--LDp~y~Ya~lNRgi~~YY~gR~~LAq~d~~~fYQ~D~~DPfR~LWLYl~  176 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLE--LDPTYNYAHLNRGIALYYGGRYKLAQDDLLAFYQDDPNDPFRSLWLYLN  176 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhc--cCCcchHHHhccceeeeecCchHhhHHHHHHHHhcCCCChHHHHHHHHH
Confidence            45677777777888899999998888877  34433 2333333344556888888776666544332233233332222


Q ss_pred             HHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCC-------cchHHHHHhHHHhcC
Q 005481          462 DSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDN-------PVNYVMMSNIHADAG  534 (694)
Q Consensus       462 ~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g  534 (694)
                         -+.-++.+|..-+.+--.+-|..-|+..+-.+.--.-.+  +.+++++.+-..++       .++|.-|+.-|...|
T Consensus       177 ---E~k~dP~~A~tnL~qR~~~~d~e~WG~~iV~~yLgkiS~--e~l~~~~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~G  251 (297)
T COG4785         177 ---EQKLDPKQAKTNLKQRAEKSDKEQWGWNIVEFYLGKISE--ETLMERLKADATDNTSLAEHLTETYFYLGKYYLSLG  251 (297)
T ss_pred             ---HhhCCHHHHHHHHHHHHHhccHhhhhHHHHHHHHhhccH--HHHHHHHHhhccchHHHHHHHHHHHHHHHHHHhccc
Confidence               233456666654433222345566766655443221111  22333333322222       468889999999999


Q ss_pred             CchHHHHHHHHHHhC
Q 005481          535 SWNECERLRKLARSK  549 (694)
Q Consensus       535 ~~~~a~~~~~~m~~~  549 (694)
                      ..++|..+++.....
T Consensus       252 ~~~~A~~LfKLaian  266 (297)
T COG4785         252 DLDEATALFKLAVAN  266 (297)
T ss_pred             cHHHHHHHHHHHHHH
Confidence            999999999988754

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=93.02  E-value=3.1  Score=35.79  Aligned_cols=113  Identities=16%  Similarity=0.078  Sum_probs=53.5

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcC
Q 005481          391 TGYGKHGLAKEAVGLFRKMLLDDVEP--DGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAG  468 (694)
Q Consensus       391 ~~~~~~g~~~~A~~~~~~m~~~g~~p--d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g  468 (694)
                      ....+.|++++|.+.|+.+...=..+  ....-..++.++.+.+++++|...+++.++.+.-.|+ ..|...+.+++.-.
T Consensus        18 ~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~-vdYa~Y~~gL~~~~   96 (142)
T PF13512_consen   18 QEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPN-VDYAYYMRGLSYYE   96 (142)
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCC-ccHHHHHHHHHHHH
Confidence            33445566666666666665531110  1134445556666666666666666666653322232 12333333332222


Q ss_pred             ChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCC
Q 005481          469 RLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDN  519 (694)
Q Consensus       469 ~~~~A~~~~~~~~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~  519 (694)
                      ..+.+   +..+            ...=+..+....|...|+++++.-|++
T Consensus        97 ~~~~~---~~~~------------~~~drD~~~~~~A~~~f~~lv~~yP~S  132 (142)
T PF13512_consen   97 QDEGS---LQSF------------FRSDRDPTPARQAFRDFEQLVRRYPNS  132 (142)
T ss_pred             HhhhH---Hhhh------------cccccCcHHHHHHHHHHHHHHHHCcCC
Confidence            11111   1111            000112233567788888888888875

>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=92.93  E-value=1.6  Score=46.11  Aligned_cols=106  Identities=11%  Similarity=0.086  Sum_probs=67.8

Q ss_pred             HHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCCCCCcccHHHHHHHHHhcCCh
Q 005481          116 LSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYS  195 (694)
Q Consensus       116 ~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~  195 (694)
                      ...+++-+-+.|-.+.|.++-..-            ..-.+...++|+++.|.++-++..  +...|..|.....+.|+.
T Consensus       298 ~~~i~~fL~~~G~~e~AL~~~~D~------------~~rFeLAl~lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~  363 (443)
T PF04053_consen  298 GQSIARFLEKKGYPELALQFVTDP------------DHRFELALQLGNLDIALEIAKELD--DPEKWKQLGDEALRQGNI  363 (443)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHSS-H------------HHHHHHHHHCT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBH
T ss_pred             HHHHHHHHHHCCCHHHHHhhcCCh------------HHHhHHHHhcCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCH
Confidence            445555555555555555443221            122345667888888888877665  556899999988999999


Q ss_pred             hHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhC
Q 005481          196 DKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSG  244 (694)
Q Consensus       196 ~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g  244 (694)
                      +-|.+.|.+...         +..++-.|...|+.+.-.++.......|
T Consensus       364 ~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~  403 (443)
T PF04053_consen  364 ELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERG  403 (443)
T ss_dssp             HHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            988888887754         4555556666777776666666666555

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.

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=92.91  E-value=9.7  Score=37.00  Aligned_cols=115  Identities=10%  Similarity=0.015  Sum_probs=50.6

Q ss_pred             ccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHH---HHHHHHhcCChHHHH
Q 005481          430 HSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQT---LLSACRVHGDLELGR  506 (694)
Q Consensus       430 ~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~---ll~a~~~~g~~~~a~  506 (694)
                      ..|+..++...|+......  +-+...--.|...|...|+.++|..++..+|.+-...-|..   -+....+..+..+..
T Consensus       146 ~~e~~~~a~~~~~~al~~~--~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~~  223 (304)
T COG3118         146 EAEDFGEAAPLLKQALQAA--PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEIQ  223 (304)
T ss_pred             hccchhhHHHHHHHHHHhC--cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCHH
Confidence            3444444444444444311  11123334445555555555555555555543322222222   111122222222111


Q ss_pred             HHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHH
Q 005481          507 EVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLAR  547 (694)
Q Consensus       507 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  547 (694)
                       .+++-+..+|+|...-..++..|...|+.++|.+.+-.+.
T Consensus       224 -~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l  263 (304)
T COG3118         224 -DLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALL  263 (304)
T ss_pred             -HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence             2233344566666666666666666666666665544443

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=92.84  E-value=4.7  Score=39.08  Aligned_cols=185  Identities=15%  Similarity=0.105  Sum_probs=120.1

Q ss_pred             hhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHH
Q 005481          360 DMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQE  439 (694)
Q Consensus       360 ~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~  439 (694)
                      +.+.-...-+...+++++...+....--.-.......|++.+|..+|+......-. +...-..+..++...|+++.|..
T Consensus       111 dgF~G~qPesqlr~~ld~~~~~~~e~~~~~~~~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~  189 (304)
T COG3118         111 DGFQGAQPESQLRQFLDKVLPAEEEEALAEAKELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQA  189 (304)
T ss_pred             cccCCCCcHHHHHHHHHHhcChHHHHHHHHhhhhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHH
Confidence            34443444456667777776653333334455677899999999999999885322 23566678889999999999999


Q ss_pred             HHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCC-
Q 005481          440 YFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKP-SIAIWQTLLSACRVHGDLELGREVGEILLRLDG-  517 (694)
Q Consensus       440 ~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p-  517 (694)
                      ++..+-.+.. .........-+..+.+.....+..++-.+..-.| |...-..|...+...|+.+.|...+=.+++.+- 
T Consensus       190 iL~~lP~~~~-~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~  268 (304)
T COG3118         190 ILAALPLQAQ-DKAAHGLQAQIELLEQAAATPEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRG  268 (304)
T ss_pred             HHHhCcccch-hhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccc
Confidence            9998754211 1111112334566777776666666666664456 556666777788889999999887777776543 


Q ss_pred             -CCcchHHHHHhHHHhcCCchH-HHHHHHHH
Q 005481          518 -DNPVNYVMMSNIHADAGSWNE-CERLRKLA  546 (694)
Q Consensus       518 -~~~~~~~~l~~~~~~~g~~~~-a~~~~~~m  546 (694)
                       .|...-..|..++...|.-+. +.+.++++
T Consensus       269 ~~d~~~Rk~lle~f~~~g~~Dp~~~~~RRkL  299 (304)
T COG3118         269 FEDGEARKTLLELFEAFGPADPLVLAYRRKL  299 (304)
T ss_pred             ccCcHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence             455666677777766664443 33344433

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=92.61  E-value=16  Score=40.79  Aligned_cols=67  Identities=15%  Similarity=0.099  Sum_probs=41.8

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCC-------hHHHHHHHHHHHHhCCCCChh
Q 005481           82 TALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSS-------VENGMQIHGMCMKSGFEWNPV  149 (694)
Q Consensus        82 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~-------~~~a~~~~~~~~~~g~~~~~~  149 (694)
                      =.+|--+.|.|++++|.++..+.... .......|...+..+....+       -+....-+.+.++.....|++
T Consensus       115 Wa~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s~~~~l~~~~~~~l~~ey~~~~r~~~~~Dpy  188 (613)
T PF04097_consen  115 WALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASSPDRRLPPELRDKLKLEYNQRIRNSTDGDPY  188 (613)
T ss_dssp             HHHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTTTSS---TCCCHHHHHHHHHHTTT-TTS-HH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhcCCCCCChH
Confidence            36777888999999999999666543 55566778888988876532       223444455555544333543

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.

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=92.45  E-value=0.47  Score=42.63  Aligned_cols=89  Identities=12%  Similarity=0.052  Sum_probs=67.9

Q ss_pred             HHHHhcCChHHHHHHHHhC----CCCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcC
Q 005481          462 DSLGRAGRLDEAKNLIESM----PVKP---SIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAG  534 (694)
Q Consensus       462 ~~~~~~g~~~~A~~~~~~~----~~~p---~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  534 (694)
                      +-+.+.|++++|..-|..+    |--|   ..+.|..-..+..+.+..+.|+....++++++|....+...-+.+|.+..
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~e  182 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKME  182 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhh
Confidence            3455677777777766654    1111   23345555567788899999999999999999988888888899999999


Q ss_pred             CchHHHHHHHHHHhCC
Q 005481          535 SWNECERLRKLARSKG  550 (694)
Q Consensus       535 ~~~~a~~~~~~m~~~g  550 (694)
                      ++++|.+-++.+.+..
T Consensus       183 k~eealeDyKki~E~d  198 (271)
T KOG4234|consen  183 KYEEALEDYKKILESD  198 (271)
T ss_pred             hHHHHHHHHHHHHHhC
Confidence            9999999999988753

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=92.45  E-value=0.69  Score=43.95  Aligned_cols=99  Identities=8%  Similarity=0.042  Sum_probs=72.5

Q ss_pred             HHHHHHhccC--CCCcccHHHHHHHHHhC-----CChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccC----------
Q 005481           65 GACAVFDKML--ERNVVSWTALMCGFLQN-----GNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLS----------  127 (694)
Q Consensus        65 ~A~~~f~~~~--~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~----------  127 (694)
                      ..+..|...+  ++|-.+|-+++..+...     +..+=....++.|.+.|+.-|..+|..||+.+-+..          
T Consensus        52 ~~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~  131 (406)
T KOG3941|consen   52 HVEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKV  131 (406)
T ss_pred             chhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHH
Confidence            3456677776  67888888888877643     455666667788999999999999999988765432          


Q ss_pred             ------ChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCC
Q 005481          128 ------SVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGR  163 (694)
Q Consensus       128 ------~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~  163 (694)
                            +-+-+..++++|...|+.||..+-..|++++++.+.
T Consensus       132 F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  132 FLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                  233466778888888888888888888887777665

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=92.16  E-value=1.1  Score=37.31  Aligned_cols=88  Identities=18%  Similarity=0.203  Sum_probs=50.6

Q ss_pred             HHHccCcHHHHHHHHHHHhhccCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhC-CCC-C-CHH---HHHHHHHHHHhc
Q 005481          427 ACSHSGLVEESQEYFSRLCNDKRMKP-RIEHYSCIVDSLGRAGRLDEAKNLIESM-PVK-P-SIA---IWQTLLSACRVH  499 (694)
Q Consensus       427 a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p-~~~---~~~~ll~a~~~~  499 (694)
                      +.+..|+++.|++.|.+...   +-| +...||.-..+|--+|+.++|++-+++. ... | ...   .|-.-...|+..
T Consensus        52 alaE~g~Ld~AlE~F~qal~---l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALC---LAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHhccchHHHHHHHHHHHH---hcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHh
Confidence            34556666666666666654   333 3556666666666677777666666654 111 1 111   122223346777


Q ss_pred             CChHHHHHHHHHHHcCCC
Q 005481          500 GDLELGREVGEILLRLDG  517 (694)
Q Consensus       500 g~~~~a~~~~~~~~~~~p  517 (694)
                      |+.+.|..-|+.+-++..
T Consensus       129 g~dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLGS  146 (175)
T ss_pred             CchHHHHHhHHHHHHhCC
Confidence            888877777776666554

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=92.11  E-value=2.4  Score=44.01  Aligned_cols=98  Identities=13%  Similarity=0.167  Sum_probs=57.1

Q ss_pred             HHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-C-CCCH--HHHHHHHHHHHh
Q 005481          423 AVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMP-V-KPSI--AIWQTLLSACRV  498 (694)
Q Consensus       423 ~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~-~p~~--~~~~~ll~a~~~  498 (694)
                      .+..++.+.|+.++|.+.|+.|.+++...-+......|+..|...+.+.++..++.+.. + -|..  ..|+..+-..+.
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaRa  343 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKARA  343 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHHh
Confidence            34445566677777777777776644322234455667777777777777777776652 1 1332  234444433333


Q ss_pred             cCC---------------hHHHHHHHHHHHcCCCCCc
Q 005481          499 HGD---------------LELGREVGEILLRLDGDNP  520 (694)
Q Consensus       499 ~g~---------------~~~a~~~~~~~~~~~p~~~  520 (694)
                      .++               -..|.++..++++.+|.-|
T Consensus       344 v~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHVp  380 (539)
T PF04184_consen  344 VGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHVP  380 (539)
T ss_pred             hccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCCc
Confidence            332               1235678888888888754

The molecular function of this protein is uncertain.

>PRK15331 chaperone protein SicA; Provisional

Probab=92.02  E-value=4.7  Score=35.60  Aligned_cols=86  Identities=10%  Similarity=0.090  Sum_probs=41.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChH
Q 005481          392 GYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLD  471 (694)
Q Consensus       392 ~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~  471 (694)
                      -+-+.|++++|..+|+-+...+. -|..-+..|..+|-..+.+++|...|.....-..  -|...+--+...|...|+.+
T Consensus        46 ~~y~~Gk~~eA~~~F~~L~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~--~dp~p~f~agqC~l~l~~~~  122 (165)
T PRK15331         46 EFYNQGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK--NDYRPVFFTGQCQLLMRKAA  122 (165)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc--CCCCccchHHHHHHHhCCHH
Confidence            34455666666666666555321 1222334444444555666666666655543111  11122223445555555666


Q ss_pred             HHHHHHHhC
Q 005481          472 EAKNLIESM  480 (694)
Q Consensus       472 ~A~~~~~~~  480 (694)
                      +|++.|+..
T Consensus       123 ~A~~~f~~a  131 (165)
T PRK15331        123 KARQCFELV  131 (165)
T ss_pred             HHHHHHHHH
Confidence            665555544

>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=91.82  E-value=14  Score=36.44  Aligned_cols=19  Identities=16%  Similarity=-0.010  Sum_probs=14.4

Q ss_pred             HHHhcCChHHHHHHHHHHH
Q 005481          495 ACRVHGDLELGREVGEILL  513 (694)
Q Consensus       495 a~~~~g~~~~a~~~~~~~~  513 (694)
                      .+.+.+++++|...|+-.+
T Consensus       255 ~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  255 KHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHhhcCHHHHHHHHHHHH
Confidence            4567788999988888654

It is also involved in sporulation [].

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=91.75  E-value=1.9  Score=46.17  Aligned_cols=143  Identities=23%  Similarity=0.304  Sum_probs=102.0

Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChh-----HHHHHHHHH-H---hcCChHHH
Q 005481          403 VGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIE-----HYSCIVDSL-G---RAGRLDEA  473 (694)
Q Consensus       403 ~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~-----~~~~li~~~-~---~~g~~~~A  473 (694)
                      ..+|+-++.. ++|   .+..+++...-.|+-+.|.+.+....+..++.-...     .|...+..+ .   .....++|
T Consensus       177 ~G~f~L~lSl-LPp---~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a  252 (468)
T PF10300_consen  177 FGLFNLVLSL-LPP---KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEA  252 (468)
T ss_pred             HHHHHHHHHh-CCH---HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHH
Confidence            3455555542 334   345666777778999999999998877555544322     233333322 2   35678899


Q ss_pred             HHHHHhC-CCCCCHHHHHHHHH-HHHhcCChHHHHHHHHHHHcCCCC----CcchHHHHHhHHHhcCCchHHHHHHHHHH
Q 005481          474 KNLIESM-PVKPSIAIWQTLLS-ACRVHGDLELGREVGEILLRLDGD----NPVNYVMMSNIHADAGSWNECERLRKLAR  547 (694)
Q Consensus       474 ~~~~~~~-~~~p~~~~~~~ll~-a~~~~g~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  547 (694)
                      .++++.+ ..-|+...|.-.-+ .++..|+.++|++.++++......    ..-.+..+++.+.-.++|++|.+.+..+.
T Consensus       253 ~~lL~~~~~~yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~  332 (468)
T PF10300_consen  253 EELLEEMLKRYPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLL  332 (468)
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHH
Confidence            9999998 45688888866654 578899999999999988753321    23567788999999999999999999998


Q ss_pred             hC
Q 005481          548 SK  549 (694)
Q Consensus       548 ~~  549 (694)
                      +.
T Consensus       333 ~~  334 (468)
T PF10300_consen  333 KE  334 (468)
T ss_pred             hc
Confidence            64

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.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=91.60  E-value=8.2  Score=38.38  Aligned_cols=162  Identities=9%  Similarity=0.048  Sum_probs=83.8

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHh-cCCccCc---cchHHHHHHHhhhccHHHHHHHHHHHHhcC-----CCCCch
Q 005481          283 ISWSSLILGYAQEENLAEAMELFRQLRE-RSLQVDG---FVLSSMMGVFADFALVEQGKQIHAYAAKVP-----SGLDTS  353 (694)
Q Consensus       283 ~~~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~pd~---~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~-----~~~~~~  353 (694)
                      .+|-.+..++-+.-++.+++.+-+.-.. .|..|..   ....++-.+....+.++++.+.|+.+.+.-     ......
T Consensus        84 ea~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElq  163 (518)
T KOG1941|consen   84 EAYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQ  163 (518)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeee
Confidence            3455555565555556666655544332 2333311   222334456666677777777777665431     122345


Q ss_pred             HHHHHhhhhhhcCCHHHHHHHHccCC-------CCChh------hHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCCC
Q 005481          354 VSNSIVDMYLKCGLIDEATELFNEMP-------VKNVV------TWTVIITGYGKHGLAKEAVGLFRKMLL----DDVEP  416 (694)
Q Consensus       354 ~~~~li~~y~~~g~~~~A~~~~~~~~-------~~~~~------~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p  416 (694)
                      ++.+|...|.+..++++|.-...+..       -.|..      +...|..++-..|...+|.+..++..+    .|-+|
T Consensus       164 vcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra  243 (518)
T KOG1941|consen  164 VCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRA  243 (518)
T ss_pred             hhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChH
Confidence            67777778888777777654433321       12221      122344455556666666555555432    33222


Q ss_pred             CH-HHHHHHHHHHHccCcHHHHHHHHHHH
Q 005481          417 DG-VAYLAVLSACSHSGLVEESQEYFSRL  444 (694)
Q Consensus       417 d~-~t~~~ll~a~~~~g~~~~a~~~~~~m  444 (694)
                      -. .....+.+.|...|+.+.|+.-|+.+
T Consensus       244 ~~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  244 LQARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence            22 23444555566666666665555544

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=91.53  E-value=13  Score=35.41  Aligned_cols=141  Identities=12%  Similarity=0.074  Sum_probs=77.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CC-CHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHH
Q 005481          385 TWTVIITGYGKHGLAKEAVGLFRKMLLDDV-EP-DGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVD  462 (694)
Q Consensus       385 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  462 (694)
                      .|-.-+..-.+.|++++|.+.|+.+..+-. .| ...+...++-++-+.+++++|....++..+.++-.||+. |...+.
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            344444445566777777777777775421 11 124555566666677777777777777776565555542 222233


Q ss_pred             HHHhcCChHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCC-----------------cchHH
Q 005481          463 SLGRAGRLDEAKNLIESMP-VKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDN-----------------PVNYV  524 (694)
Q Consensus       463 ~~~~~g~~~~A~~~~~~~~-~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~-----------------~~~~~  524 (694)
                      ++.          .|...+ ...|             ..-...|...++.+++.-|++                 ...=.
T Consensus       115 gLs----------~~~~i~~~~rD-------------q~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em  171 (254)
T COG4105         115 GLS----------YFFQIDDVTRD-------------QSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEM  171 (254)
T ss_pred             HHH----------HhccCCccccC-------------HHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHH
Confidence            332          111110 0001             111233444445555555543                 12233


Q ss_pred             HHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          525 MMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       525 ~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      .+++-|.+.|.|.-|..-++.|.+.
T Consensus       172 ~IaryY~kr~~~~AA~nR~~~v~e~  196 (254)
T COG4105         172 AIARYYLKRGAYVAAINRFEEVLEN  196 (254)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHhc
Confidence            5678899999999999999998865

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=91.51  E-value=18  Score=37.03  Aligned_cols=148  Identities=10%  Similarity=0.007  Sum_probs=76.7

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCC--hh
Q 005481          381 KNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEP---DGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR--IE  455 (694)
Q Consensus       381 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~--~~  455 (694)
                      ....+|..++..+.+.|+++.|...+.++...+..+   +......-....-..|+-.+|...++...+.. +..+  ..
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~-~~~~~~~~  222 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCR-LSKNIDSI  222 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHH-hhhccccc
Confidence            445578888888888888888888888877643211   22233333444556677788888777776511 1111  11


Q ss_pred             HHHHHHHHHHhcCChHHHHHH-HHhCCCCCCHHHHHHHHHHHHh------cCChHHHHHHHHHHHcCCCCCcchHHHHHh
Q 005481          456 HYSCIVDSLGRAGRLDEAKNL-IESMPVKPSIAIWQTLLSACRV------HGDLELGREVGEILLRLDGDNPVNYVMMSN  528 (694)
Q Consensus       456 ~~~~li~~~~~~g~~~~A~~~-~~~~~~~p~~~~~~~ll~a~~~------~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  528 (694)
                      ....+...+..  ..+..... ......+.-...+..+..-+..      .++.+.+...|+++.++.|.....|..++.
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 0000000001122222232333      378889999999999999987777777666


Q ss_pred             HHH
Q 005481          529 IHA  531 (694)
Q Consensus       529 ~~~  531 (694)
                      .+.
T Consensus       301 ~~~  303 (352)
T PF02259_consen  301 FND  303 (352)
T ss_pred             HHH
Confidence            554

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>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=91.42  E-value=0.28  Score=30.24  Aligned_cols=31  Identities=29%  Similarity=0.208  Sum_probs=24.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHcCCCC
Q 005481          488 IWQTLLSACRVHGDLELGREVGEILLRLDGD  518 (694)
Q Consensus       488 ~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~  518 (694)
                      +|..+...+...|++++|...+++.++++|+
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            5667777788888888888888888888774

...

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.21  E-value=29  Score=38.78  Aligned_cols=150  Identities=12%  Similarity=0.137  Sum_probs=91.7

Q ss_pred             ChhHHHHHHHHhh----cCCChHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhccCCC---CcccHHH
Q 005481           11 ERQRLADSLRCCS----KNLLLDYGVQLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKMLER---NVVSWTA   83 (694)
Q Consensus        11 ~~~~~~~ll~~~~----~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~---~~~~~~~   83 (694)
                      +..+...+.+.|+    +.|+++.|.+-+-+-+  |..-.    ..+|.-|....++..--..++.+.+.   +..--+.
T Consensus       363 d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI--~~le~----s~Vi~kfLdaq~IknLt~YLe~L~~~gla~~dhttl  436 (933)
T KOG2114|consen  363 DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETI--GFLEP----SEVIKKFLDAQRIKNLTSYLEALHKKGLANSDHTTL  436 (933)
T ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHc--ccCCh----HHHHHHhcCHHHHHHHHHHHHHHHHcccccchhHHH
Confidence            4445555555544    6789988887665444  32222    23445555555555555556665443   3344677


Q ss_pred             HHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCC
Q 005481           84 LMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGR  163 (694)
Q Consensus        84 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~  163 (694)
                      |+.+|.+.++.++-.++.+.-. .|..  .+-....+..|.+.+-+++|..+-.....     ...+...+   +-..++
T Consensus       437 LLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~~~-----he~vl~il---le~~~n  505 (933)
T KOG2114|consen  437 LLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAELLATKFKK-----HEWVLDIL---LEDLHN  505 (933)
T ss_pred             HHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHHHHHhcc-----CHHHHHHH---HHHhcC
Confidence            8999999999988777766554 3322  22356677777777777777655443322     33444444   445688


Q ss_pred             hHHHHHHHccCCCC
Q 005481          164 INEAARMFDVMPAK  177 (694)
Q Consensus       164 ~~~A~~~f~~~~~~  177 (694)
                      +++|.+.+..++-+
T Consensus       506 y~eAl~yi~slp~~  519 (933)
T KOG2114|consen  506 YEEALRYISSLPIS  519 (933)
T ss_pred             HHHHHHHHhcCCHH
Confidence            99999999999854

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.15  E-value=29  Score=38.73  Aligned_cols=155  Identities=10%  Similarity=-0.011  Sum_probs=89.5

Q ss_pred             HHHHHHHHhhcCCChHHHHHHHHHH----HHhCC------------CCChhhHHHHHHHHHhcCChHHHHHHHhccCCCC
Q 005481           14 RLADSLRCCSKNLLLDYGVQLHGAL----VKMGF------------SFDLMLNNDLIDMYAKCGEMNGACAVFDKMLERN   77 (694)
Q Consensus        14 ~~~~ll~~~~~~~~~~~a~~~~~~~----~~~g~------------~~~~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~   77 (694)
                      ..++++.++...+.+-.-.-++..+    ...+.            .........-+++..+...++-|..+-..-..+.
T Consensus       285 s~~~i~~~~d~~n~~v~ys~vl~~l~d~l~~w~~~~~vltsdg~~~~L~ek~le~kL~iL~kK~ly~~Ai~LAk~~~~d~  364 (933)
T KOG2114|consen  285 SSNRIFKAYDLRNRYVLYSSVLEDLSDNLIEWSFDCLVLTSDGVVHELIEKDLETKLDILFKKNLYKVAINLAKSQHLDE  364 (933)
T ss_pred             chhheeehhhhcCcccchHHhHHHHHHHHHhcCCcEEEEecCCceeeeeeccHHHHHHHHHHhhhHHHHHHHHHhcCCCH
Confidence            3567777777666544433333332    22230            0112234455677777777777777765543221


Q ss_pred             ccc---HHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHH
Q 005481           78 VVS---WTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSI  154 (694)
Q Consensus        78 ~~~---~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  154 (694)
                      ...   .-...+-+.+.|++++|..-|-+-... +.|     ..+++-+.....+..-..+++.+.+.|+.. ...-+.|
T Consensus       365 d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLdaq~IknLt~YLe~L~~~gla~-~dhttlL  437 (933)
T KOG2114|consen  365 DTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDAQRIKNLTSYLEALHKKGLAN-SDHTTLL  437 (933)
T ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCHHHHHHHHHHHHHHHHccccc-chhHHHH
Confidence            111   222233455778888888877665432 233     345555555556666666777777777643 3344667


Q ss_pred             HHHHHhcCChHHHHHHHccCC
Q 005481          155 IDMYSKCGRINEAARMFDVMP  175 (694)
Q Consensus       155 l~~y~~~g~~~~A~~~f~~~~  175 (694)
                      +..|.|.++.+.-.++.+...
T Consensus       438 LncYiKlkd~~kL~efI~~~~  458 (933)
T KOG2114|consen  438 LNCYIKLKDVEKLTEFISKCD  458 (933)
T ss_pred             HHHHHHhcchHHHHHHHhcCC
Confidence            888888888888777776655

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=90.96  E-value=11  Score=37.51  Aligned_cols=134  Identities=12%  Similarity=0.192  Sum_probs=72.6

Q ss_pred             HHHHHHHHHHHHhcCCccCccchHHHHHHHhh--h----ccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhcCCHHHH
Q 005481          298 LAEAMELFRQLRERSLQVDGFVLSSMMGVFAD--F----ALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEA  371 (694)
Q Consensus       298 ~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~--~----~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A  371 (694)
                      +++.+.+++.|.+.|++-+..+|.+.......  .    .....+..+|..|.+..+-.+                    
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLT--------------------  137 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLT--------------------  137 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCcccc--------------------
Confidence            34556777888888888887777654433322  1    224455556666555432110                    


Q ss_pred             HHHHccCCCCChhhHHHHHHHHHhcCC----HHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHHccCc--HHHHHHHHHH
Q 005481          372 TELFNEMPVKNVVTWTVIITGYGKHGL----AKEAVGLFRKMLLDDVEPDGV--AYLAVLSACSHSGL--VEESQEYFSR  443 (694)
Q Consensus       372 ~~~~~~~~~~~~~~~~~li~~~~~~g~----~~~A~~~~~~m~~~g~~pd~~--t~~~ll~a~~~~g~--~~~a~~~~~~  443 (694)
                              .++-.++..|+..  ..++    .+.+..+|+.+...|+..+..  ....+|..+.....  +..+.++++.
T Consensus       138 --------s~~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~  207 (297)
T PF13170_consen  138 --------SPEDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNA  207 (297)
T ss_pred             --------CccchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHH
Confidence                    1122223333222  1111    356677788888877766542  33334433322222  4577788888


Q ss_pred             HhhccCCCCChhHHHHHHH
Q 005481          444 LCNDKRMKPRIEHYSCIVD  462 (694)
Q Consensus       444 m~~~~~~~p~~~~~~~li~  462 (694)
                      +.+ .|+++...+|..+.-
T Consensus       208 l~~-~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  208 LKK-NGVKIKYMHYPTLGL  225 (297)
T ss_pred             HHH-cCCccccccccHHHH
Confidence            877 678888777765543

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=90.82  E-value=15  Score=34.95  Aligned_cols=176  Identities=15%  Similarity=0.097  Sum_probs=106.3

Q ss_pred             chHHHHHhhhhhhcCCHHHHHHHHccCCCC------ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHH
Q 005481          352 TSVSNSIVDMYLKCGLIDEATELFNEMPVK------NVVTWTVIITGYGKHGLAKEAVGLFRKMLLDD-VEPDGVAYLAV  424 (694)
Q Consensus       352 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~pd~~t~~~l  424 (694)
                      ...|+.-+ .-.+.|++++|.+.|+.+...      ...+--.++-++-+.+++++|+..+++....- -.|| .-|...
T Consensus        35 ~~LY~~g~-~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n-~dY~~Y  112 (254)
T COG4105          35 SELYNEGL-TELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPN-ADYAYY  112 (254)
T ss_pred             HHHHHHHH-HHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCC-hhHHHH
Confidence            34444433 345689999999999998732      22344456667888999999999999988743 2333 334444


Q ss_pred             HHHHHc---c----CcHH---HHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHH--HHHH
Q 005481          425 LSACSH---S----GLVE---ESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAI--WQTL  492 (694)
Q Consensus       425 l~a~~~---~----g~~~---~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~--~~~l  492 (694)
                      |.+.+.   .    .+..   +|..-|+..+.++   ||.             .--.+|..-+....   |...  =..+
T Consensus       113 lkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ry---PnS-------------~Ya~dA~~~i~~~~---d~LA~~Em~I  173 (254)
T COG4105         113 LKGLSYFFQIDDVTRDQSAARAAFAAFKELVQRY---PNS-------------RYAPDAKARIVKLN---DALAGHEMAI  173 (254)
T ss_pred             HHHHHHhccCCccccCHHHHHHHHHHHHHHHHHC---CCC-------------cchhhHHHHHHHHH---HHHHHHHHHH
Confidence            444432   1    2222   3333333333322   331             11112222211110   1111  1234


Q ss_pred             HHHHHhcCChHHHHHHHHHHHcCCCCCc---chHHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          493 LSACRVHGDLELGREVGEILLRLDGDNP---VNYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       493 l~a~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      ..-|.+.|.+.-|..-++.+++.-|+.+   .++..|..+|...|..++|.+..+-+..
T Consensus       174 aryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         174 ARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            4568889999999999999998766544   4566778899999999999988887654

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=90.67  E-value=0.43  Score=46.50  Aligned_cols=114  Identities=15%  Similarity=0.073  Sum_probs=82.7

Q ss_pred             HHHHHHccCcHHHHHHHHHHHhhccCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcC
Q 005481          424 VLSACSHSGLVEESQEYFSRLCNDKRMKP-RIEHYSCIVDSLGRAGRLDEAKNLIESM-PVK-PSIAIWQTLLSACRVHG  500 (694)
Q Consensus       424 ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~ll~a~~~~g  500 (694)
                      -.+-|.++|.+++|+..|.....   +.| +...+..-..+|.+..++..|+.-.+.+ .+. --.-.|.--+.+-...|
T Consensus       103 ~GN~yFKQgKy~EAIDCYs~~ia---~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg  179 (536)
T KOG4648|consen  103 RGNTYFKQGKYEEAIDCYSTAIA---VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLG  179 (536)
T ss_pred             hhhhhhhccchhHHHHHhhhhhc---cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHh
Confidence            46678899999999999998876   566 7888888889999999998887665554 211 11223444455555668


Q ss_pred             ChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHH
Q 005481          501 DLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRK  544 (694)
Q Consensus       501 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  544 (694)
                      +.++|.+-++..++++|.+.    .|-..|++.....|+.-+.+
T Consensus       180 ~~~EAKkD~E~vL~LEP~~~----ELkK~~a~i~Sl~E~~I~~K  219 (536)
T KOG4648|consen  180 NNMEAKKDCETVLALEPKNI----ELKKSLARINSLRERKIATK  219 (536)
T ss_pred             hHHHHHHhHHHHHhhCcccH----HHHHHHHHhcchHhhhHHhh
Confidence            99999999999999999853    45566666666666654443

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=90.63  E-value=40  Score=39.37  Aligned_cols=168  Identities=15%  Similarity=0.128  Sum_probs=84.3

Q ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcCCccCc--cchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCchHHHHHhhhhhhc
Q 005481          288 LILGYAQEENLAEAMELFRQLRERSLQVDG--FVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKC  365 (694)
Q Consensus       288 li~~~~~~g~~~~A~~~~~~m~~~g~~pd~--~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~li~~y~~~  365 (694)
                      ++-+-..+.|+.+-+-++++++..  .++.  +....      .+++++.|..-+..   .|    ...+.-.++.--+.
T Consensus       857 l~VAq~SqkDPkEyLP~L~el~~m--~~~~rkF~ID~------~L~ry~~AL~hLs~---~~----~~~~~e~~n~I~kh  921 (1265)
T KOG1920|consen  857 LLVAQKSQKDPKEYLPFLNELKKM--ETLLRKFKIDD------YLKRYEDALSHLSE---CG----ETYFPECKNYIKKH  921 (1265)
T ss_pred             HHHHHHhccChHHHHHHHHHHhhc--hhhhhheeHHH------HHHHHHHHHHHHHH---cC----ccccHHHHHHHHhc
Confidence            344445567777777777777632  1111  11111      12333333322222   12    22333334444455


Q ss_pred             CCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHh
Q 005481          366 GLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLC  445 (694)
Q Consensus       366 g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~  445 (694)
                      |.+.+|..++..=.+.-...|.+-..-+...+.+++|.-.|+..-+         ..-.+.+|..+|++.+|..+..++.
T Consensus       922 ~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~  992 (1265)
T KOG1920|consen  922 GLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLS  992 (1265)
T ss_pred             ccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhc
Confidence            6666666655433333333444444444555666666666654322         1234556667777777777776663


Q ss_pred             hccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC
Q 005481          446 NDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMP  481 (694)
Q Consensus       446 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  481 (694)
                      .  +-.--..+-..|+.-+..+++.-||-++..+..
T Consensus       993 ~--~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~ 1026 (1265)
T KOG1920|consen  993 E--GKDELVILAEELVSRLVEQRKHYEAAKILLEYL 1026 (1265)
T ss_pred             C--CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHh
Confidence            3  101112223566677777777777777776663

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=90.51  E-value=0.37  Score=30.31  Aligned_cols=25  Identities=32%  Similarity=0.227  Sum_probs=14.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHH
Q 005481          489 WQTLLSACRVHGDLELGREVGEILL  513 (694)
Q Consensus       489 ~~~ll~a~~~~g~~~~a~~~~~~~~  513 (694)
                      |..|...|...|++++|+.++++++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4555556666666666666666644

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=90.46  E-value=6.8  Score=32.96  Aligned_cols=84  Identities=17%  Similarity=0.253  Sum_probs=48.0

Q ss_pred             hcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCcHHHHHHHHHH
Q 005481          364 KCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSR  443 (694)
Q Consensus       364 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~  443 (694)
                      .||++......+-.+. .+......-+..+...|+-+.-.+++.++.+ +-+|++.....+..||.+.|+..++.+++.+
T Consensus        68 ~C~NlKrVi~C~~~~n-~~se~vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~  145 (161)
T PF09205_consen   68 KCGNLKRVIECYAKRN-KLSEYVDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKE  145 (161)
T ss_dssp             G-S-THHHHHHHHHTT----HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             hhcchHHHHHHHHHhc-chHHHHHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHH
Confidence            4455554444444332 2223344456677778888887888877765 3467777777888888888888888888888


Q ss_pred             HhhccCC
Q 005481          444 LCNDKRM  450 (694)
Q Consensus       444 m~~~~~~  450 (694)
                      +.+ .|+
T Consensus       146 ACe-kG~  151 (161)
T PF09205_consen  146 ACE-KGL  151 (161)
T ss_dssp             HHH-TT-
T ss_pred             HHH-hch
Confidence            876 444

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.40  E-value=7.7  Score=38.13  Aligned_cols=153  Identities=16%  Similarity=0.146  Sum_probs=106.7

Q ss_pred             hcCCHHHHHHHHccCC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH--HH--HHHccCcHHH
Q 005481          364 KCGLIDEATELFNEMP---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAV--LS--ACSHSGLVEE  436 (694)
Q Consensus       364 ~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~l--l~--a~~~~g~~~~  436 (694)
                      ..|+..+|-..++++.   ..|..+|+--=.+|..+|+...-...+++.... ..||...|.-+  +-  ++...|-+++
T Consensus       115 ~~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            4577777777777776   358889998889999999999999999988764 34555333222  22  3457899999


Q ss_pred             HHHHHHHHhhccCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCCCCC-C------HHHHHHHHHHHHhcCChHHHHHH
Q 005481          437 SQEYFSRLCNDKRMKP-RIEHYSCIVDSLGRAGRLDEAKNLIESMPVKP-S------IAIWQTLLSACRVHGDLELGREV  508 (694)
Q Consensus       437 a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p-~------~~~~~~ll~a~~~~g~~~~a~~~  508 (694)
                      |.+.-++..+   +.| |.-.-.+....+-..|++.|+.++..+-...= +      ..-|..-+ .+...+.++.|+++
T Consensus       194 AEk~A~ralq---iN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al-~~iE~aeye~aleI  269 (491)
T KOG2610|consen  194 AEKQADRALQ---INRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTAL-FHIEGAEYEKALEI  269 (491)
T ss_pred             HHHHHHhhcc---CCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHH-hhhcccchhHHHHH
Confidence            9999888876   555 34455677888899999999999998863110 1      11233222 23345889999999


Q ss_pred             HHHHH--cCCCCCcc
Q 005481          509 GEILL--RLDGDNPV  521 (694)
Q Consensus       509 ~~~~~--~~~p~~~~  521 (694)
                      |.+-+  +++.+|..
T Consensus       270 yD~ei~k~l~k~Da~  284 (491)
T KOG2610|consen  270 YDREIWKRLEKDDAV  284 (491)
T ss_pred             HHHHHHHHhhccchh
Confidence            98644  56666653

>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=90.05  E-value=64  Score=40.84  Aligned_cols=64  Identities=13%  Similarity=0.026  Sum_probs=56.5

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhCCC
Q 005481          486 IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGL  551 (694)
Q Consensus       486 ~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  551 (694)
                      ..+|......++..|.++.|..+.-++.+..+  +..+...+..+...|+-..|..+.+...+...
T Consensus      1670 ge~wLqsAriaR~aG~~q~A~nall~A~e~r~--~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~~ 1733 (2382)
T KOG0890|consen 1670 GECWLQSARIARLAGHLQRAQNALLNAKESRL--PEIVLERAKLLWQTGDELNALSVLQEILSKNF 1733 (2382)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHhhhhccc--chHHHHHHHHHHhhccHHHHHHHHHHHHHhhc
Confidence            56799999999999999999999888888775  68999999999999999999999999886543

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=89.97  E-value=0.5  Score=29.72  Aligned_cols=26  Identities=12%  Similarity=0.133  Sum_probs=22.4

Q ss_pred             hHHHHHhHHHhcCCchHHHHHHHHHH
Q 005481          522 NYVMMSNIHADAGSWNECERLRKLAR  547 (694)
Q Consensus       522 ~~~~l~~~~~~~g~~~~a~~~~~~m~  547 (694)
                      +|..|+++|.+.|+|++|.++++...
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            47789999999999999999999854

>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=89.63  E-value=23  Score=35.03  Aligned_cols=23  Identities=17%  Similarity=0.121  Sum_probs=14.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHH
Q 005481          386 WTVIITGYGKHGLAKEAVGLFRKM  409 (694)
Q Consensus       386 ~~~li~~~~~~g~~~~A~~~~~~m  409 (694)
                      |+. ...+.+.+++++|.+.|+-.
T Consensus       250 W~~-~~~~~~~k~y~~A~~w~~~a  272 (278)
T PF08631_consen  250 WNK-GKKHYKAKNYDEAIEWYELA  272 (278)
T ss_pred             HHH-HHHHHhhcCHHHHHHHHHHH
Confidence            444 33344567888888887743

It is also involved in sporulation [].

>PRK09687 putative lyase; Provisional

Probab=88.85  E-value=26  Score=34.63  Aligned_cols=74  Identities=5%  Similarity=-0.071  Sum_probs=38.9

Q ss_pred             cchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHH
Q 005481          249 VKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVF  327 (694)
Q Consensus       249 ~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~  327 (694)
                      .+..+....+.++.+.|+....-.+.+.+..++  ..-..+.++...|.. +|+..+.++...  .||...-...+.+|
T Consensus       204 ~~~~VR~~A~~aLg~~~~~~av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~  277 (280)
T PRK09687        204 KNEEIRIEAIIGLALRKDKRVLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKL  277 (280)
T ss_pred             CChHHHHHHHHHHHccCChhHHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHH
Confidence            445555556666666666433333333333333  223456666777764 577777777653  33555444444443

>KOG4279 consensus Serine/threonine protein kinase [Signal transduction mechanisms]

Probab=88.52  E-value=14  Score=40.50  Aligned_cols=184  Identities=21%  Similarity=0.269  Sum_probs=108.7

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHhcCCccCc----------cchHHHHHHHhhhccHHHHHHHHHHHHhcCCCCCch
Q 005481          284 SWSSLILGYAQEENLAEAMELFRQLRERSLQVDG----------FVLSSMMGVFADFALVEQGKQIHAYAAKVPSGLDTS  353 (694)
Q Consensus       284 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~----------~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~~~~~~~  353 (694)
                      +-..|+-.|....+++..+++.+.++.-   ||.          +.|.-.+.---+.|+-++|....--+++..-..   
T Consensus       203 ~V~nlmlSyRDvQdY~amirLVe~Lk~i---P~t~~vve~~nv~f~YaFALNRRNr~GDRakAL~~~l~lve~eg~v---  276 (1226)
T KOG4279|consen  203 TVSNLMLSYRDVQDYDAMIRLVEDLKRI---PDTLKVVETHNVRFHYAFALNRRNRPGDRAKALNTVLPLVEKEGPV---  276 (1226)
T ss_pred             HHHHHHhhhccccchHHHHHHHHHHHhC---cchhhhhccCceEEEeeehhcccCCCccHHHHHHHHHHHHHhcCCC---
Confidence            4455666777788888888888877653   321          223333333345567777776655444432111   


Q ss_pred             HHHHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH---HHHHHHHHHHc
Q 005481          354 VSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGV---AYLAVLSACSH  430 (694)
Q Consensus       354 ~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~---t~~~ll~a~~~  430 (694)
                          .=++||-||++-      +.|-         +-+.|...+..+.|.+.|++.-+  +.|+..   .+..|+.+-.+
T Consensus       277 ----apDm~Cl~GRIY------KDmF---------~~S~ytDa~s~~~a~~WyrkaFe--veP~~~sGIN~atLL~aaG~  335 (1226)
T KOG4279|consen  277 ----APDMYCLCGRIY------KDMF---------IASNYTDAESLNHAIEWYRKAFE--VEPLEYSGINLATLLRAAGE  335 (1226)
T ss_pred             ----CCceeeeechhh------hhhh---------hccCCcchhhHHHHHHHHHHHhc--cCchhhccccHHHHHHHhhh
Confidence                114677777643      2221         12344455666788888888776  677764   34455544322


Q ss_pred             cCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 005481          431 SGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGE  510 (694)
Q Consensus       431 ~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~  510 (694)
                      .  ++...+    +.         ..--.|-.+++|.|.+++-.++++-          .+.+.+-.-.+++..|.++.+
T Consensus       336 ~--Fens~E----lq---------~IgmkLn~LlgrKG~leklq~YWdV----------~~y~~asVLAnd~~kaiqAae  390 (1226)
T KOG4279|consen  336 H--FENSLE----LQ---------QIGMKLNSLLGRKGALEKLQEYWDV----------ATYFEASVLANDYQKAIQAAE  390 (1226)
T ss_pred             h--ccchHH----HH---------HHHHHHHHHhhccchHHHHHHHHhH----------HHhhhhhhhccCHHHHHHHHH
Confidence            1  111111    10         1122355678899999888877753          234455566789999999999


Q ss_pred             HHHcCCCCC
Q 005481          511 ILLRLDGDN  519 (694)
Q Consensus       511 ~~~~~~p~~  519 (694)
                      .|++++|..
T Consensus       391 ~mfKLk~P~  399 (1226)
T KOG4279|consen  391 MMFKLKPPV  399 (1226)
T ss_pred             HHhccCCce
Confidence            999999864

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=88.39  E-value=31  Score=38.51  Aligned_cols=212  Identities=13%  Similarity=0.127  Sum_probs=83.0

Q ss_pred             HHHHHHHhcCChHHHHHHHccCC---CCCcccHHHHHHHHHhcCC-------hhHHHHHHHHHHHCCCCCChh--hHHHH
Q 005481          153 SIIDMYSKCGRINEAARMFDVMP---AKSLITWNAMIAGYVLAGY-------SDKGLLLFRKMQEHGEIPDEF--TFTST  220 (694)
Q Consensus       153 ~ll~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~-------~~~A~~~~~~m~~~g~~p~~~--t~~~l  220 (694)
                      ++|--+.|||++++|.++.....   .+....+-..+..|+.+.+       -+....-|++..+.....|++  ..-.+
T Consensus       116 a~Iyy~LR~G~~~~A~~~~~~~~~~~~~~~~~f~~~l~~~~~s~~~~l~~~~~~~l~~ey~~~~r~~~~~DpyK~AvY~i  195 (613)
T PF04097_consen  116 ALIYYCLRCGDYDEALEVANENRNQFQKIERSFPTYLKAYASSPDRRLPPELRDKLKLEYNQRIRNSTDGDPYKRAVYKI  195 (613)
T ss_dssp             HHHHHHHTTT-HHHHHHHHHHTGGGS-TTTTHHHHHHHHCTTTTSS---TCCCHHHHHHHHHHTTT-TTS-HHHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHhhhhhcchhHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhcCCCCCChHHHHHHHH
Confidence            46666789999999999883332   2344566667777766532       234555666665544433554  22233


Q ss_pred             HHHHcccC-Cc-------hHHHHHHHHHHHhCCCCC---cchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCChhhHHHHH
Q 005481          221 LKACGSLG-SV-------GGGTQIHGFLITSGFPYS---VKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLI  289 (694)
Q Consensus       221 l~a~~~~~-~~-------~~a~~~~~~~~~~g~~~~---~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li  289 (694)
                      |..|--.. ..       +.-..+.-.+++.....+   .+..++..|=+...+-|     .+.|..  ..++..   ..
T Consensus       196 lg~cD~~~~~~~~V~~tiED~LW~~L~~vr~~~~~~~~~~e~~~L~~LQ~~i~~~G-----e~~F~~--~~~p~~---Yf  265 (613)
T PF04097_consen  196 LGRCDLSRRHLPEVARTIEDWLWLQLSLVREDERSSSSAYERYTLEDLQKLILKYG-----ESHFNA--GSNPLL---YF  265 (613)
T ss_dssp             HHT--CCC-S-TTC--SHHHHHHHHHHH---TTSSSSSSS----HHHHHHHHHHH------GGGCTT-----------HH
T ss_pred             HhcCCccccchHHHhCcHHHHHHHHHHhhccCCCccccccccccHHHHHHHHHHhc-----hhhccc--chhHHH---HH
Confidence            33332211 11       111111111222221100   11122222211111111     112222  112222   23


Q ss_pred             HHHHhCCCHHHHHHHHHHHHhcCCccCccchHHHHHHHhhhccHHHHHHHHHHHHhcC-CCCCchHHHHHhhhhhh---c
Q 005481          290 LGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAAKVP-SGLDTSVSNSIVDMYLK---C  365 (694)
Q Consensus       290 ~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~~~~-~~~~~~~~~~li~~y~~---~  365 (694)
                      ..+.-.|+++.|++.+.+  ..+...|.+.+...+..+.-..-.+...   ..+.... -.+...-+..||..|.+   .
T Consensus       266 ~~LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F~~  340 (613)
T PF04097_consen  266 QVLLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSFEI  340 (613)
T ss_dssp             HHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTTTT
T ss_pred             HHHHHHhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHHhc
Confidence            445567999999998876  3345566666666665543322222111   1111111 11111345566666664   4


Q ss_pred             CCHHHHHHHHccCC
Q 005481          366 GLIDEATELFNEMP  379 (694)
Q Consensus       366 g~~~~A~~~~~~~~  379 (694)
                      .+..+|.+.|--+.
T Consensus       341 td~~~Al~Y~~li~  354 (613)
T PF04097_consen  341 TDPREALQYLYLIC  354 (613)
T ss_dssp             T-HHHHHHHHHGGG
T ss_pred             cCHHHHHHHHHHHH
Confidence            56666666665544

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.

>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=88.35  E-value=0.053  Score=47.55  Aligned_cols=85  Identities=14%  Similarity=0.166  Sum_probs=61.1

Q ss_pred             HHHHHhcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHccCCCCCcccHHHHHHHHHhcCChhH
Q 005481          118 TNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDK  197 (694)
Q Consensus       118 ~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~  197 (694)
                      .++..+.+.+.+.....+++.+.+.+...+....+.|+..|++.++.+...++++....   .-...++..+-+.|.+++
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            45666777778888888888888777667788899999999999888888888874333   334556666666777777


Q ss_pred             HHHHHHHH
Q 005481          198 GLLLFRKM  205 (694)
Q Consensus       198 A~~~~~~m  205 (694)
                      |.-++.++
T Consensus        89 a~~Ly~~~   96 (143)
T PF00637_consen   89 AVYLYSKL   96 (143)
T ss_dssp             HHHHHHCC
T ss_pred             HHHHHHHc
Confidence            77766665

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.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=88.25  E-value=2.1  Score=41.92  Aligned_cols=86  Identities=21%  Similarity=0.190  Sum_probs=62.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhc-
Q 005481          390 ITGYGKHGLAKEAVGLFRKMLLDDVEP-DGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRA-  467 (694)
Q Consensus       390 i~~~~~~g~~~~A~~~~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~-  467 (694)
                      .+-|.+.|.+++|+..|.+-..  +.| |.+++..-..||.+...+..|..-...++.     .|    ...+.+|.|. 
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia--~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~Aia-----Ld----~~Y~KAYSRR~  172 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIA--VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIA-----LD----KLYVKAYSRRM  172 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhc--cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHH-----hh----HHHHHHHHHHH
Confidence            5678999999999999998876  677 889999999999999998888777666654     11    2335555555 


Q ss_pred             ------CChHHHHHHHHhC-CCCCCH
Q 005481          468 ------GRLDEAKNLIESM-PVKPSI  486 (694)
Q Consensus       468 ------g~~~~A~~~~~~~-~~~p~~  486 (694)
                            |..+||.+-++.. .++|+.
T Consensus       173 ~AR~~Lg~~~EAKkD~E~vL~LEP~~  198 (536)
T KOG4648|consen  173 QARESLGNNMEAKKDCETVLALEPKN  198 (536)
T ss_pred             HHHHHHhhHHHHHHhHHHHHhhCccc
Confidence                  4555555555443 566763

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=87.63  E-value=2.7  Score=40.89  Aligned_cols=75  Identities=12%  Similarity=0.217  Sum_probs=57.5

Q ss_pred             hHHHHHhhhhhhcCCHHHHHHHHccCC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCCHHHHHHH
Q 005481          353 SVSNSIVDMYLKCGLIDEATELFNEMP---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLL-----DDVEPDGVAYLAV  424 (694)
Q Consensus       353 ~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~pd~~t~~~l  424 (694)
                      .++..++..+..+|+.+.+...+++..   .-|...|..++.+|.+.|+...|+..|+++.+     .|+.|...+....
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            345677888888888888888888776   34677899999999999999999998888765     5777776665554


Q ss_pred             HHH
Q 005481          425 LSA  427 (694)
Q Consensus       425 l~a  427 (694)
                      ..+
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            444

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=87.57  E-value=1.2  Score=27.32  Aligned_cols=27  Identities=19%  Similarity=0.255  Sum_probs=17.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005481          385 TWTVIITGYGKHGLAKEAVGLFRKMLL  411 (694)
Q Consensus       385 ~~~~li~~~~~~g~~~~A~~~~~~m~~  411 (694)
                      +|..+...|...|++++|+..|++.++
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            466666666666666666666666665

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 ....

>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=87.54  E-value=13  Score=33.20  Aligned_cols=135  Identities=9%  Similarity=0.020  Sum_probs=77.7

Q ss_pred             HHHHHHhhhCCCCCCceeHHHHHHHhcccCChHHHHHHHHHHHHhCCCCChh-HHHHHHHHHHhc-CChHHHHHHHccCC
Q 005481           98 LSLFCQMGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPV-VGNSIIDMYSKC-GRINEAARMFDVMP  175 (694)
Q Consensus        98 ~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~-~~~~ll~~y~~~-g~~~~A~~~f~~~~  175 (694)
                      ++..+.+.+.+++|+...+..+++.+.+.|.+....+    ++..++-+|.. +.-.|++.-.+. .-..-|.+.+.++.
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~q----llq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~   89 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQ----LLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG   89 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH----HHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence            4455666667788888888888888888877554433    33444444433 333333322111 01233344444433


Q ss_pred             CCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhC
Q 005481          176 AKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSG  244 (694)
Q Consensus       176 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g  244 (694)
                          ..+..++..+...|++-+|+++.+....    .+......++.+..+.+|...--.++....+.+
T Consensus        90 ----~~~~~iievLL~~g~vl~ALr~ar~~~~----~~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~n  150 (167)
T PF07035_consen   90 ----TAYEEIIEVLLSKGQVLEALRYARQYHK----VDSVPARKFLEAAANSNDDQLFYAVFRFFEERN  150 (167)
T ss_pred             ----hhHHHHHHHHHhCCCHHHHHHHHHHcCC----cccCCHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence                2456677788888999888888877532    223334556667666666666566666555543

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=87.32  E-value=1.7  Score=28.74  Aligned_cols=27  Identities=30%  Similarity=0.592  Sum_probs=17.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005481          385 TWTVIITGYGKHGLAKEAVGLFRKMLL  411 (694)
Q Consensus       385 ~~~~li~~~~~~g~~~~A~~~~~~m~~  411 (694)
                      +|..+...|...|++++|.++|++.++
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            455566666666666666666666666

>PRK10941 hypothetical protein; Provisional

Probab=87.20  E-value=4.2  Score=39.67  Aligned_cols=61  Identities=20%  Similarity=0.114  Sum_probs=55.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          489 WQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       489 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      .+.|-.++.+.++++.|.++.+.++.+.|+++.-+--.+-+|.+.|.+..|..-++...+.
T Consensus       184 l~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~  244 (269)
T PRK10941        184 LDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQ  244 (269)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHh
Confidence            5667778899999999999999999999999988889999999999999999988877654

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=86.82  E-value=14  Score=33.47  Aligned_cols=60  Identities=17%  Similarity=0.145  Sum_probs=27.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHHccCcHHHHHHHHHHHh
Q 005481          386 WTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGV--AYLAVLSACSHSGLVEESQEYFSRLC  445 (694)
Q Consensus       386 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~--t~~~ll~a~~~~g~~~~a~~~~~~m~  445 (694)
                      +..+..-|.+.|+.++|++.|.++.+....|...  .+..++..+...+++..+..+..++.
T Consensus        39 ~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~  100 (177)
T PF10602_consen   39 LEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE  100 (177)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            3334444444455555555555544443333331  23444444444555555554444443

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.

>PRK09687 putative lyase; Provisional

Probab=86.82  E-value=34  Score=33.77  Aligned_cols=74  Identities=11%  Similarity=0.044  Sum_probs=37.2

Q ss_pred             CchHHHHHhhhhhhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 005481          351 DTSVSNSIVDMYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACS  429 (694)
Q Consensus       351 ~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~t~~~ll~a~~  429 (694)
                      +..+-...+.++++.|+..-...+.+.+..++  ..-..+.++...|.. +|+..+.++...  .||...-...+.+|.
T Consensus       205 ~~~VR~~A~~aLg~~~~~~av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~~  278 (280)
T PRK09687        205 NEEIRIEAIIGLALRKDKRVLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKLK  278 (280)
T ss_pred             ChHHHHHHHHHHHccCChhHHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHHh
Confidence            44444455555555555332222333332333  123456667777764 577777776652  345555444454443

>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=86.59  E-value=2.6  Score=36.99  Aligned_cols=80  Identities=16%  Similarity=0.175  Sum_probs=41.2

Q ss_pred             HHHHHHHHH---HhcCChHHHHHHHHhC-CCCCCHHHHHHHH-HHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHH
Q 005481          456 HYSCIVDSL---GRAGRLDEAKNLIESM-PVKPSIAIWQTLL-SACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIH  530 (694)
Q Consensus       456 ~~~~li~~~---~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll-~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  530 (694)
                      ..+.|++.+   .+.++.+++..++..+ ..+|.......+- .-+...|++.+|.++++.+.+-.|..+..-.+++.++
T Consensus         9 iv~gLie~~~~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL   88 (160)
T PF09613_consen    9 IVGGLIEVLSVALRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCL   88 (160)
T ss_pred             HHHHHHHHHHHHHccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHH
Confidence            344444433   2455666666666665 3444433332222 2345556666666666666555555555555555555


Q ss_pred             HhcCC
Q 005481          531 ADAGS  535 (694)
Q Consensus       531 ~~~g~  535 (694)
                      ...|+
T Consensus        89 ~~~~D   93 (160)
T PF09613_consen   89 YALGD   93 (160)
T ss_pred             HHcCC
Confidence            55554

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=85.81  E-value=28  Score=31.76  Aligned_cols=114  Identities=10%  Similarity=0.084  Sum_probs=71.7

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHH--HHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHH-----HHHHHhcCChHHH
Q 005481          401 EAVGLFRKMLLDDVEPDGVAYL--AVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCI-----VDSLGRAGRLDEA  473 (694)
Q Consensus       401 ~A~~~~~~m~~~g~~pd~~t~~--~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~l-----i~~~~~~g~~~~A  473 (694)
                      +......++...+-+-...++.  .+...+...+++++|...++....    .|..+.+..+     .......|.+++|
T Consensus        70 ~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~----~t~De~lk~l~~lRLArvq~q~~k~D~A  145 (207)
T COG2976          70 KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALA----QTKDENLKALAALRLARVQLQQKKADAA  145 (207)
T ss_pred             hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHc----cchhHHHHHHHHHHHHHHHHHhhhHHHH
Confidence            4445555555432222222222  233456778899999988887765    3444444444     4567788999999


Q ss_pred             HHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCC
Q 005481          474 KNLIESMPVKP-SIAIWQTLLSACRVHGDLELGREVGEILLRLDGD  518 (694)
Q Consensus       474 ~~~~~~~~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~  518 (694)
                      +..++....+. .......-...+...|+.++|+..|+++++.+++
T Consensus       146 L~~L~t~~~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~s  191 (207)
T COG2976         146 LKTLDTIKEESWAAIVAELRGDILLAKGDKQEARAAYEKALESDAS  191 (207)
T ss_pred             HHHHhccccccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHccCC
Confidence            99998753111 1111223345788899999999999999988754

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.79  E-value=64  Score=35.93  Aligned_cols=76  Identities=13%  Similarity=0.139  Sum_probs=55.0

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHHHhhhCCCCCCceeHHHHHHHhcc
Q 005481           47 LMLNNDLIDMYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFTLSTNIKASGV  125 (694)
Q Consensus        47 ~~~~~~li~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  125 (694)
                      ..++...|+-|.-.|++++|-.+.-.|...+..-|..-+.-++..++....   +.-++....+.+...|..+|..+..
T Consensus       392 ~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~~I---a~~lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  392 KKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLTDI---APYLPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             HHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccchh---hccCCCCCcccCchHHHHHHHHHHH
Confidence            456778888888889999999988888888888888888888877766543   3334433333455667777777655

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=85.43  E-value=33  Score=35.14  Aligned_cols=67  Identities=15%  Similarity=0.167  Sum_probs=56.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCC----CCcchHHHHHhHHHhcCCchHHHHHHHHHHhCCC
Q 005481          485 SIAIWQTLLSACRVHGDLELGREVGEILLRLDG----DNPVNYVMMSNIHADAGSWNECERLRKLARSKGL  551 (694)
Q Consensus       485 ~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p----~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  551 (694)
                      ...+|..+...++++|+++.|...+.++.+..+    ..+.....-+..+...|+-++|...++...+..+
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~  215 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRL  215 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHh
Confidence            456799999999999999999999999998663    2466777788999999999999999988877333

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>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=84.69  E-value=2.7  Score=37.48  Aligned_cols=45  Identities=16%  Similarity=0.025  Sum_probs=32.1

Q ss_pred             hHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCC----chHHHHHHHHH
Q 005481          502 LELGREVGEILLRLDGDNPVNYVMMSNIHADAGS----WNECERLRKLA  546 (694)
Q Consensus       502 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~----~~~a~~~~~~m  546 (694)
                      +++|+.-+++++.++|+...++.+++++|...|.    ..+|.++|++.
T Consensus        51 iedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA   99 (186)
T PF06552_consen   51 IEDAISKFEEALKINPNKHDALWCLGNAYTSLAFLTPDTAEAEEYFEKA   99 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHH---HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHhhcCChHHHHHHHHHH
Confidence            4667777888889999999999999999988764    33444544444

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.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=84.57  E-value=5.2  Score=34.52  Aligned_cols=51  Identities=14%  Similarity=0.055  Sum_probs=33.0

Q ss_pred             cCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHhC
Q 005481          499 HGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       499 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  549 (694)
                      .++.+.++.++..+.-+.|+.+..-..-++++...|+|+||.++++...+.
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            566666666666666666666666666666666666666666666665544

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=84.49  E-value=4.8  Score=39.21  Aligned_cols=60  Identities=18%  Similarity=0.112  Sum_probs=36.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcchHHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          489 WQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       489 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      +..++.++...|+.+.+...++++++.+|-+...|..+..+|...|+...|+..++.+.+
T Consensus       156 l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         156 LTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            344445555556666666666666666666666666666666666666666666665544

>PF04910 Tcf25: Transcriptional repressor TCF25; InterPro: IPR006994 This entry appears to represent a novel family of basic helix-loop-helix (bHLH) proteins that control differentiation and development of a variety of organs [, ]

Probab=84.04  E-value=25  Score=36.14  Aligned_cols=64  Identities=16%  Similarity=0.220  Sum_probs=51.5

Q ss_pred             CHHHHHHH---HHHHHhcCChHHHHHHHHHHHcCCCC-CcchHHHHHhHHH-hcCCchHHHHHHHHHHh
Q 005481          485 SIAIWQTL---LSACRVHGDLELGREVGEILLRLDGD-NPVNYVMMSNIHA-DAGSWNECERLRKLARS  548 (694)
Q Consensus       485 ~~~~~~~l---l~a~~~~g~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~-~~g~~~~a~~~~~~m~~  548 (694)
                      |...|.++   +..+.+.|-+..|.+..+-++.++|. ||-.....++.|+ ++++++--.++.+....
T Consensus        99 NR~fflal~r~i~~L~~RG~~rTAlE~~KlLlsLdp~~DP~g~ll~ID~~ALrs~~y~~Li~~~~~~~~  167 (360)
T PF04910_consen   99 NRQFFLALFRYIQSLGRRGCWRTALEWCKLLLSLDPDEDPLGVLLFIDYYALRSRQYQWLIDFSESPLA  167 (360)
T ss_pred             chHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCCcchhHHHHHHHHHhcCCHHHHHHHHHhHhh
Confidence            44445554   45678889999999999999999998 8888888888886 77888888888887654

Human Nulp1 (Q2MK75 from SWISSPROT) is a basic helix-loop-helix protein expressed broadly during early embryonic organogenesis. Over expression of human Nulp1 in COS-7 cells inhibits the transcriptional activity of serum response factor (SRF), suggesting that Nulp1 may act as a novel bHLH transcriptional repressor in the SRF signalling pathway to mediate cellular functions [].

>PRK11619 lytic murein transglycosylase; Provisional

Probab=83.75  E-value=81  Score=35.42  Aligned_cols=115  Identities=10%  Similarity=0.052  Sum_probs=57.5

Q ss_pred             cCCHHHHHHHHHHHHHC-CCCCCHH--HHHHHHHHHHccCcHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHhcCChHH
Q 005481          396 HGLAKEAVGLFRKMLLD-DVEPDGV--AYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDE  472 (694)
Q Consensus       396 ~g~~~~A~~~~~~m~~~-g~~pd~~--t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~  472 (694)
                      ..+.+.|..++.+.... ++.+...  ....+.......+..+++...++....   -..+......-+..-.+.++++.
T Consensus       254 r~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~---~~~~~~~~e~r~r~Al~~~dw~~  330 (644)
T PRK11619        254 RQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIM---RSQSTSLLERRVRMALGTGDRRG  330 (644)
T ss_pred             HhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhccc---ccCCcHHHHHHHHHHHHccCHHH
Confidence            34557777777766432 2333322  222232222222224556666655432   11233334444444447777777


Q ss_pred             HHHHHHhCCCC-CCHHHHHH-HHHHHHhcCChHHHHHHHHHHH
Q 005481          473 AKNLIESMPVK-PSIAIWQT-LLSACRVHGDLELGREVGEILL  513 (694)
Q Consensus       473 A~~~~~~~~~~-p~~~~~~~-ll~a~~~~g~~~~a~~~~~~~~  513 (694)
                      +...|..|+.. -+..-|.- +..+....|+.++|...|+++.
T Consensus       331 ~~~~i~~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a  373 (644)
T PRK11619        331 LNTWLARLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQLM  373 (644)
T ss_pred             HHHHHHhcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            77777777321 11222322 3345555777777877777763

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=83.64  E-value=39  Score=31.74  Aligned_cols=61  Identities=15%  Similarity=0.058  Sum_probs=34.6

Q ss_pred             HHHHHHHhc-CChHHHHHHHHhC-----CCCCCHHHHHHHHHH--H-HhcCChHHHHHHHHHHHcCCCCC
Q 005481          459 CIVDSLGRA-GRLDEAKNLIESM-----PVKPSIAIWQTLLSA--C-RVHGDLELGREVGEILLRLDGDN  519 (694)
Q Consensus       459 ~li~~~~~~-g~~~~A~~~~~~~-----~~~p~~~~~~~ll~a--~-~~~g~~~~a~~~~~~~~~~~p~~  519 (694)
                      .+...|-.- .+++.|+..++..     +.+.+...-..++.+  | ...+++.+|+.+|++.....-++
T Consensus       118 ~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n  187 (288)
T KOG1586|consen  118 EIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDN  187 (288)
T ss_pred             hHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            444445443 4566666666655     122233333444432  2 45588899999999887655444

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=83.54  E-value=17  Score=32.24  Aligned_cols=49  Identities=12%  Similarity=0.121  Sum_probs=24.6

Q ss_pred             hcCChHHHHHHHccCCCC-C---cccHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 005481          160 KCGRINEAARMFDVMPAK-S---LITWNAMIAGYVLAGYSDKGLLLFRKMQEH  208 (694)
Q Consensus       160 ~~g~~~~A~~~f~~~~~~-~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  208 (694)
                      ..|.+++.....+.+..+ +   ...-.+|.-+-.+.|++.+|.++|..+...
T Consensus       144 D~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         144 DNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             ccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence            445555555555444332 1   122334444445566666666666665543

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=83.25  E-value=24  Score=30.61  Aligned_cols=66  Identities=18%  Similarity=0.163  Sum_probs=36.7

Q ss_pred             ccCcHHHHHHHHHHHhhccCCCCChh-HHHHHHHHHHhcCChHHHHHHHHhCCCCC-CHHHHHHHHHHHHh
Q 005481          430 HSGLVEESQEYFSRLCNDKRMKPRIE-HYSCIVDSLGRAGRLDEAKNLIESMPVKP-SIAIWQTLLSACRV  498 (694)
Q Consensus       430 ~~g~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~ll~a~~~  498 (694)
                      ..++.+++..+++.|.-   +.|+.. .-..-+-.+.+.|+++||..+|++....+ ....-..|+.-|..
T Consensus        22 ~~~d~~D~e~lLdALrv---LrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~~~p~~kAL~A~CL~   89 (153)
T TIGR02561        22 RSADPYDAQAMLDALRV---LRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAGAPPYGKALLALCLN   89 (153)
T ss_pred             hcCCHHHHHHHHHHHHH---hCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCCCchHHHHHHHHHHH
Confidence            36677777777777754   455422 22233445667777788877777774332 33333344444433

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=83.10  E-value=3.7  Score=32.33  Aligned_cols=41  Identities=5%  Similarity=0.067  Sum_probs=20.5

Q ss_pred             HHHHHHHHhCCCCChhhHHHHHHHHHhcCChHHHHHHHhcc
Q 005481           33 QLHGALVKMGFSFDLMLNNDLIDMYAKCGEMNGACAVFDKM   73 (694)
Q Consensus        33 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~~   73 (694)
                      +-.+.+....+.|++.+..+-+.++-+.+++..|.++|+.+
T Consensus        28 r~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~v   68 (103)
T cd00923          28 RGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAI   68 (103)
T ss_pred             HHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            33333444444555555555555555555555555555544

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=83.07  E-value=8.9  Score=34.82  Aligned_cols=94  Identities=16%  Similarity=0.014  Sum_probs=61.9

Q ss_pred             hHHHHHhhhhhhcCCHHHHHHHHccCCCCC------hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC---CCHHHHHH
Q 005481          353 SVSNSIVDMYLKCGLIDEATELFNEMPVKN------VVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVE---PDGVAYLA  423 (694)
Q Consensus       353 ~~~~~li~~y~~~g~~~~A~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~---pd~~t~~~  423 (694)
                      ..+..+.+.|.+.|+.+.|.+.|.++.+..      +..+-.+|......|++..+.....+....-..   ++...-..
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            455678899999999999999999988542      335677888888899999988888776653222   22221111


Q ss_pred             HHH--HHHccCcHHHHHHHHHHHhh
Q 005481          424 VLS--ACSHSGLVEESQEYFSRLCN  446 (694)
Q Consensus       424 ll~--a~~~~g~~~~a~~~~~~m~~  446 (694)
                      +..  ++...+++.+|-+.|-....
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccCc
Confidence            111  12345666666666655543

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.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=82.94  E-value=7.1  Score=38.03  Aligned_cols=102  Identities=15%  Similarity=0.160  Sum_probs=72.5

Q ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHHccCCC-CCc-----ccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhh
Q 005481          143 GFEWNPVVGNSIIDMYSKCGRINEAARMFDVMPA-KSL-----ITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFT  216 (694)
Q Consensus       143 g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~-~~~-----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  216 (694)
                      |.+....+...++..-....+++++...+-++.. ++.     .+-.++++-+ -.-++++++.++..=.+.|+-||.+|
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            5555566666777666667788888877766543 111     1112223322 23467799999988899999999999


Q ss_pred             HHHHHHHHcccCCchHHHHHHHHHHHhCC
Q 005481          217 FTSTLKACGSLGSVGGGTQIHGFLITSGF  245 (694)
Q Consensus       217 ~~~ll~a~~~~~~~~~a~~~~~~~~~~g~  245 (694)
                      +..+|..+.+.+++..|.++.-.++....
T Consensus       138 ~c~l~D~flk~~n~~~aa~vvt~~~~qe~  166 (418)
T KOG4570|consen  138 FCLLMDSFLKKENYKDAASVVTEVMMQEA  166 (418)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence            99999999999999999888887776543

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=82.90  E-value=68  Score=33.90  Aligned_cols=159  Identities=11%  Similarity=0.056  Sum_probs=97.9

Q ss_pred             ccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHcccCCchHHHHHHHHHHHhCCCCCcchhhHHHHHH
Q 005481          180 ITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLVD  259 (694)
Q Consensus       180 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~~~li~  259 (694)
                      ...-+++..+.++-...-...+-.+|...|  -+...|..++..|... .-+.-..+++.+++..+   .++.....|++
T Consensus        67 ~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df---nDvv~~ReLa~  140 (711)
T COG1747          67 SCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF---NDVVIGRELAD  140 (711)
T ss_pred             hHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc---hhHHHHHHHHH
Confidence            345566667777777777777777777754  4666777777777766 45556667777777766   46666666777


Q ss_pred             HHHHcCCHHHHHHHHhhcCCC------Ch---hhHHHHHHHHHhCCCHHHHHHHHHHHHh-cCCccCccchHHHHHHHhh
Q 005481          260 FYVKCGCLVEARRVFDLIEQK------SV---ISWSSLILGYAQEENLAEAMELFRQLRE-RSLQVDGFVLSSMMGVFAD  329 (694)
Q Consensus       260 ~y~~~g~~~~A~~~f~~~~~~------~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~pd~~t~~~ll~~~~~  329 (694)
                      .|-+ ++...+...|..+..+      +.   ..|.-++..-  ..+.+..+.+..+++. .|..--.+.+.-+-.-|..
T Consensus       141 ~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~  217 (711)
T COG1747         141 KYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSE  217 (711)
T ss_pred             HHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhcc
Confidence            7766 6677777666654321      11   2465554421  2455556666665554 3333344455555566677


Q ss_pred             hccHHHHHHHHHHHHhcC
Q 005481          330 FALVEQGKQIHAYAAKVP  347 (694)
Q Consensus       330 ~~~~~~a~~i~~~~~~~~  347 (694)
                      ..+++++.++...+.+..
T Consensus       218 ~eN~~eai~Ilk~il~~d  235 (711)
T COG1747         218 NENWTEAIRILKHILEHD  235 (711)
T ss_pred             ccCHHHHHHHHHHHhhhc
Confidence            777777777777666554

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=82.66  E-value=2.8  Score=25.50  Aligned_cols=27  Identities=30%  Similarity=0.445  Sum_probs=15.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005481          385 TWTVIITGYGKHGLAKEAVGLFRKMLL  411 (694)
Q Consensus       385 ~~~~li~~~~~~g~~~~A~~~~~~m~~  411 (694)
                      .|..+...|...|++++|++.|++.++
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            345555566666666666666666555

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 ....

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=82.31  E-value=13  Score=36.36  Aligned_cols=97  Identities=10%  Similarity=0.142  Sum_probs=72.3

Q ss_pred             cCCCCCchHHHHHhhhhhhcCCHHHHHHHHccCCC-C--------ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 005481          346 VPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPV-K--------NVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEP  416 (694)
Q Consensus       346 ~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-~--------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  416 (694)
                      .|......+...+++.-....+++++...+-+... |        ...+|-.++    ..=++++++.++..=+..|+-|
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irll----lky~pq~~i~~l~npIqYGiF~  133 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLL----LKYDPQKAIYTLVNPIQYGIFP  133 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHH----HccChHHHHHHHhCcchhcccc
Confidence            34555556666777777777888888888776652 2        223333332    2346779999999889999999


Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHhh
Q 005481          417 DGVAYLAVLSACSHSGLVEESQEYFSRLCN  446 (694)
Q Consensus       417 d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~  446 (694)
                      |..|+..+++.+.+.+++.+|.++.-.|..
T Consensus       134 dqf~~c~l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  134 DQFTFCLLMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             chhhHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            999999999999999999999888777765

>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=82.15  E-value=2.5  Score=29.35  Aligned_cols=31  Identities=26%  Similarity=0.304  Sum_probs=25.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHcCCCCCcch
Q 005481          492 LLSACRVHGDLELGREVGEILLRLDGDNPVN  522 (694)
Q Consensus       492 ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~  522 (694)
                      +.-++.+.|+++.|.+..+.+++.+|+|..+
T Consensus         7 lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa   37 (53)
T PF14853_consen    7 LAIGHYKLGEYEKARRYCDALLEIEPDNRQA   37 (53)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHHHTTS-HHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHhhCCCcHHH
Confidence            4457889999999999999999999997654

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=81.62  E-value=16  Score=30.94  Aligned_cols=61  Identities=15%  Similarity=0.010  Sum_probs=34.2

Q ss_pred             HHHHHHHHHHhc---CChHHHHHHHHHHHc-CCCCC-cchHHHHHhHHHhcCCchHHHHHHHHHHh
Q 005481          488 IWQTLLSACRVH---GDLELGREVGEILLR-LDGDN-PVNYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       488 ~~~~ll~a~~~~---g~~~~a~~~~~~~~~-~~p~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  548 (694)
                      +--.+.+++...   .+..+++.+++.+++ -.|.. ......|+-.+++.|+++.++++.+...+
T Consensus        34 s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~   99 (149)
T KOG3364|consen   34 SQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLE   99 (149)
T ss_pred             HHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHh
Confidence            333444444333   345566667777765 33422 23344556667777777777777776654

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=81.53  E-value=28  Score=37.35  Aligned_cols=149  Identities=15%  Similarity=0.107  Sum_probs=99.4

Q ss_pred             hcCCHHHHHHHHccCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHccCcHHHHHHHHH
Q 005481          364 KCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGV-AYLAVLSACSHSGLVEESQEYFS  442 (694)
Q Consensus       364 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~pd~~-t~~~ll~a~~~~g~~~~a~~~~~  442 (694)
                      -.|+++.|..++..++++   .-+.++.-+...|..++|+++         .||.. -|..    ..+.|+++.|.++..
T Consensus       598 mrrd~~~a~~vLp~I~k~---~rt~va~Fle~~g~~e~AL~~---------s~D~d~rFel----al~lgrl~iA~~la~  661 (794)
T KOG0276|consen  598 LRRDLEVADGVLPTIPKE---IRTKVAHFLESQGMKEQALEL---------STDPDQRFEL----ALKLGRLDIAFDLAV  661 (794)
T ss_pred             hhccccccccccccCchh---hhhhHHhHhhhccchHhhhhc---------CCChhhhhhh----hhhcCcHHHHHHHHH
Confidence            357777787777777632   334455666677777777654         33432 2322    246788888887765


Q ss_pred             HHhhccCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHcCCCCCcch
Q 005481          443 RLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVN  522 (694)
Q Consensus       443 ~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~  522 (694)
                      +.       .+..-|..|.++....|++..|.+.|....      -|..|+-.+...|+-+.-..+.....+....|   
T Consensus       662 e~-------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~------d~~~LlLl~t~~g~~~~l~~la~~~~~~g~~N---  725 (794)
T KOG0276|consen  662 EA-------NSEVKWRQLGDAALSAGELPLASECFLRAR------DLGSLLLLYTSSGNAEGLAVLASLAKKQGKNN---  725 (794)
T ss_pred             hh-------cchHHHHHHHHHHhhcccchhHHHHHHhhc------chhhhhhhhhhcCChhHHHHHHHHHHhhcccc---
Confidence            54       244568899999999999999999888753      36677777777888775555555555544443   


Q ss_pred             HHHHHhHHHhcCCchHHHHHHHHH
Q 005481          523 YVMMSNIHADAGSWNECERLRKLA  546 (694)
Q Consensus       523 ~~~l~~~~~~~g~~~~a~~~~~~m  546 (694)
                        .--.+|...|+++++.+++..-
T Consensus       726 --~AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  726 --LAFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             --hHHHHHHHcCCHHHHHHHHHhc
Confidence              2234677889999998887643

>smart00028 TPR Tetratricopeptide repeats

Probab=81.46  E-value=3.3  Score=24.05  Aligned_cols=31  Identities=29%  Similarity=0.173  Sum_probs=19.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHcCCCC
Q 005481          488 IWQTLLSACRVHGDLELGREVGEILLRLDGD  518 (694)
Q Consensus       488 ~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~  518 (694)
                      .|..+...+...|+++.|...+++.++..|+
T Consensus         3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~   33 (34)
T smart00028        3 ALYNLGNAYLKLGDYDEALEYYEKALELDPN   33 (34)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHccCCC
Confidence            3455555666667777777777777666654

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.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=80.47  E-value=6.7  Score=31.27  Aligned_cols=33  Identities=21%  Similarity=0.438  Sum_probs=14.0

Q ss_pred             CCCCCChhHHHHHHHHhhcCCChHHHHHHHHHH
Q 005481            6 FSLVSERQRLADSLRCCSKNLLLDYGVQLHGAL   38 (694)
Q Consensus         6 ~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~   38 (694)
                      +++-|++....+.|++|.+.+++..|.++++.+
T Consensus        39 ~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~i   71 (108)
T PF02284_consen   39 YDLVPEPKIIEAALRACRRVNDFALAVRILEGI   71 (108)
T ss_dssp             SSB---HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             cccCCChHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            344444444444555554445554444444443

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 ....

>PF04190 DUF410: Protein of unknown function (DUF410) ; InterPro: IPR007317 This is a family of conserved eukaryotic proteins with undetermined function

Probab=80.07  E-value=61  Score=31.57  Aligned_cols=158  Identities=15%  Similarity=0.071  Sum_probs=75.3

Q ss_pred             hcCChHHHHHHHccCCCCCcccHHHHHHHHHhcCChhHHHHHHH----HHHHCCCCCChhhHHHHHHHHcccCCc-----
Q 005481          160 KCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFR----KMQEHGEIPDEFTFTSTLKACGSLGSV-----  230 (694)
Q Consensus       160 ~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~----~m~~~g~~p~~~t~~~ll~a~~~~~~~-----  230 (694)
                      +.+++++|.+++..           -...+.+.|+...|-++-.    -..+.+.++|......++..+...+.-     
T Consensus         2 ~~kky~eAidLL~~-----------Ga~~ll~~~Q~~sg~DL~~lliev~~~~~~~~~~~~~~rl~~l~~~~~~~~p~r~   70 (260)
T PF04190_consen    2 KQKKYDEAIDLLYS-----------GALILLKHGQYGSGADLALLLIEVYEKSEDPVDEESIARLIELISLFPPEEPERK   70 (260)
T ss_dssp             HTT-HHHHHHHHHH-----------HHHHHHHTT-HHHHHHHHHHHHHHHHHTT---SHHHHHHHHHHHHHS-TT-TTHH
T ss_pred             ccccHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCCcchHH
Confidence            34556666665422           2233455555544444332    233345556665555555544433221     


Q ss_pred             hHHHHHHHHHHHhCCCCCcchhhHHHHHHHHHHcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHHh
Q 005481          231 GGGTQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRE  310 (694)
Q Consensus       231 ~~a~~~~~~~~~~g~~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  310 (694)
                      .-..+...+. +.+-.+..++.....+...|.+.|++.+|+..|-.-.+++...+..++.-....|...++         
T Consensus        71 ~fi~~ai~WS-~~~~~~~Gdp~LH~~~a~~~~~e~~~~~A~~Hfl~~~~~~~~~~~~ll~~~~~~~~~~e~---------  140 (260)
T PF04190_consen   71 KFIKAAIKWS-KFGSYKFGDPELHHLLAEKLWKEGNYYEAERHFLLGTDPSAFAYVMLLEEWSTKGYPSEA---------  140 (260)
T ss_dssp             HHHHHHHHHH-HTSS-TT--HHHHHHHHHHHHHTT-HHHHHHHHHTS-HHHHHHHHHHHHHHHHHTSS--H---------
T ss_pred             HHHHHHHHHH-ccCCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHhcCChhHHHHHHHHHHHHHhcCCcch---------
Confidence            1123333334 445444578888999999999999999999988665544444443344333333433333         


Q ss_pred             cCCccCccchHHHHHHHhhhccHHHHHHHHHHHH
Q 005481          311 RSLQVDGFVLSSMMGVFADFALVEQGKQIHAYAA  344 (694)
Q Consensus       311 ~g~~pd~~t~~~ll~~~~~~~~~~~a~~i~~~~~  344 (694)
                           |.+.-..++ -+...+++..|...+....
T Consensus       141 -----dlfi~RaVL-~yL~l~n~~~A~~~~~~f~  168 (260)
T PF04190_consen  141 -----DLFIARAVL-QYLCLGNLRDANELFDTFT  168 (260)
T ss_dssp             -----HHHHHHHHH-HHHHTTBHHHHHHHHHHHH
T ss_pred             -----hHHHHHHHH-HHHHhcCHHHHHHHHHHHH
Confidence                 212222222 2444566676666655443

; PDB: 3LKU_E 2WPV_G.

---

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	694
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-11
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-10
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-09
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	9e-09
2kat_A	115	Uncharacterized protein; NESG, structure, structur	7e-04

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 68.0 bits (165), Expect = 8e-12
 Identities = 75/461 (16%), Positives = 150/461 (32%), Gaps = 141/461 (30%)

Query: 248 SVKTVIAGSLVDFYVKCGCLVE-ARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFR 306
             K++++   +D  +     V    R+F  +  K             QEE + + +E   
Sbjct: 41  MPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSK-------------QEEMVQKFVE--- 84

Query: 307 QLRERSLQVD-GFVLSSMMGVFADFAL-----VEQGKQIHAYAAKVPSGLDTSVSNSIVD 360
                 L+++  F++S +       ++     +EQ  +++            +VS   + 
Sbjct: 85  ----EVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFA---KYNVS--RLQ 135

Query: 361 MYLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVA 420
            YLK   + +A  L    P KNV+   V+  G GK  +A +         +       + 
Sbjct: 136 PYLK---LRQA--LLELRPAKNVLIDGVL--GSGKTWVALDVC---LSYKVQCKMDFKIF 185

Query: 421 YLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM 480
           +L + +  S   ++E  Q+   ++  D     R +H S I   +       E + L++S 
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQI--DPNWTSRSDHSSNIKLRIHSIQ--AELRRLLKSK 241

Query: 481 PVKPSIAI---------WQTLLSACRV-------------------H---GDLELG---R 506
           P +  + +         W     +C++                   H       +     
Sbjct: 242 PYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPD 301

Query: 507 EVGEILLR-LDGD-----------NPVNYVMMS-NIHADAGSWN-----ECERLRKLARS 548
           EV  +LL+ LD             NP    +++ +I     +W+      C++L  +  S
Sbjct: 302 EVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES 361

Query: 549 ---------------------KGLK---KVAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQ 584
                                        +    W +V K         D   +  K+H+
Sbjct: 362 SLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKS--------DVMVVVNKLHK 413

Query: 585 VLMEMEKRMKEELGFVYGVKYALHDIQEESK---EESLRVH 622
             + +EK+ KE          ++  I  E K   E    +H
Sbjct: 414 YSL-VEKQPKES-------TISIPSIYLELKVKLENEYALH 446

>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 = 65.3 bits (158), Expect = 6e-11
 Identities = 79/529 (14%), Positives = 166/529 (31%), Gaps = 172/529 (32%)

Query: 12  RQRLADSLRCCSKNLLLDYGVQLHGALVKMG--------------FSFDLMLNNDL--ID 55
           R +    LR     L     V + G    +               +     ++  +  ++
Sbjct: 133 RLQPYLKLRQALLELRPAKNVLIDG----VLGSGKTWVALDVCLSYKVQCKMDFKIFWLN 188

Query: 56  MYAKCGEMNGACAVFDKMLERNVVSWTALMCGFLQNGNAKACLSLFCQMGSSSVKPNEFT 115
           +          C   + +LE             LQ         L  Q+  +    ++  
Sbjct: 189 L--------KNCNSPETVLEM------------LQK--------LLYQIDPNWTSRSDH- 219

Query: 116 LSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSII---DMYSKCGRINEAARMFD 172
            S+NIK    + S++  ++          +  P   N ++   ++ +      +A   F+
Sbjct: 220 -SSNIKLR--IHSIQAELRRL-------LKSKPYE-NCLLVLLNVQNA-----KAWNAFN 263

Query: 173 VMPAKSLI-TWNAMIAGYVLAGYS--------------DKGLLLFRKM--QEHGEIPDEF 215
           +   K L+ T    +  ++ A  +              D+   L  K       ++P E 
Sbjct: 264 LS-CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREV 322

Query: 216 TFTSTLKACGSLGSVGGGTQIHGFLITS-GFPYS----VKTVIAGSLVDFYVKCGCLVEA 270
             T+       +        I   L T   + +     + T+I  SL           E 
Sbjct: 323 LTTNPR-RLSIIA-----ESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPA-----EY 371

Query: 271 RRVF-DL-IEQKSV-ISWSSL-ILGYAQEENLAEAMELFRQLRERSL---QVDGFVLSSM 323
           R++F  L +   S  I    L ++ +   ++  + M +  +L + SL   Q     +S +
Sbjct: 372 RKMFDRLSVFPPSAHIPTILLSLIWFDVIKS--DVMVVVNKLHKYSLVEKQPKESTIS-I 428

Query: 324 MGVFADFAL-VEQGKQIH-----AYAAKVPSGLDT-SVSNSIVDMYLKCGLIDEATELFN 376
             ++ +  + +E    +H      Y   +P   D+  +    +D Y            ++
Sbjct: 429 PSIYLELKVKLENEYALHRSIVDHY--NIPKTFDSDDLIPPYLDQYF-----------YS 475

Query: 377 EMPVKNVVTWTVIITGYGKHGLAK----EAVGLFRKMLLDD------VEPDGVAYLAVLS 426
            +             G+  H L      E + LFR + LD       +  D  A+ A  S
Sbjct: 476 HI-------------GH--H-LKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGS 519

Query: 427 ACS-------HSGLVEESQEYFSRLCND-KRMKPRIEH------YSCIV 461
             +       +   + ++   + RL N      P+IE       Y+ ++
Sbjct: 520 ILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLL 568

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 62.1 bits (149), Expect = 4e-10
 Identities = 19/136 (13%), Positives = 44/136 (32%), Gaps = 7/136 (5%)

Query: 356 NSIVDMYLKCGLIDEATELFNEM-------PVKNVVTWTVIITGYGKHGLAKEAVGLFRK 408
            +     L    +  A  L            +  +  +  ++ G+ + G  KE V +   
Sbjct: 131 LAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFM 190

Query: 409 MLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAG 468
           +    + PD ++Y A L           + E      + + +K +    + ++    RA 
Sbjct: 191 VKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRAT 250

Query: 469 RLDEAKNLIESMPVKP 484
            L     +  +  + P
Sbjct: 251 VLKAVHKVKPTFSLPP 266

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 58.7 bits (140), Expect = 6e-09
 Identities = 17/132 (12%), Positives = 45/132 (34%), Gaps = 7/132 (5%)

Query: 104 MGSSSVKPNEFTLSTNIKASGVLSSVENGMQIHGMCMKSGFEWNPVVGNSIIDMYSKCGR 163
              +   P E  L+  ++ +    S++      G   ++          +         +
Sbjct: 83  TRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQ 142

Query: 164 INEAARMFDVM-------PAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFT 216
           +  A  +  V           +L  +NA++ G+   G   + + +   +++ G  PD  +
Sbjct: 143 LPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS 202

Query: 217 FTSTLKACGSLG 228
           + + L+  G   
Sbjct: 203 YAAALQCMGRQD 214

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 57.9 bits (138), Expect = 9e-09
 Identities = 23/223 (10%), Positives = 67/223 (30%), Gaps = 8/223 (3%)

Query: 287 SLILGYAQEENLAEAMELFRQLRERSLQVDGFVLSSMMGVFA---DFALVEQGKQIHAYA 343
            L+     + +L        Q  +  L      L +            L      +H   
Sbjct: 97  RLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQ 156

Query: 344 AKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPVK----NVVTWTVIITGYGKHGLA 399
            +    L   + N+++  + + G   E   +   +       +++++   +   G+    
Sbjct: 157 RQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQD 216

Query: 400 KEAVG-LFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYS 458
              +     +M  + ++   +    +LS    + +++   +         ++ P +    
Sbjct: 217 AGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSK 276

Query: 459 CIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGD 501
            + D   + GR+   K  +    ++        +  A RV   
Sbjct: 277 LLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHMELASRVCVV 319

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis} Length = 115

 Score = 38.9 bits (91), Expect = 7e-04
 Identities = 17/119 (14%), Positives = 34/119 (28%), Gaps = 19/119 (15%)

Query: 400 KEAVGLFRKMLLDDVEPDGVAYLAVL-SACSHSGLVEESQEYFSRLCNDKRMKPR-IEHY 457
           +        ML      D +     L    +     + +  +           P     +
Sbjct: 2   QAITERLEAML--AQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAAL---DFDPTYSVAW 56

Query: 458 SCIVDSLGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLD 516
             +  +L   G    A               W++ L+A +  GD ++ +E+   L RL 
Sbjct: 57  KWLGKTLQGQGDRAGA------------RQAWESGLAAAQSRGDQQVVKELQVFLRRLA 103

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	694
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.95
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.94
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.68
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.65
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.36
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.26
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.23
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.17
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.16
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.11
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.1
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.09
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.06
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.93
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.68
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.65
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.63
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.59
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.57
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.54
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.47
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.44
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.44
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.42
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.3
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.29
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.28
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.23
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.22
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.16
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.15
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.11
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.08
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.05
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.04
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.01
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.94
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.9
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.79
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.71
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.56
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.51
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.42
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.41
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.4
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.33
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.25
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.22
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.15
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.13
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.12
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	96.84
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	96.44
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.36
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	87.78
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	87.46
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	86.6
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	83.96

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=1.1e-22  Score=158.09  Aligned_cols=180  Identities=17%  Similarity=0.204  Sum_probs=137.5

Q ss_pred             CHHHHHHHHHHHHCCCHHHHHHHHCCCC---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHH
Q ss_conf             2178789622330399999999971099---98862599999999814998999999999898999978-9999999999
Q 005481          352 TSVSNSIVDMYLKCGLIDEATELFNEMP---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPD-GVAYLAVLSA  427 (694)
Q Consensus       352 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a  427 (694)
                      ...+..+...+...|++++|...|++..   ..+...+..+...+...|++++|+..|++..+.  .|+ ..++..+..+
T Consensus       203 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~  280 (388)
T d1w3ba_         203 LDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANA  280 (388)
T ss_dssp             HHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHH
T ss_conf             9999997155220052999999999857775547999999999999878999999999999984--99989999999999


Q ss_pred             HHCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHC-CCCCC-HHHHHHHHHHHHHCCCHHHH
Q ss_conf             87029599999999997533698889569999999977139969999999859-99999-98999999999962996899
Q 005481          428 CSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELG  505 (694)
Q Consensus       428 ~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a  505 (694)
                      +...|++++|...++.....  .+.+...+..+...+...|++++|++.+++. ...|+ ...|..+...+...|++++|
T Consensus       281 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A  358 (388)
T d1w3ba_         281 LKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEA  358 (388)
T ss_dssp             HHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHH
T ss_pred             HHHCCCHHHHHHHHHHHHCC--CCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHH
T ss_conf             99748799999999865404--8730010157999999878999999999999986889899999999999985999999


Q ss_pred             HHHHHHHHCCCCCCCCHHHHHHHHHHHCCC
Q ss_conf             999999973889996038979769784399
Q 005481          506 REVGEILLRLDGDNPVNYVMMSNIHADAGS  535 (694)
Q Consensus       506 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  535 (694)
                      ...++++++++|+++.+|..++.+|.+.|+
T Consensus       359 ~~~~~~al~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         359 LMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHHHCCC
T ss_conf             999999997099989999999999998589

>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=99.94  E-value=2.1e-21  Score=149.79  Aligned_cols=213  Identities=14%  Similarity=0.105  Sum_probs=173.0

Q ss_pred             CCHHHHHHHHHHHHCCCHHHHHHHHCCCC---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             82178789622330399999999971099---988625999999998149989999999998989999789999999999
Q 005481          351 DTSVSNSIVDMYLKCGLIDEATELFNEMP---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSA  427 (694)
Q Consensus       351 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  427 (694)
                      ....+..+...+...|..+.|...+++..   ..+...|..+...+...|++++|+..+++..... ..+...+..+...
T Consensus       168 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~  246 (388)
T d1w3ba_         168 FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACV  246 (388)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
T ss_conf             068998636301024719999999999998494649999997155220052999999999857775-5479999999999


Q ss_pred             HHCCCCHHHHHHHHHHHHHCCCCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHC--CCCCCHHHHHHHHHHHHHCCCHHH
Q ss_conf             8702959999999999753369888-9569999999977139969999999859--999999899999999996299689
Q 005481          428 CSHSGLVEESQEYFSRLCNDKRMKP-RIEHYSCIVDSLGRAGRLDEAKNLIESM--PVKPSIAIWQTLLSACRVHGDLEL  504 (694)
Q Consensus       428 ~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~a~~~~g~~~~  504 (694)
                      +...|++++|...|+.+.+   +.| +...+..+...+...|++++|.+.++..  ..+.+...+..+...+...|++++
T Consensus       247 ~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  323 (388)
T d1w3ba_         247 YYEQGLIDLAIDTYRRAIE---LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEE  323 (388)
T ss_dssp             HHHTTCHHHHHHHHHHHHH---TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCHHH
T ss_conf             9987899999999999998---4999899999999999974879999999986540487300101579999998789999


Q ss_pred             HHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCEEEEEECCEEEEEEECCCCCCCCHHHHH
Q ss_conf             99999999738899960389797697843992499999999983999567852299979989999818988967289999
Q 005481          505 GREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLKKVAGRSWVEVDKEIHFFYGGDDTHPLTEKIHQ  584 (694)
Q Consensus       505 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~g~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~i~~  584 (694)
                      |...++++++..|+++..+..++.+|...|++++|...+++..+.                          +|...+++.
T Consensus       324 A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l--------------------------~P~~~~a~~  377 (388)
T d1w3ba_         324 AVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--------------------------SPTFADAYS  377 (388)
T ss_dssp             HHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT--------------------------CTTCHHHHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--------------------------CCCCHHHHH
T ss_conf             999999999868898999999999999859999999999999970--------------------------999899999


Q ss_pred             HHHHHHHHH
Q ss_conf             999999997
Q 005481          585 VLMEMEKRM  593 (694)
Q Consensus       585 ~l~~l~~~~  593 (694)
                      .+..+..+|
T Consensus       378 ~lg~~~~~~  386 (388)
T d1w3ba_         378 NMGNTLKEM  386 (388)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHC
T ss_conf             999999985

>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=99.68  E-value=3.1e-14  Score=104.19  Aligned_cols=118  Identities=14%  Similarity=0.067  Sum_probs=78.4

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             9599999999997533698889569999999977139969999999859-9999-9989999999999629968999999
Q 005481          432 GLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKP-SIAIWQTLLSACRVHGDLELGREVG  509 (694)
Q Consensus       432 g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~  509 (694)
                      +...++...+..+.....-.++...+..+...+...|++++|...+++. ...| +...|..+...+...|++++|...+
T Consensus       150 ~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~  229 (323)
T d1fcha_         150 SLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAY  229 (323)
T ss_dssp             HHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHCCCCCCCCHHHHHHH
T ss_conf             57999999999999971301222111036888888887755002111222222222111013330122111101378887


Q ss_pred             HHHHCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHC
Q ss_conf             9997388999603897976978439924999999999839
Q 005481          510 EILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       510 ~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  549 (694)
                      +++++++|+++..+..++.+|...|++++|...+++..+.
T Consensus       230 ~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l  269 (323)
T d1fcha_         230 RRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNM  269 (323)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             7899884324999999999999878999999999999970

>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=1.4e-13  Score=100.04  Aligned_cols=142  Identities=15%  Similarity=0.071  Sum_probs=101.5

Q ss_pred             HCCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCC-CHHHHHHHHHHHHHCCCHHH
Q ss_conf             1499899999999989899-997899999999998702959999999999753369888-95699999999771399699
Q 005481          395 KHGLAKEAVGLFRKMLLDD-VEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKP-RIEHYSCIVDSLGRAGRLDE  472 (694)
Q Consensus       395 ~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~  472 (694)
                      ..+...++...|.+..... -.++...+..+...+...|++++|...++.....   .| +...+..++..|...|++++
T Consensus       148 ~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~  224 (323)
T d1fcha_         148 SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV---RPNDYLLWNKLGATLANGNQSEE  224 (323)
T ss_dssp             HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCC---CCCCCCCHHHHHHCCCCCCCCHH
T ss_conf             765799999999999997130122211103688888888775500211122222---22221110133301221111013


Q ss_pred             HHHHHHHC-CCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHH-----------HHHHHHHHCCCCHHH
Q ss_conf             99999859-99999-989999999999629968999999999738899960389-----------797697843992499
Q 005481          473 AKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYV-----------MMSNIHADAGSWNEC  539 (694)
Q Consensus       473 A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~-----------~l~~~~~~~g~~~~a  539 (694)
                      |.+.++++ ...|+ ..+|..++.++...|++++|...+++++++.|++...+.           .+..++...|+++.+
T Consensus       225 A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~  304 (323)
T d1fcha_         225 AVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAY  304 (323)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGH
T ss_pred             HHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH
T ss_conf             78887789988432499999999999987899999999999997097570011245999999999999999982988999

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.36  E-value=1.4e-09  Score=74.54  Aligned_cols=88  Identities=20%  Similarity=0.158  Sum_probs=34.8

Q ss_pred             HHHHHHHCCCHHHHHHHHHHC-CCCC-----CHHHHHHHHHHHHHCCCHHHHHHHHHHHHC------CCCCCCCHHHHHH
Q ss_conf             999977139969999999859-9999-----998999999999962996899999999973------8899960389797
Q 005481          460 IVDSLGRAGRLDEAKNLIESM-PVKP-----SIAIWQTLLSACRVHGDLELGREVGEILLR------LDGDNPVNYVMMS  527 (694)
Q Consensus       460 li~~~~~~g~~~~A~~~~~~~-~~~p-----~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~------~~p~~~~~~~~l~  527 (694)
                      +...+...|++++|...++.. ...|     ....+..+..++...|+++.|...+++++.      ..|.....+..++
T Consensus       219 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  298 (366)
T d1hz4a_         219 RVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLN  298 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             99999860448989999999997622466677788999999998758799999999999988764266747999999999


Q ss_pred             HHHHHCCCCHHHHHHHHHHH
Q ss_conf             69784399249999999998
Q 005481          528 NIHADAGSWNECERLRKLAR  547 (694)
Q Consensus       528 ~~~~~~g~~~~a~~~~~~~~  547 (694)
                      .+|...|++++|.+.++...
T Consensus       299 ~~~~~~g~~~~A~~~l~~Al  318 (366)
T d1hz4a_         299 QLYWQAGRKSDAQRVLLDAL  318 (366)
T ss_dssp             HHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHH
T ss_conf             99998789999999999999

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.26  E-value=4e-09  Score=71.73  Aligned_cols=93  Identities=11%  Similarity=0.033  Sum_probs=40.7

Q ss_pred             HHHHHHCCCCHHHHHHHHHHHHHCCCCCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHC-------CCCCC-HHHHHHHH
Q ss_conf             99998702959999999999753369888--9569999999977139969999999859-------99999-98999999
Q 005481          424 VLSACSHSGLVEESQEYFSRLCNDKRMKP--RIEHYSCIVDSLGRAGRLDEAKNLIESM-------PVKPS-IAIWQTLL  493 (694)
Q Consensus       424 ll~a~~~~g~~~~a~~~~~~m~~~~~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~~~ll  493 (694)
                      ....+...|+.+++...+........-.+  ....+..+...+...|++++|...+++.       +..|+ ...+..+.
T Consensus       219 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  298 (366)
T d1hz4a_         219 RVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLN  298 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             99999860448989999999997622466677788999999998758799999999999988764266747999999999


Q ss_pred             HHHHHCCCHHHHHHHHHHHHCCC
Q ss_conf             99996299689999999997388
Q 005481          494 SACRVHGDLELGREVGEILLRLD  516 (694)
Q Consensus       494 ~a~~~~g~~~~a~~~~~~~~~~~  516 (694)
                      ..+...|+.++|...+++++++.
T Consensus       299 ~~~~~~g~~~~A~~~l~~Al~l~  321 (366)
T d1hz4a_         299 QLYWQAGRKSDAQRVLLDALKLA  321 (366)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHH
T ss_conf             99998789999999999999976

>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=99.23  E-value=9.6e-09  Score=69.31  Aligned_cols=186  Identities=13%  Similarity=0.066  Sum_probs=114.4

Q ss_pred             CHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHCCCCC--C-C-HHHHHHHHHHHHHCCCHHHHHHHHH
Q ss_conf             1898999999998669999821787896223303999999999710999--8-8-6259999999981499899999999
Q 005481          332 LVEQGKQIHAYAAKVPSGLDTSVSNSIVDMYLKCGLIDEATELFNEMPV--K-N-VVTWTVIITGYGKHGLAKEAVGLFR  407 (694)
Q Consensus       332 ~~~~a~~i~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~-~~~~~~li~~~~~~g~~~~A~~~~~  407 (694)
                      ..+.+..++..+++...+.+..++..++..+.+.|+.+.|..+|+++..  | + ...|...+....+.|+.+.|..+|+
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
T ss_conf             45999999999998749987999999999998613389999999999987157869999999999998278688999999


Q ss_pred             HHHHCCCCCCHHHHHHHHH-HHHCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHC----CC
Q ss_conf             9898999978999999999-987029599999999997533698889569999999977139969999999859----99
Q 005481          408 KMLLDDVEPDGVAYLAVLS-ACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM----PV  482 (694)
Q Consensus       408 ~m~~~g~~p~~~t~~~ll~-a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~  482 (694)
                      ++...+... ...+..... -+...|+.+.|..+|+.+....  +.+...+...++.+.+.|+++.|..+|++.    +.
T Consensus       159 ~al~~~~~~-~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~--p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         159 KAREDARTR-HHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHTSTTCC-THHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHHCCCC-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC
T ss_conf             999808886-79999999999876557789999999999861--003889999999999869868999999999982789


Q ss_pred             CCC--HHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCC
Q ss_conf             999--98999999999962996899999999973889996
Q 005481          483 KPS--IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNP  520 (694)
Q Consensus       483 ~p~--~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~  520 (694)
                      .|+  ...|...+..-..+|+.+.+..+.+++.+.-|...
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~~  275 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEY  275 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTT
T ss_pred             CHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCC
T ss_conf             8689999999999999984999999999999998771102

>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=99.17  E-value=3.3e-09  Score=72.28  Aligned_cols=158  Identities=12%  Similarity=0.096  Sum_probs=75.6

Q ss_pred             HHHHHHHHCCCC---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf             999999971099---9886259999999981499899999999989899997-899999999998702959999999999
Q 005481          368 IDEATELFNEMP---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEP-DGVAYLAVLSACSHSGLVEESQEYFSR  443 (694)
Q Consensus       368 ~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~  443 (694)
                      +++|...++...   ..+..+|+.+...+...|++++|+..++++.+.  .| +...|..+...+...|++++|...++.
T Consensus        94 ~~eal~~~~~al~~~p~~~~a~~~~~~~~~~l~~~~eAl~~~~kal~~--dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~  171 (315)
T d2h6fa1          94 LHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQ  171 (315)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             999999999999887742268988758888505378899887555432--100468899887788888866789999999


Q ss_pred             HHHCCCCCC-CHHHHHHHHHHHHHCCC------HHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHC
Q ss_conf             753369888-95699999999771399------69999999859-9999-998999999999962996899999999973
Q 005481          444 LCNDKRMKP-RIEHYSCIVDSLGRAGR------LDEAKNLIESM-PVKP-SIAIWQTLLSACRVHGDLELGREVGEILLR  514 (694)
Q Consensus       444 m~~~~~~~p-~~~~~~~li~~~~~~g~------~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~  514 (694)
                      +++   +.| +...|+.+..++.+.+.      +++|++.+.++ ...| +...|..+...+.. ...+++...++.+.+
T Consensus       172 al~---~~p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~  247 (315)
T d2h6fa1         172 LLK---EDVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQD-RGLSKYPNLLNQLLD  247 (315)
T ss_dssp             HHH---HCTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHH
T ss_pred             HHH---HCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH-CCHHHHHHHHHHHHH
T ss_conf             998---7974499998899999874563102354776799999998498856999998779886-271889999999997


Q ss_pred             CCCCCCC--HHHHHHHHHH
Q ss_conf             8899960--3897976978
Q 005481          515 LDGDNPV--NYVMMSNIHA  531 (694)
Q Consensus       515 ~~p~~~~--~~~~l~~~~~  531 (694)
                      +.|+...  .+..++.+|.
T Consensus       248 l~~~~~~~~~~~~l~~~y~  266 (315)
T d2h6fa1         248 LQPSHSSPYLIAFLVDIYE  266 (315)
T ss_dssp             HTTTCCCHHHHHHHHHHHH
T ss_pred             HCCCCCCHHHHHHHHHHHH
T ss_conf             2877578999999999999

>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=7e-10  Score=76.54  Aligned_cols=180  Identities=10%  Similarity=0.080  Sum_probs=78.9

Q ss_pred             HHHCCCHHHHHHHHCCCC---CCCHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHCCCCHHH
Q ss_conf             330399999999971099---988625999999998149-98999999999898999978-9999999999870295999
Q 005481          362 YLKCGLIDEATELFNEMP---VKNVVTWTVIITGYGKHG-LAKEAVGLFRKMLLDDVEPD-GVAYLAVLSACSHSGLVEE  436 (694)
Q Consensus       362 ~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~  436 (694)
                      +.+.+..++|...++++.   ..+...|+....++...| +.++|+..+++....  .|+ ..+|......+...|++++
T Consensus        53 ~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~--~p~~~~a~~~~~~~~~~l~~~~e  130 (315)
T d2h6fa1          53 LQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE--QPKNYQVWHHRRVLVEWLRDPSQ  130 (315)
T ss_dssp             HHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTT
T ss_pred             HHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHCCHHH
T ss_conf             9958866999999999998798876999999999998376799999999999988--77422689887588885053788


Q ss_pred             HHHHHHHHHHCCCCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCC------HHHHHH
Q ss_conf             9999999753369888-9569999999977139969999999859-9999-99899999999996299------689999
Q 005481          437 SQEYFSRLCNDKRMKP-RIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKP-SIAIWQTLLSACRVHGD------LELGRE  507 (694)
Q Consensus       437 a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g~------~~~a~~  507 (694)
                      |...+..+++   +.| +...|..++.++...|++++|++.++++ ...| +...|..+...+...+.      .+.|..
T Consensus       131 Al~~~~kal~---~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~  207 (315)
T d2h6fa1         131 ELEFIADILN---QDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAVLEREVQ  207 (315)
T ss_dssp             HHHHHHHHHH---HCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHH
T ss_pred             HHHHHHHHHH---HHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHH
T ss_conf             9988755543---2100468899887788888866789999999998797449999889999987456310235477679


Q ss_pred             HHHHHHCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             9999973889996038979769784399249999999998
Q 005481          508 VGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLAR  547 (694)
Q Consensus       508 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  547 (694)
                      .+.+++++.|++...+..++.++...| .+++.+..+...
T Consensus       208 ~~~~al~~~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~  246 (315)
T d2h6fa1         208 YTLEMIKLVPHNESAWNYLKGILQDRG-LSKYPNLLNQLL  246 (315)
T ss_dssp             HHHHHHHHSTTCHHHHHHHHHHHTTTC-GGGCHHHHHHHH
T ss_pred             HHHHHHHHCCCCHHHHHHHHHHHHHCC-HHHHHHHHHHHH
T ss_conf             999999849885699999877988627-188999999999

>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=99.11  E-value=1.7e-07  Score=61.33  Aligned_cols=184  Identities=10%  Similarity=0.047  Sum_probs=118.4

Q ss_pred             HCCCHHHHHHHHCCCC----CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHH
Q ss_conf             0399999999971099----988625999999998149989999999998989999789999999999870295999999
Q 005481          364 KCGLIDEATELFNEMP----VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQE  439 (694)
Q Consensus       364 ~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~  439 (694)
                      ..+..++|..+|++..    ..+...|...+..+...|+.+.|..+|+++...........+...+..+.+.+..+.|++
T Consensus        76 ~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~  155 (308)
T d2onda1          76 AKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRM  155 (308)
T ss_dssp             HHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCHHHHHH
T ss_conf             10245999999999998749987999999999998613389999999999987157869999999999998278688999


Q ss_pred             HHHHHHHCCCCCCCHHHHHHHHHH-HHHCCCHHHHHHHHHHC--CCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCC
Q ss_conf             999975336988895699999999-77139969999999859--999999899999999996299689999999997388
Q 005481          440 YFSRLCNDKRMKPRIEHYSCIVDS-LGRAGRLDEAKNLIESM--PVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLD  516 (694)
Q Consensus       440 ~~~~m~~~~~~~p~~~~~~~li~~-~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~  516 (694)
                      +|..+.+..  +.+...|...... +...|+.+.|..+|+.+  ..+.+...|...+......|+.+.|..++++++...
T Consensus       156 i~~~al~~~--~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~  233 (308)
T d2onda1         156 IFKKAREDA--RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG  233 (308)
T ss_dssp             HHHHHHTST--TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHC--CCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
T ss_conf             999999808--886799999999998765577899999999998610038899999999998698689999999999827


Q ss_pred             CCCCC----HHHHHHHHHHHCCCCHHHHHHHHHHHHC
Q ss_conf             99960----3897976978439924999999999839
Q 005481          517 GDNPV----NYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       517 p~~~~----~~~~l~~~~~~~g~~~~a~~~~~~~~~~  549 (694)
                      |.++.    .|...+..-...|+.+.+..+.+++.+.
T Consensus       234 ~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         234 SLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             SSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             8986899999999999999849999999999999987

>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=99.10  E-value=2.4e-09  Score=73.08  Aligned_cols=165  Identities=15%  Similarity=-0.019  Sum_probs=68.5

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHCCCC---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHC
Q ss_conf             78789622330399999999971099---988625999999998149989999999998989999789999999999870
Q 005481          354 VSNSIVDMYLKCGLIDEATELFNEMP---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSH  430 (694)
Q Consensus       354 ~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  430 (694)
                      ++..+..+|.+.|++++|...|+++.   ..+..+|..+...+...|++++|...|++..+.. +.+......+......
T Consensus        73 a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~  151 (259)
T d1xnfa_          73 VFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQK  151 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHH
T ss_conf             996004278887778875234468999876111158889999998766799999999998653-0007888999999988


Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCC----HHHHHHHHHHC-CCCCC-HHHHHHHHHHHHHCCCHHH
Q ss_conf             295999999999975336988895699999999771399----69999999859-99999-9899999999996299689
Q 005481          431 SGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGR----LDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLEL  504 (694)
Q Consensus       431 ~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~----~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~  504 (694)
                      .+..+....+......   ..+....+. ++..+.....    .+.+...+... ...|+ ..+|..+...+...|+++.
T Consensus       152 ~~~~~~~~~~~~~~~~---~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~  227 (259)
T d1xnfa_         152 LDEKQAKEVLKQHFEK---SDKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDS  227 (259)
T ss_dssp             HCHHHHHHHHHHHHHH---SCCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHHC---CCHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHH
T ss_conf             5358789999987640---314443455-778888887777789999999998664084509999999999998789999


Q ss_pred             HHHHHHHHHCCCCCCCCHH
Q ss_conf             9999999973889996038
Q 005481          505 GREVGEILLRLDGDNPVNY  523 (694)
Q Consensus       505 a~~~~~~~~~~~p~~~~~~  523 (694)
                      |...+++++...|++...|
T Consensus       228 A~~~~~~al~~~p~~~~~~  246 (259)
T d1xnfa_         228 ATALFKLAVANNVHNFVEH  246 (259)
T ss_dssp             HHHHHHHHHTTCCTTCHHH
T ss_pred             HHHHHHHHHHCCCCCHHHH
T ss_conf             9999999998399779999

>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=99.09  E-value=9.8e-11  Score=81.98  Aligned_cols=167  Identities=8%  Similarity=-0.078  Sum_probs=106.0

Q ss_pred             HHHHHHHCCCHHHHHHHHCCCCC---CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCH
Q ss_conf             96223303999999999710999---886259999999981499899999999989899997899999999998702959
Q 005481          358 IVDMYLKCGLIDEATELFNEMPV---KNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLV  434 (694)
Q Consensus       358 li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~  434 (694)
                      ....+...+..++|...++....   .+...|+.+...+...|++++|...+.+...  +.|+..   .....+...+..
T Consensus       150 ~~~~~~~~~~~~~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~---~~~~~~~~l~~~  224 (334)
T d1dcea1         150 RFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPEN--VLLKEL---ELVQNAFFTDPN  224 (334)
T ss_dssp             HHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHH--HHHHHH---HHHHHHHHHCSS
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHH--HHHHHH---HHHHHHHHHCCH
T ss_conf             899987445528999999998871898799999999999982688989998877677--689999---999999882441


Q ss_pred             HHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHC-CCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHH
Q ss_conf             9999999997533698889569999999977139969999999859-99999-989999999999629968999999999
Q 005481          435 EESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEIL  512 (694)
Q Consensus       435 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~  512 (694)
                      +++...+.......  .+....+..++..+...|+.++|...+.+. +..|+ ...|..+...+...|+.++|...++++
T Consensus       225 ~~a~~~~~~~l~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~a  302 (334)
T d1dcea1         225 DQSAWFYHRWLLGR--AEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTL  302 (334)
T ss_dssp             CSHHHHHHHHHHSC--CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
T ss_conf             48899999887718--6605678879999999866999999999887629137999999999998789999999999999


Q ss_pred             HCCCCCCCCHHHHHHHHHH
Q ss_conf             7388999603897976978
Q 005481          513 LRLDGDNPVNYVMMSNIHA  531 (694)
Q Consensus       513 ~~~~p~~~~~~~~l~~~~~  531 (694)
                      ++++|++...|..|...+.
T Consensus       303 i~ldP~~~~y~~~L~~~~~  321 (334)
T d1dcea1         303 KAVDPMRAAYLDDLRSKFL  321 (334)
T ss_dssp             HHHCGGGHHHHHHHHHHHH
T ss_pred             HHHCCCCHHHHHHHHHHHH
T ss_conf             9879663999999999986

>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=99.06  E-value=1.7e-09  Score=74.02  Aligned_cols=189  Identities=14%  Similarity=0.019  Sum_probs=92.2

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHCCCC---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHC
Q ss_conf             8789622330399999999971099---98862599999999814998999999999898999978-9999999999870
Q 005481          355 SNSIVDMYLKCGLIDEATELFNEMP---VKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPD-GVAYLAVLSACSH  430 (694)
Q Consensus       355 ~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~  430 (694)
                      +..+..+|.+.|++++|...|++..   ..+..+|+.+..++...|++++|+..|+++...  .|+ ..++..+..++..
T Consensus        40 ~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~  117 (259)
T d1xnfa_          40 LYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIALYY  117 (259)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCHHHHHHHCHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHH
T ss_conf             9999999998799999999999854349998899960042788877788752344689998--76111158889999998


Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHC-CCCCCHHHHHHHHHHHHH----CCCHHH
Q ss_conf             29599999999997533698889-569999999977139969999999859-999999899999999996----299689
Q 005481          431 SGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPSIAIWQTLLSACRV----HGDLEL  504 (694)
Q Consensus       431 ~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~a~~~----~g~~~~  504 (694)
                      .|++++|...|+...+.   .|+ ......+...+.+.+..+.+..+.... ...+....+.. +..+..    .+..+.
T Consensus       118 ~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  193 (259)
T d1xnfa_         118 GGRDKLAQDDLLAFYQD---DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNI-VEFYLGNISEQTLMER  193 (259)
T ss_dssp             TTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHH-HHHHTTSSCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH-HHHHHHHHHHHHHHHH
T ss_conf             76679999999999865---3000788899999998853587899999876403144434557-7888888777778999


Q ss_pred             HHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHC
Q ss_conf             999999997388999603897976978439924999999999839
Q 005481          505 GREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       505 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  549 (694)
                      +...+.......|.....|..++.+|...|++++|...++.....
T Consensus       194 ~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  238 (259)
T d1xnfa_         194 LKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  238 (259)
T ss_dssp             HHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHC
T ss_conf             999999866408450999999999999878999999999999983

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.93  E-value=6.9e-10  Score=76.60  Aligned_cols=49  Identities=6%  Similarity=-0.237  Sum_probs=17.9

Q ss_pred             HCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf             6299689999999997388999603897976978439924999999999
Q 005481          498 VHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLA  546 (694)
Q Consensus       498 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  546 (694)
                      ..++.+.|...+.+..+.+|.+...+..++.+|...|++++|.+.++..
T Consensus       254 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~a  302 (334)
T d1dcea1         254 VLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTL  302 (334)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
T ss_conf             9866999999999887629137999999999998789999999999999

>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=98.68  E-value=1.9e-07  Score=61.01  Aligned_cols=104  Identities=7%  Similarity=-0.084  Sum_probs=46.9

Q ss_pred             CCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHC-CCCCC-HHHHHHHH
Q ss_conf             78999999999987029599999999997533698889569999999977139969999999859-99999-98999999
Q 005481          416 PDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLL  493 (694)
Q Consensus       416 p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll  493 (694)
                      |+...+......+...|++++|...|..++...  +.+...|..++.+|.+.|++++|+..++++ ...|+ ...|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~--p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHH
T ss_conf             649999999999998699999999999999859--998999981789874100000124788888871887389999999


Q ss_pred             HHHHHCCCHHHHHHHHHHHHCCCCCCCC
Q ss_conf             9999629968999999999738899960
Q 005481          494 SACRVHGDLELGREVGEILLRLDGDNPV  521 (694)
Q Consensus       494 ~a~~~~g~~~~a~~~~~~~~~~~p~~~~  521 (694)
                      .++...|+++.|...++++++++|++..
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~~~~  107 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKEQRL  107 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCCCCHH
T ss_conf             9999879999999999999874955679

>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=98.65  E-value=1e-06  Score=56.47  Aligned_cols=83  Identities=12%  Similarity=-0.034  Sum_probs=42.3

Q ss_pred             HHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHCCCCHHHHHHH
Q ss_conf             33039999999997109998862599999999814998999999999898999978-99999999998702959999999
Q 005481          362 YLKCGLIDEATELFNEMPVKNVVTWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPD-GVAYLAVLSACSHSGLVEESQEY  440 (694)
Q Consensus       362 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~  440 (694)
                      +...|+++.|.+.|.++..++...|..+..+|...|++++|+..|++.++.  .|+ ...|..+..++.+.|++++|...
T Consensus        15 ~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l--dp~~~~a~~~~g~~~~~~g~~~~A~~~   92 (192)
T d1hh8a_          15 AADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYYQTEKYDLAIKD   92 (192)
T ss_dssp             HHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHCCHHHHHHH
T ss_conf             998779999999998648988999999999999858914678789999998--552346678899999854249999999


Q ss_pred             HHHHHH
Q ss_conf             999753
Q 005481          441 FSRLCN  446 (694)
Q Consensus       441 ~~~m~~  446 (694)
                      |++...
T Consensus        93 ~~kAl~   98 (192)
T d1hh8a_          93 LKEALI   98 (192)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
T ss_conf             999998

>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=98.63  E-value=6.3e-07  Score=57.77  Aligned_cols=23  Identities=9%  Similarity=-0.236  Sum_probs=10.7

Q ss_pred             HHHHCCCHHHHHHHHHHHHCCCC
Q ss_conf             99962996899999999973889
Q 005481          495 ACRVHGDLELGREVGEILLRLDG  517 (694)
Q Consensus       495 a~~~~g~~~~a~~~~~~~~~~~p  517 (694)
                      .+...++.+.|...+++..+.+|
T Consensus       208 ~~l~~~d~~~A~~~~~~~~~~~~  230 (290)
T d1qqea_         208 CQLAATDAVAAARTLQEGQSEDP  230 (290)
T ss_dssp             HHHHTTCHHHHHHHHHGGGCC--
T ss_pred             HHHHHCCHHHHHHHHHHHHHHCC
T ss_conf             99984659999999999997597

>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=98.59  E-value=2.7e-07  Score=60.07  Aligned_cols=97  Identities=14%  Similarity=0.062  Sum_probs=57.9

Q ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHH
Q ss_conf             89569999999977139969999999859-9999-998999999999962996899999999973889996038979769
Q 005481          452 PRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKP-SIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNI  529 (694)
Q Consensus       452 p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  529 (694)
                      |+...+...+..|.+.|++++|+..|+++ ...| +...|..+..++...|+++.|...++++++++|+++.+|..++.+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~   81 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   81 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             64999999999999869999999999999985999899998178987410000012478888887188738999999999


Q ss_pred             HHHCCCCHHHHHHHHHHHH
Q ss_conf             7843992499999999983
Q 005481          530 HADAGSWNECERLRKLARS  548 (694)
Q Consensus       530 ~~~~g~~~~a~~~~~~~~~  548 (694)
                      |...|++++|...++.+.+
T Consensus        82 ~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          82 QLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH
T ss_conf             9987999999999999987

>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=98.57  E-value=1.8e-06  Score=54.88  Aligned_cols=97  Identities=12%  Similarity=-0.038  Sum_probs=42.8

Q ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHC-CCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCC----------
Q ss_conf             9569999999977139969999999859-99999-98999999999962996899999999973889996----------
Q 005481          453 RIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNP----------  520 (694)
Q Consensus       453 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~----------  520 (694)
                      +...+..++.+|...|++++|++.|++. ...|+ ...|..+..++...|++++|...++++++..|.++          
T Consensus        35 ~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~  114 (192)
T d1hh8a_          35 HSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQ  114 (192)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBC
T ss_pred             CHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
T ss_conf             89999999999998589146787899999985523466788999998542499999999999986726736789986654


Q ss_pred             ------CHHHHHHHHHHHCCCCHHHHHHHHHHHHC
Q ss_conf             ------03897976978439924999999999839
Q 005481          521 ------VNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       521 ------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  549 (694)
                            ..+..++.+|...|++++|.+.++.....
T Consensus       115 ~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_         115 FKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             CEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             CCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHC
T ss_conf             36305889999999999978999999999999836

>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=98.54  E-value=4.5e-06  Score=52.34  Aligned_cols=25  Identities=16%  Similarity=0.315  Sum_probs=9.4

Q ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf             9999999870295999999999975
Q 005481          421 YLAVLSACSHSGLVEESQEYFSRLC  445 (694)
Q Consensus       421 ~~~ll~a~~~~g~~~~a~~~~~~m~  445 (694)
                      +..+...+...|++++|...|+.+.
T Consensus       161 ~~~la~~~~~~g~y~~A~~~~~~~~  185 (290)
T d1qqea_         161 FIKCADLKALDGQYIEASDIYSKLI  185 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHH
T ss_conf             8999999998173999999999999

>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=98.47  E-value=2.2e-06  Score=54.28  Aligned_cols=101  Identities=9%  Similarity=0.033  Sum_probs=48.6

Q ss_pred             HHHHCCCCHHHHHHHHHHHHHCCCCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHC-CCCCC-HHHHHHHHHHHHHCCCH
Q ss_conf             998702959999999999753369888-9569999999977139969999999859-99999-98999999999962996
Q 005481          426 SACSHSGLVEESQEYFSRLCNDKRMKP-RIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDL  502 (694)
Q Consensus       426 ~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~  502 (694)
                      ..+.+.|++++|...|+++++   +.| +...|..+...|...|++++|...|+++ ...|+ ...|..++.++...|++
T Consensus        18 n~~~~~~~y~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          18 NDYFKAKDYENAIKFYSQAIE---LNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHCCCHHHHHHHHHHCCC---CCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCH
T ss_conf             999995899999998660211---00011333245678887405421288889999987544668779999999994999


Q ss_pred             HHHHHHHHHHHCCCCCCCCHHHHHHHH
Q ss_conf             899999999973889996038979769
Q 005481          503 ELGREVGEILLRLDGDNPVNYVMMSNI  529 (694)
Q Consensus       503 ~~a~~~~~~~~~~~p~~~~~~~~l~~~  529 (694)
                      ++|...++++++++|+++..+..+..+
T Consensus        95 ~eA~~~~~~a~~~~p~~~~~~~~l~~~  121 (159)
T d1a17a_          95 RAALRDYETVVKVKPHDKDAKMKYQEC  121 (159)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCCHHHHHHHHHH
T ss_conf             999998999987299979999999999

>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=98.44  E-value=3.1e-06  Score=53.39  Aligned_cols=88  Identities=16%  Similarity=0.151  Sum_probs=42.8

Q ss_pred             HHHHHHCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCHH
Q ss_conf             99977139969999999859-9999-998999999999962996899999999973889996038979769784399249
Q 005481          461 VDSLGRAGRLDEAKNLIESM-PVKP-SIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNE  538 (694)
Q Consensus       461 i~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  538 (694)
                      +..+...|++++|+..|++. ...| +...|..+..++...|+++.|...++++++++|+++..|..++.+|...|++++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~~   89 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEE   89 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHCCCHHH
T ss_conf             99999969999999999998861996013430001101100001121001346777402202677889999998127999


Q ss_pred             HHHHHHHHHH
Q ss_conf             9999999983
Q 005481          539 CERLRKLARS  548 (694)
Q Consensus       539 a~~~~~~~~~  548 (694)
                      |...++...+
T Consensus        90 A~~~~~~a~~   99 (117)
T d1elwa_          90 AKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHH
T ss_conf             9999999998

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.44  E-value=2.7e-06  Score=53.72  Aligned_cols=93  Identities=11%  Similarity=0.025  Sum_probs=71.5

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHC-CCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCC
Q ss_conf             999999977139969999999859-99999-9899999999996299689999999997388999603897976978439
Q 005481          457 YSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAG  534 (694)
Q Consensus       457 ~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  534 (694)
                      +...+..|.+.|++++|+..|++. ...|+ ...|..+...+...|+++.|...++++++++|.+..+|..++.+|...|
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCC
T ss_conf             99999999995899999998660211000113332456788874054212888899999875446687799999999949


Q ss_pred             CCHHHHHHHHHHHHC
Q ss_conf             924999999999839
Q 005481          535 SWNECERLRKLARSK  549 (694)
Q Consensus       535 ~~~~a~~~~~~~~~~  549 (694)
                      ++++|...++.....
T Consensus        93 ~~~eA~~~~~~a~~~  107 (159)
T d1a17a_          93 KFRAALRDYETVVKV  107 (159)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHC
T ss_conf             999999989999872

>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=98.42  E-value=5.2e-06  Score=51.91  Aligned_cols=107  Identities=14%  Similarity=0.061  Sum_probs=84.7

Q ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHC-CCC-CCHHHHHHHHHHHHHCC
Q ss_conf             9999987029599999999997533698889569999999977139969999999859-999-99989999999999629
Q 005481          423 AVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVK-PSIAIWQTLLSACRVHG  500 (694)
Q Consensus       423 ~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~ll~a~~~~g  500 (694)
                      .-...+...|++++|...|..+++..  +.+...|..+..+|...|++++|+..+++. ... .+...|..+..++...|
T Consensus         8 ~~g~~~~~~g~~~eAi~~~~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~   85 (117)
T d1elwa_           8 EKGNKALSVGNIDDALQCYSEAIKLD--PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLN   85 (117)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHCC--CCCHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHCC
T ss_conf             99999999699999999999988619--9601343000110110000112100134677740220267788999999812


Q ss_pred             CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHH
Q ss_conf             9689999999997388999603897976978
Q 005481          501 DLELGREVGEILLRLDGDNPVNYVMMSNIHA  531 (694)
Q Consensus       501 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  531 (694)
                      ++++|...++++++++|+++..+..+.++-+
T Consensus        86 ~~~~A~~~~~~a~~~~p~~~~~~~~l~~l~~  116 (117)
T d1elwa_          86 RFEEAKRTYEEGLKHEANNPQLKEGLQNMEA  116 (117)
T ss_dssp             CHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHCCCCHHHHHHHHHHHC
T ss_conf             7999999999999849898999999997838

>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=98.30  E-value=8e-06  Score=50.74  Aligned_cols=79  Identities=11%  Similarity=-0.025  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCC
Q ss_conf             999999977139969999999859-9999-99899999999996299689999999997388999603897976978439
Q 005481          457 YSCIVDSLGRAGRLDEAKNLIESM-PVKP-SIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAG  534 (694)
Q Consensus       457 ~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  534 (694)
                      |..+..+|.+.|++++|+..+++. ...| +...|..+..++...|+++.|...++++++++|+++.....+..+....+
T Consensus        65 ~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~  144 (170)
T d1p5qa1          65 HLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIR  144 (170)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH
T ss_conf             99999998864211011000000010022310346777999987222999999999999729898999999999999999


Q ss_pred             C
Q ss_conf             9
Q 005481          535 S  535 (694)
Q Consensus       535 ~  535 (694)
                      .
T Consensus       145 ~  145 (170)
T d1p5qa1         145 R  145 (170)
T ss_dssp             H
T ss_pred             H
T ss_conf             9

>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=98.29  E-value=2.1e-05  Score=48.11  Aligned_cols=63  Identities=13%  Similarity=-0.003  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHC
Q ss_conf             899999999996299689999999997388999603897976978439924999999999839
Q 005481          487 AIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       487 ~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  549 (694)
                      .++..+..++.+.|+++.|+..++++++++|.++.++..++.+|...|++++|...++...+.
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             999999999886421101100000001002231034677799998722299999999999972

>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=98.28  E-value=3.5e-07  Score=59.35  Aligned_cols=108  Identities=3%  Similarity=-0.262  Sum_probs=46.9

Q ss_pred             CCCHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHH
Q ss_conf             01099999999936991389999999887799999305999999980359915799999999991999985145598999
Q 005481          179 LITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGGTQIHGFLITSGFPYSVKTVIAGSLV  258 (694)
Q Consensus       179 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~li  258 (694)
                      ...+..+...+.+.|+.+.|...+.......   ...++..+...+...++++.|...+..+.+..+   .+...++.|.
T Consensus       120 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P---~~~~~~~~Lg  193 (497)
T d1ya0a1         120 RVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLVP---SNGQPYNQLA  193 (497)
T ss_dssp             -----------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---TBSHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHCCC---HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC---CCHHHHHHHH
T ss_conf             9999985799875899999999999882788---999999999999980247899999999998789---9659999999


Q ss_pred             HHHHHCCCHHHHHHHHHHCCC---CCHHHHHHHHHHH
Q ss_conf             999981999899999962598---9921599999999
Q 005481          259 DFYVKCGCLVEARRVFDLIEQ---KSVISWSSLILGY  292 (694)
Q Consensus       259 ~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~  292 (694)
                      ..|...|+..+|...|.+...   +-..++..|...+
T Consensus       194 ~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~  230 (497)
T d1ya0a1         194 ILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKAL  230 (497)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
T ss_conf             9999869999999999999817999789999999999

>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=98.23  E-value=0.00012  Score=43.27  Aligned_cols=114  Identities=9%  Similarity=-0.012  Sum_probs=60.6

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHH----CCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----CCCHH
Q ss_conf             95999999999975336988895699999999771----39969999999859999999899999999996----29968
Q 005481          432 GLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGR----AGRLDEAKNLIESMPVKPSIAIWQTLLSACRV----HGDLE  503 (694)
Q Consensus       432 g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~ll~a~~~----~g~~~  503 (694)
                      .....+...+.....    ..+...+..|...|..    ..+...+...++......+......+...+..    ..+.+
T Consensus       124 ~~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~  199 (265)
T d1ouva_         124 RDFKKAVEYFTKACD----LNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFK  199 (265)
T ss_dssp             CCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHH
T ss_pred             CHHHHHHHHHHHHHC----CCCCCHHHHHHHHHCCCCCCCCCCCCCHHHHHCCCCCCCCCCCCCHHHHCCCCCCCCCCHH
T ss_conf             015778887555200----1110104455556406887433422000122113232222332211312126765431034


Q ss_pred             HHHHHHHHHHCCCCCCCCHHHHHHHHHHH----CCCCHHHHHHHHHHHHCCC
Q ss_conf             99999999973889996038979769784----3992499999999983999
Q 005481          504 LGREVGEILLRLDGDNPVNYVMMSNIHAD----AGSWNECERLRKLARSKGL  551 (694)
Q Consensus       504 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~g~  551 (694)
                      .|...++++.+.+  ++..+..|+.+|..    ..+.++|.+.+++..+.|.
T Consensus       200 ~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         200 EALARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHCCC--CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCC
T ss_conf             4454676653036--8999999999998399976189999999999998769

>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=98.22  E-value=2.7e-06  Score=53.77  Aligned_cols=90  Identities=14%  Similarity=-0.005  Sum_probs=78.1

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHC-CCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCC
Q ss_conf             999999977139969999999859-99999-9899999999996299689999999997388999603897976978439
Q 005481          457 YSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAG  534 (694)
Q Consensus       457 ~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  534 (694)
                      ...++..+.+.|++++|...+++. ...|+ ...|..+..++...++++.|+..++++++++|+++..+..++.+|...|
T Consensus        19 ~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          19 PMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHCC
T ss_conf             99999999987605899998861011211110012335456410125877410000011111100000378999999978


Q ss_pred             CCHHHHHHHHHH
Q ss_conf             924999999999
Q 005481          535 SWNECERLRKLA  546 (694)
Q Consensus       535 ~~~~a~~~~~~~  546 (694)
                      ++++|.+.+++.
T Consensus        99 ~~~~A~~~l~~~  110 (112)
T d1hxia_          99 NANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHH
T ss_conf             999999999998

>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=98.16  E-value=1e-05  Score=50.09  Aligned_cols=107  Identities=14%  Similarity=-0.049  Sum_probs=76.9

Q ss_pred             HHHHHHHHCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCH---HHHHHHHHHC-CCCCCH---HHHHHHHH
Q ss_conf             9999998702959999999999753369888956999999997713996---9999999859-999999---89999999
Q 005481          422 LAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRL---DEAKNLIESM-PVKPSI---AIWQTLLS  494 (694)
Q Consensus       422 ~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~---~~A~~~~~~~-~~~p~~---~~~~~ll~  494 (694)
                      ..+++.+...+++++|.+.|+......  +.+..++..+..++.+.++.   ++|+.+++++ ...|+.   .+|..+..
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~--p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG--SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS--CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
T ss_conf             779887369999999999999988329--998999999999999851267899999999999860699319999999999


Q ss_pred             HHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHH
Q ss_conf             999629968999999999738899960389797697
Q 005481          495 ACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIH  530 (694)
Q Consensus       495 a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  530 (694)
                      +|...|+++.|...++++++++|++..+......+.
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~I~  116 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLID  116 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             999973169999999999976909899999999999

>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=98.15  E-value=6e-05  Score=45.18  Aligned_cols=61  Identities=15%  Similarity=0.064  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf             9999999999629968999999999738899960389797697843992499999999983
Q 005481          488 IWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       488 ~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  548 (694)
                      ++..+..++...|+++.|...++++++++|.+..+|..++.+|...|++++|...++...+
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~  129 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAAS  129 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCHHHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
T ss_conf             9961999999846530111010001000000012467768999996899999999999998

>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=98.11  E-value=6.6e-05  Score=44.92  Aligned_cols=79  Identities=9%  Similarity=-0.011  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHC-CCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCC
Q ss_conf             999999977139969999999859-999-999899999999996299689999999997388999603897976978439
Q 005481          457 YSCIVDSLGRAGRLDEAKNLIESM-PVK-PSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAG  534 (694)
Q Consensus       457 ~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  534 (694)
                      |..+..+|.+.|++++|+..+++. ... .+...|..+..++...|++++|...++++++++|+++.....+..+....+
T Consensus        67 ~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~  146 (168)
T d1kt1a1          67 FLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKAK  146 (168)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH
T ss_conf             98499998776220110002232220131048899988999988278999999999999859898999999999999998


Q ss_pred             C
Q ss_conf             9
Q 005481          535 S  535 (694)
Q Consensus       535 ~  535 (694)
                      .
T Consensus       147 ~  147 (168)
T d1kt1a1         147 E  147 (168)
T ss_dssp             H
T ss_pred             H
T ss_conf             6

>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=4.5e-05  Score=45.94  Aligned_cols=61  Identities=10%  Similarity=-0.068  Sum_probs=31.9

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf             9999999999629968999999999738899960389797697843992499999999983
Q 005481          488 IWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       488 ~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  548 (694)
                      .|..+..++...|+++.|+..++++++++|+++.+|..++.+|...|++++|.+.++...+
T Consensus        79 ~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~  139 (169)
T d1ihga1          79 CVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQE  139 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
T ss_conf             9998999998640210136665544310002236777699999980479999999999998

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.05  E-value=0.00013  Score=43.04  Aligned_cols=63  Identities=11%  Similarity=-0.007  Sum_probs=50.2

Q ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHC
Q ss_conf             899999999996299689999999997388999603897976978439924999999999839
Q 005481          487 AIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSK  549 (694)
Q Consensus       487 ~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  549 (694)
                      .++..+..++...|++++|...++++++++|.+..+|..++.+|...|++++|...++.+.+.
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             999849999877622011000223222013104889998899998827899999999999985

>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=98.04  E-value=5.7e-06  Score=51.69  Aligned_cols=57  Identities=9%  Similarity=-0.012  Sum_probs=24.6

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHCCC---CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             98999999981999899999962598---9921599999999807997799999999875
Q 005481          254 AGSLVDFYVKCGCLVEARRVFDLIEQ---KSVISWSSLILGYAQEENLAEAMELFRQLRE  310 (694)
Q Consensus       254 ~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  310 (694)
                      +..+.+.+...+++++|...|.+..+   .+..+|+.+...+...|+..+|+..|.+...
T Consensus       155 ~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~  214 (497)
T d1ya0a1         155 LVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIA  214 (497)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
T ss_conf             999999999802478999999999987899659999999999986999999999999981

>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=98.01  E-value=3.1e-05  Score=47.02  Aligned_cols=128  Identities=8%  Similarity=0.002  Sum_probs=84.6

Q ss_pred             HHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCC-CHHHHHHHHHHHHHC
Q ss_conf             9999981499899999999989899997899999999998702959999999999753369888-956999999997713
Q 005481          389 IITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKP-RIEHYSCIVDSLGRA  467 (694)
Q Consensus       389 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~  467 (694)
                      ....+...|++.+|+..|.+++..  .+          ...........       .   .+.| ....+..+..++.+.
T Consensus        33 ~~~~~~~~~~y~~Ai~~y~~al~~--~~----------~~~~~~~~~~~-------~---~~~~~~~~~~~nla~~~~~~   90 (169)
T d1ihga1          33 IGNTFFKSQNWEMAIKKYTKVLRY--VE----------GSRAAAEDADG-------A---KLQPVALSCVLNIGACKLKM   90 (169)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--HH----------HHHHHSCHHHH-------G---GGHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHH--HH----------HHHHHHHHHHH-------H---HHCHHHHHHHHHHHHHHHHH
T ss_conf             999999908899999999999874--11----------11666655778-------7---71902399999899999864


Q ss_pred             CCHHHHHHHHHHC-CCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCHH
Q ss_conf             9969999999859-99999-98999999999962996899999999973889996038979769784399249
Q 005481          468 GRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNE  538 (694)
Q Consensus       468 g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  538 (694)
                      |++++|+..++++ ...|+ ...|..+..++...|+++.|...++++++++|+++..+..+..++.......+
T Consensus        91 ~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~~l~~~~~  163 (169)
T d1ihga1          91 SDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKD  163 (169)
T ss_dssp             TCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             0210136665544310002236777699999980479999999999998598999999999999999998999

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.94  E-value=0.00015  Score=42.62  Aligned_cols=126  Identities=11%  Similarity=-0.096  Sum_probs=76.0

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH
Q ss_conf             59999999981499899999999989899997899999999998702959999999999753369888956999999997
Q 005481          385 TWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSL  464 (694)
Q Consensus       385 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~  464 (694)
                      .+......+.+.|++.+|+..|.+.+..-  |...           ...-........        ......|..+...|
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~--~~~~-----------~~~~~~~~~~~~--------~~~~~~~~Nla~~~   77 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFF--IHTE-----------EWDDQILLDKKK--------NIEISCNLNLATCY   77 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTCT-----------TCCCHHHHHHHH--------HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHC--CCHH-----------HHHHHHHHHHHH--------HHHHHHHHHHHHHH
T ss_conf             99999999999599999999999877607--3001-----------110577887631--------07889996199999


Q ss_pred             HHCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHH
Q ss_conf             7139969999999859-9999-99899999999996299689999999997388999603897976978
Q 005481          465 GRAGRLDEAKNLIESM-PVKP-SIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHA  531 (694)
Q Consensus       465 ~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  531 (694)
                      .+.|++++|++.++++ ...| +...|..++.++...|+++.|...++++++++|+++.....+..+..
T Consensus        78 ~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~  146 (153)
T d2fbna1          78 NKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVN  146 (153)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHCCCCHHHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
T ss_conf             984653011101000100000001246776899999689999999999999829898999999999999

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.90  E-value=4.4e-05  Score=46.04  Aligned_cols=91  Identities=10%  Similarity=-0.020  Sum_probs=49.9

Q ss_pred             HHHHHHHHHCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCC--CCHHHHHHHHH
Q ss_conf             99999977139969999999859-9999-9989999999999629---9689999999997388999--60389797697
Q 005481          458 SCIVDSLGRAGRLDEAKNLIESM-PVKP-SIAIWQTLLSACRVHG---DLELGREVGEILLRLDGDN--PVNYVMMSNIH  530 (694)
Q Consensus       458 ~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g---~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~  530 (694)
                      ..+++.+...+++++|++.|++. ...| +..++..+..++...+   +.++|...++++++.+|.+  ..++..++.+|
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
T ss_conf             77988736999999999999998832999899999999999985126789999999999986069931999999999999


Q ss_pred             HHCCCCHHHHHHHHHHHH
Q ss_conf             843992499999999983
Q 005481          531 ADAGSWNECERLRKLARS  548 (694)
Q Consensus       531 ~~~g~~~~a~~~~~~~~~  548 (694)
                      ...|++++|.+.++.+.+
T Consensus        83 ~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
T ss_conf             997316999999999997

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.79  E-value=6.8e-05  Score=44.81  Aligned_cols=91  Identities=12%  Similarity=0.143  Sum_probs=51.6

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCC-------HHHHHH
Q ss_conf             999999977139969999999859-9999-9989999999999629968999999999738899960-------389797
Q 005481          457 YSCIVDSLGRAGRLDEAKNLIESM-PVKP-SIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPV-------NYVMMS  527 (694)
Q Consensus       457 ~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~-------~~~~l~  527 (694)
                      +..+++.+.+.|++++|+..|++. ...| +...|..+..++...|+++.|...++++++++|.++.       +|..++
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH
T ss_conf             99999999985999999999999988496458999868899988186077899999999868012788988999999999


Q ss_pred             HHHHHCCCCHHHHHHHHHHH
Q ss_conf             69784399249999999998
Q 005481          528 NIHADAGSWNECERLRKLAR  547 (694)
Q Consensus       528 ~~~~~~g~~~~a~~~~~~~~  547 (694)
                      ..+...+++++|.+.++...
T Consensus        87 ~~~~~~~~~~~A~~~~~kal  106 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSL  106 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCHHHHHHHHHHHH
T ss_conf             99999388999999999998

>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=97.71  E-value=0.00029  Score=40.79  Aligned_cols=61  Identities=7%  Similarity=-0.175  Sum_probs=36.7

Q ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             8999999999962996899999999973889996038979769784399249999999998
Q 005481          487 AIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLAR  547 (694)
Q Consensus       487 ~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  547 (694)
                      ..+..+..++...|+++.|...++++++.+|.+...|..++.+|...|++.+|.+.++.++
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~  128 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVK  128 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_conf             9999999999887990578999999998498519999999999998557999999999999

>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=97.56  E-value=0.00024  Score=41.28  Aligned_cols=126  Identities=12%  Similarity=0.030  Sum_probs=76.1

Q ss_pred             HHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCCC-HHHHHHHHHHHHHCCCHHH
Q ss_conf             814998999999999898999978999999999987029599999999997533698889-5699999999771399699
Q 005481          394 GKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLGRAGRLDE  472 (694)
Q Consensus       394 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~  472 (694)
                      ...|++++|+..+++.++.. +-|...+..+...+...|++++|...++...+   +.|+ ...+..+..++...+..++
T Consensus         7 L~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~---l~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIK---LFPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHCCCCHH
T ss_conf             88889999999999999978-99999999999999987999999999999998---699738999999999983466378


Q ss_pred             HHHHHHHC--CCCCCH-HHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHH
Q ss_conf             99999859--999999-8999999999962996899999999973889996038
Q 005481          473 AKNLIESM--PVKPSI-AIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNY  523 (694)
Q Consensus       473 A~~~~~~~--~~~p~~-~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~  523 (694)
                      +..-....  ...|+. ..+......+...|+.+.|...++++.+..|..+..+
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~  136 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLA  136 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEE
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCC
T ss_conf             998754442035864799999999999967998999999999983399998100

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.51  E-value=0.00036  Score=40.24  Aligned_cols=86  Identities=13%  Similarity=0.002  Sum_probs=40.8

Q ss_pred             HHHHHHHCCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCCC-HHHHHHHHHHHHH
Q ss_conf             9999981499899999999989899997-8999999999987029599999999997533698889-5699999999771
Q 005481          389 IITGYGKHGLAKEAVGLFRKMLLDDVEP-DGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDSLGR  466 (694)
Q Consensus       389 li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~  466 (694)
                      +...+.+.|++++|+..|++....  .| +...+..+..++...|++++|...|+.+++   +.|+ ...+..+...|..
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~---~~p~~~~a~~~la~~y~~   96 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARM---LDPKDIAVHAALAVSHTN   96 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCC--CCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCC---CCCCCCCCHHHHHHHHHH
T ss_conf             999999876058999988610112--111100123354564101258774100000111---111000003789999999


Q ss_pred             CCCHHHHHHHHHH
Q ss_conf             3996999999985
Q 005481          467 AGRLDEAKNLIES  479 (694)
Q Consensus       467 ~g~~~~A~~~~~~  479 (694)
                      .|++++|.+.+++
T Consensus        97 ~g~~~~A~~~l~~  109 (112)
T d1hxia_          97 EHNANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHH
T ss_conf             7899999999999

>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=97.42  E-value=9e-05  Score=44.03  Aligned_cols=122  Identities=13%  Similarity=0.074  Sum_probs=54.6

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHCC----------CCHHHHHHHHHHHHHCCCCCCC-HHHHHHHHHH
Q ss_conf             49989999999998989999789-9999999998702----------9599999999997533698889-5699999999
Q 005481          396 HGLAKEAVGLFRKMLLDDVEPDG-VAYLAVLSACSHS----------GLVEESQEYFSRLCNDKRMKPR-IEHYSCIVDS  463 (694)
Q Consensus       396 ~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~----------g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~  463 (694)
                      .+.+++|...|+...+.  .|+. ..+..+..++...          +.+++|...|+.+++   +.|+ ...|..++.+
T Consensus        10 ~~~fe~A~~~~e~al~~--~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~---l~P~~~~a~~~lG~~   84 (145)
T d1zu2a1          10 ILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALL---IDPKKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHH
T ss_pred             HCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HCCHHHHHHHHHHHH
T ss_conf             73699999999999861--8831089999999998762133336778878889999999887---301205877668999


Q ss_pred             HHHCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCHHHHHHH
Q ss_conf             77139969999999859999999899999999996299689999999997388999603897976978439924999999
Q 005481          464 LGRAGRLDEAKNLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLR  543 (694)
Q Consensus       464 ~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  543 (694)
                      |...|++            .++...         ..++++.|...++++++++|++...+..|....       .+.++.
T Consensus        85 y~~~g~~------------~~~~~~---------~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~~-------ka~~~~  136 (145)
T d1zu2a1          85 YTSFAFL------------TPDETE---------AKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTA-------KAPQLH  136 (145)
T ss_dssp             HHHHHHH------------CCCHHH---------HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH-------THHHHH
T ss_pred             HHHCCCC------------HHHHHH---------HHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHH-------HHHHHH
T ss_conf             9870101------------135788---------988678763121100025988899999999999-------979789


Q ss_pred             HHHHHCC
Q ss_conf             9998399
Q 005481          544 KLARSKG  550 (694)
Q Consensus       544 ~~~~~~g  550 (694)
                      ....++|
T Consensus       137 ~e~~k~~  143 (145)
T d1zu2a1         137 AEAYKQG  143 (145)
T ss_dssp             HHHHHSS
T ss_pred             HHHHHHH
T ss_conf             9999873

>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=97.41  E-value=0.0006  Score=38.83  Aligned_cols=25  Identities=12%  Similarity=-0.194  Sum_probs=10.4

Q ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             8979769784399249999999998
Q 005481          523 YVMMSNIHADAGSWNECERLRKLAR  547 (694)
Q Consensus       523 ~~~l~~~~~~~g~~~~a~~~~~~~~  547 (694)
                      +..++.+|...|++++|...++...
T Consensus       103 ~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1         103 VYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             7526999998888888899999999

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.40  E-value=0.0019  Score=35.56  Aligned_cols=58  Identities=10%  Similarity=-0.050  Sum_probs=26.0

Q ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf             99999981499899999999989899997899999999998702959999999999753
Q 005481          388 VIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCN  446 (694)
Q Consensus       388 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~  446 (694)
                      .+...+...|++++|+..|.+.+... +.+...+..+..++...|++++|...++.++.
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~   66 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIE   66 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
T ss_conf             99999998599999999999998849-64589998688999881860778999999998

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.33  E-value=0.0033  Score=34.14  Aligned_cols=16  Identities=13%  Similarity=-0.137  Sum_probs=6.6

Q ss_pred             CHHHHHHHHHHHHCCC
Q ss_conf             9689999999997388
Q 005481          501 DLELGREVGEILLRLD  516 (694)
Q Consensus       501 ~~~~a~~~~~~~~~~~  516 (694)
                      +.+.|...++++.+.+
T Consensus       233 n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         233 NEKQAIENFKKGCKLG  248 (265)
T ss_dssp             CSTTHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHCC
T ss_conf             8999999999999876

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.25  E-value=0.004  Score=33.54  Aligned_cols=17  Identities=0%  Similarity=-0.101  Sum_probs=6.1

Q ss_pred             HHHHHHHHHHHCCCHHH
Q ss_conf             99999999771399699
Q 005481          456 HYSCIVDSLGRAGRLDE  472 (694)
Q Consensus       456 ~~~~li~~~~~~g~~~~  472 (694)
                      ..+++.++|...++++.
T Consensus       282 vn~al~~lyie~~d~~~  298 (336)
T d1b89a_         282 VNESLNNLFITEEDYQA  298 (336)
T ss_dssp             HHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHCCCHHHH
T ss_conf             99999999867124678

>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=97.22  E-value=0.00021  Score=41.68  Aligned_cols=121  Identities=8%  Similarity=0.040  Sum_probs=84.7

Q ss_pred             HHCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHC-CCCCC-HHHHHHHHHHHHHCCCHHHH
Q ss_conf             87029599999999997533698889569999999977139969999999859-99999-98999999999962996899
Q 005481          428 CSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAKNLIESM-PVKPS-IAIWQTLLSACRVHGDLELG  505 (694)
Q Consensus       428 ~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~a~~~~g~~~~a  505 (694)
                      ....|++++|...++..++..  +.+...+..++.+|+..|++++|...++.. ...|+ ...+..+...+...+..+.+
T Consensus         6 aL~~G~l~eAl~~l~~al~~~--P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS--PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHH
T ss_conf             988889999999999999978--999999999999999879999999999999986997389999999999834663789


Q ss_pred             HHHHHHHHC-CCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHCC
Q ss_conf             999999973-889996038979769784399249999999998399
Q 005481          506 REVGEILLR-LDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKG  550 (694)
Q Consensus       506 ~~~~~~~~~-~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~g  550 (694)
                      ......... .+|++...+...+..+...|+.++|.+.++...+..
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~  129 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  129 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC
T ss_conf             9875444203586479999999999996799899999999998339

>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=97.15  E-value=0.00014  Score=42.77  Aligned_cols=49  Identities=10%  Similarity=-0.033  Sum_probs=35.1

Q ss_pred             CCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCC-----------CHHHHHHHHHHHH
Q ss_conf             996899999999973889996038979769784399-----------2499999999983
Q 005481          500 GDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGS-----------WNECERLRKLARS  548 (694)
Q Consensus       500 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~-----------~~~a~~~~~~~~~  548 (694)
                      +.+++|+..++++++++|+++.+|..++.+|...|+           +++|.+.++...+
T Consensus        55 ~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~  114 (145)
T d1zu2a1          55 QMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD  114 (145)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             878889999999887301205877668999987010113578898867876312110002

>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=97.13  E-value=0.0018  Score=35.76  Aligned_cols=75  Identities=15%  Similarity=0.079  Sum_probs=50.4

Q ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHC----C----CCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHH
Q ss_conf             69999999977139969999999859----9----9999-9899999999996299689999999997388999603897
Q 005481          455 EHYSCIVDSLGRAGRLDEAKNLIESM----P----VKPS-IAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVM  525 (694)
Q Consensus       455 ~~~~~li~~~~~~g~~~~A~~~~~~~----~----~~p~-~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  525 (694)
                      +.+..++..+.+.|++++|...+++.    +    ..++ ..++..+..++.+.|++++|...++++++++|+++.++..
T Consensus         6 ddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~N   85 (95)
T d1tjca_           6 EDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGN   85 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHH
T ss_conf             99999999999977999999999999998865301476478999987268886577398887887798869297999999


Q ss_pred             HHHH
Q ss_conf             9769
Q 005481          526 MSNI  529 (694)
Q Consensus       526 l~~~  529 (694)
                      +...
T Consensus        86 l~~~   89 (95)
T d1tjca_          86 LKYF   89 (95)
T ss_dssp             HHHH
T ss_pred             HHHH
T ss_conf             9999

>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=97.12  E-value=0.004  Score=33.54  Aligned_cols=30  Identities=7%  Similarity=-0.203  Sum_probs=17.9

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHCCCCC
Q ss_conf             999999999629968999999999738899
Q 005481          489 WQTLLSACRVHGDLELGREVGEILLRLDGD  518 (694)
Q Consensus       489 ~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~  518 (694)
                      +..+..++...|++++|...+++++++.|.
T Consensus       103 ~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~  132 (156)
T d2hr2a1         103 VYSRALALDGLGRGAEAMPEFKKVVEMIEE  132 (156)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             752699999888888889999999986687

>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=96.84  E-value=0.0096  Score=31.14  Aligned_cols=19  Identities=26%  Similarity=0.565  Sum_probs=6.6

Q ss_pred             HHHHHHHCCCHHHHHHHHC
Q ss_conf             9999881499589999970
Q 005481          154 IIDMYSKCGRINEAARMFD  172 (694)
Q Consensus       154 ll~~~~~~g~~~~A~~~f~  172 (694)
                      ++..|-..|.+++...+++
T Consensus       105 ~v~~ye~~~~~e~Li~~Le  123 (336)
T d1b89a_         105 LINYYQDRGYFEELITMLE  123 (336)
T ss_dssp             HHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHH
T ss_conf             9999987698599999999

>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=96.44  E-value=0.018  Score=29.45  Aligned_cols=70  Identities=11%  Similarity=0.107  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHH----CCCCCCCHH
Q ss_conf             59999999981499899999999989899997899999999998702959999999999753----369888956
Q 005481          385 TWTVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCN----DKRMKPRIE  455 (694)
Q Consensus       385 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~----~~~~~p~~~  455 (694)
                      .+..+...+...|++++|+..++++.... +-+...+..++.++...|+..+|.+.|+.+.+    ..|+.|...
T Consensus        69 a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~  142 (179)
T d2ff4a2          69 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  142 (179)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCHH
T ss_conf             99999999988799057899999999849-851999999999999855799999999999999899848996899

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.36  E-value=0.013  Score=30.32  Aligned_cols=58  Identities=16%  Similarity=-0.027  Sum_probs=25.7

Q ss_pred             HHHHHHHHCCCHHHHHHHHHHHHCCCCCC-------CCHHHHHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf             99999996299689999999997388999-------60389797697843992499999999983
Q 005481          491 TLLSACRVHGDLELGREVGEILLRLDGDN-------PVNYVMMSNIHADAGSWNECERLRKLARS  548 (694)
Q Consensus       491 ~ll~a~~~~g~~~~a~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  548 (694)
                      .++..+...|+++.|...+++++++.|.+       ..++..++.+|.+.|++++|...++++.+
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~   74 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
T ss_conf             99999999779999999999999988653014764789999872688865773988878877988

>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=87.78  E-value=0.49  Score=20.31  Aligned_cols=350  Identities=9%  Similarity=0.024  Sum_probs=144.8

Q ss_pred             HHHHHHHCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCCCHHH
Q ss_conf             99998814995899999700899990109999999993699138999999988779999930599999998035991579
Q 005481          154 IIDMYSKCGRINEAARMFDVMPAKSLITWNAMIAGYVLAGYSDKGLLLFRKMQEHGEIPDEFTFTSTLKACGSLGSVGGG  233 (694)
Q Consensus       154 ll~~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a  233 (694)
                      -+..+.+.+++......+...+. +...--....+....|+...|...+...-..|.. .+..+                
T Consensus        78 ~l~~L~~~~~w~~~~~~~~~~p~-~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~-~p~~c----------------  139 (450)
T d1qsaa1          78 FVNELARREDWRGLLAFSPEKPG-TTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKS-QPNAC----------------  139 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHCCSCCS-SHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSC-CCTHH----------------
T ss_pred             HHHHHHHCCCHHHHHHHCCCCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCC-CCHHH----------------
T ss_conf             99998765688999976668999-9999999999998759848899999999854787-83589----------------


Q ss_pred             HHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCC
Q ss_conf             99999999919999851455989999999819998999999625989921599999999807997799999999875598
Q 005481          234 TQIHGFLITSGFPYSVKTVIAGSLVDFYVKCGCLVEARRVFDLIEQKSVISWSSLILGYAQEENLAEAMELFRQLRERSL  313 (694)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  313 (694)
                      ..++....+.|.   .+....-.-+......|+...|..+...++..........+....+.   ..+......   .  
T Consensus       140 ~~l~~~~~~~~~---lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~p---~~~~~~~~~---~--  208 (450)
T d1qsaa1         140 DKLFSVWRASGK---QDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNP---NTVLTFART---T--  208 (450)
T ss_dssp             HHHHHHHHHTTC---SCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCG---GGHHHHHHH---S--
T ss_pred             HHHHHHHHHCCC---CCHHHHHHHHHHHHHCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHCH---HHHHHHHHC---C--
T ss_conf             999999874478---98999999999998869815699887517855899999999988585---758888753---7--


Q ss_pred             CCCCCCHHHHHHHHHH--HCCHHHHHHHHHHHHHCCCCCCCH---HHHHHHHHHHHCCCHHHHHHHHCCCC--CCCHHHH
Q ss_conf             6674006989999740--201898999999998669999821---78789622330399999999971099--9886259
Q 005481          314 QVDGFVLSSMMGVFAD--FALVEQGKQIHAYAAKVPSGLDTS---VSNSIVDMYLKCGLIDEATELFNEMP--VKNVVTW  386 (694)
Q Consensus       314 ~p~~~t~~~ll~~~~~--~~~~~~a~~i~~~~~~~~~~~~~~---~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~  386 (694)
                      .++......+..+..+  ..+.+.+...+.............   ....+...+...+..+.+...+....  ..+....
T Consensus       209 ~~~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  288 (450)
T d1qsaa1         209 GATDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLI  288 (450)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCHHHH
T ss_conf             88701117899999987424855799998752120235679999999999999987686399999998601234666999


Q ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH-HH
Q ss_conf             99999998149989999999998989999789999999999870295999999999975336988895699999999-77
Q 005481          387 TVIITGYGKHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDS-LG  465 (694)
Q Consensus       387 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~-~~  465 (694)
                      .-.+......++...+...+..|.... .-...-.--+..+....|+.+.|..+|..+..    .++  .|..|... ++
T Consensus       289 ~w~~~~al~~~~~~~~~~~~~~l~~~~-~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~----~~~--fYG~LAa~~Lg  361 (450)
T d1qsaa1         289 ERRVRMALGTGDRRGLNTWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQ----QRG--FYPMVAAQRIG  361 (450)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT----SCS--HHHHHHHHHTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHCCCCC-CCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHC----CCC--HHHHHHHHHCC
T ss_conf             999999988298699999998658462-42899999999999983981568999999845----787--39999999829


Q ss_pred             HCCCHHHHHHHHHHCCCCCCHH-H---HHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCHHHHH
Q ss_conf             1399699999998599999998-9---99999999962996899999999973889996038979769784399249999
Q 005481          466 RAGRLDEAKNLIESMPVKPSIA-I---WQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECER  541 (694)
Q Consensus       466 ~~g~~~~A~~~~~~~~~~p~~~-~---~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  541 (694)
                      ..-.+.     ....+..+... .   -..-+..+...|....|...+..+.+..  ++.-...++.+..+.|.++.|..
T Consensus       362 ~~~~~~-----~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~--~~~~~~~la~lA~~~g~~~~aI~  434 (450)
T d1qsaa1         362 EEYELK-----IDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSK--SKTEQAQLARYAFNNQWWDLSVQ  434 (450)
T ss_dssp             CCCCCC-----CCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CCCCCC-----CCCCCCCHHHHHHCCHHHHHHHHHHHCCCCHHHHHHHHHHHHCC--CHHHHHHHHHHHHHCCCHHHHHH
T ss_conf             998998-----67799567776313859899999998699469999999998679--99999999999998798469999


Q ss_pred             HHHHH
Q ss_conf             99999
Q 005481          542 LRKLA  546 (694)
Q Consensus       542 ~~~~~  546 (694)
                      .....
T Consensus       435 a~~~~  439 (450)
T d1qsaa1         435 ATIAG  439 (450)
T ss_dssp             HHHHT
T ss_pred             HHHHH
T ss_conf             99998

>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=87.46  E-value=0.51  Score=20.19  Aligned_cols=34  Identities=15%  Similarity=0.255  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCC
Q ss_conf             9999999999629968999999999738899960
Q 005481          488 IWQTLLSACRVHGDLELGREVGEILLRLDGDNPV  521 (694)
Q Consensus       488 ~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~  521 (694)
                      .|-.|.-+|.+.|+++.|...++++++.+|++..
T Consensus        75 ~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~q  108 (124)
T d2pqrb1          75 CLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQ  108 (124)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHH
T ss_conf             9999999999873299999999999823998499

>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=86.60  E-value=0.57  Score=19.89  Aligned_cols=15  Identities=7%  Similarity=-0.155  Sum_probs=5.3

Q ss_pred             CCHHHHHHHHHHHHC
Q ss_conf             924999999999839
Q 005481          535 SWNECERLRKLARSK  549 (694)
Q Consensus       535 ~~~~a~~~~~~~~~~  549 (694)
                      +.++|.+.++...+.
T Consensus       110 d~~~A~~~~~~Aa~~  124 (133)
T d1klxa_         110 NEKQAVKTFEKACRL  124 (133)
T ss_dssp             CHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHC
T ss_conf             899999999999987

>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=83.96  E-value=0.75  Score=19.11  Aligned_cols=139  Identities=14%  Similarity=0.058  Sum_probs=68.5

Q ss_pred             HCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCHHHHH
Q ss_conf             14998999999999898999978999999999987029599999999997533698889569999999977139969999
Q 005481          395 KHGLAKEAVGLFRKMLLDDVEPDGVAYLAVLSACSHSGLVEESQEYFSRLCNDKRMKPRIEHYSCIVDSLGRAGRLDEAK  474 (694)
Q Consensus       395 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  474 (694)
                      ..|..++..++..+....   .+..-++-++--....-+-+...+.++..-+-+.+.|              ++++....
T Consensus        14 ldG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~--------------C~Nlk~vv   76 (161)
T d1wy6a1          14 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDK--------------CQNLKSVV   76 (161)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGG--------------CSCTHHHH
T ss_pred             HHHHHHHHHHHHHHHCCC---CCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCHH--------------HHCHHHHH
T ss_conf             742488679999998466---7755124454524300026899999998763408524--------------32678999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCC
Q ss_conf             999859999999899999999996299689999999997388999603897976978439924999999999839995
Q 005481          475 NLIESMPVKPSIAIWQTLLSACRVHGDLELGREVGEILLRLDGDNPVNYVMMSNIHADAGSWNECERLRKLARSKGLK  552 (694)
Q Consensus       475 ~~~~~~~~~p~~~~~~~ll~a~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~g~~  552 (694)
                      ..+-.+.  .+.......+.....+|.-+.-..+++.+++.+..+|....-++++|.+.|...++.++..++-++|++
T Consensus        77 ~C~~~~n--~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          77 ECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHC--CHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHH
T ss_conf             9998836--218999999999998260878999999987537998799999999998852244489999999997599